---
_id: '6109'
abstract:
- lang: eng
text: Neuropeptides are ubiquitous modulators of behavior and physiology. They are
packaged in specialized secretory organelles called dense core vesicles (DCVs)
that are released upon neural stimulation. Unlike synaptic vesicles, which can
be recycled and refilled close to release sites, DCVs must be replenished by de
novo synthesis in the cell body. Here, we dissect DCV cell biology in vivo in
a Caenorhabditis elegans sensory neuron whose tonic activity we can control using
a natural stimulus. We express fluorescently tagged neuropeptides in the neuron
and define parameters that describe their subcellular distribution. We measure
these parameters at high and low neural activity in 187 mutants defective in proteins
implicated in membrane traffic, neuroendocrine secretion, and neuronal or synaptic
activity. Using unsupervised hierarchical clustering methods, we analyze these
data and identify 62 groups of genes with similar mutant phenotypes. We explore
the function of a subset of these groups. We recapitulate many previous findings,
validating our paradigm. We uncover a large battery of proteins involved in recycling
DCV membrane proteins, something hitherto poorly explored. We show that the unfolded
protein response promotes DCV production, which may contribute to intertissue
communication of stress. We also find evidence that different mechanisms of priming
and exocytosis may operate at high and low neural activity. Our work provides
a defined framework to study DCV biology at different neural activity levels.
author:
- first_name: Patrick
full_name: Laurent, Patrick
last_name: Laurent
- first_name: QueeLim
full_name: Ch’ng, QueeLim
last_name: Ch’ng
- first_name: Maëlle
full_name: Jospin, Maëlle
last_name: Jospin
- first_name: Changchun
full_name: Chen, Changchun
last_name: Chen
- first_name: Ramiro
full_name: Lorenzo, Ramiro
last_name: Lorenzo
- first_name: Mario
full_name: de Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: de Bono
orcid: 0000-0001-8347-0443
citation:
ama: Laurent P, Ch’ng Q, Jospin M, Chen C, Lorenzo R, de Bono M. Genetic dissection
of neuropeptide cell biology at high and low activity in a defined sensory neuron.
Proceedings of the National Academy of Sciences. 2018;115(29):E6890-E6899.
doi:10.1073/pnas.1714610115
apa: Laurent, P., Ch’ng, Q., Jospin, M., Chen, C., Lorenzo, R., & de Bono, M.
(2018). Genetic dissection of neuropeptide cell biology at high and low activity
in a defined sensory neuron. Proceedings of the National Academy of Sciences.
National Academy of Sciences. https://doi.org/10.1073/pnas.1714610115
chicago: Laurent, Patrick, QueeLim Ch’ng, Maëlle Jospin, Changchun Chen, Ramiro
Lorenzo, and Mario de Bono. “Genetic Dissection of Neuropeptide Cell Biology at
High and Low Activity in a Defined Sensory Neuron.” Proceedings of the National
Academy of Sciences. National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1714610115.
ieee: P. Laurent, Q. Ch’ng, M. Jospin, C. Chen, R. Lorenzo, and M. de Bono, “Genetic
dissection of neuropeptide cell biology at high and low activity in a defined
sensory neuron,” Proceedings of the National Academy of Sciences, vol.
115, no. 29. National Academy of Sciences, pp. E6890–E6899, 2018.
ista: Laurent P, Ch’ng Q, Jospin M, Chen C, Lorenzo R, de Bono M. 2018. Genetic
dissection of neuropeptide cell biology at high and low activity in a defined
sensory neuron. Proceedings of the National Academy of Sciences. 115(29), E6890–E6899.
mla: Laurent, Patrick, et al. “Genetic Dissection of Neuropeptide Cell Biology at
High and Low Activity in a Defined Sensory Neuron.” Proceedings of the National
Academy of Sciences, vol. 115, no. 29, National Academy of Sciences, 2018,
pp. E6890–99, doi:10.1073/pnas.1714610115.
short: P. Laurent, Q. Ch’ng, M. Jospin, C. Chen, R. Lorenzo, M. de Bono, Proceedings
of the National Academy of Sciences 115 (2018) E6890–E6899.
date_created: 2019-03-19T12:41:33Z
date_published: 2018-07-17T00:00:00Z
date_updated: 2021-01-12T08:06:09Z
day: '17'
ddc:
- '570'
doi: 10.1073/pnas.1714610115
extern: '1'
external_id:
pmid:
- '29959203'
file:
- access_level: open_access
checksum: 5e81665377441cdd8d99ab952c534319
content_type: application/pdf
creator: kschuh
date_created: 2019-03-19T13:01:58Z
date_updated: 2020-07-14T12:47:19Z
file_id: '6110'
file_name: 2018_PNAS_Laurent.pdf
file_size: 1567765
relation: main_file
file_date_updated: 2020-07-14T12:47:19Z
has_accepted_license: '1'
intvolume: ' 115'
issue: '29'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: E6890-E6899
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
issn:
- 0027-8424
- 1091-6490
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
status: public
title: Genetic dissection of neuropeptide cell biology at high and low activity in
a defined sensory neuron
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 115
year: '2018'
...
---
_id: '6164'
abstract:
- lang: eng
text: In this paper, we propose an algorithm to build discrete spherical shell having
integer center and real-valued inner and outer radii on the face-centered cubic
(FCC) grid. We address the problem by mapping it to a 2D scenario and building
the shell layer by layer on hexagonal grids with additive manufacturing in mind.
The layered hexagonal grids get shifted according to need as we move from one
layer to another and forms the FCC grid in 3D. However, we restrict our computation
strictly to 2D in order to utilize symmetry and simplicity.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Girish
full_name: Koshti, Girish
last_name: Koshti
- first_name: Ranita
full_name: Biswas, Ranita
id: 3C2B033E-F248-11E8-B48F-1D18A9856A87
last_name: Biswas
orcid: 0000-0002-5372-7890
- first_name: Gaëlle
full_name: Largeteau-Skapin, Gaëlle
last_name: Largeteau-Skapin
- first_name: Rita
full_name: Zrour, Rita
last_name: Zrour
- first_name: Eric
full_name: Andres, Eric
last_name: Andres
- first_name: Partha
full_name: Bhowmick, Partha
last_name: Bhowmick
citation:
ama: 'Koshti G, Biswas R, Largeteau-Skapin G, Zrour R, Andres E, Bhowmick P. Sphere
construction on the FCC grid interpreted as layered hexagonal grids in 3D. In:
19th International Workshop. Vol 11255. Cham: Springer; 2018:82-96. doi:10.1007/978-3-030-05288-1_7'
apa: 'Koshti, G., Biswas, R., Largeteau-Skapin, G., Zrour, R., Andres, E., &
Bhowmick, P. (2018). Sphere construction on the FCC grid interpreted as layered
hexagonal grids in 3D. In 19th International Workshop (Vol. 11255, pp.
82–96). Cham: Springer. https://doi.org/10.1007/978-3-030-05288-1_7'
chicago: 'Koshti, Girish, Ranita Biswas, Gaëlle Largeteau-Skapin, Rita Zrour, Eric
Andres, and Partha Bhowmick. “Sphere Construction on the FCC Grid Interpreted
as Layered Hexagonal Grids in 3D.” In 19th International Workshop, 11255:82–96.
Cham: Springer, 2018. https://doi.org/10.1007/978-3-030-05288-1_7.'
ieee: G. Koshti, R. Biswas, G. Largeteau-Skapin, R. Zrour, E. Andres, and P. Bhowmick,
“Sphere construction on the FCC grid interpreted as layered hexagonal grids in
3D,” in 19th International Workshop, Porto, Portugal, 2018, vol. 11255,
pp. 82–96.
ista: 'Koshti G, Biswas R, Largeteau-Skapin G, Zrour R, Andres E, Bhowmick P. 2018.
Sphere construction on the FCC grid interpreted as layered hexagonal grids in
3D. 19th International Workshop. IWCIA: International Workshop on Combinatorial
Image Analysis, LNCS, vol. 11255, 82–96.'
mla: Koshti, Girish, et al. “Sphere Construction on the FCC Grid Interpreted as
Layered Hexagonal Grids in 3D.” 19th International Workshop, vol. 11255,
Springer, 2018, pp. 82–96, doi:10.1007/978-3-030-05288-1_7.
short: G. Koshti, R. Biswas, G. Largeteau-Skapin, R. Zrour, E. Andres, P. Bhowmick,
in:, 19th International Workshop, Springer, Cham, 2018, pp. 82–96.
conference:
end_date: 2018-11-24
location: Porto, Portugal
name: 'IWCIA: International Workshop on Combinatorial Image Analysis'
start_date: 2018-11-22
date_created: 2019-03-21T12:16:58Z
date_published: 2018-11-22T00:00:00Z
date_updated: 2022-01-27T15:26:39Z
day: '22'
doi: 10.1007/978-3-030-05288-1_7
extern: '1'
intvolume: ' 11255'
language:
- iso: eng
month: '11'
oa_version: None
page: 82-96
place: Cham
publication: 19th International Workshop
publication_identifier:
eisbn:
- 978-3-030-05288-1
eissn:
- 1611-3349
isbn:
- 978-3-030-05287-4
issn:
- 0302-9743
publication_status: published
publisher: Springer
quality_controlled: '1'
status: public
title: Sphere construction on the FCC grid interpreted as layered hexagonal grids
in 3D
type: conference
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 11255
year: '2018'
...
---
_id: '6354'
abstract:
- lang: eng
text: Blood platelets are critical for hemostasis and thrombosis, but also play
diverse roles during immune responses. We have recently reported that platelets
migrate at sites of infection in vitro and in vivo. Importantly, platelets use
their ability to migrate to collect and bundle fibrin (ogen)-bound bacteria accomplishing
efficient intravascular bacterial trapping. Here, we describe a method that allows
analyzing platelet migration in vitro, focusing on their ability to collect bacteria
and trap bacteria under flow.
acknowledgement: ' FöFoLe project 947 (F.G.), the Friedrich-Baur-Stiftung project
41/16 (F.G.)'
article_number: e3018
author:
- first_name: Shuxia
full_name: Fan, Shuxia
last_name: Fan
- first_name: Michael
full_name: Lorenz, Michael
last_name: Lorenz
- first_name: Steffen
full_name: Massberg, Steffen
last_name: Massberg
- first_name: Florian R
full_name: Gärtner, Florian R
id: 397A88EE-F248-11E8-B48F-1D18A9856A87
last_name: Gärtner
orcid: 0000-0001-6120-3723
citation:
ama: Fan S, Lorenz M, Massberg S, Gärtner FR. Platelet migration and bacterial trapping
assay under flow. Bio-Protocol. 2018;8(18). doi:10.21769/bioprotoc.3018
apa: Fan, S., Lorenz, M., Massberg, S., & Gärtner, F. R. (2018). Platelet migration
and bacterial trapping assay under flow. Bio-Protocol. Bio-Protocol. https://doi.org/10.21769/bioprotoc.3018
chicago: Fan, Shuxia, Michael Lorenz, Steffen Massberg, and Florian R Gärtner. “Platelet
Migration and Bacterial Trapping Assay under Flow.” Bio-Protocol. Bio-Protocol,
2018. https://doi.org/10.21769/bioprotoc.3018.
ieee: S. Fan, M. Lorenz, S. Massberg, and F. R. Gärtner, “Platelet migration and
bacterial trapping assay under flow,” Bio-Protocol, vol. 8, no. 18. Bio-Protocol,
2018.
ista: Fan S, Lorenz M, Massberg S, Gärtner FR. 2018. Platelet migration and bacterial
trapping assay under flow. Bio-Protocol. 8(18), e3018.
mla: Fan, Shuxia, et al. “Platelet Migration and Bacterial Trapping Assay under
Flow.” Bio-Protocol, vol. 8, no. 18, e3018, Bio-Protocol, 2018, doi:10.21769/bioprotoc.3018.
short: S. Fan, M. Lorenz, S. Massberg, F.R. Gärtner, Bio-Protocol 8 (2018).
date_created: 2019-04-29T09:40:33Z
date_published: 2018-09-20T00:00:00Z
date_updated: 2021-01-12T08:07:12Z
day: '20'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.21769/bioprotoc.3018
ec_funded: 1
file:
- access_level: open_access
checksum: d4588377e789da7f360b553ae02c5119
content_type: application/pdf
creator: dernst
date_created: 2019-04-30T08:04:33Z
date_updated: 2020-07-14T12:47:28Z
file_id: '6360'
file_name: 2018_BioProtocol_Fan.pdf
file_size: 2928337
relation: main_file
file_date_updated: 2020-07-14T12:47:28Z
has_accepted_license: '1'
intvolume: ' 8'
issue: '18'
keyword:
- Platelets
- Cell migration
- Bacteria
- Shear flow
- Fibrinogen
- E. coli
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 260AA4E2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '747687'
name: Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells
publication: Bio-Protocol
publication_identifier:
issn:
- 2331-8325
publication_status: published
publisher: Bio-Protocol
quality_controlled: '1'
status: public
title: Platelet migration and bacterial trapping assay under flow
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2018'
...
---
_id: '6368'
abstract:
- lang: eng
text: An optical network of superconducting quantum bits (qubits) is an appealing
platform for quantum communication and distributed quantum computing, but developing
a quantum-compatible link between the microwave and optical domains remains an
outstanding challenge. Operating at T < 100 mK temperatures, as required for quantum
electrical circuits, we demonstrate a mechanically mediated microwave–optical
converter with 47% conversion efficiency, and use a classical feed-forward protocol
to reduce added noise to 38 photons. The feed-forward protocol harnesses our discovery
that noise emitted from the two converter output ports is strongly correlated
because both outputs record thermal motion of the same mechanical mode. We also
discuss a quantum feed-forward protocol that, given high system efficiencies,
would allow quantum information to be transferred even when thermal phonons enter
the mechanical element faster than the electro-optic conversion rate.
author:
- first_name: Andrew P
full_name: Higginbotham, Andrew P
id: 4AD6785A-F248-11E8-B48F-1D18A9856A87
last_name: Higginbotham
orcid: 0000-0003-2607-2363
- first_name: P. S.
full_name: Burns, P. S.
last_name: Burns
- first_name: M. D.
full_name: Urmey, M. D.
last_name: Urmey
- first_name: R. W.
full_name: Peterson, R. W.
last_name: Peterson
- first_name: N. S.
full_name: Kampel, N. S.
last_name: Kampel
- first_name: B. M.
full_name: Brubaker, B. M.
last_name: Brubaker
- first_name: G.
full_name: Smith, G.
last_name: Smith
- first_name: K. W.
full_name: Lehnert, K. W.
last_name: Lehnert
- first_name: C. A.
full_name: Regal, C. A.
last_name: Regal
citation:
ama: Higginbotham AP, Burns PS, Urmey MD, et al. Harnessing electro-optic correlations
in an efficient mechanical converter. Nature Physics. 2018;14(10):1038-1042.
doi:10.1038/s41567-018-0210-0
apa: Higginbotham, A. P., Burns, P. S., Urmey, M. D., Peterson, R. W., Kampel, N.
S., Brubaker, B. M., … Regal, C. A. (2018). Harnessing electro-optic correlations
in an efficient mechanical converter. Nature Physics. Springer Nature.
https://doi.org/10.1038/s41567-018-0210-0
chicago: Higginbotham, Andrew P, P. S. Burns, M. D. Urmey, R. W. Peterson, N. S.
Kampel, B. M. Brubaker, G. Smith, K. W. Lehnert, and C. A. Regal. “Harnessing
Electro-Optic Correlations in an Efficient Mechanical Converter.” Nature Physics.
Springer Nature, 2018. https://doi.org/10.1038/s41567-018-0210-0.
ieee: A. P. Higginbotham et al., “Harnessing electro-optic correlations in
an efficient mechanical converter,” Nature Physics, vol. 14, no. 10. Springer
Nature, pp. 1038–1042, 2018.
ista: Higginbotham AP, Burns PS, Urmey MD, Peterson RW, Kampel NS, Brubaker BM,
Smith G, Lehnert KW, Regal CA. 2018. Harnessing electro-optic correlations in
an efficient mechanical converter. Nature Physics. 14(10), 1038–1042.
mla: Higginbotham, Andrew P., et al. “Harnessing Electro-Optic Correlations in an
Efficient Mechanical Converter.” Nature Physics, vol. 14, no. 10, Springer
Nature, 2018, pp. 1038–42, doi:10.1038/s41567-018-0210-0.
short: A.P. Higginbotham, P.S. Burns, M.D. Urmey, R.W. Peterson, N.S. Kampel, B.M.
Brubaker, G. Smith, K.W. Lehnert, C.A. Regal, Nature Physics 14 (2018) 1038–1042.
date_created: 2019-05-03T09:17:20Z
date_published: 2018-10-01T00:00:00Z
date_updated: 2021-01-12T08:07:15Z
day: '01'
doi: 10.1038/s41567-018-0210-0
extern: '1'
external_id:
arxiv:
- '1712.06535'
intvolume: ' 14'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1712.06535
month: '10'
oa: 1
oa_version: Preprint
page: 1038-1042
publication: Nature Physics
publication_identifier:
issn:
- 1745-2473
- 1745-2481
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Harnessing electro-optic correlations in an efficient mechanical converter
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2018'
...
---
_id: '6369'
abstract:
- lang: eng
text: We construct a metamaterial from radio-frequency harmonic oscillators, and
find two topologically distinct phases resulting from dissipation engineered into
the system. These phases are distinguished by a quantized value of bulk energy
transport. The impulse response of our circuit is measured and used to reconstruct
the band structure and winding number of circuit eigenfunctions around a dark
mode. Our results demonstrate that dissipative topological transport can occur
in a wider class of physical systems than considered before.
article_number: '220301'
author:
- first_name: Eric I.
full_name: Rosenthal, Eric I.
last_name: Rosenthal
- first_name: Nicole K.
full_name: Ehrlich, Nicole K.
last_name: Ehrlich
- first_name: Mark S.
full_name: Rudner, Mark S.
last_name: Rudner
- first_name: Andrew P
full_name: Higginbotham, Andrew P
id: 4AD6785A-F248-11E8-B48F-1D18A9856A87
last_name: Higginbotham
orcid: 0000-0003-2607-2363
- first_name: K. W.
full_name: Lehnert, K. W.
last_name: Lehnert
citation:
ama: Rosenthal EI, Ehrlich NK, Rudner MS, Higginbotham AP, Lehnert KW. Topological
phase transition measured in a dissipative metamaterial. Physical Review B.
2018;97(22). doi:10.1103/physrevb.97.220301
apa: Rosenthal, E. I., Ehrlich, N. K., Rudner, M. S., Higginbotham, A. P., &
Lehnert, K. W. (2018). Topological phase transition measured in a dissipative
metamaterial. Physical Review B. American Physical Society (APS). https://doi.org/10.1103/physrevb.97.220301
chicago: Rosenthal, Eric I., Nicole K. Ehrlich, Mark S. Rudner, Andrew P Higginbotham,
and K. W. Lehnert. “Topological Phase Transition Measured in a Dissipative Metamaterial.”
Physical Review B. American Physical Society (APS), 2018. https://doi.org/10.1103/physrevb.97.220301.
ieee: E. I. Rosenthal, N. K. Ehrlich, M. S. Rudner, A. P. Higginbotham, and K. W.
Lehnert, “Topological phase transition measured in a dissipative metamaterial,”
Physical Review B, vol. 97, no. 22. American Physical Society (APS), 2018.
ista: Rosenthal EI, Ehrlich NK, Rudner MS, Higginbotham AP, Lehnert KW. 2018. Topological
phase transition measured in a dissipative metamaterial. Physical Review B. 97(22),
220301.
mla: Rosenthal, Eric I., et al. “Topological Phase Transition Measured in a Dissipative
Metamaterial.” Physical Review B, vol. 97, no. 22, 220301, American Physical
Society (APS), 2018, doi:10.1103/physrevb.97.220301.
short: E.I. Rosenthal, N.K. Ehrlich, M.S. Rudner, A.P. Higginbotham, K.W. Lehnert,
Physical Review B 97 (2018).
date_created: 2019-05-03T09:29:49Z
date_published: 2018-06-04T00:00:00Z
date_updated: 2021-01-12T08:07:16Z
day: '04'
doi: 10.1103/physrevb.97.220301
extern: '1'
external_id:
arxiv:
- '1802.02243'
intvolume: ' 97'
issue: '22'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1802.02243
month: '06'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
issn:
- 2469-9950
- 2469-9969
publication_status: published
publisher: American Physical Society (APS)
quality_controlled: '1'
status: public
title: Topological phase transition measured in a dissipative metamaterial
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 97
year: '2018'
...
---
_id: '6459'
author:
- first_name: Barbara
full_name: Petritsch, Barbara
id: 406048EC-F248-11E8-B48F-1D18A9856A87
last_name: Petritsch
orcid: 0000-0003-2724-4614
citation:
ama: Petritsch B. Open Access at IST Austria 2009-2017. IST Austria; 2018.
doi:10.5281/zenodo.1410279
apa: 'Petritsch, B. (2018). Open Access at IST Austria 2009-2017. Presented
at the Open-Access-Tage, Graz, Austria: IST Austria. https://doi.org/10.5281/zenodo.1410279'
chicago: Petritsch, Barbara. Open Access at IST Austria 2009-2017. IST Austria,
2018. https://doi.org/10.5281/zenodo.1410279.
ieee: B. Petritsch, Open Access at IST Austria 2009-2017. IST Austria, 2018.
ista: Petritsch B. 2018. Open Access at IST Austria 2009-2017, IST Austria,p.
mla: Petritsch, Barbara. Open Access at IST Austria 2009-2017. IST Austria,
2018, doi:10.5281/zenodo.1410279.
short: B. Petritsch, Open Access at IST Austria 2009-2017, IST Austria, 2018.
conference:
end_date: 2018-09-26
location: Graz, Austria
name: Open-Access-Tage
start_date: 2018-09-24
date_created: 2019-05-16T07:27:14Z
date_published: 2018-09-24T00:00:00Z
date_updated: 2020-07-14T23:06:21Z
day: '24'
ddc:
- '020'
department:
- _id: E-Lib
doi: 10.5281/zenodo.1410279
file:
- access_level: open_access
checksum: 9063ab4d10ea93353c3a03bbf53fbcf1
content_type: application/pdf
creator: dernst
date_created: 2019-05-16T07:26:25Z
date_updated: 2020-07-14T12:47:30Z
file_id: '6460'
file_name: Poster_Beitrag_125_Petritsch.pdf
file_size: 1967778
relation: main_file
file_date_updated: 2020-07-14T12:47:30Z
has_accepted_license: '1'
keyword:
- Open Access
- Publication Analysis
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
publication_status: published
publisher: IST Austria
status: public
title: Open Access at IST Austria 2009-2017
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference_poster
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '6525'
abstract:
- lang: eng
text: This chapter finds an agreement of equivariant indices of semi-classical homomorphisms
between pairwise mirror branes in the GL2 Higgs moduli space on a Riemann surface.
On one side of the agreement, components of the Lagrangian brane of U(1,1) Higgs
bundles, whose mirror was proposed by Hitchin to be certain even exterior powers
of the hyperholomorphic Dirac bundle on the SL2 Higgs moduli space, are present.
The agreement arises from a mysterious functional equation. This gives strong
computational evidence for Hitchin’s proposal.
author:
- first_name: Tamás
full_name: Hausel, Tamás
id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
last_name: Hausel
- first_name: Anton
full_name: Mellit, Anton
id: 388D3134-F248-11E8-B48F-1D18A9856A87
last_name: Mellit
- first_name: Du
full_name: Pei, Du
last_name: Pei
citation:
ama: 'Hausel T, Mellit A, Pei D. Mirror symmetry with branes by equivariant verlinde
formulas. In: Geometry and Physics: Volume I. Oxford University Press;
2018:189-218. doi:10.1093/oso/9780198802013.003.0009'
apa: 'Hausel, T., Mellit, A., & Pei, D. (2018). Mirror symmetry with branes
by equivariant verlinde formulas. In Geometry and Physics: Volume I (pp.
189–218). Oxford University Press. https://doi.org/10.1093/oso/9780198802013.003.0009'
chicago: 'Hausel, Tamás, Anton Mellit, and Du Pei. “Mirror Symmetry with Branes
by Equivariant Verlinde Formulas.” In Geometry and Physics: Volume I, 189–218.
Oxford University Press, 2018. https://doi.org/10.1093/oso/9780198802013.003.0009.'
ieee: 'T. Hausel, A. Mellit, and D. Pei, “Mirror symmetry with branes by equivariant
verlinde formulas,” in Geometry and Physics: Volume I, Oxford University
Press, 2018, pp. 189–218.'
ista: 'Hausel T, Mellit A, Pei D. 2018.Mirror symmetry with branes by equivariant
verlinde formulas. In: Geometry and Physics: Volume I. , 189–218.'
mla: 'Hausel, Tamás, et al. “Mirror Symmetry with Branes by Equivariant Verlinde
Formulas.” Geometry and Physics: Volume I, Oxford University Press, 2018,
pp. 189–218, doi:10.1093/oso/9780198802013.003.0009.'
short: 'T. Hausel, A. Mellit, D. Pei, in:, Geometry and Physics: Volume I, Oxford
University Press, 2018, pp. 189–218.'
date_created: 2019-06-06T12:42:01Z
date_published: 2018-01-01T00:00:00Z
date_updated: 2021-01-12T08:07:52Z
day: '01'
department:
- _id: TaHa
doi: 10.1093/oso/9780198802013.003.0009
language:
- iso: eng
month: '01'
oa_version: None
page: 189-218
publication: 'Geometry and Physics: Volume I'
publication_identifier:
isbn:
- '9780198802013'
- '9780191840500'
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: 1
status: public
title: Mirror symmetry with branes by equivariant verlinde formulas
type: book_chapter
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '6664'
abstract:
- lang: eng
text: Reed-Muller (RM) and polar codes are a class of capacity-achieving channel
coding schemes with the same factor graph representation. Low-complexity decoding
algorithms fall short in providing a good error-correction performance for RM
and polar codes. Using the symmetric group of RM and polar codes, the specific
decoding algorithm can be carried out on multiple permutations of the factor graph
to boost the error-correction performance. However, this approach results in high
decoding complexity. In this paper, we first derive the total number of factor
graph permutations on which the decoding can be performed. We further propose
a successive permutation (SP) scheme which finds the permutations on the fly,
thus the decoding always progresses on a single factor graph permutation. We show
that SP can be used to improve the error-correction performance of RM and polar
codes under successive-cancellation (SC) and SC list (SCL) decoding, while keeping
the memory requirements of the decoders unaltered. Our results for RM and polar
codes of length 128 and rate 0.5 show that when SP is used and at a target frame
error rate of 10 -4 , up to 0.5 dB and 0.1 dB improvement can be achieved for
RM and polar codes respectively.
author:
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Nghia
full_name: Doan, Nghia
last_name: Doan
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: 'Warren '
full_name: 'Gross, Warren '
last_name: Gross
citation:
ama: 'Hashemi SA, Doan N, Mondelli M, Gross W. Decoding Reed-Muller and polar codes
by successive factor graph permutations. In: 2018 IEEE 10th International Symposium
on Turbo Codes & Iterative Information Processing. IEEE; 2018:1-5. doi:10.1109/istc.2018.8625281'
apa: 'Hashemi, S. A., Doan, N., Mondelli, M., & Gross, W. (2018). Decoding Reed-Muller
and polar codes by successive factor graph permutations. In 2018 IEEE 10th
International Symposium on Turbo Codes & Iterative Information Processing
(pp. 1–5). Hong Kong, China: IEEE. https://doi.org/10.1109/istc.2018.8625281'
chicago: Hashemi, Seyyed Ali, Nghia Doan, Marco Mondelli, and Warren Gross. “Decoding
Reed-Muller and Polar Codes by Successive Factor Graph Permutations.” In 2018
IEEE 10th International Symposium on Turbo Codes & Iterative Information Processing,
1–5. IEEE, 2018. https://doi.org/10.1109/istc.2018.8625281.
ieee: S. A. Hashemi, N. Doan, M. Mondelli, and W. Gross, “Decoding Reed-Muller and
polar codes by successive factor graph permutations,” in 2018 IEEE 10th International
Symposium on Turbo Codes & Iterative Information Processing, Hong Kong,
China, 2018, pp. 1–5.
ista: 'Hashemi SA, Doan N, Mondelli M, Gross W. 2018. Decoding Reed-Muller and polar
codes by successive factor graph permutations. 2018 IEEE 10th International Symposium
on Turbo Codes & Iterative Information Processing. ISTC: Symposium on Turbo
Codes & Iterative Information Processing, 1–5.'
mla: Hashemi, Seyyed Ali, et al. “Decoding Reed-Muller and Polar Codes by Successive
Factor Graph Permutations.” 2018 IEEE 10th International Symposium on Turbo
Codes & Iterative Information Processing, IEEE, 2018, pp. 1–5, doi:10.1109/istc.2018.8625281.
short: S.A. Hashemi, N. Doan, M. Mondelli, W. Gross, in:, 2018 IEEE 10th International
Symposium on Turbo Codes & Iterative Information Processing, IEEE, 2018, pp.
1–5.
conference:
end_date: 2018-12-07
location: Hong Kong, China
name: 'ISTC: Symposium on Turbo Codes & Iterative Information Processing'
start_date: 2018-12-03
date_created: 2019-07-23T09:12:43Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2021-01-12T08:08:29Z
day: '01'
doi: 10.1109/istc.2018.8625281
extern: '1'
external_id:
arxiv:
- '1807.03912'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1807.03912
month: '12'
oa: 1
oa_version: Preprint
page: 1-5
publication: 2018 IEEE 10th International Symposium on Turbo Codes & Iterative Information
Processing
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: Decoding Reed-Muller and polar codes by successive factor graph permutations
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '6674'
abstract:
- lang: eng
text: Polar codes represent one of the major recent breakthroughs in coding theory
and, because of their attractive features, they have been selected for the incoming
5G standard. As such, a lot of attention has been devoted to the development of
decoding algorithms with good error performance and efficient hardware implementation.
One of the leading candidates in this regard is represented by successive-cancellation
list (SCL) decoding. However, its hardware implementation requires a large amount
of memory. Recently, a partitioned SCL (PSCL) decoder has been proposed to significantly
reduce the memory consumption. In this paper, we consider the paradigm of PSCL
decoding from a practical standpoint, and we provide several improvements. First,
by changing the target signal-to-noise ratio and consequently modifying the construction
of the code, we are able to improve the performance at no additional computational,
latency, or memory cost. Second, we bridge the performance gap between SCL and
PSCL decoding by introducing a generalized PSCL decoder and a layered PSCL decoder.
In this way, we obtain almost the same performance of the SCL decoder with a significantly
lower memory requirement, as testified by hardware implementation results. Third,
we present an optimal scheme to allocate cyclic redundancy checks. Finally, we
provide a lower bound on the list size that guarantees optimal maximum a posteriori
performance for the binary erasure channel.
author:
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: S. Hamed
full_name: Hassani, S. Hamed
last_name: Hassani
- first_name: Carlo
full_name: Condo, Carlo
last_name: Condo
- first_name: Rudiger L.
full_name: Urbanke, Rudiger L.
last_name: Urbanke
- first_name: Warren J.
full_name: Gross, Warren J.
last_name: Gross
citation:
ama: 'Hashemi SA, Mondelli M, Hassani SH, Condo C, Urbanke RL, Gross WJ. Decoder
partitioning: Towards practical list decoding of polar codes. IEEE Transactions
on Communications. 2018;66(9):3749-3759. doi:10.1109/tcomm.2018.2832207'
apa: 'Hashemi, S. A., Mondelli, M., Hassani, S. H., Condo, C., Urbanke, R. L., &
Gross, W. J. (2018). Decoder partitioning: Towards practical list decoding of
polar codes. IEEE Transactions on Communications. IEEE. https://doi.org/10.1109/tcomm.2018.2832207'
chicago: 'Hashemi, Seyyed Ali, Marco Mondelli, S. Hamed Hassani, Carlo Condo, Rudiger
L. Urbanke, and Warren J. Gross. “Decoder Partitioning: Towards Practical List
Decoding of Polar Codes.” IEEE Transactions on Communications. IEEE, 2018.
https://doi.org/10.1109/tcomm.2018.2832207.'
ieee: 'S. A. Hashemi, M. Mondelli, S. H. Hassani, C. Condo, R. L. Urbanke, and W.
J. Gross, “Decoder partitioning: Towards practical list decoding of polar codes,”
IEEE Transactions on Communications, vol. 66, no. 9. IEEE, pp. 3749–3759,
2018.'
ista: 'Hashemi SA, Mondelli M, Hassani SH, Condo C, Urbanke RL, Gross WJ. 2018.
Decoder partitioning: Towards practical list decoding of polar codes. IEEE Transactions
on Communications. 66(9), 3749–3759.'
mla: 'Hashemi, Seyyed Ali, et al. “Decoder Partitioning: Towards Practical List
Decoding of Polar Codes.” IEEE Transactions on Communications, vol. 66,
no. 9, IEEE, 2018, pp. 3749–59, doi:10.1109/tcomm.2018.2832207.'
short: S.A. Hashemi, M. Mondelli, S.H. Hassani, C. Condo, R.L. Urbanke, W.J. Gross,
IEEE Transactions on Communications 66 (2018) 3749–3759.
date_created: 2019-07-24T08:59:41Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2021-01-12T08:08:31Z
day: '01'
doi: 10.1109/tcomm.2018.2832207
extern: '1'
intvolume: ' 66'
issue: '9'
language:
- iso: eng
month: '09'
oa_version: None
page: 3749-3759
publication: IEEE Transactions on Communications
publication_identifier:
eissn:
- 1558-0857
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: 'Decoder partitioning: Towards practical list decoding of polar codes'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 66
year: '2018'
...
---
_id: '6728'
abstract:
- lang: eng
text: Polar codes are a channel coding scheme for the next generation of wireless
communications standard (5G). The belief propagation (BP) decoder allows for parallel
decoding of polar codes, making it suitable for high throughput applications.
However, the error-correction performance of polar codes under BP decoding is
far from the requirements of 5G. It has been shown that the error-correction performance
of BP can be improved if the decoding is performed on multiple permuted factor
graphs of polar codes. However, a different BP decoding scheduling is required
for each factor graph permutation which results in the design of a different decoder
for each permutation. Moreover, the selection of the different factor graph permutations
is at random, which prevents the decoder to achieve a desirable error correction
performance with a small number of permutations. In this paper, we first show
that the permutations on the factor graph can be mapped into suitable permutations
on the codeword positions. As a result, we can make use of a single decoder for
all the permutations. In addition, we introduce a method to construct a set of
predetermined permutations which can provide the correct codeword if the decoding
fails on the original permutation. We show that for the 5G polar code of length
1024, the error-correction performance of the proposed decoder is more than 0.25
dB better than that of the BP decoder with the same number of random permutations
at the frame error rate of 10 -4 .
author:
- first_name: Nghia
full_name: Doan, Nghia
last_name: Doan
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Warren J.
full_name: Gross, Warren J.
last_name: Gross
citation:
ama: 'Doan N, Hashemi SA, Mondelli M, Gross WJ. On the decoding of polar codes on
permuted factor graphs. In: 2018 IEEE Global Communications Conference .
IEEE; 2018. doi:10.1109/glocom.2018.8647308'
apa: 'Doan, N., Hashemi, S. A., Mondelli, M., & Gross, W. J. (2018). On the
decoding of polar codes on permuted factor graphs. In 2018 IEEE Global Communications
Conference . Abu Dhabi, United Arab Emirates: IEEE. https://doi.org/10.1109/glocom.2018.8647308'
chicago: Doan, Nghia, Seyyed Ali Hashemi, Marco Mondelli, and Warren J. Gross. “On
the Decoding of Polar Codes on Permuted Factor Graphs.” In 2018 IEEE Global
Communications Conference . IEEE, 2018. https://doi.org/10.1109/glocom.2018.8647308.
ieee: N. Doan, S. A. Hashemi, M. Mondelli, and W. J. Gross, “On the decoding of
polar codes on permuted factor graphs,” in 2018 IEEE Global Communications
Conference , Abu Dhabi, United Arab Emirates, 2018.
ista: 'Doan N, Hashemi SA, Mondelli M, Gross WJ. 2018. On the decoding of polar
codes on permuted factor graphs. 2018 IEEE Global Communications Conference .
GLOBECOM: Global Communications Conference.'
mla: Doan, Nghia, et al. “On the Decoding of Polar Codes on Permuted Factor Graphs.”
2018 IEEE Global Communications Conference , IEEE, 2018, doi:10.1109/glocom.2018.8647308.
short: N. Doan, S.A. Hashemi, M. Mondelli, W.J. Gross, in:, 2018 IEEE Global Communications
Conference , IEEE, 2018.
conference:
end_date: 2018-12-13
location: Abu Dhabi, United Arab Emirates
name: 'GLOBECOM: Global Communications Conference'
start_date: 2018-12-09
date_created: 2019-07-30T06:43:15Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2021-01-12T08:08:42Z
day: '01'
doi: 10.1109/glocom.2018.8647308
extern: '1'
external_id:
arxiv:
- '1806.11195'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1806.11195
month: '12'
oa: 1
oa_version: Preprint
publication: '2018 IEEE Global Communications Conference '
publication_identifier:
isbn:
- '9781538647271'
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: On the decoding of polar codes on permuted factor graphs
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '6678'
abstract:
- lang: eng
text: We survey coding techniques that enable reliable transmission at rates that
approach the capacity of an arbitrary discrete memoryless channel. In particular,
we take the point of view of modern coding theory and discuss how recent advances
in coding for symmetric channels help provide more efficient solutions for the
asymmetric case. We consider, in more detail, three basic coding paradigms. The
first one is Gallager's scheme that consists of concatenating a linear code with
a non-linear mapping so that the input distribution can be appropriately shaped.
We explicitly show that both polar codes and spatially coupled codes can be employed
in this scenario. Furthermore, we derive a scaling law between the gap to capacity,
the cardinality of the input and output alphabets, and the required size of the
mapper. The second one is an integrated scheme in which the code is used both
for source coding, in order to create codewords distributed according to the capacity-achieving
input distribution, and for channel coding, in order to provide error protection.
Such a technique has been recently introduced by Honda and Yamamoto in the context
of polar codes, and we show how to apply it also to the design of sparse graph
codes. The third paradigm is based on an idea of Böcherer and Mathar, and separates
the two tasks of source coding and channel coding by a chaining construction that
binds together several codewords. We present conditions for the source code and
the channel code, and we describe how to combine any source code with any channel
code that fulfill those conditions, in order to provide capacity-achieving schemes
for asymmetric channels. In particular, we show that polar codes, spatially coupled
codes, and homophonic codes are suitable as basic building blocks of the proposed
coding strategy. Rather than focusing on the exact details of the schemes, the
purpose of this tutorial is to present different coding techniques that can then
be implemented with many variants. There is no absolute winner and, in order to
understand the most suitable technique for a specific application scenario, we
provide a detailed comparison that takes into account several performance metrics.
article_type: original
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Hamed
full_name: Hassani, Hamed
last_name: Hassani
- first_name: 'Rudiger '
full_name: 'Urbanke, Rudiger '
last_name: Urbanke
citation:
ama: Mondelli M, Hassani H, Urbanke R. How to achieve the capacity of asymmetric
channels. IEEE Transactions on Information Theory. 2018;64(5):3371-3393.
doi:10.1109/tit.2018.2789885
apa: Mondelli, M., Hassani, H., & Urbanke, R. (2018). How to achieve the capacity
of asymmetric channels. IEEE Transactions on Information Theory. IEEE.
https://doi.org/10.1109/tit.2018.2789885
chicago: Mondelli, Marco, Hamed Hassani, and Rudiger Urbanke. “How to Achieve the
Capacity of Asymmetric Channels.” IEEE Transactions on Information Theory.
IEEE, 2018. https://doi.org/10.1109/tit.2018.2789885.
ieee: M. Mondelli, H. Hassani, and R. Urbanke, “How to achieve the capacity of asymmetric
channels,” IEEE Transactions on Information Theory, vol. 64, no. 5. IEEE,
pp. 3371–3393, 2018.
ista: Mondelli M, Hassani H, Urbanke R. 2018. How to achieve the capacity of asymmetric
channels. IEEE Transactions on Information Theory. 64(5), 3371–3393.
mla: Mondelli, Marco, et al. “How to Achieve the Capacity of Asymmetric Channels.”
IEEE Transactions on Information Theory, vol. 64, no. 5, IEEE, 2018, pp.
3371–93, doi:10.1109/tit.2018.2789885.
short: M. Mondelli, H. Hassani, R. Urbanke, IEEE Transactions on Information Theory
64 (2018) 3371–3393.
date_created: 2019-07-24T12:38:49Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2023-02-23T12:50:46Z
day: '01'
doi: 10.1109/tit.2018.2789885
extern: '1'
external_id:
arxiv:
- '1406.7373'
intvolume: ' 64'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1406.7373
month: '05'
oa: 1
oa_version: Preprint
page: 3371-3393
publication: IEEE Transactions on Information Theory
publication_identifier:
issn:
- 0018-9448
- 1557-9654
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '6740'
relation: earlier_version
status: public
status: public
title: How to achieve the capacity of asymmetric channels
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 64
year: '2018'
...
---
_id: '690'
abstract:
- lang: eng
text: We consider spectral properties and the edge universality of sparse random
matrices, the class of random matrices that includes the adjacency matrices of
the Erdős–Rényi graph model G(N, p). We prove a local law for the eigenvalue density
up to the spectral edges. Under a suitable condition on the sparsity, we also
prove that the rescaled extremal eigenvalues exhibit GOE Tracy–Widom fluctuations
if a deterministic shift of the spectral edge due to the sparsity is included.
For the adjacency matrix of the Erdős–Rényi graph this establishes the Tracy–Widom
fluctuations of the second largest eigenvalue when p is much larger than N−2/3
with a deterministic shift of order (Np)−1.
article_number: 543-616
author:
- first_name: Jii
full_name: Lee, Jii
last_name: Lee
- first_name: Kevin
full_name: Schnelli, Kevin
id: 434AD0AE-F248-11E8-B48F-1D18A9856A87
last_name: Schnelli
orcid: 0000-0003-0954-3231
citation:
ama: Lee J, Schnelli K. Local law and Tracy–Widom limit for sparse random matrices.
Probability Theory and Related Fields. 2018;171(1-2). doi:10.1007/s00440-017-0787-8
apa: Lee, J., & Schnelli, K. (2018). Local law and Tracy–Widom limit for sparse
random matrices. Probability Theory and Related Fields. Springer. https://doi.org/10.1007/s00440-017-0787-8
chicago: Lee, Jii, and Kevin Schnelli. “Local Law and Tracy–Widom Limit for Sparse
Random Matrices.” Probability Theory and Related Fields. Springer, 2018.
https://doi.org/10.1007/s00440-017-0787-8.
ieee: J. Lee and K. Schnelli, “Local law and Tracy–Widom limit for sparse random
matrices,” Probability Theory and Related Fields, vol. 171, no. 1–2. Springer,
2018.
ista: Lee J, Schnelli K. 2018. Local law and Tracy–Widom limit for sparse random
matrices. Probability Theory and Related Fields. 171(1–2), 543–616.
mla: Lee, Jii, and Kevin Schnelli. “Local Law and Tracy–Widom Limit for Sparse Random
Matrices.” Probability Theory and Related Fields, vol. 171, no. 1–2, 543–616,
Springer, 2018, doi:10.1007/s00440-017-0787-8.
short: J. Lee, K. Schnelli, Probability Theory and Related Fields 171 (2018).
date_created: 2018-12-11T11:47:56Z
date_published: 2018-06-14T00:00:00Z
date_updated: 2021-01-12T08:09:33Z
day: '14'
department:
- _id: LaEr
doi: 10.1007/s00440-017-0787-8
ec_funded: 1
external_id:
arxiv:
- '1605.08767'
intvolume: ' 171'
issue: 1-2
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1605.08767
month: '06'
oa: 1
oa_version: Preprint
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Probability Theory and Related Fields
publication_status: published
publisher: Springer
publist_id: '7017'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local law and Tracy–Widom limit for sparse random matrices
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 171
year: '2018'
...
---
_id: '6675'
abstract:
- lang: eng
text: 'We present a coding paradigm that provides a new achievable rate for the
primitive relay channel by combining compress-and-forward and decode-and-forward
with a chaining construction. In the primitive relay channel model, the source
broadcasts a message to the relay and to the destination; and the relay facilitates
this communication by sending an additional message to the destination through
a separate channel. Two well-known coding approaches for this setting are decode-and-forward
and compress-and-forward: in the former, the relay decodes the message and sends
some of the information to the destination; in the latter, the relay does not
attempt to decode, but it sends a compressed description of the received sequence
to the destination via Wyner-Ziv coding. In our scheme, we transmit over pairs
of blocks and we use compress-and-forward for the first block and decode-and-forward
for the second. In particular, in the first block, the relay does not attempt
to decode and it sends only a part of the compressed description of the received
sequence; in the second block, the relay decodes the message and sends this information
plus the remaining part of the compressed sequence relative to the first block.
As a result, we strictly outperform both compress-and- forward and decode-and-forward.
Furthermore, this paradigm can be implemented with a low-complexity polar coding
scheme that has the typical attractive features of polar codes, i.e., quasi-linear
encoding/decoding complexity and super-polynomial decay of the error probability.
Throughout the paper we consider as a running example the special case of the
erasure relay channel and we compare the rates achievable by our proposed scheme
with the existing upper and lower bounds.'
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Hamed
full_name: Hassani, Hamed
last_name: Hassani
- first_name: Rudiger
full_name: Urbanke, Rudiger
last_name: Urbanke
citation:
ama: 'Mondelli M, Hassani H, Urbanke R. A new coding paradigm for the primitive
relay channel. In: 2018 IEEE International Symposium on Information Theory.
IEEE; 2018:351-355. doi:10.1109/isit.2018.8437479'
apa: 'Mondelli, M., Hassani, H., & Urbanke, R. (2018). A new coding paradigm
for the primitive relay channel. In 2018 IEEE International Symposium on Information
Theory (pp. 351–355). Vail, CO, United States: IEEE. https://doi.org/10.1109/isit.2018.8437479'
chicago: Mondelli, Marco, Hamed Hassani, and Rudiger Urbanke. “A New Coding Paradigm
for the Primitive Relay Channel.” In 2018 IEEE International Symposium on Information
Theory, 351–55. IEEE, 2018. https://doi.org/10.1109/isit.2018.8437479.
ieee: M. Mondelli, H. Hassani, and R. Urbanke, “A new coding paradigm for the primitive
relay channel,” in 2018 IEEE International Symposium on Information Theory,
Vail, CO, United States, 2018, pp. 351–355.
ista: 'Mondelli M, Hassani H, Urbanke R. 2018. A new coding paradigm for the primitive
relay channel. 2018 IEEE International Symposium on Information Theory. ISIT:
International Symposium on Information Theory , 351–355.'
mla: Mondelli, Marco, et al. “A New Coding Paradigm for the Primitive Relay Channel.”
2018 IEEE International Symposium on Information Theory, IEEE, 2018, pp.
351–55, doi:10.1109/isit.2018.8437479.
short: M. Mondelli, H. Hassani, R. Urbanke, in:, 2018 IEEE International Symposium
on Information Theory, IEEE, 2018, pp. 351–355.
conference:
end_date: 2018-06-22
location: Vail, CO, United States
name: 'ISIT: International Symposium on Information Theory '
start_date: 2018-06-17
date_created: 2019-07-24T09:10:38Z
date_published: 2018-06-16T00:00:00Z
date_updated: 2023-02-23T12:56:49Z
day: '16'
doi: 10.1109/isit.2018.8437479
extern: '1'
external_id:
arxiv:
- '1801.03153'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1801.03153
month: '06'
oa: 1
oa_version: Preprint
page: 351-355
publication: 2018 IEEE International Symposium on Information Theory
publication_identifier:
eissn:
- 2157-8117
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '7007'
relation: later_version
status: public
status: public
title: A new coding paradigm for the primitive relay channel
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '703'
abstract:
- lang: eng
text: We consider the NP-hard problem of MAP-inference for undirected discrete graphical
models. We propose a polynomial time and practically efficient algorithm for finding
a part of its optimal solution. Specifically, our algorithm marks some labels
of the considered graphical model either as (i) optimal, meaning that they belong
to all optimal solutions of the inference problem; (ii) non-optimal if they provably
do not belong to any solution. With access to an exact solver of a linear programming
relaxation to the MAP-inference problem, our algorithm marks the maximal possible
(in a specified sense) number of labels. We also present a version of the algorithm,
which has access to a suboptimal dual solver only and still can ensure the (non-)optimality
for the marked labels, although the overall number of the marked labels may decrease.
We propose an efficient implementation, which runs in time comparable to a single
run of a suboptimal dual solver. Our method is well-scalable and shows state-of-the-art
results on computational benchmarks from machine learning and computer vision.
author:
- first_name: Alexander
full_name: Shekhovtsov, Alexander
last_name: Shekhovtsov
- first_name: Paul
full_name: Swoboda, Paul
id: 446560C6-F248-11E8-B48F-1D18A9856A87
last_name: Swoboda
- first_name: Bogdan
full_name: Savchynskyy, Bogdan
last_name: Savchynskyy
citation:
ama: Shekhovtsov A, Swoboda P, Savchynskyy B. Maximum persistency via iterative
relaxed inference with graphical models. IEEE Transactions on Pattern Analysis
and Machine Intelligence. 2018;40(7):1668-1682. doi:10.1109/TPAMI.2017.2730884
apa: Shekhovtsov, A., Swoboda, P., & Savchynskyy, B. (2018). Maximum persistency
via iterative relaxed inference with graphical models. IEEE Transactions on
Pattern Analysis and Machine Intelligence. IEEE. https://doi.org/10.1109/TPAMI.2017.2730884
chicago: Shekhovtsov, Alexander, Paul Swoboda, and Bogdan Savchynskyy. “Maximum
Persistency via Iterative Relaxed Inference with Graphical Models.” IEEE Transactions
on Pattern Analysis and Machine Intelligence. IEEE, 2018. https://doi.org/10.1109/TPAMI.2017.2730884.
ieee: A. Shekhovtsov, P. Swoboda, and B. Savchynskyy, “Maximum persistency via iterative
relaxed inference with graphical models,” IEEE Transactions on Pattern Analysis
and Machine Intelligence, vol. 40, no. 7. IEEE, pp. 1668–1682, 2018.
ista: Shekhovtsov A, Swoboda P, Savchynskyy B. 2018. Maximum persistency via iterative
relaxed inference with graphical models. IEEE Transactions on Pattern Analysis
and Machine Intelligence. 40(7), 1668–1682.
mla: Shekhovtsov, Alexander, et al. “Maximum Persistency via Iterative Relaxed Inference
with Graphical Models.” IEEE Transactions on Pattern Analysis and Machine Intelligence,
vol. 40, no. 7, IEEE, 2018, pp. 1668–82, doi:10.1109/TPAMI.2017.2730884.
short: A. Shekhovtsov, P. Swoboda, B. Savchynskyy, IEEE Transactions on Pattern
Analysis and Machine Intelligence 40 (2018) 1668–1682.
date_created: 2018-12-11T11:48:01Z
date_published: 2018-07-01T00:00:00Z
date_updated: 2021-01-12T08:11:32Z
day: '01'
department:
- _id: VlKo
doi: 10.1109/TPAMI.2017.2730884
external_id:
arxiv:
- '1508.07902'
intvolume: ' 40'
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1508.07902
month: '07'
oa: 1
oa_version: Preprint
page: 1668-1682
publication: IEEE Transactions on Pattern Analysis and Machine Intelligence
publication_identifier:
issn:
- '01628828'
publication_status: published
publisher: IEEE
publist_id: '6992'
quality_controlled: '1'
scopus_import: 1
status: public
title: Maximum persistency via iterative relaxed inference with graphical models
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 40
year: '2018'
...
---
_id: '7063'
abstract:
- lang: eng
text: The high-pressure synthesis and incommensurately modulated structure are reported
for the new compound Sr2Pt8−xAs, with x = 0.715 (5). The structure consists of
Sr2Pt3As layers alternating with Pt-only corrugated grids. Ab initio calculations
predict a metallic character with a dominant role of the Pt d electrons. The electrical
resistivity (ρ) and Seebeck coefficient confirm the metallic character, but surprisingly,
ρ showed a near-flat temperature dependence. This observation fits the description
of the Mooij correlation for electrical resistivity in disordered metals, originally
developed for statistically distributed point defects. The discussed material
has a long-range crystallographic order, but the high concentration of Pt vacancies,
incommensurately ordered, strongly influences the electronic conduction properties.
This result extends the range of validity of the Mooij correlation to long-range
ordered incommensurately modulated vacancies. Motivated by the layered structure,
the resistivity anisotropy was measured in a focused-ion-beam micro-fabricated
well oriented single crystal. A low resistivity anisotropy indicates that the
layers are electrically coupled and conduction channels along different directions
are intermixed.
article_processing_charge: No
article_type: original
author:
- first_name: Edoardo
full_name: Martino, Edoardo
last_name: Martino
- first_name: Alla
full_name: Arakcheeva, Alla
last_name: Arakcheeva
- first_name: Gabriel
full_name: Autès, Gabriel
last_name: Autès
- first_name: Andrea
full_name: Pisoni, Andrea
last_name: Pisoni
- first_name: Maja D.
full_name: Bachmann, Maja D.
last_name: Bachmann
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: Toni
full_name: Helm, Toni
last_name: Helm
- first_name: Oleg V.
full_name: Yazyev, Oleg V.
last_name: Yazyev
- first_name: Philip J. W.
full_name: Moll, Philip J. W.
last_name: Moll
- first_name: László
full_name: Forró, László
last_name: Forró
- first_name: Sergiy
full_name: Katrych, Sergiy
last_name: Katrych
citation:
ama: 'Martino E, Arakcheeva A, Autès G, et al. Sr2Pt8−xAs: A layered incommensurately
modulated metal with saturated resistivity. IUCrJ. 2018;5(4):470-477. doi:10.1107/s2052252518007303'
apa: 'Martino, E., Arakcheeva, A., Autès, G., Pisoni, A., Bachmann, M. D., Modic,
K. A., … Katrych, S. (2018). Sr2Pt8−xAs: A layered incommensurately modulated
metal with saturated resistivity. IUCrJ. International Union of Crystallography
(IUCr). https://doi.org/10.1107/s2052252518007303'
chicago: 'Martino, Edoardo, Alla Arakcheeva, Gabriel Autès, Andrea Pisoni, Maja
D. Bachmann, Kimberly A Modic, Toni Helm, et al. “Sr2Pt8−xAs: A Layered Incommensurately
Modulated Metal with Saturated Resistivity.” IUCrJ. International Union
of Crystallography (IUCr), 2018. https://doi.org/10.1107/s2052252518007303.'
ieee: 'E. Martino et al., “Sr2Pt8−xAs: A layered incommensurately modulated
metal with saturated resistivity,” IUCrJ, vol. 5, no. 4. International
Union of Crystallography (IUCr), pp. 470–477, 2018.'
ista: 'Martino E, Arakcheeva A, Autès G, Pisoni A, Bachmann MD, Modic KA, Helm T,
Yazyev OV, Moll PJW, Forró L, Katrych S. 2018. Sr2Pt8−xAs: A layered incommensurately
modulated metal with saturated resistivity. IUCrJ. 5(4), 470–477.'
mla: 'Martino, Edoardo, et al. “Sr2Pt8−xAs: A Layered Incommensurately Modulated
Metal with Saturated Resistivity.” IUCrJ, vol. 5, no. 4, International
Union of Crystallography (IUCr), 2018, pp. 470–77, doi:10.1107/s2052252518007303.'
short: E. Martino, A. Arakcheeva, G. Autès, A. Pisoni, M.D. Bachmann, K.A. Modic,
T. Helm, O.V. Yazyev, P.J.W. Moll, L. Forró, S. Katrych, IUCrJ 5 (2018) 470–477.
date_created: 2019-11-19T13:11:15Z
date_published: 2018-07-01T00:00:00Z
date_updated: 2021-01-12T08:11:38Z
day: '01'
ddc:
- '530'
doi: 10.1107/s2052252518007303
extern: '1'
file:
- access_level: open_access
checksum: 5c6180c7d19da599dd50a067eb2efd50
content_type: application/pdf
creator: dernst
date_created: 2019-11-20T14:00:27Z
date_updated: 2020-07-14T12:47:48Z
file_id: '7090'
file_name: 2018_IUCrJ_Martino.pdf
file_size: 1563353
relation: main_file
file_date_updated: 2020-07-14T12:47:48Z
has_accepted_license: '1'
intvolume: ' 5'
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 470-477
publication: IUCrJ
publication_identifier:
eissn:
- 2052-2525
publication_status: published
publisher: International Union of Crystallography (IUCr)
quality_controlled: '1'
status: public
title: 'Sr2Pt8−xAs: A layered incommensurately modulated metal with saturated resistivity'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2018'
...
---
_id: '7062'
abstract:
- lang: eng
text: 'Weyl fermions are a recently discovered ingredient for correlated states
of electronic matter. A key difficulty has been that real materials also contain
non-Weyl quasiparticles, and disentangling the experimental signatures has proven
challenging. Here we use magnetic fields up to 95 T to drive the Weyl semimetal
TaAs far into its quantum limit, where only the purely chiral 0th Landau levels
of the Weyl fermions are occupied. We find the electrical resistivity to be nearly
independent of magnetic field up to 50 T: unusual for conventional metals but
consistent with the chiral anomaly for Weyl fermions. Above 50 T we observe a
two-order-of-magnitude increase in resistivity, indicating that a gap opens in
the chiral Landau levels. Above 80 T we observe strong ultrasonic attenuation
below 2 K, suggesting a mesoscopically textured state of matter. These results
point the way to inducing new correlated states of matter in the quantum limit
of Weyl semimetals.'
article_number: '2217'
article_processing_charge: No
article_type: original
author:
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: Arkady
full_name: Shekhter, Arkady
last_name: Shekhter
- first_name: Yi
full_name: Zhang, Yi
last_name: Zhang
- first_name: Eun-Ah
full_name: Kim, Eun-Ah
last_name: Kim
- first_name: Philip J. W.
full_name: Moll, Philip J. W.
last_name: Moll
- first_name: Maja D.
full_name: Bachmann, Maja D.
last_name: Bachmann
- first_name: M. K.
full_name: Chan, M. K.
last_name: Chan
- first_name: J. B.
full_name: Betts, J. B.
last_name: Betts
- first_name: F.
full_name: Balakirev, F.
last_name: Balakirev
- first_name: A.
full_name: Migliori, A.
last_name: Migliori
- first_name: N. J.
full_name: Ghimire, N. J.
last_name: Ghimire
- first_name: E. D.
full_name: Bauer, E. D.
last_name: Bauer
- first_name: F.
full_name: Ronning, F.
last_name: Ronning
- first_name: R. D.
full_name: McDonald, R. D.
last_name: McDonald
citation:
ama: Ramshaw BJ, Modic KA, Shekhter A, et al. Quantum limit transport and destruction
of the Weyl nodes in TaAs. Nature Communications. 2018;9(1). doi:10.1038/s41467-018-04542-9
apa: Ramshaw, B. J., Modic, K. A., Shekhter, A., Zhang, Y., Kim, E.-A., Moll, P.
J. W., … McDonald, R. D. (2018). Quantum limit transport and destruction of the
Weyl nodes in TaAs. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-04542-9
chicago: Ramshaw, B. J., Kimberly A Modic, Arkady Shekhter, Yi Zhang, Eun-Ah Kim,
Philip J. W. Moll, Maja D. Bachmann, et al. “Quantum Limit Transport and Destruction
of the Weyl Nodes in TaAs.” Nature Communications. Springer Nature, 2018.
https://doi.org/10.1038/s41467-018-04542-9.
ieee: B. J. Ramshaw et al., “Quantum limit transport and destruction of the
Weyl nodes in TaAs,” Nature Communications, vol. 9, no. 1. Springer Nature,
2018.
ista: Ramshaw BJ, Modic KA, Shekhter A, Zhang Y, Kim E-A, Moll PJW, Bachmann MD,
Chan MK, Betts JB, Balakirev F, Migliori A, Ghimire NJ, Bauer ED, Ronning F, McDonald
RD. 2018. Quantum limit transport and destruction of the Weyl nodes in TaAs. Nature
Communications. 9(1), 2217.
mla: Ramshaw, B. J., et al. “Quantum Limit Transport and Destruction of the Weyl
Nodes in TaAs.” Nature Communications, vol. 9, no. 1, 2217, Springer Nature,
2018, doi:10.1038/s41467-018-04542-9.
short: B.J. Ramshaw, K.A. Modic, A. Shekhter, Y. Zhang, E.-A. Kim, P.J.W. Moll,
M.D. Bachmann, M.K. Chan, J.B. Betts, F. Balakirev, A. Migliori, N.J. Ghimire,
E.D. Bauer, F. Ronning, R.D. McDonald, Nature Communications 9 (2018).
date_created: 2019-11-19T13:10:33Z
date_published: 2018-06-07T00:00:00Z
date_updated: 2021-01-12T08:11:38Z
day: '07'
ddc:
- '530'
doi: 10.1038/s41467-018-04542-9
extern: '1'
file:
- access_level: open_access
checksum: 9c53f9a1f06a4d83d5fe879d2478b7d7
content_type: application/pdf
creator: dernst
date_created: 2019-11-20T13:55:44Z
date_updated: 2020-07-14T12:47:48Z
file_id: '7089'
file_name: 2018_NatureComm_Ramshaw.pdf
file_size: 1794797
relation: main_file
file_date_updated: 2020-07-14T12:47:48Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '1'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Quantum limit transport and destruction of the Weyl nodes in TaAs
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7059'
abstract:
- lang: eng
text: Unusual behavior in quantum materials commonly arises from their effective
low-dimensional physics, reflecting the underlying anisotropy in the spin and
charge degrees of freedom. Here we introduce the magnetotropic coefficient k = ∂2F/∂θ2,
the second derivative of the free energy F with respect to the magnetic field
orientation θ in the crystal. We show that the magnetotropic coefficient can be
quantitatively determined from a shift in the resonant frequency of a commercially
available atomic force microscopy cantilever under magnetic field. This detection
method enables part per 100 million sensitivity and the ability to measure magnetic
anisotropy in nanogram-scale samples, as demonstrated on the Weyl semimetal NbP.
Measurement of the magnetotropic coefficient in the spin-liquid candidate RuCl3
highlights its sensitivity to anisotropic phase transitions and allows a quantitative
comparison to other thermodynamic coefficients via the Ehrenfest relations.
article_processing_charge: No
article_type: original
author:
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: Maja D.
full_name: Bachmann, Maja D.
last_name: Bachmann
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: F.
full_name: Arnold, F.
last_name: Arnold
- first_name: K. R.
full_name: Shirer, K. R.
last_name: Shirer
- first_name: Amelia
full_name: Estry, Amelia
last_name: Estry
- first_name: J. B.
full_name: Betts, J. B.
last_name: Betts
- first_name: Nirmal J.
full_name: Ghimire, Nirmal J.
last_name: Ghimire
- first_name: E. D.
full_name: Bauer, E. D.
last_name: Bauer
- first_name: Marcus
full_name: Schmidt, Marcus
last_name: Schmidt
- first_name: Michael
full_name: Baenitz, Michael
last_name: Baenitz
- first_name: E.
full_name: Svanidze, E.
last_name: Svanidze
- first_name: Ross D.
full_name: McDonald, Ross D.
last_name: McDonald
- first_name: Arkady
full_name: Shekhter, Arkady
last_name: Shekhter
- first_name: Philip J. W.
full_name: Moll, Philip J. W.
last_name: Moll
citation:
ama: Modic KA, Bachmann MD, Ramshaw BJ, et al. Resonant torsion magnetometry in
anisotropic quantum materials. Nature Communications. 2018;9(1):3975. doi:10.1038/s41467-018-06412-w
apa: Modic, K. A., Bachmann, M. D., Ramshaw, B. J., Arnold, F., Shirer, K. R., Estry,
A., … Moll, P. J. W. (2018). Resonant torsion magnetometry in anisotropic quantum
materials. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-06412-w
chicago: Modic, Kimberly A, Maja D. Bachmann, B. J. Ramshaw, F. Arnold, K. R. Shirer,
Amelia Estry, J. B. Betts, et al. “Resonant Torsion Magnetometry in Anisotropic
Quantum Materials.” Nature Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-018-06412-w.
ieee: K. A. Modic et al., “Resonant torsion magnetometry in anisotropic quantum
materials,” Nature Communications, vol. 9, no. 1. Springer Nature, p. 3975,
2018.
ista: Modic KA, Bachmann MD, Ramshaw BJ, Arnold F, Shirer KR, Estry A, Betts JB,
Ghimire NJ, Bauer ED, Schmidt M, Baenitz M, Svanidze E, McDonald RD, Shekhter
A, Moll PJW. 2018. Resonant torsion magnetometry in anisotropic quantum materials.
Nature Communications. 9(1), 3975.
mla: Modic, Kimberly A., et al. “Resonant Torsion Magnetometry in Anisotropic Quantum
Materials.” Nature Communications, vol. 9, no. 1, Springer Nature, 2018,
p. 3975, doi:10.1038/s41467-018-06412-w.
short: K.A. Modic, M.D. Bachmann, B.J. Ramshaw, F. Arnold, K.R. Shirer, A. Estry,
J.B. Betts, N.J. Ghimire, E.D. Bauer, M. Schmidt, M. Baenitz, E. Svanidze, R.D.
McDonald, A. Shekhter, P.J.W. Moll, Nature Communications 9 (2018) 3975.
date_created: 2019-11-19T13:02:20Z
date_published: 2018-09-28T00:00:00Z
date_updated: 2021-01-12T08:11:37Z
day: '28'
ddc:
- '530'
doi: 10.1038/s41467-018-06412-w
extern: '1'
file:
- access_level: open_access
checksum: 46a313c816e66899d4dad2cf3583e5b0
content_type: application/pdf
creator: dernst
date_created: 2019-11-20T12:48:58Z
date_updated: 2020-07-14T12:47:48Z
file_id: '7088'
file_name: 2018_NatureComm_Modic.pdf
file_size: 1257681
relation: main_file
file_date_updated: 2020-07-14T12:47:48Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '3975'
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Resonant torsion magnetometry in anisotropic quantum materials
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7058'
abstract:
- lang: eng
text: We examine recent magnetic torque measurements in two compounds, γ−Li2IrO3
and RuCl3, which have been discussed as possible realizations of the Kitaev model.
The analysis of the reported discontinuity in torque, as an external magnetic
field is rotated across the c axis in both crystals, suggests that they have a
translationally invariant chiral spin order of the form ⟨Si⋅(Sj×Sk)⟩≠0 in the
ground state and persisting over a very wide range of magnetic field and temperature.
An extraordinary |B|B2 dependence of the torque for small fields, beside the usual
B2 part, is predicted by the chiral spin order. Data for small fields are available
for γ−Li2IrO3 and are found to be consistent with the prediction upon further
analysis. Other experiments such as inelastic scattering and thermal Hall effect
and several questions raised by the discovery of chiral spin order, including
its topological consequences, are discussed.
article_number: '205110 '
article_processing_charge: No
article_type: original
author:
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: A.
full_name: Shekhter, A.
last_name: Shekhter
- first_name: C. M.
full_name: Varma, C. M.
last_name: Varma
citation:
ama: Modic KA, Ramshaw BJ, Shekhter A, Varma CM. Chiral spin order in some purported
Kitaev spin-liquid compounds. Physical Review B. 2018;98(20). doi:10.1103/physrevb.98.205110
apa: Modic, K. A., Ramshaw, B. J., Shekhter, A., & Varma, C. M. (2018). Chiral
spin order in some purported Kitaev spin-liquid compounds. Physical Review
B. APS. https://doi.org/10.1103/physrevb.98.205110
chicago: Modic, Kimberly A, B. J. Ramshaw, A. Shekhter, and C. M. Varma. “Chiral
Spin Order in Some Purported Kitaev Spin-Liquid Compounds.” Physical Review
B. APS, 2018. https://doi.org/10.1103/physrevb.98.205110.
ieee: K. A. Modic, B. J. Ramshaw, A. Shekhter, and C. M. Varma, “Chiral spin order
in some purported Kitaev spin-liquid compounds,” Physical Review B, vol.
98, no. 20. APS, 2018.
ista: Modic KA, Ramshaw BJ, Shekhter A, Varma CM. 2018. Chiral spin order in some
purported Kitaev spin-liquid compounds. Physical Review B. 98(20), 205110.
mla: Modic, Kimberly A., et al. “Chiral Spin Order in Some Purported Kitaev Spin-Liquid
Compounds.” Physical Review B, vol. 98, no. 20, 205110, APS, 2018, doi:10.1103/physrevb.98.205110.
short: K.A. Modic, B.J. Ramshaw, A. Shekhter, C.M. Varma, Physical Review B 98 (2018).
date_created: 2019-11-19T13:01:31Z
date_published: 2018-11-05T00:00:00Z
date_updated: 2021-01-12T08:11:36Z
day: '05'
doi: 10.1103/physrevb.98.205110
extern: '1'
external_id:
arxiv:
- '1807.06637'
intvolume: ' 98'
issue: '20'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1807.06637
month: '11'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: APS
quality_controlled: '1'
status: public
title: Chiral spin order in some purported Kitaev spin-liquid compounds
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 98
year: '2018'
...
---
_id: '7060'
abstract:
- lang: eng
text: The anomalous metallic state in the high-temperature superconducting cuprates
is masked by superconductivity near a quantum critical point. Applying high magnetic
fields to suppress superconductivity has enabled detailed studies of the normal
state, yet the direct effect of strong magnetic fields on the metallic state is
poorly understood. We report the high-field magnetoresistance of thin-film La2–xSrxCuO4
cuprate in the vicinity of the critical doping, 0.161 ≤ p ≤ 0.190. We find that
the metallic state exposed by suppressing superconductivity is characterized by
magnetoresistance that is linear in magnetic fields up to 80 tesla. The magnitude
of the linear-in-field resistivity mirrors the magnitude and doping evolution
of the well-known linear-in-temperature resistivity that has been associated with
quantum criticality in high-temperature superconductors.
article_processing_charge: No
article_type: original
author:
- first_name: P.
full_name: Giraldo-Gallo, P.
last_name: Giraldo-Gallo
- first_name: J. A.
full_name: Galvis, J. A.
last_name: Galvis
- first_name: Z.
full_name: Stegen, Z.
last_name: Stegen
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: F. F.
full_name: Balakirev, F. F.
last_name: Balakirev
- first_name: J. B.
full_name: Betts, J. B.
last_name: Betts
- first_name: X.
full_name: Lian, X.
last_name: Lian
- first_name: C.
full_name: Moir, C.
last_name: Moir
- first_name: S. C.
full_name: Riggs, S. C.
last_name: Riggs
- first_name: J.
full_name: Wu, J.
last_name: Wu
- first_name: A. T.
full_name: Bollinger, A. T.
last_name: Bollinger
- first_name: X.
full_name: He, X.
last_name: He
- first_name: I.
full_name: Božović, I.
last_name: Božović
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: R. D.
full_name: McDonald, R. D.
last_name: McDonald
- first_name: G. S.
full_name: Boebinger, G. S.
last_name: Boebinger
- first_name: A.
full_name: Shekhter, A.
last_name: Shekhter
citation:
ama: Giraldo-Gallo P, Galvis JA, Stegen Z, et al. Scale-invariant magnetoresistance
in a cuprate superconductor. Science. 2018;361(6401):479-481. doi:10.1126/science.aan3178
apa: Giraldo-Gallo, P., Galvis, J. A., Stegen, Z., Modic, K. A., Balakirev, F. F.,
Betts, J. B., … Shekhter, A. (2018). Scale-invariant magnetoresistance in a cuprate
superconductor. Science. AAAS. https://doi.org/10.1126/science.aan3178
chicago: Giraldo-Gallo, P., J. A. Galvis, Z. Stegen, Kimberly A Modic, F. F. Balakirev,
J. B. Betts, X. Lian, et al. “Scale-Invariant Magnetoresistance in a Cuprate Superconductor.”
Science. AAAS, 2018. https://doi.org/10.1126/science.aan3178.
ieee: P. Giraldo-Gallo et al., “Scale-invariant magnetoresistance in a cuprate
superconductor,” Science, vol. 361, no. 6401. AAAS, pp. 479–481, 2018.
ista: Giraldo-Gallo P, Galvis JA, Stegen Z, Modic KA, Balakirev FF, Betts JB, Lian
X, Moir C, Riggs SC, Wu J, Bollinger AT, He X, Božović I, Ramshaw BJ, McDonald
RD, Boebinger GS, Shekhter A. 2018. Scale-invariant magnetoresistance in a cuprate
superconductor. Science. 361(6401), 479–481.
mla: Giraldo-Gallo, P., et al. “Scale-Invariant Magnetoresistance in a Cuprate Superconductor.”
Science, vol. 361, no. 6401, AAAS, 2018, pp. 479–81, doi:10.1126/science.aan3178.
short: P. Giraldo-Gallo, J.A. Galvis, Z. Stegen, K.A. Modic, F.F. Balakirev, J.B.
Betts, X. Lian, C. Moir, S.C. Riggs, J. Wu, A.T. Bollinger, X. He, I. Božović,
B.J. Ramshaw, R.D. McDonald, G.S. Boebinger, A. Shekhter, Science 361 (2018) 479–481.
date_created: 2019-11-19T13:03:16Z
date_published: 2018-08-03T00:00:00Z
date_updated: 2021-01-12T08:11:37Z
day: '03'
doi: 10.1126/science.aan3178
extern: '1'
intvolume: ' 361'
issue: '6401'
language:
- iso: eng
month: '08'
oa_version: None
page: 479-481
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: AAAS
quality_controlled: '1'
status: public
title: Scale-invariant magnetoresistance in a cuprate superconductor
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 361
year: '2018'
...
---
_id: '7116'
abstract:
- lang: eng
text: 'Training deep learning models has received tremendous research interest recently.
In particular, there has been intensive research on reducing the communication
cost of training when using multiple computational devices, through reducing the
precision of the underlying data representation. Naturally, such methods induce
system trade-offs—lowering communication precision could de-crease communication
overheads and improve scalability; but, on the other hand, it can also reduce
the accuracy of training. In this paper, we study this trade-off space, and ask:Can
low-precision communication consistently improve the end-to-end performance of
training modern neural networks, with no accuracy loss?From the performance point
of view, the answer to this question may appear deceptively easy: compressing
communication through low precision should help when the ratio between communication
and computation is high. However, this answer is less straightforward when we
try to generalize this principle across various neural network architectures (e.g.,
AlexNet vs. ResNet),number of GPUs (e.g., 2 vs. 8 GPUs), machine configurations(e.g.,
EC2 instances vs. NVIDIA DGX-1), communication primitives (e.g., MPI vs. NCCL),
and even different GPU architectures(e.g., Kepler vs. Pascal). Currently, it is
not clear how a realistic realization of all these factors maps to the speed up
provided by low-precision communication. In this paper, we conduct an empirical
study to answer this question and report the insights.'
article_processing_charge: No
author:
- first_name: Demjan
full_name: Grubic, Demjan
last_name: Grubic
- first_name: Leo
full_name: Tam, Leo
last_name: Tam
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Ce
full_name: Zhang, Ce
last_name: Zhang
citation:
ama: 'Grubic D, Tam L, Alistarh D-A, Zhang C. Synchronous multi-GPU training for
deep learning with low-precision communications: An empirical study. In: Proceedings
of the 21st International Conference on Extending Database Technology. OpenProceedings;
2018:145-156. doi:10.5441/002/EDBT.2018.14'
apa: 'Grubic, D., Tam, L., Alistarh, D.-A., & Zhang, C. (2018). Synchronous
multi-GPU training for deep learning with low-precision communications: An empirical
study. In Proceedings of the 21st International Conference on Extending Database
Technology (pp. 145–156). Vienna, Austria: OpenProceedings. https://doi.org/10.5441/002/EDBT.2018.14'
chicago: 'Grubic, Demjan, Leo Tam, Dan-Adrian Alistarh, and Ce Zhang. “Synchronous
Multi-GPU Training for Deep Learning with Low-Precision Communications: An Empirical
Study.” In Proceedings of the 21st International Conference on Extending Database
Technology, 145–56. OpenProceedings, 2018. https://doi.org/10.5441/002/EDBT.2018.14.'
ieee: 'D. Grubic, L. Tam, D.-A. Alistarh, and C. Zhang, “Synchronous multi-GPU training
for deep learning with low-precision communications: An empirical study,” in Proceedings
of the 21st International Conference on Extending Database Technology, Vienna,
Austria, 2018, pp. 145–156.'
ista: 'Grubic D, Tam L, Alistarh D-A, Zhang C. 2018. Synchronous multi-GPU training
for deep learning with low-precision communications: An empirical study. Proceedings
of the 21st International Conference on Extending Database Technology. EDBT: Conference
on Extending Database Technology, 145–156.'
mla: 'Grubic, Demjan, et al. “Synchronous Multi-GPU Training for Deep Learning with
Low-Precision Communications: An Empirical Study.” Proceedings of the 21st
International Conference on Extending Database Technology, OpenProceedings,
2018, pp. 145–56, doi:10.5441/002/EDBT.2018.14.'
short: D. Grubic, L. Tam, D.-A. Alistarh, C. Zhang, in:, Proceedings of the 21st
International Conference on Extending Database Technology, OpenProceedings, 2018,
pp. 145–156.
conference:
end_date: 2018-03-29
location: Vienna, Austria
name: 'EDBT: Conference on Extending Database Technology'
start_date: 2018-03-26
date_created: 2019-11-26T14:19:11Z
date_published: 2018-03-26T00:00:00Z
date_updated: 2023-02-23T12:59:17Z
day: '26'
ddc:
- '000'
department:
- _id: DaAl
doi: 10.5441/002/EDBT.2018.14
file:
- access_level: open_access
checksum: ec979b56abc71016d6e6adfdadbb4afe
content_type: application/pdf
creator: dernst
date_created: 2019-11-26T14:23:04Z
date_updated: 2020-07-14T12:47:49Z
file_id: '7118'
file_name: 2018_OpenProceedings_Grubic.pdf
file_size: 1603204
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 145-156
publication: Proceedings of the 21st International Conference on Extending Database
Technology
publication_identifier:
isbn:
- '9783893180783'
issn:
- 2367-2005
publication_status: published
publisher: OpenProceedings
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Synchronous multi-GPU training for deep learning with low-precision communications:
An empirical study'
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '7126'
abstract:
- lang: eng
text: In the Minimum Description Length (MDL) principle, learning from the data
is equivalent to an optimal coding problem. We show that the codes that achieve
optimal compression in MDL are critical in a very precise sense. First, when they
are taken as generative models of samples, they generate samples with broad empirical
distributions and with a high value of the relevance, defined as the entropy of
the empirical frequencies. These results are derived for different statistical
models (Dirichlet model, independent and pairwise dependent spin models, and restricted
Boltzmann machines). Second, MDL codes sit precisely at a second order phase transition
point where the symmetry between the sampled outcomes is spontaneously broken.
The order parameter controlling the phase transition is the coding cost of the
samples. The phase transition is a manifestation of the optimality of MDL codes,
and it arises because codes that achieve a higher compression do not exist. These
results suggest a clear interpretation of the widespread occurrence of statistical
criticality as a characterization of samples which are maximally informative on
the underlying generative process.
article_number: '755'
article_processing_charge: No
article_type: original
author:
- first_name: Ryan J
full_name: Cubero, Ryan J
id: 850B2E12-9CD4-11E9-837F-E719E6697425
last_name: Cubero
orcid: 0000-0003-0002-1867
- first_name: Matteo
full_name: Marsili, Matteo
last_name: Marsili
- first_name: Yasser
full_name: Roudi, Yasser
last_name: Roudi
citation:
ama: Cubero RJ, Marsili M, Roudi Y. Minimum description length codes are critical.
Entropy. 2018;20(10). doi:10.3390/e20100755
apa: Cubero, R. J., Marsili, M., & Roudi, Y. (2018). Minimum description length
codes are critical. Entropy. MDPI. https://doi.org/10.3390/e20100755
chicago: Cubero, Ryan J, Matteo Marsili, and Yasser Roudi. “Minimum Description
Length Codes Are Critical.” Entropy. MDPI, 2018. https://doi.org/10.3390/e20100755.
ieee: R. J. Cubero, M. Marsili, and Y. Roudi, “Minimum description length codes
are critical,” Entropy, vol. 20, no. 10. MDPI, 2018.
ista: Cubero RJ, Marsili M, Roudi Y. 2018. Minimum description length codes are
critical. Entropy. 20(10), 755.
mla: Cubero, Ryan J., et al. “Minimum Description Length Codes Are Critical.” Entropy,
vol. 20, no. 10, 755, MDPI, 2018, doi:10.3390/e20100755.
short: R.J. Cubero, M. Marsili, Y. Roudi, Entropy 20 (2018).
date_created: 2019-11-26T22:18:05Z
date_published: 2018-10-01T00:00:00Z
date_updated: 2021-01-12T08:11:56Z
day: '01'
ddc:
- '519'
doi: 10.3390/e20100755
extern: '1'
file:
- access_level: open_access
checksum: d642b7b661e1d5066b62e6ea9986b917
content_type: application/pdf
creator: rcubero
date_created: 2019-11-26T22:23:08Z
date_updated: 2020-07-14T12:47:50Z
file_id: '7127'
file_name: entropy-20-00755-v2.pdf
file_size: 1366813
relation: main_file
file_date_updated: 2020-07-14T12:47:50Z
has_accepted_license: '1'
intvolume: ' 20'
issue: '10'
keyword:
- Minimum Description Length
- normalized maximum likelihood
- statistical criticality
- phase transitions
- large deviations
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
publication: Entropy
publication_identifier:
issn:
- 1099-4300
publication_status: published
publisher: MDPI
quality_controlled: '1'
status: public
title: Minimum description length codes are critical
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2018'
...
---
_id: '7277'
abstract:
- lang: eng
text: 'Solid alkali metal carbonates are universal passivation layer components
of intercalation battery materials and common side products in metal‐O2 batteries,
and are believed to form and decompose reversibly in metal‐O2/CO2 cells. In these
cathodes, Li2CO3 decomposes to CO2 when exposed to potentials above 3.8 V vs.
Li/Li+. However, O2 evolution, as would be expected according to the decomposition
reaction 2 Li2CO3→4 Li++4 e−+2 CO2+O2, is not detected. O atoms are thus unaccounted
for, which was previously ascribed to unidentified parasitic reactions. Here,
we show that highly reactive singlet oxygen (1O2) forms upon oxidizing Li2CO3
in an aprotic electrolyte and therefore does not evolve as O2. These results have
substantial implications for the long‐term cyclability of batteries: they underpin
the importance of avoiding 1O2 in metal‐O2 batteries, question the possibility
of a reversible metal‐O2/CO2 battery based on a carbonate discharge product, and
help explain the interfacial reactivity of transition‐metal cathodes with residual
Li2CO3.'
article_processing_charge: No
article_type: original
author:
- first_name: Nika
full_name: Mahne, Nika
last_name: Mahne
- first_name: Sara E.
full_name: Renfrew, Sara E.
last_name: Renfrew
- first_name: Bryan D.
full_name: McCloskey, Bryan D.
last_name: McCloskey
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Mahne N, Renfrew SE, McCloskey BD, Freunberger SA. Electrochemical oxidation
of Lithium Carbonate generates singlet oxygen. Angewandte Chemie International
Edition. 2018;57(19):5529-5533. doi:10.1002/anie.201802277
apa: Mahne, N., Renfrew, S. E., McCloskey, B. D., & Freunberger, S. A. (2018).
Electrochemical oxidation of Lithium Carbonate generates singlet oxygen. Angewandte
Chemie International Edition. Wiley. https://doi.org/10.1002/anie.201802277
chicago: Mahne, Nika, Sara E. Renfrew, Bryan D. McCloskey, and Stefan Alexander
Freunberger. “Electrochemical Oxidation of Lithium Carbonate Generates Singlet
Oxygen.” Angewandte Chemie International Edition. Wiley, 2018. https://doi.org/10.1002/anie.201802277.
ieee: N. Mahne, S. E. Renfrew, B. D. McCloskey, and S. A. Freunberger, “Electrochemical
oxidation of Lithium Carbonate generates singlet oxygen,” Angewandte Chemie
International Edition, vol. 57, no. 19. Wiley, pp. 5529–5533, 2018.
ista: Mahne N, Renfrew SE, McCloskey BD, Freunberger SA. 2018. Electrochemical oxidation
of Lithium Carbonate generates singlet oxygen. Angewandte Chemie International
Edition. 57(19), 5529–5533.
mla: Mahne, Nika, et al. “Electrochemical Oxidation of Lithium Carbonate Generates
Singlet Oxygen.” Angewandte Chemie International Edition, vol. 57, no.
19, Wiley, 2018, pp. 5529–33, doi:10.1002/anie.201802277.
short: N. Mahne, S.E. Renfrew, B.D. McCloskey, S.A. Freunberger, Angewandte Chemie
International Edition 57 (2018) 5529–5533.
date_created: 2020-01-15T07:20:09Z
date_published: 2018-03-15T00:00:00Z
date_updated: 2021-01-12T08:12:42Z
day: '15'
ddc:
- '540'
doi: 10.1002/anie.201802277
extern: '1'
file:
- access_level: open_access
checksum: 45868d0adc2d13a506bb9a59eb4f409c
content_type: application/pdf
creator: dernst
date_created: 2020-01-22T16:28:31Z
date_updated: 2020-07-14T12:47:55Z
file_id: '7357'
file_name: 2018_AngewChemie_Mahne.pdf
file_size: 657963
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 57'
issue: '19'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 5529-5533
publication: Angewandte Chemie International Edition
publication_identifier:
issn:
- 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Electrochemical oxidation of Lithium Carbonate generates singlet oxygen
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 57
year: '2018'
...
---
_id: '7271'
abstract:
- lang: eng
text: The recent demand of multifunctional materials and devices for advanced applications
in energy conversion and data storage resulted into a revival of multiferroics,
that is, materials characterized by the coexistence of ferromagnetism and ferroelectricity.
Despite intense efforts made in the past decade, single-phase room temperature
multiferroics are yet to be discovered/fabricated. Nanostructured ferroic materials
could potentially exhibit multiferroism since a high fraction of their atoms/ions
are superficial, thereby altering significantly the properties of the bulk phase.
Alternately, a magnetic order can be induced into ferroelectric materials upon
aliovalent doping with magnetic ions. Here, we report on the synthesis of aggregate-free
single-phase transition-metal-doped BaTiO3 quasi-monodisperse cuboidal nanocrystals
(NC) which exhibit multiferroic properties at room temperature and can be suitable
for applications in data storage. The proposed synthetic route allows the inclusion
of a high concentration of magnetic ions such as Mn+ (M = Cr, Mn, Fe, Co) up to
a nominal concentration of 4% without the formation of any secondary phase. The
size of the nanocrystals was controlled in a wide range from ∼15 up to ∼70 nm
by varying the reaction time from 48 to 144 h. The presence of unpaired electrons
and their magnetic ordering have been probed by electron paramagnetic resonance
spectroscopy (EPR), and a vibrating sample magnetometer (VSM). Likewise, an acentric
structure, associated with the existence of a dielectric polarization, was observed
by lattice dynamics analysis and piezoresponse force microscopy (PFM). These results
show that high-quality titanium-containing perovskite nanocrystals which display
multiferroic properties at room temperature can be fabricated via soft solution-based
synthetic routes, and the properties of these materials can be modulated by changing
the size of the nanocrystals and the concentration of the dopant thereby opening
the door to the design and study of single-phase multiferroic materials.
article_processing_charge: No
article_type: original
author:
- first_name: Tommaso
full_name: Costanzo, Tommaso
id: D93824F4-D9BA-11E9-BB12-F207E6697425
last_name: Costanzo
orcid: 0000-0001-9732-3815
- first_name: John
full_name: McCracken, John
last_name: McCracken
- first_name: Aurelian
full_name: Rotaru, Aurelian
last_name: Rotaru
- first_name: Gabriel
full_name: Caruntu, Gabriel
last_name: Caruntu
citation:
ama: Costanzo T, McCracken J, Rotaru A, Caruntu G. Quasi-monodisperse transition-metal-doped
BaTiO3 (M = Cr, Mn, Fe, Co) colloidal nanocrystals with multiferroic properties.
ACS Applied Nano Materials. 2018;1(9):4863-4874. doi:10.1021/acsanm.8b01036
apa: Costanzo, T., McCracken, J., Rotaru, A., & Caruntu, G. (2018). Quasi-monodisperse
transition-metal-doped BaTiO3 (M = Cr, Mn, Fe, Co) colloidal nanocrystals with
multiferroic properties. ACS Applied Nano Materials. ACS. https://doi.org/10.1021/acsanm.8b01036
chicago: Costanzo, Tommaso, John McCracken, Aurelian Rotaru, and Gabriel Caruntu.
“Quasi-Monodisperse Transition-Metal-Doped BaTiO3 (M = Cr, Mn, Fe, Co) Colloidal
Nanocrystals with Multiferroic Properties.” ACS Applied Nano Materials.
ACS, 2018. https://doi.org/10.1021/acsanm.8b01036.
ieee: T. Costanzo, J. McCracken, A. Rotaru, and G. Caruntu, “Quasi-monodisperse
transition-metal-doped BaTiO3 (M = Cr, Mn, Fe, Co) colloidal nanocrystals with
multiferroic properties,” ACS Applied Nano Materials, vol. 1, no. 9. ACS,
pp. 4863–4874, 2018.
ista: Costanzo T, McCracken J, Rotaru A, Caruntu G. 2018. Quasi-monodisperse transition-metal-doped
BaTiO3 (M = Cr, Mn, Fe, Co) colloidal nanocrystals with multiferroic properties.
ACS Applied Nano Materials. 1(9), 4863–4874.
mla: Costanzo, Tommaso, et al. “Quasi-Monodisperse Transition-Metal-Doped BaTiO3
(M = Cr, Mn, Fe, Co) Colloidal Nanocrystals with Multiferroic Properties.” ACS
Applied Nano Materials, vol. 1, no. 9, ACS, 2018, pp. 4863–74, doi:10.1021/acsanm.8b01036.
short: T. Costanzo, J. McCracken, A. Rotaru, G. Caruntu, ACS Applied Nano Materials
1 (2018) 4863–4874.
date_created: 2020-01-13T21:58:27Z
date_published: 2018-09-28T00:00:00Z
date_updated: 2023-02-23T13:02:57Z
day: '28'
doi: 10.1021/acsanm.8b01036
extern: '1'
intvolume: ' 1'
issue: '9'
language:
- iso: eng
month: '09'
oa_version: None
page: 4863-4874
publication: ACS Applied Nano Materials
publication_identifier:
issn:
- 2574-0970
publication_status: published
publisher: ACS
quality_controlled: '1'
status: public
title: Quasi-monodisperse transition-metal-doped BaTiO3 (M = Cr, Mn, Fe, Co) colloidal
nanocrystals with multiferroic properties
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 1
year: '2018'
...
---
_id: '7287'
abstract:
- lang: eng
text: Passivation layers on electrode materials are ubiquitous in nonaqueous battery
chemistries and strongly govern performance and lifetime. They comprise breakdown
products of the electrolyte including carbonate, alkyl carbonates, alkoxides,
carboxylates, and polymers. Parasitic chemistry in metal–O2 batteries forms similar
products and is tied to the deviation of the O2 balance from the ideal stoichiometry
during formation/decomposition of alkaline peroxides or superoxides. Accurate
and integral quantification of carbonaceous species and peroxides or superoxides
in battery electrodes remains, however, elusive. We present a refined procedure
to quantify them accurately and sensitively by pointing out and rectifying pitfalls
of previous procedures. Carbonaceous compounds are differentiated into inorganic
and organic ones. We combine mass and UV–vis spectrometry to quantify evolved
O2 and complexed peroxide and CO2 evolved from carbonaceous compounds by acid
treatment and Fenton’s reaction. The capabilities of the method are exemplified
by means of Li–O2 and Na–O2 cathodes, graphite anodes, and LiNi0.8Co0.15Al0.05O2
cathodes.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Bettina
full_name: Schafzahl, Bettina
last_name: Schafzahl
- first_name: Eléonore
full_name: Mourad, Eléonore
last_name: Mourad
- first_name: Lukas
full_name: Schafzahl, Lukas
last_name: Schafzahl
- first_name: Yann K.
full_name: Petit, Yann K.
last_name: Petit
- first_name: Anjana R.
full_name: Raju, Anjana R.
last_name: Raju
- first_name: Musthafa Ottakam
full_name: Thotiyl, Musthafa Ottakam
last_name: Thotiyl
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Christian
full_name: Slugovc, Christian
last_name: Slugovc
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Schafzahl B, Mourad E, Schafzahl L, et al. Quantifying total superoxide, peroxide,
and carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase.
ACS Energy Letters. 2018;3(1):170-176. doi:10.1021/acsenergylett.7b01111
apa: Schafzahl, B., Mourad, E., Schafzahl, L., Petit, Y. K., Raju, A. R., Thotiyl,
M. O., … Freunberger, S. A. (2018). Quantifying total superoxide, peroxide, and
carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase.
ACS Energy Letters. ACS. https://doi.org/10.1021/acsenergylett.7b01111
chicago: Schafzahl, Bettina, Eléonore Mourad, Lukas Schafzahl, Yann K. Petit, Anjana
R. Raju, Musthafa Ottakam Thotiyl, Martin Wilkening, Christian Slugovc, and Stefan
Alexander Freunberger. “Quantifying Total Superoxide, Peroxide, and Carbonaceous
Compounds in Metal–O2 Batteries and the Solid Electrolyte Interphase.” ACS
Energy Letters. ACS, 2018. https://doi.org/10.1021/acsenergylett.7b01111.
ieee: B. Schafzahl et al., “Quantifying total superoxide, peroxide, and carbonaceous
compounds in metal–O2 batteries and the solid electrolyte interphase,” ACS
Energy Letters, vol. 3, no. 1. ACS, pp. 170–176, 2018.
ista: Schafzahl B, Mourad E, Schafzahl L, Petit YK, Raju AR, Thotiyl MO, Wilkening
M, Slugovc C, Freunberger SA. 2018. Quantifying total superoxide, peroxide, and
carbonaceous compounds in metal–O2 batteries and the solid electrolyte interphase.
ACS Energy Letters. 3(1), 170–176.
mla: Schafzahl, Bettina, et al. “Quantifying Total Superoxide, Peroxide, and Carbonaceous
Compounds in Metal–O2 Batteries and the Solid Electrolyte Interphase.” ACS
Energy Letters, vol. 3, no. 1, ACS, 2018, pp. 170–76, doi:10.1021/acsenergylett.7b01111.
short: B. Schafzahl, E. Mourad, L. Schafzahl, Y.K. Petit, A.R. Raju, M.O. Thotiyl,
M. Wilkening, C. Slugovc, S.A. Freunberger, ACS Energy Letters 3 (2018) 170–176.
date_created: 2020-01-15T12:13:52Z
date_published: 2018-01-01T00:00:00Z
date_updated: 2021-01-12T08:12:46Z
day: '01'
ddc:
- '540'
- '543'
- '546'
- '547'
doi: 10.1021/acsenergylett.7b01111
extern: '1'
file:
- access_level: open_access
checksum: 461ccf575ba077af90314fe72d20521e
content_type: application/pdf
creator: sfreunbe
date_created: 2020-06-29T14:19:36Z
date_updated: 2020-07-14T12:47:55Z
file_id: '8049'
file_name: O2 TIOC_fin_incl_SI.pdf
file_size: 1892355
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Submitted Version
page: 170-176
publication: ACS Energy Letters
publication_identifier:
issn:
- 2380-8195
- 2380-8195
publication_status: published
publisher: ACS
quality_controlled: '1'
status: public
title: Quantifying total superoxide, peroxide, and carbonaceous compounds in metal–O2
batteries and the solid electrolyte interphase
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2018'
...
---
_id: '7285'
abstract:
- lang: eng
text: Hydrogelation, the self-assembly of molecules into soft, water-loaded networks,
is one way to bridge the structural gap between single molecules and functional
materials. The potential of hydrogels, such as those based on perylene bisimides,
lies in their chemical, physical, optical, and electronic properties, which are
governed by the supramolecular structure of the gel. However, the structural motifs
and their precise role for long-range conductivity are yet to be explored. Here,
we present a comprehensive structural picture of a perylene bisimide hydrogel,
suggesting that its long-range conductivity is limited by charge transfer between
electronic backbones. We reveal nanocrystalline ribbon-like structures as the
electronic and structural backbone units between which charge transfer is mediated
by polar solvent bridges. We exemplify this effect with sensing, where exposure
to polar vapor enhances conductivity by 5 orders of magnitude, emphasizing the
crucial role of the interplay between structural motif and surrounding medium
for the rational design of devices based on nanocrystalline hydrogels.
article_processing_charge: No
article_type: original
author:
- first_name: Max
full_name: Burian, Max
last_name: Burian
- first_name: Francesco
full_name: Rigodanza, Francesco
last_name: Rigodanza
- first_name: Nicola
full_name: Demitri, Nicola
last_name: Demitri
- first_name: Luka
full_name: D̵ord̵ević, Luka
last_name: D̵ord̵ević
- first_name: Silvia
full_name: Marchesan, Silvia
last_name: Marchesan
- first_name: Tereza
full_name: Steinhartova, Tereza
last_name: Steinhartova
- first_name: Ilse
full_name: Letofsky-Papst, Ilse
last_name: Letofsky-Papst
- first_name: Ivan
full_name: Khalakhan, Ivan
last_name: Khalakhan
- first_name: Eléonore
full_name: Mourad, Eléonore
last_name: Mourad
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Heinz
full_name: Amenitsch, Heinz
last_name: Amenitsch
- first_name: Maurizio
full_name: Prato, Maurizio
last_name: Prato
- first_name: Zois
full_name: Syrgiannis, Zois
last_name: Syrgiannis
citation:
ama: Burian M, Rigodanza F, Demitri N, et al. Inter-backbone charge transfer as
prerequisite for long-range conductivity in perylene bisimide hydrogels. ACS
Nano. 2018;12(6):5800-5806. doi:10.1021/acsnano.8b01689
apa: Burian, M., Rigodanza, F., Demitri, N., D̵ord̵ević, L., Marchesan, S., Steinhartova,
T., … Syrgiannis, Z. (2018). Inter-backbone charge transfer as prerequisite for
long-range conductivity in perylene bisimide hydrogels. ACS Nano. ACS.
https://doi.org/10.1021/acsnano.8b01689
chicago: Burian, Max, Francesco Rigodanza, Nicola Demitri, Luka D̵ord̵ević, Silvia
Marchesan, Tereza Steinhartova, Ilse Letofsky-Papst, et al. “Inter-Backbone Charge
Transfer as Prerequisite for Long-Range Conductivity in Perylene Bisimide Hydrogels.”
ACS Nano. ACS, 2018. https://doi.org/10.1021/acsnano.8b01689.
ieee: M. Burian et al., “Inter-backbone charge transfer as prerequisite for
long-range conductivity in perylene bisimide hydrogels,” ACS Nano, vol.
12, no. 6. ACS, pp. 5800–5806, 2018.
ista: Burian M, Rigodanza F, Demitri N, D̵ord̵ević L, Marchesan S, Steinhartova
T, Letofsky-Papst I, Khalakhan I, Mourad E, Freunberger SA, Amenitsch H, Prato
M, Syrgiannis Z. 2018. Inter-backbone charge transfer as prerequisite for long-range
conductivity in perylene bisimide hydrogels. ACS Nano. 12(6), 5800–5806.
mla: Burian, Max, et al. “Inter-Backbone Charge Transfer as Prerequisite for Long-Range
Conductivity in Perylene Bisimide Hydrogels.” ACS Nano, vol. 12, no. 6,
ACS, 2018, pp. 5800–06, doi:10.1021/acsnano.8b01689.
short: M. Burian, F. Rigodanza, N. Demitri, L. D̵ord̵ević, S. Marchesan, T. Steinhartova,
I. Letofsky-Papst, I. Khalakhan, E. Mourad, S.A. Freunberger, H. Amenitsch, M.
Prato, Z. Syrgiannis, ACS Nano 12 (2018) 5800–5806.
date_created: 2020-01-15T12:13:25Z
date_published: 2018-06-05T00:00:00Z
date_updated: 2021-01-12T08:12:46Z
day: '05'
ddc:
- '540'
- '541'
doi: 10.1021/acsnano.8b01689
extern: '1'
file:
- access_level: open_access
checksum: 050f7f0ba5d845c5c71779ef14ad5ef3
content_type: application/pdf
creator: sfreunbe
date_created: 2020-06-29T14:56:40Z
date_updated: 2020-07-14T12:47:55Z
file_id: '8052'
file_name: Manuscript 20092017_subm.pdf
file_size: 1333353
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 12'
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 5800-5806
publication: ACS Nano
publication_identifier:
issn:
- 1936-0851
publication_status: published
publisher: ACS
quality_controlled: '1'
status: public
title: Inter-backbone charge transfer as prerequisite for long-range conductivity
in perylene bisimide hydrogels
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2018'
...
---
_id: '7286'
abstract:
- lang: eng
text: The solid electrolyte interphase (SEI) in Li and Na ion batteries forms when
highly reducing or oxidizing electrode materials come into contact with a liquid
organic electrolyte. Its ability to form a mechanically robust, ion-conducting,
and electron-insulating layer critically determines performance, cycle life, and
safety. Li or Na alkyl carbonates (LiAC and NaAC, respectively) are lead SEI components
in state-of-the-art carbonate based electrolytes, and our fundamental understanding
of their charge transport and mechanical properties may hold the key to designing
electrolytes forming an improved SEI. We synthesized a homologous series of LiACs
and NaACs from methyl to octyl analogues and characterized them with respect to
structure, ionic conductivity, and stiffness. The compounds assume layered structures
except for the lithium methyl carbonate. Room-temperature conductivities were
found to be ∼10–9 S cm–1 for lithium methyl carbonate, <10–12 S cm–1 for the other
LiACs, and <10–12 S cm–1 for the NaACs with ion transport mostly attributed to
grain boundaries. While LiACs show stiffnesses of ∼1 GPa, NaACs become significantly
softer with increasing chain lengths. These findings will help to more precisely
interpret the complex results from charge transport and mechanical characterization
of real SEIs and can give a rationale for influencing the SEI’s mechanical properties
via the electrolyte.
article_processing_charge: No
article_type: original
author:
- first_name: Lukas
full_name: Schafzahl, Lukas
last_name: Schafzahl
- first_name: Heike
full_name: Ehmann, Heike
last_name: Ehmann
- first_name: Manfred
full_name: Kriechbaum, Manfred
last_name: Kriechbaum
- first_name: Jürgen
full_name: Sattelkow, Jürgen
last_name: Sattelkow
- first_name: Thomas
full_name: Ganner, Thomas
last_name: Ganner
- first_name: Harald
full_name: Plank, Harald
last_name: Plank
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: 'Schafzahl L, Ehmann H, Kriechbaum M, et al. Long-chain Li and Na alkyl carbonates
as solid electrolyte interphase components: Structure, ion transport, and mechanical
properties. Chemistry of Materials. 2018;30(10):3338-3345. doi:10.1021/acs.chemmater.8b00750'
apa: 'Schafzahl, L., Ehmann, H., Kriechbaum, M., Sattelkow, J., Ganner, T., Plank,
H., … Freunberger, S. A. (2018). Long-chain Li and Na alkyl carbonates as solid
electrolyte interphase components: Structure, ion transport, and mechanical properties.
Chemistry of Materials. ACS. https://doi.org/10.1021/acs.chemmater.8b00750'
chicago: 'Schafzahl, Lukas, Heike Ehmann, Manfred Kriechbaum, Jürgen Sattelkow,
Thomas Ganner, Harald Plank, Martin Wilkening, and Stefan Alexander Freunberger.
“Long-Chain Li and Na Alkyl Carbonates as Solid Electrolyte Interphase Components:
Structure, Ion Transport, and Mechanical Properties.” Chemistry of Materials.
ACS, 2018. https://doi.org/10.1021/acs.chemmater.8b00750.'
ieee: 'L. Schafzahl et al., “Long-chain Li and Na alkyl carbonates as solid
electrolyte interphase components: Structure, ion transport, and mechanical properties,”
Chemistry of Materials, vol. 30, no. 10. ACS, pp. 3338–3345, 2018.'
ista: 'Schafzahl L, Ehmann H, Kriechbaum M, Sattelkow J, Ganner T, Plank H, Wilkening
M, Freunberger SA. 2018. Long-chain Li and Na alkyl carbonates as solid electrolyte
interphase components: Structure, ion transport, and mechanical properties. Chemistry
of Materials. 30(10), 3338–3345.'
mla: 'Schafzahl, Lukas, et al. “Long-Chain Li and Na Alkyl Carbonates as Solid Electrolyte
Interphase Components: Structure, Ion Transport, and Mechanical Properties.” Chemistry
of Materials, vol. 30, no. 10, ACS, 2018, pp. 3338–45, doi:10.1021/acs.chemmater.8b00750.'
short: L. Schafzahl, H. Ehmann, M. Kriechbaum, J. Sattelkow, T. Ganner, H. Plank,
M. Wilkening, S.A. Freunberger, Chemistry of Materials 30 (2018) 3338–3345.
date_created: 2020-01-15T12:13:37Z
date_published: 2018-05-03T00:00:00Z
date_updated: 2021-01-12T08:12:46Z
day: '03'
doi: 10.1021/acs.chemmater.8b00750
extern: '1'
intvolume: ' 30'
issue: '10'
language:
- iso: eng
month: '05'
oa_version: None
page: 3338-3345
publication: Chemistry of Materials
publication_identifier:
eissn:
- 1520-5002
issn:
- 0897-4756
publication_status: published
publisher: ACS
quality_controlled: '1'
status: public
title: 'Long-chain Li and Na alkyl carbonates as solid electrolyte interphase components:
Structure, ion transport, and mechanical properties'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2018'
...
---
_id: '7407'
abstract:
- lang: eng
text: 'Proofs of space (PoS) [Dziembowski et al., CRYPTO''15] are proof systems
where a prover can convince a verifier that he "wastes" disk space. PoS were introduced
as a more ecological and economical replacement for proofs of work which are currently
used to secure blockchains like Bitcoin. In this work we investigate extensions
of PoS which allow the prover to embed useful data into the dedicated space, which
later can be recovered. Our first contribution is a security proof for the original
PoS from CRYPTO''15 in the random oracle model (the original proof only applied
to a restricted class of adversaries which can store a subset of the data an honest
prover would store). When this PoS is instantiated with recent constructions of
maximally depth robust graphs, our proof implies basically optimal security. As
a second contribution we show three different extensions of this PoS where useful
data can be embedded into the space required by the prover. Our security proof
for the PoS extends (non-trivially) to these constructions. We discuss how some
of these variants can be used as proofs of catalytic space (PoCS), a notion we
put forward in this work, and which basically is a PoS where most of the space
required by the prover can be used to backup useful data. Finally we discuss how
one of the extensions is a candidate construction for a proof of replication (PoR),
a proof system recently suggested in the Filecoin whitepaper. '
alternative_title:
- LIPIcs
article_processing_charge: No
author:
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Pietrzak KZ. Proofs of catalytic space. In: 10th Innovations in Theoretical
Computer Science Conference (ITCS 2019). Vol 124. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik; 2018:59:1-59:25. doi:10.4230/LIPICS.ITCS.2019.59'
apa: 'Pietrzak, K. Z. (2018). Proofs of catalytic space. In 10th Innovations
in Theoretical Computer Science Conference (ITCS 2019) (Vol. 124, p. 59:1-59:25).
San Diego, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPICS.ITCS.2019.59'
chicago: Pietrzak, Krzysztof Z. “Proofs of Catalytic Space.” In 10th Innovations
in Theoretical Computer Science Conference (ITCS 2019), 124:59:1-59:25. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPICS.ITCS.2019.59.
ieee: K. Z. Pietrzak, “Proofs of catalytic space,” in 10th Innovations in Theoretical
Computer Science Conference (ITCS 2019), San Diego, CA, United States, 2018,
vol. 124, p. 59:1-59:25.
ista: 'Pietrzak KZ. 2018. Proofs of catalytic space. 10th Innovations in Theoretical
Computer Science Conference (ITCS 2019). ITCS: Innovations in theoretical Computer
Science Conference, LIPIcs, vol. 124, 59:1-59:25.'
mla: Pietrzak, Krzysztof Z. “Proofs of Catalytic Space.” 10th Innovations in
Theoretical Computer Science Conference (ITCS 2019), vol. 124, Schloss Dagstuhl
- Leibniz-Zentrum für Informatik, 2018, p. 59:1-59:25, doi:10.4230/LIPICS.ITCS.2019.59.
short: K.Z. Pietrzak, in:, 10th Innovations in Theoretical Computer Science Conference
(ITCS 2019), Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, p. 59:1-59:25.
conference:
end_date: 2019-01-12
location: San Diego, CA, United States
name: 'ITCS: Innovations in theoretical Computer Science Conference'
start_date: 2019-01-10
date_created: 2020-01-30T09:16:05Z
date_published: 2018-12-31T00:00:00Z
date_updated: 2021-01-12T08:13:26Z
day: '31'
ddc:
- '000'
department:
- _id: KrPi
doi: 10.4230/LIPICS.ITCS.2019.59
ec_funded: 1
file:
- access_level: open_access
checksum: 5cebb7f7849a3beda898f697d755dd96
content_type: application/pdf
creator: dernst
date_created: 2020-02-04T08:17:52Z
date_updated: 2020-07-14T12:47:57Z
file_id: '7443'
file_name: 2018_LIPIcs_Pietrzak.pdf
file_size: 822884
relation: main_file
file_date_updated: 2020-07-14T12:47:57Z
has_accepted_license: '1'
intvolume: ' 124'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2018/194
month: '12'
oa: 1
oa_version: Published Version
page: 59:1-59:25
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication: 10th Innovations in Theoretical Computer Science Conference (ITCS 2019)
publication_identifier:
isbn:
- 978-3-95977-095-8
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: 1
status: public
title: Proofs of catalytic space
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 124
year: '2018'
...
---
_id: '7458'
abstract:
- lang: eng
text: The coupling between magnetic and electric subsystems in composites of ferromagnetic
and ferroelectric phases is a product property that is facilitated by mechanical
strain that arises due to magnetostriction and the piezoelectric effect in the
constituent phases. Such multiferroic composites are of immense interests for
studies on the physics of electromagnetic coupling and for use in a variety of
applications. Here, we focus on magneto-electric (ME) coupling in nanocomposites.
Particular emphasis is on core-shell particles and coaxial fibers, thin film heterostructures,
and planar structures with a variety of mechanical connectivity. A brief review
of models that predict strong ME effects in nanostructures is followed by synthesis
and characterization. Core-shell particulate composites can be prepared by hydrothermal
processes and chemical or deoxyribonucleic acid-assisted assembly. Electrospinning
techniques have been utilized to prepare defect free core-shell nanofibers. Core-shell
particles and fibers can be assembled into superstructures with the aid of magnetic
and electric fields and characterized for possible use in advanced technologies.
Chemical-vapor deposition techniques have been shown to be effective for the preparation
of heterostructures of ferrites and ferroelectrics. Exotic planar multiferroic
structures with potential for enhancing ME coupling strengths are also considered.
Scanning probe microscopy techniques are ideal for probing the nature of direct-
and converse-ME coupling in individual nanostructures. Magnetoelectric characterization
of assemblies of nanocomposites can be done by ME voltage coefficient, magnetic
field induced polarization, and magneto-dielectric effects. We conclude with a
brief discussion on possible avenues for strengthening the product properties
in the nanocomposites.
article_number: '061101'
article_processing_charge: No
article_type: original
author:
- first_name: Dwight
full_name: Viehland, Dwight
last_name: Viehland
- first_name: Jie Fang
full_name: Li, Jie Fang
last_name: Li
- first_name: Yaodong
full_name: Yang, Yaodong
last_name: Yang
- first_name: Tommaso
full_name: Costanzo, Tommaso
id: D93824F4-D9BA-11E9-BB12-F207E6697425
last_name: Costanzo
orcid: 0000-0001-9732-3815
- first_name: Amin
full_name: Yourdkhani, Amin
last_name: Yourdkhani
- first_name: Gabriel
full_name: Caruntu, Gabriel
last_name: Caruntu
- first_name: Peng
full_name: Zhou, Peng
last_name: Zhou
- first_name: Tianjin
full_name: Zhang, Tianjin
last_name: Zhang
- first_name: Tianqian
full_name: Li, Tianqian
last_name: Li
- first_name: Arunava
full_name: Gupta, Arunava
last_name: Gupta
- first_name: Maksym
full_name: Popov, Maksym
last_name: Popov
- first_name: Gopalan
full_name: Srinivasan, Gopalan
last_name: Srinivasan
citation:
ama: 'Viehland D, Li JF, Yang Y, et al. Tutorial: Product properties in multiferroic
nanocomposites. Journal of Applied Physics. 2018;124(6). doi:10.1063/1.5038726'
apa: 'Viehland, D., Li, J. F., Yang, Y., Costanzo, T., Yourdkhani, A., Caruntu,
G., … Srinivasan, G. (2018). Tutorial: Product properties in multiferroic nanocomposites.
Journal of Applied Physics. AIP. https://doi.org/10.1063/1.5038726'
chicago: 'Viehland, Dwight, Jie Fang Li, Yaodong Yang, Tommaso Costanzo, Amin Yourdkhani,
Gabriel Caruntu, Peng Zhou, et al. “Tutorial: Product Properties in Multiferroic
Nanocomposites.” Journal of Applied Physics. AIP, 2018. https://doi.org/10.1063/1.5038726.'
ieee: 'D. Viehland et al., “Tutorial: Product properties in multiferroic
nanocomposites,” Journal of Applied Physics, vol. 124, no. 6. AIP, 2018.'
ista: 'Viehland D, Li JF, Yang Y, Costanzo T, Yourdkhani A, Caruntu G, Zhou P, Zhang
T, Li T, Gupta A, Popov M, Srinivasan G. 2018. Tutorial: Product properties in
multiferroic nanocomposites. Journal of Applied Physics. 124(6), 061101.'
mla: 'Viehland, Dwight, et al. “Tutorial: Product Properties in Multiferroic Nanocomposites.”
Journal of Applied Physics, vol. 124, no. 6, 061101, AIP, 2018, doi:10.1063/1.5038726.'
short: D. Viehland, J.F. Li, Y. Yang, T. Costanzo, A. Yourdkhani, G. Caruntu, P.
Zhou, T. Zhang, T. Li, A. Gupta, M. Popov, G. Srinivasan, Journal of Applied Physics
124 (2018).
date_created: 2020-02-05T14:18:22Z
date_published: 2018-08-10T00:00:00Z
date_updated: 2023-02-23T13:08:29Z
day: '10'
doi: 10.1063/1.5038726
extern: '1'
intvolume: ' 124'
issue: '6'
language:
- iso: eng
month: '08'
oa_version: None
publication: Journal of Applied Physics
publication_identifier:
issn:
- 0021-8979
- 1089-7550
publication_status: published
publisher: AIP
quality_controlled: '1'
status: public
title: 'Tutorial: Product properties in multiferroic nanocomposites'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 124
year: '2018'
...
---
_id: '7717'
abstract:
- lang: eng
text: "Background: DNA methylation levels change along with age, but few studies
have examined the variation in the rate of such changes between individuals.\r\nMethods:
We performed a longitudinal analysis to quantify the variation in the rate of
change of DNA methylation between individuals using whole blood DNA methylation
array profiles collected at 2–4 time points (N = 2894) in 954 individuals (67–90
years).\r\nResults: After stringent quality control, we identified 1507 DNA methylation
CpG sites (rsCpGs) with statistically significant variation in the rate of change
(random slope) of DNA methylation among individuals in a mixed linear model analysis.
Genes in the vicinity of these rsCpGs were found to be enriched in Homeobox transcription
factors and the Wnt signalling pathway, both of which are related to ageing processes.
Furthermore, we investigated the SNP effect on the random slope. We found that
4 out of 1507 rsCpGs had one significant (P < 5 × 10−8/1507) SNP effect and 343
rsCpGs had at least one SNP effect (436 SNP-probe pairs) reaching genome-wide
significance (P < 5 × 10−8). Ninety-five percent of the significant (P < 5 × 10−8)
SNPs are on different chromosomes from their corresponding probes.\r\nConclusions:
We identified CpG sites that have variability in the rate of change of DNA methylation
between individuals, and our results suggest a genetic basis of this variation.
Genes around these CpG sites have been reported to be involved in the ageing process."
article_number: '75'
article_processing_charge: No
article_type: original
author:
- first_name: Qian
full_name: Zhang, Qian
last_name: Zhang
- first_name: Riccardo E
full_name: Marioni, Riccardo E
last_name: Marioni
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Jon
full_name: Higham, Jon
last_name: Higham
- first_name: Duncan
full_name: Sproul, Duncan
last_name: Sproul
- first_name: Naomi R
full_name: Wray, Naomi R
last_name: Wray
- first_name: Ian J
full_name: Deary, Ian J
last_name: Deary
- first_name: Allan F
full_name: McRae, Allan F
last_name: McRae
- first_name: Peter M
full_name: Visscher, Peter M
last_name: Visscher
citation:
ama: Zhang Q, Marioni RE, Robinson MR, et al. Genotype effects contribute to variation
in longitudinal methylome patterns in older people. Genome Medicine. 2018;10(1).
doi:10.1186/s13073-018-0585-7
apa: Zhang, Q., Marioni, R. E., Robinson, M. R., Higham, J., Sproul, D., Wray, N.
R., … Visscher, P. M. (2018). Genotype effects contribute to variation in longitudinal
methylome patterns in older people. Genome Medicine. Springer Nature. https://doi.org/10.1186/s13073-018-0585-7
chicago: Zhang, Qian, Riccardo E Marioni, Matthew Richard Robinson, Jon Higham,
Duncan Sproul, Naomi R Wray, Ian J Deary, Allan F McRae, and Peter M Visscher.
“Genotype Effects Contribute to Variation in Longitudinal Methylome Patterns in
Older People.” Genome Medicine. Springer Nature, 2018. https://doi.org/10.1186/s13073-018-0585-7.
ieee: Q. Zhang et al., “Genotype effects contribute to variation in longitudinal
methylome patterns in older people,” Genome Medicine, vol. 10, no. 1. Springer
Nature, 2018.
ista: Zhang Q, Marioni RE, Robinson MR, Higham J, Sproul D, Wray NR, Deary IJ, McRae
AF, Visscher PM. 2018. Genotype effects contribute to variation in longitudinal
methylome patterns in older people. Genome Medicine. 10(1), 75.
mla: Zhang, Qian, et al. “Genotype Effects Contribute to Variation in Longitudinal
Methylome Patterns in Older People.” Genome Medicine, vol. 10, no. 1, 75,
Springer Nature, 2018, doi:10.1186/s13073-018-0585-7.
short: Q. Zhang, R.E. Marioni, M.R. Robinson, J. Higham, D. Sproul, N.R. Wray, I.J.
Deary, A.F. McRae, P.M. Visscher, Genome Medicine 10 (2018).
date_created: 2020-04-30T10:42:50Z
date_published: 2018-10-22T00:00:00Z
date_updated: 2021-01-12T08:15:04Z
day: '22'
doi: 10.1186/s13073-018-0585-7
extern: '1'
intvolume: ' 10'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1186/s13073-018-0585-7
month: '10'
oa: 1
oa_version: Published Version
publication: Genome Medicine
publication_identifier:
issn:
- 1756-994X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Genotype effects contribute to variation in longitudinal methylome patterns
in older people
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10
year: '2018'
...
---
_id: '7718'
abstract:
- lang: eng
text: Flores Island, Indonesia, was inhabited by the small-bodied hominin species
Homo floresiensis, which has an unknown evolutionary relationship to modern humans.
This island is also home to an extant human pygmy population. Here we describe
genome-scale single-nucleotide polymorphism data and whole-genome sequences from
a contemporary human pygmy population living on Flores near the cave where H.
floresiensis was found. The genomes of Flores pygmies reveal a complex history
of admixture with Denisovans and Neanderthals but no evidence for gene flow with
other archaic hominins. Modern individuals bear the signatures of recent positive
selection encompassing the FADS (fatty acid desaturase) gene cluster, likely related
to diet, and polygenic selection acting on standing variation that contributed
to their short-stature phenotype. Thus, multiple independent instances of hominin
insular dwarfism occurred on Flores.
article_processing_charge: No
article_type: original
author:
- first_name: Serena
full_name: Tucci, Serena
last_name: Tucci
- first_name: Samuel H.
full_name: Vohr, Samuel H.
last_name: Vohr
- first_name: Rajiv C.
full_name: McCoy, Rajiv C.
last_name: McCoy
- first_name: Benjamin
full_name: Vernot, Benjamin
last_name: Vernot
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Chiara
full_name: Barbieri, Chiara
last_name: Barbieri
- first_name: Brad J.
full_name: Nelson, Brad J.
last_name: Nelson
- first_name: Wenqing
full_name: Fu, Wenqing
last_name: Fu
- first_name: Gludhug A.
full_name: Purnomo, Gludhug A.
last_name: Purnomo
- first_name: Herawati
full_name: Sudoyo, Herawati
last_name: Sudoyo
- first_name: Evan E.
full_name: Eichler, Evan E.
last_name: Eichler
- first_name: Guido
full_name: Barbujani, Guido
last_name: Barbujani
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Joshua M.
full_name: Akey, Joshua M.
last_name: Akey
- first_name: Richard E.
full_name: Green, Richard E.
last_name: Green
citation:
ama: Tucci S, Vohr SH, McCoy RC, et al. Evolutionary history and adaptation of a
human pygmy population of Flores Island, Indonesia. Science. 2018;361(6401):511-516.
doi:10.1126/science.aar8486
apa: Tucci, S., Vohr, S. H., McCoy, R. C., Vernot, B., Robinson, M. R., Barbieri,
C., … Green, R. E. (2018). Evolutionary history and adaptation of a human pygmy
population of Flores Island, Indonesia. Science. American Association for
the Advancement of Science. https://doi.org/10.1126/science.aar8486
chicago: Tucci, Serena, Samuel H. Vohr, Rajiv C. McCoy, Benjamin Vernot, Matthew
Richard Robinson, Chiara Barbieri, Brad J. Nelson, et al. “Evolutionary History
and Adaptation of a Human Pygmy Population of Flores Island, Indonesia.” Science.
American Association for the Advancement of Science, 2018. https://doi.org/10.1126/science.aar8486.
ieee: S. Tucci et al., “Evolutionary history and adaptation of a human pygmy
population of Flores Island, Indonesia,” Science, vol. 361, no. 6401. American
Association for the Advancement of Science, pp. 511–516, 2018.
ista: Tucci S, Vohr SH, McCoy RC, Vernot B, Robinson MR, Barbieri C, Nelson BJ,
Fu W, Purnomo GA, Sudoyo H, Eichler EE, Barbujani G, Visscher PM, Akey JM, Green
RE. 2018. Evolutionary history and adaptation of a human pygmy population of Flores
Island, Indonesia. Science. 361(6401), 511–516.
mla: Tucci, Serena, et al. “Evolutionary History and Adaptation of a Human Pygmy
Population of Flores Island, Indonesia.” Science, vol. 361, no. 6401, American
Association for the Advancement of Science, 2018, pp. 511–16, doi:10.1126/science.aar8486.
short: S. Tucci, S.H. Vohr, R.C. McCoy, B. Vernot, M.R. Robinson, C. Barbieri, B.J.
Nelson, W. Fu, G.A. Purnomo, H. Sudoyo, E.E. Eichler, G. Barbujani, P.M. Visscher,
J.M. Akey, R.E. Green, Science 361 (2018) 511–516.
date_created: 2020-04-30T10:43:24Z
date_published: 2018-08-03T00:00:00Z
date_updated: 2021-01-12T08:15:04Z
day: '03'
doi: 10.1126/science.aar8486
extern: '1'
external_id:
pmid:
- '30072539'
intvolume: ' 361'
issue: '6401'
language:
- iso: eng
month: '08'
oa_version: None
page: 511-516
pmid: 1
publication: Science
publication_identifier:
issn:
- 0036-8075
- 1095-9203
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
status: public
title: Evolutionary history and adaptation of a human pygmy population of Flores Island,
Indonesia
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 361
year: '2018'
...
---
_id: '7712'
abstract:
- lang: eng
text: 'Male pattern baldness (MPB) is a sex-limited, age-related, complex trait.
We study MPB genetics in 205,327 European males from the UK Biobank. Here we show
that MPB is strongly heritable and polygenic, with pedigree-heritability of 0.62
(SE = 0.03) estimated from close relatives, and SNP-heritability of 0.39 (SE = 0.01)
from conventionally-unrelated males. We detect 624 near-independent genome-wide
loci, contributing SNP-heritability of 0.25 (SE = 0.01), of which 26 X-chromosome
loci explain 11.6%. Autosomal genetic variance is enriched for common variants
and regions of lower linkage disequilibrium. We identify plausible genetic correlations
between MPB and multiple sex-limited markers of earlier puberty, increased bone
mineral density (rg = 0.15) and pancreatic β-cell function (rg = 0.12). Correlations
with reproductive traits imply an effect on fitness, consistent with an estimated
linear selection gradient of -0.018 per MPB standard deviation. Overall, we provide
genetic insights into MPB: a phenotype of interest in its own right, with value
as a model sex-limited, complex trait.'
article_number: '5407'
article_processing_charge: No
article_type: original
author:
- first_name: Chloe X.
full_name: Yap, Chloe X.
last_name: Yap
- first_name: Julia
full_name: Sidorenko, Julia
last_name: Sidorenko
- first_name: Yang
full_name: Wu, Yang
last_name: Wu
- first_name: Kathryn E.
full_name: Kemper, Kathryn E.
last_name: Kemper
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
citation:
ama: Yap CX, Sidorenko J, Wu Y, et al. Dissection of genetic variation and evidence
for pleiotropy in male pattern baldness. Nature Communications. 2018;9.
doi:10.1038/s41467-018-07862-y
apa: Yap, C. X., Sidorenko, J., Wu, Y., Kemper, K. E., Yang, J., Wray, N. R., …
Visscher, P. M. (2018). Dissection of genetic variation and evidence for pleiotropy
in male pattern baldness. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-07862-y
chicago: Yap, Chloe X., Julia Sidorenko, Yang Wu, Kathryn E. Kemper, Jian Yang,
Naomi R. Wray, Matthew Richard Robinson, and Peter M. Visscher. “Dissection of
Genetic Variation and Evidence for Pleiotropy in Male Pattern Baldness.” Nature
Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-018-07862-y.
ieee: C. X. Yap et al., “Dissection of genetic variation and evidence for
pleiotropy in male pattern baldness,” Nature Communications, vol. 9. Springer
Nature, 2018.
ista: Yap CX, Sidorenko J, Wu Y, Kemper KE, Yang J, Wray NR, Robinson MR, Visscher
PM. 2018. Dissection of genetic variation and evidence for pleiotropy in male
pattern baldness. Nature Communications. 9, 5407.
mla: Yap, Chloe X., et al. “Dissection of Genetic Variation and Evidence for Pleiotropy
in Male Pattern Baldness.” Nature Communications, vol. 9, 5407, Springer
Nature, 2018, doi:10.1038/s41467-018-07862-y.
short: C.X. Yap, J. Sidorenko, Y. Wu, K.E. Kemper, J. Yang, N.R. Wray, M.R. Robinson,
P.M. Visscher, Nature Communications 9 (2018).
date_created: 2020-04-30T10:41:19Z
date_published: 2018-12-20T00:00:00Z
date_updated: 2021-01-12T08:15:02Z
day: '20'
doi: 10.1038/s41467-018-07862-y
extern: '1'
intvolume: ' 9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-018-07862-y
month: '12'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Dissection of genetic variation and evidence for pleiotropy in male pattern
baldness
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7716'
abstract:
- lang: eng
text: Genomic prediction has the potential to contribute to precision medicine.
However, to date, the utility of such predictors is limited due to low accuracy
for most traits. Here theory and simulation study are used to demonstrate that
widespread pleiotropy among phenotypes can be utilised to improve genomic risk
prediction. We show how a genetic predictor can be created as a weighted index
that combines published genome-wide association study (GWAS) summary statistics
across many different traits. We apply this framework to predict risk of schizophrenia
and bipolar disorder in the Psychiatric Genomics consortium data, finding substantial
heterogeneity in prediction accuracy increases across cohorts. For six additional
phenotypes in the UK Biobank data, we find increases in prediction accuracy ranging
from 0.7% for height to 47% for type 2 diabetes, when using a multi-trait predictor
that combines published summary statistics from multiple traits, as compared to
a predictor based only on one trait.
article_number: '989'
article_processing_charge: No
article_type: original
author:
- first_name: Robert M.
full_name: Maier, Robert M.
last_name: Maier
- first_name: Zhihong
full_name: Zhu, Zhihong
last_name: Zhu
- first_name: Sang Hong
full_name: Lee, Sang Hong
last_name: Lee
- first_name: Maciej
full_name: Trzaskowski, Maciej
last_name: Trzaskowski
- first_name: Douglas M.
full_name: Ruderfer, Douglas M.
last_name: Ruderfer
- first_name: Eli A.
full_name: Stahl, Eli A.
last_name: Stahl
- first_name: Stephan
full_name: Ripke, Stephan
last_name: Ripke
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
citation:
ama: Maier RM, Zhu Z, Lee SH, et al. Improving genetic prediction by leveraging
genetic correlations among human diseases and traits. Nature Communications.
2018;9. doi:10.1038/s41467-017-02769-6
apa: Maier, R. M., Zhu, Z., Lee, S. H., Trzaskowski, M., Ruderfer, D. M., Stahl,
E. A., … Robinson, M. R. (2018). Improving genetic prediction by leveraging genetic
correlations among human diseases and traits. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-017-02769-6
chicago: Maier, Robert M., Zhihong Zhu, Sang Hong Lee, Maciej Trzaskowski, Douglas
M. Ruderfer, Eli A. Stahl, Stephan Ripke, et al. “Improving Genetic Prediction
by Leveraging Genetic Correlations among Human Diseases and Traits.” Nature
Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-017-02769-6.
ieee: R. M. Maier et al., “Improving genetic prediction by leveraging genetic
correlations among human diseases and traits,” Nature Communications, vol.
9. Springer Nature, 2018.
ista: Maier RM, Zhu Z, Lee SH, Trzaskowski M, Ruderfer DM, Stahl EA, Ripke S, Wray
NR, Yang J, Visscher PM, Robinson MR. 2018. Improving genetic prediction by leveraging
genetic correlations among human diseases and traits. Nature Communications. 9,
989.
mla: Maier, Robert M., et al. “Improving Genetic Prediction by Leveraging Genetic
Correlations among Human Diseases and Traits.” Nature Communications, vol.
9, 989, Springer Nature, 2018, doi:10.1038/s41467-017-02769-6.
short: R.M. Maier, Z. Zhu, S.H. Lee, M. Trzaskowski, D.M. Ruderfer, E.A. Stahl,
S. Ripke, N.R. Wray, J. Yang, P.M. Visscher, M.R. Robinson, Nature Communications
9 (2018).
date_created: 2020-04-30T10:42:29Z
date_published: 2018-03-07T00:00:00Z
date_updated: 2021-01-12T08:15:03Z
day: '07'
doi: 10.1038/s41467-017-02769-6
extern: '1'
intvolume: ' 9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-017-02769-6
month: '03'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Improving genetic prediction by leveraging genetic correlations among human
diseases and traits
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7715'
abstract:
- lang: eng
text: Preference for mates with similar phenotypes; that is, assortative mating,
is widely observed in humans1,2,3,4,5 and has evolutionary consequences6,7,8.
Under Fisher's classical theory6, assortative mating is predicted to induce a
signature in the genome at trait-associated loci that can be detected and quantified.
Here, we develop and apply a method to quantify assortative mating on a specific
trait by estimating the correlation (θ) between genetic predictors of the trait
from single nucleotide polymorphisms on odd- versus even-numbered chromosomes.
We show by theory and simulation that the effect of assortative mating can be
quantified in the presence of population stratification. We applied this approach
to 32 complex traits and diseases using single nucleotide polymorphism data from
~400,000 unrelated individuals of European ancestry. We found significant evidence
of assortative mating for height (θ = 3.2%) and educational attainment (θ = 2.7%),
both of which were consistent with theoretical predictions. Overall, our results
imply that assortative mating involves multiple traits and affects the genomic
architecture of loci that are associated with these traits, and that the consequence
of mate choice can be detected from a random sample of genomes.
article_processing_charge: No
article_type: original
author:
- first_name: Loic
full_name: Yengo, Loic
last_name: Yengo
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Matthew C.
full_name: Keller, Matthew C.
last_name: Keller
- first_name: Kathryn E.
full_name: Kemper, Kathryn E.
last_name: Kemper
- first_name: Yuanhao
full_name: Yang, Yuanhao
last_name: Yang
- first_name: Maciej
full_name: Trzaskowski, Maciej
last_name: Trzaskowski
- first_name: Jacob
full_name: Gratten, Jacob
last_name: Gratten
- first_name: Patrick
full_name: Turley, Patrick
last_name: Turley
- first_name: David
full_name: Cesarini, David
last_name: Cesarini
- first_name: Daniel J.
full_name: Benjamin, Daniel J.
last_name: Benjamin
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Michael E.
full_name: Goddard, Michael E.
last_name: Goddard
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
citation:
ama: Yengo L, Robinson MR, Keller MC, et al. Imprint of assortative mating on the
human genome. Nature Human Behaviour. 2018;2(12):948-954. doi:10.1038/s41562-018-0476-3
apa: Yengo, L., Robinson, M. R., Keller, M. C., Kemper, K. E., Yang, Y., Trzaskowski,
M., … Visscher, P. M. (2018). Imprint of assortative mating on the human genome.
Nature Human Behaviour. Springer Nature. https://doi.org/10.1038/s41562-018-0476-3
chicago: Yengo, Loic, Matthew Richard Robinson, Matthew C. Keller, Kathryn E. Kemper,
Yuanhao Yang, Maciej Trzaskowski, Jacob Gratten, et al. “Imprint of Assortative
Mating on the Human Genome.” Nature Human Behaviour. Springer Nature, 2018.
https://doi.org/10.1038/s41562-018-0476-3.
ieee: L. Yengo et al., “Imprint of assortative mating on the human genome,”
Nature Human Behaviour, vol. 2, no. 12. Springer Nature, pp. 948–954, 2018.
ista: Yengo L, Robinson MR, Keller MC, Kemper KE, Yang Y, Trzaskowski M, Gratten
J, Turley P, Cesarini D, Benjamin DJ, Wray NR, Goddard ME, Yang J, Visscher PM.
2018. Imprint of assortative mating on the human genome. Nature Human Behaviour.
2(12), 948–954.
mla: Yengo, Loic, et al. “Imprint of Assortative Mating on the Human Genome.” Nature
Human Behaviour, vol. 2, no. 12, Springer Nature, 2018, pp. 948–54, doi:10.1038/s41562-018-0476-3.
short: L. Yengo, M.R. Robinson, M.C. Keller, K.E. Kemper, Y. Yang, M. Trzaskowski,
J. Gratten, P. Turley, D. Cesarini, D.J. Benjamin, N.R. Wray, M.E. Goddard, J.
Yang, P.M. Visscher, Nature Human Behaviour 2 (2018) 948–954.
date_created: 2020-04-30T10:42:12Z
date_published: 2018-11-26T00:00:00Z
date_updated: 2021-01-12T08:15:03Z
day: '26'
doi: 10.1038/s41562-018-0476-3
extern: '1'
intvolume: ' 2'
issue: '12'
language:
- iso: eng
month: '11'
oa_version: None
page: 948-954
publication: Nature Human Behaviour
publication_identifier:
issn:
- 2397-3374
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Imprint of assortative mating on the human genome
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2018'
...
---
_id: '7714'
abstract:
- lang: eng
text: Health risk factors such as body mass index (BMI) and serum cholesterol are
associated with many common diseases. It often remains unclear whether the risk
factors are cause or consequence of disease, or whether the associations are the
result of confounding. We develop and apply a method (called GSMR) that performs
a multi-SNP Mendelian randomization analysis using summary-level data from genome-wide
association studies to test the causal associations of BMI, waist-to-hip ratio,
serum cholesterols, blood pressures, height, and years of schooling (EduYears)
with common diseases (sample sizes of up to 405,072). We identify a number of
causal associations including a protective effect of LDL-cholesterol against type-2
diabetes (T2D) that might explain the side effects of statins on T2D, a protective
effect of EduYears against Alzheimer’s disease, and bidirectional associations
with opposite effects (e.g., higher BMI increases the risk of T2D but the effect
of T2D on BMI is negative).
article_number: '224'
article_processing_charge: No
article_type: original
author:
- first_name: Zhihong
full_name: Zhu, Zhihong
last_name: Zhu
- first_name: Zhili
full_name: Zheng, Zhili
last_name: Zheng
- first_name: Futao
full_name: Zhang, Futao
last_name: Zhang
- first_name: Yang
full_name: Wu, Yang
last_name: Wu
- first_name: Maciej
full_name: Trzaskowski, Maciej
last_name: Trzaskowski
- first_name: Robert
full_name: Maier, Robert
last_name: Maier
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: John J.
full_name: McGrath, John J.
last_name: McGrath
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
citation:
ama: Zhu Z, Zheng Z, Zhang F, et al. Causal associations between risk factors and
common diseases inferred from GWAS summary data. Nature Communications.
2018;9. doi:10.1038/s41467-017-02317-2
apa: Zhu, Z., Zheng, Z., Zhang, F., Wu, Y., Trzaskowski, M., Maier, R., … Yang,
J. (2018). Causal associations between risk factors and common diseases inferred
from GWAS summary data. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-017-02317-2
chicago: Zhu, Zhihong, Zhili Zheng, Futao Zhang, Yang Wu, Maciej Trzaskowski, Robert
Maier, Matthew Richard Robinson, et al. “Causal Associations between Risk Factors
and Common Diseases Inferred from GWAS Summary Data.” Nature Communications.
Springer Nature, 2018. https://doi.org/10.1038/s41467-017-02317-2.
ieee: Z. Zhu et al., “Causal associations between risk factors and common
diseases inferred from GWAS summary data,” Nature Communications, vol.
9. Springer Nature, 2018.
ista: Zhu Z, Zheng Z, Zhang F, Wu Y, Trzaskowski M, Maier R, Robinson MR, McGrath
JJ, Visscher PM, Wray NR, Yang J. 2018. Causal associations between risk factors
and common diseases inferred from GWAS summary data. Nature Communications. 9,
224.
mla: Zhu, Zhihong, et al. “Causal Associations between Risk Factors and Common Diseases
Inferred from GWAS Summary Data.” Nature Communications, vol. 9, 224, Springer
Nature, 2018, doi:10.1038/s41467-017-02317-2.
short: Z. Zhu, Z. Zheng, F. Zhang, Y. Wu, M. Trzaskowski, R. Maier, M.R. Robinson,
J.J. McGrath, P.M. Visscher, N.R. Wray, J. Yang, Nature Communications 9 (2018).
date_created: 2020-04-30T10:41:55Z
date_published: 2018-01-15T00:00:00Z
date_updated: 2021-01-12T08:15:03Z
day: '15'
doi: 10.1038/s41467-017-02317-2
extern: '1'
intvolume: ' 9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-017-02317-2
month: '01'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Causal associations between risk factors and common diseases inferred from
GWAS summary data
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7713'
abstract:
- lang: eng
text: There are mean differences in complex traits among global human populations.
We hypothesize that part of the phenotypic differentiation is due to natural selection.
To address this hypothesis, we assess the differentiation in allele frequencies
of trait-associated SNPs among African, Eastern Asian, and European populations
for ten complex traits using data of large sample size (up to ~405,000). We show
that SNPs associated with height (P=2.46×10−5), waist-to-hip ratio (P=2.77×10−4),
and schizophrenia (P=3.96×10−5) are significantly more differentiated among populations
than matched “control” SNPs, suggesting that these trait-associated SNPs have
undergone natural selection. We further find that SNPs associated with height
(P=2.01×10−6) and schizophrenia (P=5.16×10−18) show significantly higher variance
in linkage disequilibrium (LD) scores across populations than control SNPs. Our
results support the hypothesis that natural selection has shaped the genetic differentiation
of complex traits, such as height and schizophrenia, among worldwide populations.
article_number: '1865'
article_processing_charge: No
article_type: original
author:
- first_name: Jing
full_name: Guo, Jing
last_name: Guo
- first_name: Yang
full_name: Wu, Yang
last_name: Wu
- first_name: Zhihong
full_name: Zhu, Zhihong
last_name: Zhu
- first_name: Zhili
full_name: Zheng, Zhili
last_name: Zheng
- first_name: Maciej
full_name: Trzaskowski, Maciej
last_name: Trzaskowski
- first_name: Jian
full_name: Zeng, Jian
last_name: Zeng
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
citation:
ama: Guo J, Wu Y, Zhu Z, et al. Global genetic differentiation of complex traits
shaped by natural selection in humans. Nature Communications. 2018;9. doi:10.1038/s41467-018-04191-y
apa: Guo, J., Wu, Y., Zhu, Z., Zheng, Z., Trzaskowski, M., Zeng, J., … Yang, J.
(2018). Global genetic differentiation of complex traits shaped by natural selection
in humans. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-018-04191-y
chicago: Guo, Jing, Yang Wu, Zhihong Zhu, Zhili Zheng, Maciej Trzaskowski, Jian
Zeng, Matthew Richard Robinson, Peter M. Visscher, and Jian Yang. “Global Genetic
Differentiation of Complex Traits Shaped by Natural Selection in Humans.” Nature
Communications. Springer Nature, 2018. https://doi.org/10.1038/s41467-018-04191-y.
ieee: J. Guo et al., “Global genetic differentiation of complex traits shaped
by natural selection in humans,” Nature Communications, vol. 9. Springer
Nature, 2018.
ista: Guo J, Wu Y, Zhu Z, Zheng Z, Trzaskowski M, Zeng J, Robinson MR, Visscher
PM, Yang J. 2018. Global genetic differentiation of complex traits shaped by natural
selection in humans. Nature Communications. 9, 1865.
mla: Guo, Jing, et al. “Global Genetic Differentiation of Complex Traits Shaped
by Natural Selection in Humans.” Nature Communications, vol. 9, 1865, Springer
Nature, 2018, doi:10.1038/s41467-018-04191-y.
short: J. Guo, Y. Wu, Z. Zhu, Z. Zheng, M. Trzaskowski, J. Zeng, M.R. Robinson,
P.M. Visscher, J. Yang, Nature Communications 9 (2018).
date_created: 2020-04-30T10:41:36Z
date_published: 2018-05-14T00:00:00Z
date_updated: 2021-01-12T08:15:02Z
day: '14'
doi: 10.1038/s41467-018-04191-y
extern: '1'
intvolume: ' 9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-018-04191-y
month: '05'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Global genetic differentiation of complex traits shaped by natural selection
in humans
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7721'
abstract:
- lang: eng
text: 'The availability of genome-wide genetic data on hundreds of thousands of
people has led to an equally rapid growth in methodologies available to analyse
these data. While the motivation for undertaking genome-wide association studies
(GWAS) is identification of genetic markers associated with complex traits, once
generated these data can be used for many other analyses. GWAS have demonstrated
that complex traits exhibit a highly polygenic genetic architecture, often with
shared genetic risk factors across traits. New methods to analyse data from GWAS
are increasingly being used to address a diverse set of questions about the aetiology
of complex traits and diseases, including psychiatric disorders. Here, we give
an overview of some of these methods and present examples of how they have contributed
to our understanding of psychiatric disorders. We consider: (i) estimation of
the extent of genetic influence on traits, (ii) uncovering of shared genetic control
between traits, (iii) predictions of genetic risk for individuals, (iv) uncovering
of causal relationships between traits, (v) identifying causal single-nucleotide
polymorphisms and genes or (vi) the detection of genetic heterogeneity. This classification
helps organise the large number of recently developed methods, although some could
be placed in more than one category. While some methods require GWAS data on individual
people, others simply use GWAS summary statistics data, allowing novel well-powered
analyses to be conducted at a low computational burden.'
article_processing_charge: No
article_type: original
author:
- first_name: R. M.
full_name: Maier, R. M.
last_name: Maier
- first_name: P. M.
full_name: Visscher, P. M.
last_name: Visscher
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: N. R.
full_name: Wray, N. R.
last_name: Wray
citation:
ama: 'Maier RM, Visscher PM, Robinson MR, Wray NR. Embracing polygenicity: A review
of methods and tools for psychiatric genetics research. Psychological Medicine.
2018;48(7):1055-1067. doi:10.1017/s0033291717002318'
apa: 'Maier, R. M., Visscher, P. M., Robinson, M. R., & Wray, N. R. (2018).
Embracing polygenicity: A review of methods and tools for psychiatric genetics
research. Psychological Medicine. Cambridge University Press. https://doi.org/10.1017/s0033291717002318'
chicago: 'Maier, R. M., P. M. Visscher, Matthew Richard Robinson, and N. R. Wray.
“Embracing Polygenicity: A Review of Methods and Tools for Psychiatric Genetics
Research.” Psychological Medicine. Cambridge University Press, 2018. https://doi.org/10.1017/s0033291717002318.'
ieee: 'R. M. Maier, P. M. Visscher, M. R. Robinson, and N. R. Wray, “Embracing polygenicity:
A review of methods and tools for psychiatric genetics research,” Psychological
Medicine, vol. 48, no. 7. Cambridge University Press, pp. 1055–1067, 2018.'
ista: 'Maier RM, Visscher PM, Robinson MR, Wray NR. 2018. Embracing polygenicity:
A review of methods and tools for psychiatric genetics research. Psychological
Medicine. 48(7), 1055–1067.'
mla: 'Maier, R. M., et al. “Embracing Polygenicity: A Review of Methods and Tools
for Psychiatric Genetics Research.” Psychological Medicine, vol. 48, no.
7, Cambridge University Press, 2018, pp. 1055–67, doi:10.1017/s0033291717002318.'
short: R.M. Maier, P.M. Visscher, M.R. Robinson, N.R. Wray, Psychological Medicine
48 (2018) 1055–1067.
date_created: 2020-04-30T10:44:35Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2021-01-12T08:15:05Z
day: '01'
doi: 10.1017/s0033291717002318
extern: '1'
intvolume: ' 48'
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1017/s0033291717002318
month: '05'
oa: 1
oa_version: Published Version
page: 1055-1067
publication: Psychological Medicine
publication_identifier:
issn:
- 0033-2917
- 1469-8978
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
status: public
title: 'Embracing polygenicity: A review of methods and tools for psychiatric genetics
research'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 48
year: '2018'
...
---
_id: '7723'
abstract:
- lang: eng
text: Genome-wide association studies (GWAS) have identified thousands of loci that
are robustly associated with complex diseases. The use of linear mixed model (LMM)
methodology for GWAS is becoming more prevalent due to its ability to control
for population structure and cryptic relatedness and to increase power. The odds
ratio (OR) is a common measure of the association of a disease with an exposure
(e.g., a genetic variant) and is readably available from logistic regression.
However, when the LMM is applied to all-or-none traits it provides estimates of
genetic effects on the observed 0–1 scale, a different scale to that in logistic
regression. This limits the comparability of results across studies, for example
in a meta-analysis, and makes the interpretation of the magnitude of an effect
from an LMM GWAS difficult. In this study, we derived transformations from the
genetic effects estimated under the LMM to the OR that only rely on summary statistics.
To test the proposed transformations, we used real genotypes from two large, publicly
available data sets to simulate all-or-none phenotypes for a set of scenarios
that differ in underlying model, disease prevalence, and heritability. Furthermore,
we applied these transformations to GWAS summary statistics for type 2 diabetes
generated from 108,042 individuals in the UK Biobank. In both simulation and real-data
application, we observed very high concordance between the transformed OR from
the LMM and either the simulated truth or estimates from logistic regression.
The transformations derived and validated in this study improve the comparability
of results from prospective and already performed LMM GWAS on complex diseases
by providing a reliable transformation to a common comparative scale for the genetic
effects.
article_processing_charge: No
article_type: original
author:
- first_name: Luke R.
full_name: Lloyd-Jones, Luke R.
last_name: Lloyd-Jones
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
citation:
ama: Lloyd-Jones LR, Robinson MR, Yang J, Visscher PM. Transformation of summary
statistics from linear mixed model association on all-or-none traits to odds ratio.
Genetics. 2018;208(4):1397-1408. doi:10.1534/genetics.117.300360
apa: Lloyd-Jones, L. R., Robinson, M. R., Yang, J., & Visscher, P. M. (2018).
Transformation of summary statistics from linear mixed model association on all-or-none
traits to odds ratio. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.117.300360
chicago: Lloyd-Jones, Luke R., Matthew Richard Robinson, Jian Yang, and Peter M.
Visscher. “Transformation of Summary Statistics from Linear Mixed Model Association
on All-or-None Traits to Odds Ratio.” Genetics. Genetics Society of America,
2018. https://doi.org/10.1534/genetics.117.300360.
ieee: L. R. Lloyd-Jones, M. R. Robinson, J. Yang, and P. M. Visscher, “Transformation
of summary statistics from linear mixed model association on all-or-none traits
to odds ratio,” Genetics, vol. 208, no. 4. Genetics Society of America,
pp. 1397–1408, 2018.
ista: Lloyd-Jones LR, Robinson MR, Yang J, Visscher PM. 2018. Transformation of
summary statistics from linear mixed model association on all-or-none traits to
odds ratio. Genetics. 208(4), 1397–1408.
mla: Lloyd-Jones, Luke R., et al. “Transformation of Summary Statistics from Linear
Mixed Model Association on All-or-None Traits to Odds Ratio.” Genetics,
vol. 208, no. 4, Genetics Society of America, 2018, pp. 1397–408, doi:10.1534/genetics.117.300360.
short: L.R. Lloyd-Jones, M.R. Robinson, J. Yang, P.M. Visscher, Genetics 208 (2018)
1397–1408.
date_created: 2020-04-30T10:45:19Z
date_published: 2018-04-01T00:00:00Z
date_updated: 2021-01-12T08:15:06Z
day: '01'
doi: 10.1534/genetics.117.300360
extern: '1'
intvolume: ' 208'
issue: '4'
language:
- iso: eng
month: '04'
oa_version: None
page: 1397-1408
publication: Genetics
publication_identifier:
issn:
- 0016-6731
- 1943-2631
publication_status: published
publisher: Genetics Society of America
quality_controlled: '1'
status: public
title: Transformation of summary statistics from linear mixed model association on
all-or-none traits to odds ratio
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 208
year: '2018'
...
---
_id: '7722'
abstract:
- lang: eng
text: We develop a Bayesian mixed linear model that simultaneously estimates single-nucleotide
polymorphism (SNP)-based heritability, polygenicity (proportion of SNPs with nonzero
effects), and the relationship between SNP effect size and minor allele frequency
for complex traits in conventionally unrelated individuals using genome-wide SNP
data. We apply the method to 28 complex traits in the UK Biobank data (N = 126,752)
and show that on average, 6% of SNPs have nonzero effects, which in total explain
22% of phenotypic variance. We detect significant (P < 0.05/28) signatures of
natural selection in the genetic architecture of 23 traits, including reproductive,
cardiovascular, and anthropometric traits, as well as educational attainment.
The significant estimates of the relationship between effect size and minor allele
frequency in complex traits are consistent with a model of negative (or purifying)
selection, as confirmed by forward simulation. We conclude that negative selection
acts pervasively on the genetic variants associated with human complex traits.
article_processing_charge: No
article_type: original
author:
- first_name: Jian
full_name: Zeng, Jian
last_name: Zeng
- first_name: Ronald
full_name: de Vlaming, Ronald
last_name: de Vlaming
- first_name: Yang
full_name: Wu, Yang
last_name: Wu
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Luke R.
full_name: Lloyd-Jones, Luke R.
last_name: Lloyd-Jones
- first_name: Loic
full_name: Yengo, Loic
last_name: Yengo
- first_name: Chloe X.
full_name: Yap, Chloe X.
last_name: Yap
- first_name: Angli
full_name: Xue, Angli
last_name: Xue
- first_name: Julia
full_name: Sidorenko, Julia
last_name: Sidorenko
- first_name: Allan F.
full_name: McRae, Allan F.
last_name: McRae
- first_name: Joseph E.
full_name: Powell, Joseph E.
last_name: Powell
- first_name: Grant W.
full_name: Montgomery, Grant W.
last_name: Montgomery
- first_name: Andres
full_name: Metspalu, Andres
last_name: Metspalu
- first_name: Tonu
full_name: Esko, Tonu
last_name: Esko
- first_name: Greg
full_name: Gibson, Greg
last_name: Gibson
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
citation:
ama: Zeng J, de Vlaming R, Wu Y, et al. Signatures of negative selection in the
genetic architecture of human complex traits. Nature Genetics. 2018;50(5):746-753.
doi:10.1038/s41588-018-0101-4
apa: Zeng, J., de Vlaming, R., Wu, Y., Robinson, M. R., Lloyd-Jones, L. R., Yengo,
L., … Yang, J. (2018). Signatures of negative selection in the genetic architecture
of human complex traits. Nature Genetics. Springer Nature. https://doi.org/10.1038/s41588-018-0101-4
chicago: Zeng, Jian, Ronald de Vlaming, Yang Wu, Matthew Richard Robinson, Luke
R. Lloyd-Jones, Loic Yengo, Chloe X. Yap, et al. “Signatures of Negative Selection
in the Genetic Architecture of Human Complex Traits.” Nature Genetics.
Springer Nature, 2018. https://doi.org/10.1038/s41588-018-0101-4.
ieee: J. Zeng et al., “Signatures of negative selection in the genetic architecture
of human complex traits,” Nature Genetics, vol. 50, no. 5. Springer Nature,
pp. 746–753, 2018.
ista: Zeng J, de Vlaming R, Wu Y, Robinson MR, Lloyd-Jones LR, Yengo L, Yap CX,
Xue A, Sidorenko J, McRae AF, Powell JE, Montgomery GW, Metspalu A, Esko T, Gibson
G, Wray NR, Visscher PM, Yang J. 2018. Signatures of negative selection in the
genetic architecture of human complex traits. Nature Genetics. 50(5), 746–753.
mla: Zeng, Jian, et al. “Signatures of Negative Selection in the Genetic Architecture
of Human Complex Traits.” Nature Genetics, vol. 50, no. 5, Springer Nature,
2018, pp. 746–53, doi:10.1038/s41588-018-0101-4.
short: J. Zeng, R. de Vlaming, Y. Wu, M.R. Robinson, L.R. Lloyd-Jones, L. Yengo,
C.X. Yap, A. Xue, J. Sidorenko, A.F. McRae, J.E. Powell, G.W. Montgomery, A. Metspalu,
T. Esko, G. Gibson, N.R. Wray, P.M. Visscher, J. Yang, Nature Genetics 50 (2018)
746–753.
date_created: 2020-04-30T10:44:57Z
date_published: 2018-04-16T00:00:00Z
date_updated: 2021-01-12T08:15:06Z
day: '16'
doi: 10.1038/s41588-018-0101-4
extern: '1'
intvolume: ' 50'
issue: '5'
language:
- iso: eng
month: '04'
oa_version: None
page: 746-753
publication: Nature Genetics
publication_identifier:
issn:
- 1061-4036
- 1546-1718
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Signatures of negative selection in the genetic architecture of human complex
traits
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2018'
...
---
_id: '7724'
abstract:
- lang: eng
text: Modern molecular genetic datasets, primarily collected to study the biology
of human health and disease, can be used to directly measure the action of natural
selection and reveal important features of contemporary human evolution. Here
we leverage the UK Biobank data to test for the presence of linear and nonlinear
natural selection in a contemporary population of the United Kingdom. We obtain
phenotypic and genetic evidence consistent with the action of linear/directional
selection. Phenotypic evidence suggests that stabilizing selection, which acts
to reduce variance in the population without necessarily modifying the population
mean, is widespread and relatively weak in comparison with estimates from other
species.
article_processing_charge: No
article_type: original
author:
- first_name: Jaleal S.
full_name: Sanjak, Jaleal S.
last_name: Sanjak
- first_name: Julia
full_name: Sidorenko, Julia
last_name: Sidorenko
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Kevin R.
full_name: Thornton, Kevin R.
last_name: Thornton
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
citation:
ama: Sanjak JS, Sidorenko J, Robinson MR, Thornton KR, Visscher PM. Evidence of
directional and stabilizing selection in contemporary humans. Proceedings of
the National Academy of Sciences. 2018;115(1):151-156. doi:10.1073/pnas.1707227114
apa: Sanjak, J. S., Sidorenko, J., Robinson, M. R., Thornton, K. R., & Visscher,
P. M. (2018). Evidence of directional and stabilizing selection in contemporary
humans. Proceedings of the National Academy of Sciences. Proceedings of
the National Academy of Sciences. https://doi.org/10.1073/pnas.1707227114
chicago: Sanjak, Jaleal S., Julia Sidorenko, Matthew Richard Robinson, Kevin R.
Thornton, and Peter M. Visscher. “Evidence of Directional and Stabilizing Selection
in Contemporary Humans.” Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1707227114.
ieee: J. S. Sanjak, J. Sidorenko, M. R. Robinson, K. R. Thornton, and P. M. Visscher,
“Evidence of directional and stabilizing selection in contemporary humans,” Proceedings
of the National Academy of Sciences, vol. 115, no. 1. Proceedings of the National
Academy of Sciences, pp. 151–156, 2018.
ista: Sanjak JS, Sidorenko J, Robinson MR, Thornton KR, Visscher PM. 2018. Evidence
of directional and stabilizing selection in contemporary humans. Proceedings of
the National Academy of Sciences. 115(1), 151–156.
mla: Sanjak, Jaleal S., et al. “Evidence of Directional and Stabilizing Selection
in Contemporary Humans.” Proceedings of the National Academy of Sciences,
vol. 115, no. 1, Proceedings of the National Academy of Sciences, 2018, pp. 151–56,
doi:10.1073/pnas.1707227114.
short: J.S. Sanjak, J. Sidorenko, M.R. Robinson, K.R. Thornton, P.M. Visscher, Proceedings
of the National Academy of Sciences 115 (2018) 151–156.
date_created: 2020-04-30T10:45:43Z
date_published: 2018-01-02T00:00:00Z
date_updated: 2021-01-12T08:15:07Z
day: '02'
doi: 10.1073/pnas.1707227114
extern: '1'
intvolume: ' 115'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 151-156
publication: Proceedings of the National Academy of Sciences
publication_identifier:
issn:
- 0027-8424
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1073/pnas.1806837115
status: public
title: Evidence of directional and stabilizing selection in contemporary humans
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 115
year: '2018'
...
---
_id: '7754'
abstract:
- lang: eng
text: Creating a selective gel that filters particles based on their interactions
is a major goal of nanotechnology, with far-reaching implications from drug delivery
to controlling assembly pathways. However, this is particularly difficult when
the particles are larger than the gel’s characteristic mesh size because such
particles cannot passively pass through the gel. Thus, filtering requires the
interacting particles to transiently reorganize the gel’s internal structure.
While significant advances, e.g., in DNA engineering, have enabled the design
of nano-materials with programmable interactions, it is not clear what physical
principles such a designer gel could exploit to achieve selective permeability.
We present an equilibrium mechanism where crosslink binding dynamics are affected
by interacting particles such that particle diffusion is enhanced. In addition
to revealing specific design rules for manufacturing selective gels, our results
have the potential to explain the origin of selective permeability in certain
biological materials, including the nuclear pore complex.
article_number: '4348'
article_processing_charge: No
article_type: original
author:
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Michael P.
full_name: Brenner, Michael P.
last_name: Brenner
- first_name: Katharina
full_name: Ribbeck, Katharina
last_name: Ribbeck
citation:
ama: Goodrich CP, Brenner MP, Ribbeck K. Enhanced diffusion by binding to the crosslinks
of a polymer gel. Nature Communications. 2018;9. doi:10.1038/s41467-018-06851-5
apa: Goodrich, C. P., Brenner, M. P., & Ribbeck, K. (2018). Enhanced diffusion
by binding to the crosslinks of a polymer gel. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-018-06851-5
chicago: Goodrich, Carl Peter, Michael P. Brenner, and Katharina Ribbeck. “Enhanced
Diffusion by Binding to the Crosslinks of a Polymer Gel.” Nature Communications.
Springer Nature, 2018. https://doi.org/10.1038/s41467-018-06851-5.
ieee: C. P. Goodrich, M. P. Brenner, and K. Ribbeck, “Enhanced diffusion by binding
to the crosslinks of a polymer gel,” Nature Communications, vol. 9. Springer
Nature, 2018.
ista: Goodrich CP, Brenner MP, Ribbeck K. 2018. Enhanced diffusion by binding to
the crosslinks of a polymer gel. Nature Communications. 9, 4348.
mla: Goodrich, Carl Peter, et al. “Enhanced Diffusion by Binding to the Crosslinks
of a Polymer Gel.” Nature Communications, vol. 9, 4348, Springer Nature,
2018, doi:10.1038/s41467-018-06851-5.
short: C.P. Goodrich, M.P. Brenner, K. Ribbeck, Nature Communications 9 (2018).
date_created: 2020-04-30T11:38:01Z
date_published: 2018-10-19T00:00:00Z
date_updated: 2021-01-12T08:15:18Z
day: '19'
doi: 10.1038/s41467-018-06851-5
extern: '1'
intvolume: ' 9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-018-06851-5
month: '10'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Enhanced diffusion by binding to the crosslinks of a polymer gel
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '7783'
abstract:
- lang: eng
text: The Drosophila Genetic Reference Panel (DGRP) serves as a valuable resource
to better understand the genetic landscapes underlying quantitative traits. However,
such DGRP studies have so far only focused on nuclear genetic variants. To address
this, we sequenced the mitochondrial genomes of >170 DGRP lines, identifying 229
variants including 21 indels and 7 frameshifts. We used our mitochondrial variation
data to identify 12 genetically distinct mitochondrial haplotypes, thus revealing
important population structure at the mitochondrial level. We further examined
whether this population structure was reflected on the nuclear genome by screening
for the presence of potential mito-nuclear genetic incompatibilities in the form
of significant genotype ratio distortions (GRDs) between mitochondrial and nuclear
variants. In total, we detected a remarkable 1,845 mito-nuclear GRDs, with the
highest enrichment observed in a 40 kb region around the gene Sex-lethal (Sxl).
Intriguingly, downstream phenotypic analyses did not uncover major fitness effects
associated with these GRDs, suggesting that a large number of mito-nuclear GRDs
may reflect population structure at the mitochondrial level rather than actual
genomic incompatibilities. This is further supported by the GRD landscape showing
particular large genomic regions associated with a single mitochondrial haplotype.
Next, we explored the functional relevance of the detected mitochondrial haplotypes
through an association analysis on a set of 259 assembled, non-correlating DGRP
phenotypes. We found multiple significant associations with stress- and metabolism-related
phenotypes, including food intake in males. We validated the latter observation
by reciprocal swapping of mitochondrial genomes from high food intake DGRP lines
to low food intake ones. In conclusion, our study uncovered important mitochondrial
population structure and haplotype-specific metabolic variation in the DGRP, thus
demonstrating the significance of incorporating mitochondrial haplotypes in geno-phenotype
relationship studies.
article_processing_charge: No
author:
- first_name: Roel P.J.
full_name: Bevers, Roel P.J.
last_name: Bevers
- first_name: Maria
full_name: Litovchenko, Maria
last_name: Litovchenko
- first_name: Adamandia
full_name: Kapopoulou, Adamandia
last_name: Kapopoulou
- first_name: Virginie S.
full_name: Braman, Virginie S.
last_name: Braman
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Johan
full_name: Auwerx, Johan
last_name: Auwerx
- first_name: Brian
full_name: Hollis, Brian
last_name: Hollis
- first_name: Bart
full_name: Deplancke, Bart
last_name: Deplancke
citation:
ama: Bevers RPJ, Litovchenko M, Kapopoulou A, et al. Extensive mitochondrial population
structure and haplotype-specific phenotypic variation in the Drosophila Genetic
Reference Panel. bioRxiv. 2018.
apa: Bevers, R. P. J., Litovchenko, M., Kapopoulou, A., Braman, V. S., Robinson,
M. R., Auwerx, J., … Deplancke, B. (2018). Extensive mitochondrial population
structure and haplotype-specific phenotypic variation in the Drosophila Genetic
Reference Panel. bioRxiv. Cold Spring Harbor Laboratory.
chicago: Bevers, Roel P.J., Maria Litovchenko, Adamandia Kapopoulou, Virginie S.
Braman, Matthew Richard Robinson, Johan Auwerx, Brian Hollis, and Bart Deplancke.
“Extensive Mitochondrial Population Structure and Haplotype-Specific Phenotypic
Variation in the Drosophila Genetic Reference Panel.” BioRxiv. Cold Spring
Harbor Laboratory, 2018.
ieee: R. P. J. Bevers et al., “Extensive mitochondrial population structure
and haplotype-specific phenotypic variation in the Drosophila Genetic Reference
Panel,” bioRxiv. Cold Spring Harbor Laboratory, 2018.
ista: Bevers RPJ, Litovchenko M, Kapopoulou A, Braman VS, Robinson MR, Auwerx J,
Hollis B, Deplancke B. 2018. Extensive mitochondrial population structure and
haplotype-specific phenotypic variation in the Drosophila Genetic Reference Panel.
bioRxiv, .
mla: Bevers, Roel P. J., et al. “Extensive Mitochondrial Population Structure and
Haplotype-Specific Phenotypic Variation in the Drosophila Genetic Reference Panel.”
BioRxiv, Cold Spring Harbor Laboratory, 2018.
short: R.P.J. Bevers, M. Litovchenko, A. Kapopoulou, V.S. Braman, M.R. Robinson,
J. Auwerx, B. Hollis, B. Deplancke, BioRxiv (2018).
date_created: 2020-04-30T13:09:37Z
date_published: 2018-11-09T00:00:00Z
date_updated: 2021-01-12T08:15:30Z
day: '09'
extern: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: 'https://doi.org/10.1101/466771 '
month: '11'
oa: 1
oa_version: Preprint
page: '49'
publication: bioRxiv
publication_status: published
publisher: Cold Spring Harbor Laboratory
status: public
title: Extensive mitochondrial population structure and haplotype-specific phenotypic
variation in the Drosophila Genetic Reference Panel
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '6001'
abstract:
- lang: eng
text: "The concurrent memory reclamation problem is that of devising a way for a
deallocating thread to verify that no other concurrent threads hold references
to a memory block being deallocated. To date, in the absence of automatic garbage
collection, there is no satisfactory solution to this problem; existing tracking
methods like hazard pointers, reference counters, or epoch-based techniques like
RCU are either prohibitively expensive or require significant programming expertise
to the extent that implementing them efficiently can be worthy of a publication.
None of the existing techniques are automatic or even semi-automated.\r\nIn this
article, we take a new approach to concurrent memory reclamation. Instead of manually
tracking access to memory locations as done in techniques like hazard pointers,
or restricting shared accesses to specific epoch boundaries as in RCU, our algorithm,
called ThreadScan, leverages operating system signaling to automatically detect
which memory locations are being accessed by concurrent threads.\r\nInitial empirical
evidence shows that ThreadScan scales surprisingly well and requires negligible
programming effort beyond the standard use of Malloc and Free."
article_number: '18'
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: William
full_name: Leiserson, William
last_name: Leiserson
- first_name: Alexander
full_name: Matveev, Alexander
last_name: Matveev
- first_name: Nir
full_name: Shavit, Nir
last_name: Shavit
citation:
ama: 'Alistarh D-A, Leiserson W, Matveev A, Shavit N. ThreadScan: Automatic and
scalable memory reclamation. ACM Transactions on Parallel Computing. 2018;4(4).
doi:10.1145/3201897'
apa: 'Alistarh, D.-A., Leiserson, W., Matveev, A., & Shavit, N. (2018). ThreadScan:
Automatic and scalable memory reclamation. ACM Transactions on Parallel Computing.
Association for Computing Machinery. https://doi.org/10.1145/3201897'
chicago: 'Alistarh, Dan-Adrian, William Leiserson, Alexander Matveev, and Nir Shavit.
“ThreadScan: Automatic and Scalable Memory Reclamation.” ACM Transactions on
Parallel Computing. Association for Computing Machinery, 2018. https://doi.org/10.1145/3201897.'
ieee: 'D.-A. Alistarh, W. Leiserson, A. Matveev, and N. Shavit, “ThreadScan: Automatic
and scalable memory reclamation,” ACM Transactions on Parallel Computing,
vol. 4, no. 4. Association for Computing Machinery, 2018.'
ista: 'Alistarh D-A, Leiserson W, Matveev A, Shavit N. 2018. ThreadScan: Automatic
and scalable memory reclamation. ACM Transactions on Parallel Computing. 4(4),
18.'
mla: 'Alistarh, Dan-Adrian, et al. “ThreadScan: Automatic and Scalable Memory Reclamation.”
ACM Transactions on Parallel Computing, vol. 4, no. 4, 18, Association
for Computing Machinery, 2018, doi:10.1145/3201897.'
short: D.-A. Alistarh, W. Leiserson, A. Matveev, N. Shavit, ACM Transactions on
Parallel Computing 4 (2018).
date_created: 2019-02-14T13:24:11Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2023-02-23T13:17:54Z
day: '01'
department:
- _id: DaAl
doi: 10.1145/3201897
intvolume: ' 4'
issue: '4'
language:
- iso: eng
month: '09'
oa_version: None
publication: ACM Transactions on Parallel Computing
publication_identifier:
issn:
- 2329-4949
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
related_material:
record:
- id: '779'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: 'ThreadScan: Automatic and scalable memory reclamation'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2018'
...
---
_id: '7812'
abstract:
- lang: eng
text: Deep neural networks (DNNs) continue to make significant advances, solving
tasks from image classification to translation or reinforcement learning. One
aspect of the field receiving considerable attention is efficiently executing
deep models in resource-constrained environments, such as mobile or embedded devices.
This paper focuses on this problem, and proposes two new compression methods,
which jointly leverage weight quantization and distillation of larger teacher
networks into smaller student networks. The first method we propose is called
quantized distillation and leverages distillation during the training process,
by incorporating distillation loss, expressed with respect to the teacher, into
the training of a student network whose weights are quantized to a limited set
of levels. The second method, differentiable quantization, optimizes the location
of quantization points through stochastic gradient descent, to better fit the
behavior of the teacher model. We validate both methods through experiments on
convolutional and recurrent architectures. We show that quantized shallow students
can reach similar accuracy levels to full-precision teacher models, while providing
order of magnitude compression, and inference speedup that is linear in the depth
reduction. In sum, our results enable DNNs for resource-constrained environments
to leverage architecture and accuracy advances developed on more powerful devices.
article_processing_charge: No
author:
- first_name: Antonio
full_name: Polino, Antonio
last_name: Polino
- first_name: Razvan
full_name: Pascanu, Razvan
last_name: Pascanu
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
citation:
ama: 'Polino A, Pascanu R, Alistarh D-A. Model compression via distillation and
quantization. In: 6th International Conference on Learning Representations.
; 2018.'
apa: Polino, A., Pascanu, R., & Alistarh, D.-A. (2018). Model compression via
distillation and quantization. In 6th International Conference on Learning
Representations. Vancouver, Canada.
chicago: Polino, Antonio, Razvan Pascanu, and Dan-Adrian Alistarh. “Model Compression
via Distillation and Quantization.” In 6th International Conference on Learning
Representations, 2018.
ieee: A. Polino, R. Pascanu, and D.-A. Alistarh, “Model compression via distillation
and quantization,” in 6th International Conference on Learning Representations,
Vancouver, Canada, 2018.
ista: 'Polino A, Pascanu R, Alistarh D-A. 2018. Model compression via distillation
and quantization. 6th International Conference on Learning Representations. ICLR:
International Conference on Learning Representations.'
mla: Polino, Antonio, et al. “Model Compression via Distillation and Quantization.”
6th International Conference on Learning Representations, 2018.
short: A. Polino, R. Pascanu, D.-A. Alistarh, in:, 6th International Conference
on Learning Representations, 2018.
conference:
end_date: 2018-05-03
location: Vancouver, Canada
name: 'ICLR: International Conference on Learning Representations'
start_date: 2018-04-30
date_created: 2020-05-10T22:00:51Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2023-02-23T13:18:41Z
day: '01'
ddc:
- '000'
department:
- _id: DaAl
external_id:
arxiv:
- '1802.05668'
file:
- access_level: open_access
checksum: a4336c167978e81891970e4e4517a8c3
content_type: application/pdf
creator: dernst
date_created: 2020-05-26T13:02:00Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7894'
file_name: 2018_ICLR_Polino.pdf
file_size: 308339
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: 6th International Conference on Learning Representations
publication_status: published
quality_controlled: '1'
scopus_import: 1
status: public
title: Model compression via distillation and quantization
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '7983'
abstract:
- lang: ger
text: 'Feste Alkalicarbonate sind universelle Bestandteile von Passivierungsschichten
an Materialien für Interkalationsbatterien, übliche Nebenprodukte in Metall‐O2‐Batterien,
und es wird angenommen, dass sie sich reversibel in Metall‐O2 /CO2‐Zellen bilden
und zersetzen. In all diesen Kathoden zersetzt sich Li2CO3 zu CO2, sobald es Spannungen
>3.8 V vs. Li/Li+ ausgesetzt wird. Beachtenswert ist, dass keine O2‐Entwicklung
detektiert wird, wie gemäß der Zersetzungsreaktion 2 Li2CO3 → 4 Li+ + 4 e− + 2 CO2
+ O2 zu erwarten wäre. Deswegen war der Verbleib eines der O‐Atome ungeklärt und
wurde nicht identifizierten parasitären Reaktionen zugerechnet. Hier zeigen wir,
dass hochreaktiver Singulett‐Sauerstoff (1O2) bei der Oxidation von Li2CO3 in
einem aprotischen Elektrolyten gebildet und daher nicht als O2 freigesetzt wird.
Diese Ergebnisse haben weitreichende Auswirkungen auf die langfristige Zyklisierbarkeit
von Batterien: sie untermauern die Wichtigkeit, 1O2 in Metall‐O2‐Batterien zu
verhindern, stellen die Möglichkeit einer reversiblen Metall‐O2 /CO2‐Batterie
basierend auf einem Carbonat‐Entladeprodukt in Frage und helfen, Grenzflächenreaktivität
von Übergangsmetallkathoden mit Li2CO3‐Resten zu erklären.'
article_processing_charge: No
article_type: original
author:
- first_name: Nika
full_name: Mahne, Nika
last_name: Mahne
- first_name: Sara E.
full_name: Renfrew, Sara E.
last_name: Renfrew
- first_name: Bryan D.
full_name: McCloskey, Bryan D.
last_name: McCloskey
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Mahne N, Renfrew SE, McCloskey BD, Freunberger SA. Elektrochemische Oxidation
von Lithiumcarbonat generiert Singulett-Sauerstoff. Angewandte Chemie.
2018;130(19):5627-5631. doi:10.1002/ange.201802277
apa: Mahne, N., Renfrew, S. E., McCloskey, B. D., & Freunberger, S. A. (2018).
Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff.
Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.201802277
chicago: Mahne, Nika, Sara E. Renfrew, Bryan D. McCloskey, and Stefan Alexander
Freunberger. “Elektrochemische Oxidation von Lithiumcarbonat Generiert Singulett-Sauerstoff.”
Angewandte Chemie. Wiley, 2018. https://doi.org/10.1002/ange.201802277.
ieee: N. Mahne, S. E. Renfrew, B. D. McCloskey, and S. A. Freunberger, “Elektrochemische
Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff,” Angewandte Chemie,
vol. 130, no. 19. Wiley, pp. 5627–5631, 2018.
ista: Mahne N, Renfrew SE, McCloskey BD, Freunberger SA. 2018. Elektrochemische
Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff. Angewandte Chemie.
130(19), 5627–5631.
mla: Mahne, Nika, et al. “Elektrochemische Oxidation von Lithiumcarbonat Generiert
Singulett-Sauerstoff.” Angewandte Chemie, vol. 130, no. 19, Wiley, 2018,
pp. 5627–31, doi:10.1002/ange.201802277.
short: N. Mahne, S.E. Renfrew, B.D. McCloskey, S.A. Freunberger, Angewandte Chemie
130 (2018) 5627–5631.
date_created: 2020-06-19T08:33:24Z
date_published: 2018-05-04T00:00:00Z
date_updated: 2021-01-12T08:16:21Z
day: '04'
ddc:
- '540'
doi: 10.1002/ange.201802277
extern: '1'
file:
- access_level: open_access
checksum: 81506e0f7079e1e3591f3cd9f626bf67
content_type: application/pdf
creator: dernst
date_created: 2020-06-19T11:58:06Z
date_updated: 2020-07-14T12:48:06Z
file_id: '7988'
file_name: 2018_AngChemieDT_Mahne.pdf
file_size: 674789
relation: main_file
file_date_updated: 2020-07-14T12:48:06Z
has_accepted_license: '1'
intvolume: ' 130'
issue: '19'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 5627-5631
publication: Angewandte Chemie
publication_identifier:
issn:
- 0044-8249
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Elektrochemische Oxidation von Lithiumcarbonat generiert Singulett-Sauerstoff
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 130
year: '2018'
...
---
_id: '8015'
abstract:
- lang: eng
text: 'The neural code of cortical processing remains uncracked; however, it must
necessarily rely on faithful signal propagation between cortical areas. In this
issue of Neuron, Joglekar et al. (2018) show that strong inter-areal excitation
balanced by local inhibition can enable reliable signal propagation in data-constrained
network models of macaque cortex. '
article_processing_charge: No
article_type: original
author:
- first_name: Jake P.
full_name: Stroud, Jake P.
last_name: Stroud
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: 'Stroud JP, Vogels TP. Cortical signal propagation: Balance, amplify, transmit.
Neuron. 2018;98(1):8-9. doi:10.1016/j.neuron.2018.03.028'
apa: 'Stroud, J. P., & Vogels, T. P. (2018). Cortical signal propagation: Balance,
amplify, transmit. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2018.03.028'
chicago: 'Stroud, Jake P., and Tim P Vogels. “Cortical Signal Propagation: Balance,
Amplify, Transmit.” Neuron. Elsevier, 2018. https://doi.org/10.1016/j.neuron.2018.03.028.'
ieee: 'J. P. Stroud and T. P. Vogels, “Cortical signal propagation: Balance, amplify,
transmit,” Neuron, vol. 98, no. 1. Elsevier, pp. 8–9, 2018.'
ista: 'Stroud JP, Vogels TP. 2018. Cortical signal propagation: Balance, amplify,
transmit. Neuron. 98(1), 8–9.'
mla: 'Stroud, Jake P., and Tim P. Vogels. “Cortical Signal Propagation: Balance,
Amplify, Transmit.” Neuron, vol. 98, no. 1, Elsevier, 2018, pp. 8–9, doi:10.1016/j.neuron.2018.03.028.'
short: J.P. Stroud, T.P. Vogels, Neuron 98 (2018) 8–9.
date_created: 2020-06-25T12:53:39Z
date_published: 2018-04-04T00:00:00Z
date_updated: 2021-01-12T08:16:31Z
day: '04'
doi: 10.1016/j.neuron.2018.03.028
extern: '1'
external_id:
pmid:
- '29621492'
intvolume: ' 98'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.neuron.2018.03.028
month: '04'
oa: 1
oa_version: Published Version
page: 8-9
pmid: 1
publication: Neuron
publication_identifier:
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: 'Cortical signal propagation: Balance, amplify, transmit'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 98
year: '2018'
...
---
_id: '8073'
abstract:
- lang: eng
text: Motor cortex (M1) exhibits a rich repertoire of neuronal activities to support
the generation of complex movements. Although recent neuronal-network models capture
many qualitative aspects of M1 dynamics, they can generate only a few distinct
movements. Additionally, it is unclear how M1 efficiently controls movements over
a wide range of shapes and speeds. We demonstrate that modulation of neuronal
input–output gains in recurrent neuronal-network models with a fixed architecture
can dramatically reorganize neuronal activity and thus downstream muscle outputs.
Consistent with the observation of diffuse neuromodulatory projections to M1,
a relatively small number of modulatory control units provide sufficient flexibility
to adjust high-dimensional network activity using a simple reward-based learning
rule. Furthermore, it is possible to assemble novel movements from previously
learned primitives, and one can separately change movement speed while preserving
movement shape. Our results provide a new perspective on the role of modulatory
systems in controlling recurrent cortical activity.
article_processing_charge: No
article_type: original
author:
- first_name: Jake P.
full_name: Stroud, Jake P.
last_name: Stroud
- first_name: Mason A.
full_name: Porter, Mason A.
last_name: Porter
- first_name: Guillaume
full_name: Hennequin, Guillaume
last_name: Hennequin
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: Stroud JP, Porter MA, Hennequin G, Vogels TP. Motor primitives in space and
time via targeted gain modulation in cortical networks. Nature Neuroscience.
2018;21(12):1774-1783. doi:10.1038/s41593-018-0276-0
apa: Stroud, J. P., Porter, M. A., Hennequin, G., & Vogels, T. P. (2018). Motor
primitives in space and time via targeted gain modulation in cortical networks.
Nature Neuroscience. Springer Nature. https://doi.org/10.1038/s41593-018-0276-0
chicago: Stroud, Jake P., Mason A. Porter, Guillaume Hennequin, and Tim P Vogels.
“Motor Primitives in Space and Time via Targeted Gain Modulation in Cortical Networks.”
Nature Neuroscience. Springer Nature, 2018. https://doi.org/10.1038/s41593-018-0276-0.
ieee: J. P. Stroud, M. A. Porter, G. Hennequin, and T. P. Vogels, “Motor primitives
in space and time via targeted gain modulation in cortical networks,” Nature
Neuroscience, vol. 21, no. 12. Springer Nature, pp. 1774–1783, 2018.
ista: Stroud JP, Porter MA, Hennequin G, Vogels TP. 2018. Motor primitives in space
and time via targeted gain modulation in cortical networks. Nature Neuroscience.
21(12), 1774–1783.
mla: Stroud, Jake P., et al. “Motor Primitives in Space and Time via Targeted Gain
Modulation in Cortical Networks.” Nature Neuroscience, vol. 21, no. 12,
Springer Nature, 2018, pp. 1774–83, doi:10.1038/s41593-018-0276-0.
short: J.P. Stroud, M.A. Porter, G. Hennequin, T.P. Vogels, Nature Neuroscience
21 (2018) 1774–1783.
date_created: 2020-06-30T13:18:02Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2021-01-12T08:16:46Z
day: '01'
doi: 10.1038/s41593-018-0276-0
extern: '1'
external_id:
pmid:
- '30482949'
intvolume: ' 21'
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6276991/
month: '12'
oa: 1
oa_version: Submitted Version
page: 1774-1783
pmid: 1
publication: Nature Neuroscience
publication_identifier:
issn:
- 1097-6256
- 1546-1726
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1038/s41593-018-0307-x
status: public
title: Motor primitives in space and time via targeted gain modulation in cortical
networks
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 21
year: '2018'
...
---
_id: '8231'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Judit
full_name: Fazekas-Singer, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas-Singer
orcid: 0000-0002-8777-3502
- first_name: Josef
full_name: Singer, Josef
last_name: Singer
- first_name: Kristina M.
full_name: Ilieva, Kristina M.
last_name: Ilieva
- first_name: Miroslawa
full_name: Matz, Miroslawa
last_name: Matz
- first_name: Ina
full_name: Herrmann, Ina
last_name: Herrmann
- first_name: Edzard
full_name: Spillner, Edzard
last_name: Spillner
- first_name: Sophia N.
full_name: Karagiannis, Sophia N.
last_name: Karagiannis
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
citation:
ama: 'Singer J, Singer J, Ilieva KM, et al. AllergoOncology: Generating a canine
anticancer IgE against the epidermal growth factor receptor. Journal of Allergy
and Clinical Immunology. 2018;142(3):973-976.e11. doi:10.1016/j.jaci.2018.04.021'
apa: 'Singer, J., Singer, J., Ilieva, K. M., Matz, M., Herrmann, I., Spillner, E.,
… Jensen-Jarolim, E. (2018). AllergoOncology: Generating a canine anticancer IgE
against the epidermal growth factor receptor. Journal of Allergy and Clinical
Immunology. Elsevier. https://doi.org/10.1016/j.jaci.2018.04.021'
chicago: 'Singer, Judit, Josef Singer, Kristina M. Ilieva, Miroslawa Matz, Ina Herrmann,
Edzard Spillner, Sophia N. Karagiannis, and Erika Jensen-Jarolim. “AllergoOncology:
Generating a Canine Anticancer IgE against the Epidermal Growth Factor Receptor.”
Journal of Allergy and Clinical Immunology. Elsevier, 2018. https://doi.org/10.1016/j.jaci.2018.04.021.'
ieee: 'J. Singer et al., “AllergoOncology: Generating a canine anticancer
IgE against the epidermal growth factor receptor,” Journal of Allergy and Clinical
Immunology, vol. 142, no. 3. Elsevier, p. 973–976.e11, 2018.'
ista: 'Singer J, Singer J, Ilieva KM, Matz M, Herrmann I, Spillner E, Karagiannis
SN, Jensen-Jarolim E. 2018. AllergoOncology: Generating a canine anticancer IgE
against the epidermal growth factor receptor. Journal of Allergy and Clinical
Immunology. 142(3), 973–976.e11.'
mla: 'Singer, Judit, et al. “AllergoOncology: Generating a Canine Anticancer IgE
against the Epidermal Growth Factor Receptor.” Journal of Allergy and Clinical
Immunology, vol. 142, no. 3, Elsevier, 2018, p. 973–976.e11, doi:10.1016/j.jaci.2018.04.021.'
short: J. Singer, J. Singer, K.M. Ilieva, M. Matz, I. Herrmann, E. Spillner, S.N.
Karagiannis, E. Jensen-Jarolim, Journal of Allergy and Clinical Immunology 142
(2018) 973–976.e11.
date_created: 2020-08-10T11:51:36Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2021-01-12T08:17:37Z
day: '01'
doi: 10.1016/j.jaci.2018.04.021
extern: '1'
intvolume: ' 142'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.jaci.2018.04.021
month: '09'
oa: 1
oa_version: Published Version
page: 973-976.e11
publication: Journal of Allergy and Clinical Immunology
publication_identifier:
issn:
- 0091-6749
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: 'AllergoOncology: Generating a canine anticancer IgE against the epidermal
growth factor receptor'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 142
year: '2018'
...
---
_id: '8234'
abstract:
- lang: eng
text: Molecular imaging probes such as PET-tracers have the potential to improve
the accuracy of tumor characterization by directly visualizing the biochemical
situation. Thus, molecular changes can be detected early before morphological
manifestation. The A3 adenosine receptor (A3AR) is described to be highly expressed
in colon cancer cell lines and human colorectal cancer (CRC), suggesting this
receptor as a tumor marker. The aim of this preclinical study was the evaluation
of FE@SUPPY as a PET-tracer for CRC using in vitro imaging and in vivo PET imaging.
First, affinity and selectivity of FE@SUPPY and its metabolites were determined,
proving the favorable binding profile of FE@SUPPY. The human adenocarcinoma cell
line HT-29 was characterized regarding its hA3AR expression and was subsequently
chosen as tumor graft. Promising results regarding the potential of FE@SUPPY as
a PET-tracer for CRC imaging were obtained by autoradiography as ≥2.3-fold higher
accumulation of FE@SUPPY was found in CRC tissue compared to adjacent healthy
colon tissue from the same patient. Nevertheless, first in vivo studies using
HT-29 xenografts showed insufficient tumor uptake due to (1) poor conservation
of target expression in xenografts and (2) unfavorable pharmacokinetics of FE@SUPPY
in mice. We therefore conclude that HT-29 xenografts are not adequate to visualize
hA3ARs using FE@SUPPY.
article_number: '1269830'
article_processing_charge: No
article_type: original
author:
- first_name: T.
full_name: Balber, T.
last_name: Balber
- first_name: Judit
full_name: Singer, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Singer
orcid: 0000-0002-8777-3502
- first_name: N.
full_name: Berroterán-Infante, N.
last_name: Berroterán-Infante
- first_name: M.
full_name: Dumanic, M.
last_name: Dumanic
- first_name: L.
full_name: Fetty, L.
last_name: Fetty
- first_name: J.
full_name: Fazekas-Singer, J.
last_name: Fazekas-Singer
orcid: 0000-0002-8777-3502
- first_name: C.
full_name: Vraka, C.
last_name: Vraka
- first_name: L.
full_name: Nics, L.
last_name: Nics
- first_name: M.
full_name: Bergmann, M.
last_name: Bergmann
- first_name: K.
full_name: Pallitsch, K.
last_name: Pallitsch
- first_name: H.
full_name: Spreitzer, H.
last_name: Spreitzer
- first_name: W.
full_name: Wadsak, W.
last_name: Wadsak
orcid: 0000-0003-4479-8053
- first_name: M.
full_name: Hacker, M.
last_name: Hacker
- first_name: E.
full_name: Jensen-Jarolim, E.
last_name: Jensen-Jarolim
- first_name: H.
full_name: Viernstein, H.
last_name: Viernstein
- first_name: M.
full_name: Mitterhauser, M.
last_name: Mitterhauser
orcid: 0000-0003-3173-5272
citation:
ama: 'Balber T, Singer J, Berroterán-Infante N, et al. Preclinical in vitro and
in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft
model for colorectal cancer. Contrast Media & Molecular Imaging. 2018;2018.
doi:10.1155/2018/1269830'
apa: 'Balber, T., Singer, J., Berroterán-Infante, N., Dumanic, M., Fetty, L., Fazekas-Singer,
J., … Mitterhauser, M. (2018). Preclinical in vitro and in vivo evaluation of
[18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal
cancer. Contrast Media & Molecular Imaging. Hindawi. https://doi.org/10.1155/2018/1269830'
chicago: 'Balber, T., Judit Singer, N. Berroterán-Infante, M. Dumanic, L. Fetty,
J. Fazekas-Singer, C. Vraka, et al. “Preclinical in Vitro and in Vivo Evaluation
of [18F]FE@SUPPY for Cancer PET Imaging: Limitations of a Xenograft Model for
Colorectal Cancer.” Contrast Media & Molecular Imaging. Hindawi, 2018.
https://doi.org/10.1155/2018/1269830.'
ieee: 'T. Balber et al., “Preclinical in vitro and in vivo evaluation of
[18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft model for colorectal
cancer,” Contrast Media & Molecular Imaging, vol. 2018. Hindawi, 2018.'
ista: 'Balber T, Singer J, Berroterán-Infante N, Dumanic M, Fetty L, Fazekas-Singer
J, Vraka C, Nics L, Bergmann M, Pallitsch K, Spreitzer H, Wadsak W, Hacker M,
Jensen-Jarolim E, Viernstein H, Mitterhauser M. 2018. Preclinical in vitro and
in vivo evaluation of [18F]FE@SUPPY for cancer PET imaging: Limitations of a xenograft
model for colorectal cancer. Contrast Media & Molecular Imaging. 2018, 1269830.'
mla: 'Balber, T., et al. “Preclinical in Vitro and in Vivo Evaluation of [18F]FE@SUPPY
for Cancer PET Imaging: Limitations of a Xenograft Model for Colorectal Cancer.”
Contrast Media & Molecular Imaging, vol. 2018, 1269830, Hindawi, 2018,
doi:10.1155/2018/1269830.'
short: T. Balber, J. Singer, N. Berroterán-Infante, M. Dumanic, L. Fetty, J. Fazekas-Singer,
C. Vraka, L. Nics, M. Bergmann, K. Pallitsch, H. Spreitzer, W. Wadsak, M. Hacker,
E. Jensen-Jarolim, H. Viernstein, M. Mitterhauser, Contrast Media & Molecular
Imaging 2018 (2018).
date_created: 2020-08-10T11:53:07Z
date_published: 2018-02-13T00:00:00Z
date_updated: 2021-01-12T08:17:38Z
day: '13'
doi: 10.1155/2018/1269830
extern: '1'
intvolume: ' 2018'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1155/2018/1269830
month: '02'
oa: 1
oa_version: Published Version
publication: Contrast Media & Molecular Imaging
publication_identifier:
issn:
- 1555-4309
- 1555-4317
publication_status: published
publisher: Hindawi
quality_controlled: '1'
status: public
title: 'Preclinical in vitro and in vivo evaluation of [18F]FE@SUPPY for cancer PET
imaging: Limitations of a xenograft model for colorectal cancer'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2018
year: '2018'
...
---
_id: '8232'
abstract:
- lang: eng
text: 'Anti-epidermal growth factor receptor (EGFR) antibody therapy is used in
EGFR expressing cancers including lung, colon, head and neck, and bladder cancers,
however results have been modest. Near infrared photoimmunotherapy (NIR-PIT) is
a highly selective tumor treatment that employs an antibody-photo-absorber conjugate
which is activated by NIR light. NIR-PIT is in clinical trials in patients with
recurrent head and neck cancers using cetuximab-IR700 as the conjugate. However,
its use has otherwise been restricted to mouse models. This is an effort to explore
larger animal models with NIR-PIT. We describe the use of a recombinant canine
anti-EGFR monoclonal antibody (mAb), can225IgG, conjugated to the photo-absorber,
IR700DX, in three EGFR expressing canine transitional cell carcinoma (TCC) cell
lines as a prelude to possible canine clinical studies. Can225-IR700 conjugate
showed specific binding and cell-specific killing after NIR-PIT on EGFR expressing
cells in vitro. In the in vivo study, can225-IR700 conjugate demonstrated accumulation
of the fluorescent conjugate with high tumor-to-background ratio. Tumor-bearing
mice were separated into 4 groups: (1) no treatment; (2) 100 μg of can225-IR700
i.v. only; (3) NIR light exposure only; (4) 100 μg of can225-IR700 i.v., NIR light
exposure. Tumor growth was significantly inhibited by NIR-PIT treatment compared
with the other groups (p < 0.001), and significantly prolonged survival was achieved
(p < 0.001 vs. other groups) in the treatment groups. In conclusion, NIR-PIT with
can225-IR700 is a promising treatment for canine EGFR-expressing cancers, including
invasive transitional cell carcinoma in pet dogs, that could provide a pathway
to translation to humans.'
article_processing_charge: No
article_type: original
author:
- first_name: Tadanobu
full_name: Nagaya, Tadanobu
last_name: Nagaya
- first_name: Shuhei
full_name: Okuyama, Shuhei
last_name: Okuyama
- first_name: Fusa
full_name: Ogata, Fusa
last_name: Ogata
- first_name: Yasuhiro
full_name: Maruoka, Yasuhiro
last_name: Maruoka
- first_name: Deborah W.
full_name: Knapp, Deborah W.
last_name: Knapp
- first_name: Sophia N.
full_name: Karagiannis, Sophia N.
last_name: Karagiannis
- first_name: Judit
full_name: Fazekas-Singer, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas-Singer
orcid: 0000-0002-8777-3502
- first_name: Peter L.
full_name: Choyke, Peter L.
last_name: Choyke
- first_name: Amy K.
full_name: LeBlanc, Amy K.
last_name: LeBlanc
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
- first_name: Hisataka
full_name: Kobayashi, Hisataka
last_name: Kobayashi
citation:
ama: Nagaya T, Okuyama S, Ogata F, et al. Near infrared photoimmunotherapy targeting
bladder cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody.
Oncotarget. 2018;9:19026-19038. doi:10.18632/oncotarget.24876
apa: Nagaya, T., Okuyama, S., Ogata, F., Maruoka, Y., Knapp, D. W., Karagiannis,
S. N., … Kobayashi, H. (2018). Near infrared photoimmunotherapy targeting bladder
cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody. Oncotarget.
Impact Journals. https://doi.org/10.18632/oncotarget.24876
chicago: Nagaya, Tadanobu, Shuhei Okuyama, Fusa Ogata, Yasuhiro Maruoka, Deborah
W. Knapp, Sophia N. Karagiannis, Judit Singer, et al. “Near Infrared Photoimmunotherapy
Targeting Bladder Cancer with a Canine Anti-Epidermal Growth Factor Receptor (EGFR)
Antibody.” Oncotarget. Impact Journals, 2018. https://doi.org/10.18632/oncotarget.24876.
ieee: T. Nagaya et al., “Near infrared photoimmunotherapy targeting bladder
cancer with a canine anti-epidermal growth factor receptor (EGFR) antibody,” Oncotarget,
vol. 9. Impact Journals, pp. 19026–19038, 2018.
ista: Nagaya T, Okuyama S, Ogata F, Maruoka Y, Knapp DW, Karagiannis SN, Singer
J, Choyke PL, LeBlanc AK, Jensen-Jarolim E, Kobayashi H. 2018. Near infrared photoimmunotherapy
targeting bladder cancer with a canine anti-epidermal growth factor receptor (EGFR)
antibody. Oncotarget. 9, 19026–19038.
mla: Nagaya, Tadanobu, et al. “Near Infrared Photoimmunotherapy Targeting Bladder
Cancer with a Canine Anti-Epidermal Growth Factor Receptor (EGFR) Antibody.” Oncotarget,
vol. 9, Impact Journals, 2018, pp. 19026–38, doi:10.18632/oncotarget.24876.
short: T. Nagaya, S. Okuyama, F. Ogata, Y. Maruoka, D.W. Knapp, S.N. Karagiannis,
J. Singer, P.L. Choyke, A.K. LeBlanc, E. Jensen-Jarolim, H. Kobayashi, Oncotarget
9 (2018) 19026–19038.
date_created: 2020-08-10T11:52:54Z
date_published: 2018-04-10T00:00:00Z
date_updated: 2021-01-12T08:17:37Z
day: '10'
doi: 10.18632/oncotarget.24876
extern: '1'
intvolume: ' 9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.18632/oncotarget.24876
month: '04'
oa: 1
oa_version: Published Version
page: 19026-19038
publication: Oncotarget
publication_identifier:
eissn:
- 1949-2553
publication_status: published
publisher: Impact Journals
quality_controlled: '1'
status: public
title: Near infrared photoimmunotherapy targeting bladder cancer with a canine anti-epidermal
growth factor receptor (EGFR) antibody
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '8233'
abstract:
- lang: eng
text: The M2a subtype of macrophages plays an important role in human immunoglobulin
E (IgE-mediated allergies) and other Th2 type immune reactions. In contrast, very
little is known about these cells in the dog. Here we describe an in vitro method
to activate canine histiocytic DH82 cells and primary canine monocyte-derived
macrophages (MDMs) toward the M2a macrophages using human cytokines. For a side-by-side
comparison, we compared the canine cells to human MDMs, and the human monocytic
cell line U937 activated towards M1 and M2a cells on the cellular and molecular
level. In analogy to activated human M2a cells, canine M2a, differentiated from
both DH82 and MDMs, showed an increase in CD206 surface receptor expression compared
to M1. Interestingly, canine M2a, but not M1 derived from MDM, upregulated the
high-affinity IgE receptor (FcεRI). Transcription levels of M2a-associated genes
(IL10, CCL22, TGFβ, CD163) showed a diverse pattern between the human and dog
species, whereas M1 genes (IDO1, CXCL11, IL6, TNF-α) were similarly upregulated
in canine and human M1 cells (cell lines and MDMs). We suggest that our novel
in vitro method will be suitable in comparative allergology studies focussing
on macrophages.
article_processing_charge: No
article_type: original
author:
- first_name: Ina
full_name: Herrmann, Ina
last_name: Herrmann
- first_name: Jelena
full_name: Gotovina, Jelena
last_name: Gotovina
- first_name: Judit
full_name: Fazekas-Singer, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas-Singer
orcid: 0000-0002-8777-3502
- first_name: Michael B.
full_name: Fischer, Michael B.
last_name: Fischer
- first_name: Karin
full_name: Hufnagl, Karin
last_name: Hufnagl
- first_name: Rodolfo
full_name: Bianchini, Rodolfo
last_name: Bianchini
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
citation:
ama: Herrmann I, Gotovina J, Singer J, et al. Canine macrophages can like human
macrophages be in vitro activated toward the M2a subtype relevant in allergy.
Developmental & Comparative Immunology. 2018;82(5):118-127. doi:10.1016/j.dci.2018.01.005
apa: Herrmann, I., Gotovina, J., Singer, J., Fischer, M. B., Hufnagl, K., Bianchini,
R., & Jensen-Jarolim, E. (2018). Canine macrophages can like human macrophages
be in vitro activated toward the M2a subtype relevant in allergy. Developmental
& Comparative Immunology. Elsevier. https://doi.org/10.1016/j.dci.2018.01.005
chicago: Herrmann, Ina, Jelena Gotovina, Judit Singer, Michael B. Fischer, Karin
Hufnagl, Rodolfo Bianchini, and Erika Jensen-Jarolim. “Canine Macrophages Can
like Human Macrophages Be in Vitro Activated toward the M2a Subtype Relevant in
Allergy.” Developmental & Comparative Immunology. Elsevier, 2018. https://doi.org/10.1016/j.dci.2018.01.005.
ieee: I. Herrmann et al., “Canine macrophages can like human macrophages
be in vitro activated toward the M2a subtype relevant in allergy,” Developmental
& Comparative Immunology, vol. 82, no. 5. Elsevier, pp. 118–127, 2018.
ista: Herrmann I, Gotovina J, Singer J, Fischer MB, Hufnagl K, Bianchini R, Jensen-Jarolim
E. 2018. Canine macrophages can like human macrophages be in vitro activated toward
the M2a subtype relevant in allergy. Developmental & Comparative Immunology.
82(5), 118–127.
mla: Herrmann, Ina, et al. “Canine Macrophages Can like Human Macrophages Be in Vitro
Activated toward the M2a Subtype Relevant in Allergy.” Developmental &
Comparative Immunology, vol. 82, no. 5, Elsevier, 2018, pp. 118–27, doi:10.1016/j.dci.2018.01.005.
short: I. Herrmann, J. Gotovina, J. Singer, M.B. Fischer, K. Hufnagl, R. Bianchini,
E. Jensen-Jarolim, Developmental & Comparative Immunology 82 (2018) 118–127.
date_created: 2020-08-10T11:53:01Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2021-01-12T08:17:38Z
day: '01'
doi: 10.1016/j.dci.2018.01.005
extern: '1'
intvolume: ' 82'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.dci.2018.01.005
month: '05'
oa: 1
oa_version: Published Version
page: 118-127
publication: Developmental & Comparative Immunology
publication_identifier:
issn:
- 0145-305X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Canine macrophages can like human macrophages be in vitro activated toward
the M2a subtype relevant in allergy
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 82
year: '2018'
...
---
_id: '8262'
abstract:
- lang: eng
text: "Background: The genus Burkholderia consists of species that occupy remarkably
diverse ecological niches. Its best known members are important pathogens, B.
mallei and B. pseudomallei, which cause glanders and melioidosis, respectively.
Burkholderia genomes are unusual due to their multichromosomal organization, generally
comprised of 2-3 chromosomes.\r\n\r\nResults: We performed integrated genomic
analysis of 127 Burkholderia strains. The pan-genome is open with the saturation
to be reached between 86,000 and 88,000 genes. The reconstructed rearrangements
indicate a strong avoidance of intra-replichore inversions that is likely caused
by selection against the transfer of large groups of genes between the leading
and the lagging strands. Translocated genes also tend to retain their position
in the leading or the lagging strand, and this selection is stronger for large
syntenies. Integrated reconstruction of chromosome rearrangements in the context
of strains phylogeny reveals parallel rearrangements that may indicate inversion-based
phase variation and integration of new genomic islands. In particular, we detected
parallel inversions in the second chromosomes of B. pseudomallei with breakpoints
formed by genes encoding membrane components of multidrug resistance complex,
that may be linked to a phase variation mechanism. Two genomic islands, spreading
horizontally between chromosomes, were detected in the B. cepacia group.\r\n\r\nConclusions:
This study demonstrates the power of integrated analysis of pan-genomes, chromosome
rearrangements, and selection regimes. Non-random inversion patterns indicate
selective pressure, inversions are particularly frequent in a recent pathogen
B. mallei, and, together with periods of positive selection at other branches,
may indicate adaptation to new niches. One such adaptation could be a possible
phase variation mechanism in B. pseudomallei."
article_number: '965'
article_processing_charge: No
article_type: original
author:
- first_name: Olga
full_name: Bochkareva, Olga
id: C4558D3C-6102-11E9-A62E-F418E6697425
last_name: Bochkareva
orcid: 0000-0003-1006-6639
- first_name: Elena V.
full_name: Moroz, Elena V.
last_name: Moroz
- first_name: Iakov I.
full_name: Davydov, Iakov I.
last_name: Davydov
- first_name: Mikhail S.
full_name: Gelfand, Mikhail S.
last_name: Gelfand
citation:
ama: Bochkareva O, Moroz EV, Davydov II, Gelfand MS. Genome rearrangements and selection
in multi-chromosome bacteria Burkholderia spp. BMC Genomics. 2018;19. doi:10.1186/s12864-018-5245-1
apa: Bochkareva, O., Moroz, E. V., Davydov, I. I., & Gelfand, M. S. (2018).
Genome rearrangements and selection in multi-chromosome bacteria Burkholderia
spp. BMC Genomics. Springer Nature. https://doi.org/10.1186/s12864-018-5245-1
chicago: Bochkareva, Olga, Elena V. Moroz, Iakov I. Davydov, and Mikhail S. Gelfand.
“Genome Rearrangements and Selection in Multi-Chromosome Bacteria Burkholderia
Spp.” BMC Genomics. Springer Nature, 2018. https://doi.org/10.1186/s12864-018-5245-1.
ieee: O. Bochkareva, E. V. Moroz, I. I. Davydov, and M. S. Gelfand, “Genome rearrangements
and selection in multi-chromosome bacteria Burkholderia spp.,” BMC Genomics,
vol. 19. Springer Nature, 2018.
ista: Bochkareva O, Moroz EV, Davydov II, Gelfand MS. 2018. Genome rearrangements
and selection in multi-chromosome bacteria Burkholderia spp. BMC Genomics. 19,
965.
mla: Bochkareva, Olga, et al. “Genome Rearrangements and Selection in Multi-Chromosome
Bacteria Burkholderia Spp.” BMC Genomics, vol. 19, 965, Springer Nature,
2018, doi:10.1186/s12864-018-5245-1.
short: O. Bochkareva, E.V. Moroz, I.I. Davydov, M.S. Gelfand, BMC Genomics 19 (2018).
date_created: 2020-08-15T11:02:08Z
date_published: 2018-12-27T00:00:00Z
date_updated: 2023-02-23T13:28:52Z
day: '27'
doi: 10.1186/s12864-018-5245-1
extern: '1'
intvolume: ' 19'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1186/s12864-018-5245-1
month: '12'
oa: 1
oa_version: Published Version
publication: BMC Genomics
publication_identifier:
issn:
- 1471-2164
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Genome rearrangements and selection in multi-chromosome bacteria Burkholderia
spp.
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2018'
...
---
_id: '8265'
abstract:
- lang: eng
text: Genome rearrangements have played an important role in the evolution of Yersinia
pestis from its progenitor Yersinia pseudotuberculosis. Traditional phylogenetic
trees for Y. pestis based on sequence comparison have short internal branches
and low bootstrap supports as only a small number of nucleotide substitutions
have occurred. On the other hand, even a small number of genome rearrangements
may resolve topological ambiguities in a phylogenetic tree. We reconstructed phylogenetic
trees based on genome rearrangements using several popular approaches such as
Maximum likelihood for Gene Order and the Bayesian model of genome rearrangements
by inversions. We also reconciled phylogenetic trees for each of the three CRISPR
loci to obtain an integrated scenario of the CRISPR cassette evolution. Analysis
of contradictions between the obtained evolutionary trees yielded numerous parallel
inversions and gain/loss events. Our data indicate that an integrated analysis
of sequence-based and inversion-based trees enhances the resolution of phylogenetic
reconstruction. In contrast, reconstructions of strain relationships based on
solely CRISPR loci may not be reliable, as the history is obscured by large deletions,
obliterating the order of spacer gains. Similarly, numerous parallel gene losses
preclude reconstruction of phylogeny based on gene content.
article_number: e4545
article_processing_charge: No
article_type: original
author:
- first_name: Olga
full_name: Bochkareva, Olga
id: C4558D3C-6102-11E9-A62E-F418E6697425
last_name: Bochkareva
orcid: 0000-0003-1006-6639
- first_name: Natalia O.
full_name: Dranenko, Natalia O.
last_name: Dranenko
- first_name: Elena S.
full_name: Ocheredko, Elena S.
last_name: Ocheredko
- first_name: German M.
full_name: Kanevsky, German M.
last_name: Kanevsky
- first_name: Yaroslav N.
full_name: Lozinsky, Yaroslav N.
last_name: Lozinsky
- first_name: Vera A.
full_name: Khalaycheva, Vera A.
last_name: Khalaycheva
- first_name: Irena I.
full_name: Artamonova, Irena I.
last_name: Artamonova
- first_name: Mikhail S.
full_name: Gelfand, Mikhail S.
last_name: Gelfand
citation:
ama: Bochkareva O, Dranenko NO, Ocheredko ES, et al. Genome rearrangements and phylogeny
reconstruction in Yersinia pestis. PeerJ. 2018;6. doi:10.7717/peerj.4545
apa: Bochkareva, O., Dranenko, N. O., Ocheredko, E. S., Kanevsky, G. M., Lozinsky,
Y. N., Khalaycheva, V. A., … Gelfand, M. S. (2018). Genome rearrangements and
phylogeny reconstruction in Yersinia pestis. PeerJ. PeerJ. https://doi.org/10.7717/peerj.4545
chicago: Bochkareva, Olga, Natalia O. Dranenko, Elena S. Ocheredko, German M. Kanevsky,
Yaroslav N. Lozinsky, Vera A. Khalaycheva, Irena I. Artamonova, and Mikhail S.
Gelfand. “Genome Rearrangements and Phylogeny Reconstruction in Yersinia Pestis.”
PeerJ. PeerJ, 2018. https://doi.org/10.7717/peerj.4545.
ieee: O. Bochkareva et al., “Genome rearrangements and phylogeny reconstruction
in Yersinia pestis,” PeerJ, vol. 6. PeerJ, 2018.
ista: Bochkareva O, Dranenko NO, Ocheredko ES, Kanevsky GM, Lozinsky YN, Khalaycheva
VA, Artamonova II, Gelfand MS. 2018. Genome rearrangements and phylogeny reconstruction
in Yersinia pestis. PeerJ. 6, e4545.
mla: Bochkareva, Olga, et al. “Genome Rearrangements and Phylogeny Reconstruction
in Yersinia Pestis.” PeerJ, vol. 6, e4545, PeerJ, 2018, doi:10.7717/peerj.4545.
short: O. Bochkareva, N.O. Dranenko, E.S. Ocheredko, G.M. Kanevsky, Y.N. Lozinsky,
V.A. Khalaycheva, I.I. Artamonova, M.S. Gelfand, PeerJ 6 (2018).
date_created: 2020-08-15T11:08:23Z
date_published: 2018-03-27T00:00:00Z
date_updated: 2023-02-23T13:28:57Z
day: '27'
doi: 10.7717/peerj.4545
extern: '1'
external_id:
pmid:
- '29607260'
intvolume: ' 6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.7717/peerj.4545
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: PeerJ
publication_identifier:
issn:
- 2167-8359
publication_status: published
publisher: PeerJ
quality_controlled: '1'
status: public
title: Genome rearrangements and phylogeny reconstruction in Yersinia pestis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2018'
...
---
_id: '8274'
abstract:
- lang: eng
text: 'Background/Aim: Our aim was to investigate the crosstalk between tumor and
immune cells (M2 macrophages) and its effects on cyclo-oxygenase-2 (COX2) regulation
in canine mammary tumors (CMT). Materials and Methods: Sh1b CMT cells and human
BT474 mammary or HT29 colon cancer cells were co-cultured with canine peripheral
blood mononuclear cells (PBMCs) or with macrophage-like differentiated THP1 monocytes
(dTHP1). Intracellular COX2 expression by PBMCs, dTHP1 and cancer cells was evaluated
by flow cytometry. Results: Co-culturing of Sh1b and canine PBMCs induced COX2
overexpression in CMT cells. In turn, COX2 expression by PBMCs, mostly CD68+ macrophages,
was attenuated by co-culture with Sh1b (p=0.0001). In accordance, co-culture with
dTHP1 prompted intracellular production of COX2 in both Sh1b CMT cells and HT29
human colon cancer cells and reduced production of COX2 in BT474 human mammary
cancer cells. The intracellular COX2 expression from dTHP1 decreased when treated
with conditioned medium from cultured Sh1b and HT29 cancer cells. Conclusion:
Bidirectional COX2 regulation between cancer and monocytes/macrophages might shape
a tolerogenic tumor microenvironment in CMT.'
article_processing_charge: No
article_type: original
author:
- first_name: Maria Isabel
full_name: Carvalho, Maria Isabel
last_name: Carvalho
- first_name: Rodolfo
full_name: Bianchini, Rodolfo
last_name: Bianchini
- first_name: Judit
full_name: Fazekas-Singer, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas-Singer
orcid: 0000-0002-8777-3502
- first_name: Ina
full_name: Herrmann, Ina
last_name: Herrmann
- first_name: Irene
full_name: Flickinger, Irene
last_name: Flickinger
- first_name: Johann G.
full_name: Thalhammer, Johann G.
last_name: Thalhammer
- first_name: Isabel
full_name: Pires, Isabel
last_name: Pires
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
- first_name: Felisbina L.
full_name: Queiroga, Felisbina L.
last_name: Queiroga
citation:
ama: Carvalho MI, Bianchini R, Singer J, et al. Bidirectional regulation of COX-2
expression between cancer cells and macrophages. Anticancer Research. 2018;38(5):2811-2817.
doi:10.21873/anticanres.12525
apa: Carvalho, M. I., Bianchini, R., Singer, J., Herrmann, I., Flickinger, I., Thalhammer,
J. G., … Queiroga, F. L. (2018). Bidirectional regulation of COX-2 expression
between cancer cells and macrophages. Anticancer Research. International
Institute of Anticancer Research. https://doi.org/10.21873/anticanres.12525
chicago: Carvalho, Maria Isabel, Rodolfo Bianchini, Judit Singer, Ina Herrmann,
Irene Flickinger, Johann G. Thalhammer, Isabel Pires, Erika Jensen-Jarolim, and
Felisbina L. Queiroga. “Bidirectional Regulation of COX-2 Expression between Cancer
Cells and Macrophages.” Anticancer Research. International Institute of
Anticancer Research, 2018. https://doi.org/10.21873/anticanres.12525.
ieee: M. I. Carvalho et al., “Bidirectional regulation of COX-2 expression
between cancer cells and macrophages,” Anticancer Research, vol. 38, no.
5. International Institute of Anticancer Research, pp. 2811–2817, 2018.
ista: Carvalho MI, Bianchini R, Singer J, Herrmann I, Flickinger I, Thalhammer JG,
Pires I, Jensen-Jarolim E, Queiroga FL. 2018. Bidirectional regulation of COX-2
expression between cancer cells and macrophages. Anticancer Research. 38(5), 2811–2817.
mla: Carvalho, Maria Isabel, et al. “Bidirectional Regulation of COX-2 Expression
between Cancer Cells and Macrophages.” Anticancer Research, vol. 38, no.
5, International Institute of Anticancer Research, 2018, pp. 2811–17, doi:10.21873/anticanres.12525.
short: M.I. Carvalho, R. Bianchini, J. Singer, I. Herrmann, I. Flickinger, J.G.
Thalhammer, I. Pires, E. Jensen-Jarolim, F.L. Queiroga, Anticancer Research 38
(2018) 2811–2817.
date_created: 2020-08-17T07:13:55Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2021-01-12T08:17:52Z
day: '01'
doi: 10.21873/anticanres.12525
extern: '1'
intvolume: ' 38'
issue: '5'
language:
- iso: eng
month: '05'
oa_version: None
page: 2811-2817
publication: Anticancer Research
publication_identifier:
eissn:
- 1791-7530
issn:
- 0250-7005
publication_status: published
publisher: International Institute of Anticancer Research
quality_controlled: '1'
status: public
title: Bidirectional regulation of COX-2 expression between cancer cells and macrophages
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 38
year: '2018'
...
---
_id: '8298'
abstract:
- lang: eng
text: Sharding, or partitioning the system’s state so that different subsets of
participants handle it, is a proven approach to building distributed systems whose
total capacity scales horizontally with the number of participants. Many distributed
ledgers have adopted this approach to increase their performance, however, they
focus on the permissionless setting that assumes the existence of a strong adversary.
In this paper, we deploy channels for permissioned blockchains. Our first contribution
is to adapt sharding on asset-management applications for the permissioned setting,
while preserving liveness and safety even on transactions spanning across-channels.
Our second contribution is to leverage channels as a confidentiality boundary,
enabling different organizations and consortia to preserve their privacy within
their channels and still be part of a bigger collaborative ecosystem. To make
our system concrete we map it on top of Hyperledger Fabric.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Elli
full_name: Androulaki, Elli
last_name: Androulaki
- first_name: Christian
full_name: Cachin, Christian
last_name: Cachin
- first_name: Angelo
full_name: De Caro, Angelo
last_name: De Caro
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
citation:
ama: 'Androulaki E, Cachin C, De Caro A, Kokoris Kogias E. Channels: Horizontal
scaling and confidentiality on permissioned blockchains. In: Computer Security.
Vol 11098. Springer Nature; 2018:111-131. doi:10.1007/978-3-319-99073-6_6'
apa: 'Androulaki, E., Cachin, C., De Caro, A., & Kokoris Kogias, E. (2018).
Channels: Horizontal scaling and confidentiality on permissioned blockchains.
In Computer Security (Vol. 11098, pp. 111–131). Barcelona, Spain: Springer
Nature. https://doi.org/10.1007/978-3-319-99073-6_6'
chicago: 'Androulaki, Elli, Christian Cachin, Angelo De Caro, and Eleftherios Kokoris
Kogias. “Channels: Horizontal Scaling and Confidentiality on Permissioned Blockchains.”
In Computer Security, 11098:111–31. Springer Nature, 2018. https://doi.org/10.1007/978-3-319-99073-6_6.'
ieee: 'E. Androulaki, C. Cachin, A. De Caro, and E. Kokoris Kogias, “Channels: Horizontal
scaling and confidentiality on permissioned blockchains,” in Computer Security,
Barcelona, Spain, 2018, vol. 11098, pp. 111–131.'
ista: 'Androulaki E, Cachin C, De Caro A, Kokoris Kogias E. 2018. Channels: Horizontal
scaling and confidentiality on permissioned blockchains. Computer Security. ESORICS:
European Symposium on Research in Computer Security, LNCS, vol. 11098, 111–131.'
mla: 'Androulaki, Elli, et al. “Channels: Horizontal Scaling and Confidentiality
on Permissioned Blockchains.” Computer Security, vol. 11098, Springer Nature,
2018, pp. 111–31, doi:10.1007/978-3-319-99073-6_6.'
short: E. Androulaki, C. Cachin, A. De Caro, E. Kokoris Kogias, in:, Computer Security,
Springer Nature, 2018, pp. 111–131.
conference:
end_date: 2018-09-07
location: Barcelona, Spain
name: 'ESORICS: European Symposium on Research in Computer Security'
start_date: 2018-09-03
date_created: 2020-08-26T11:47:34Z
date_published: 2018-08-08T00:00:00Z
date_updated: 2021-01-12T08:17:57Z
day: '08'
doi: 10.1007/978-3-319-99073-6_6
extern: '1'
intvolume: ' 11098'
language:
- iso: eng
month: '08'
oa_version: None
page: 111-131
publication: Computer Security
publication_identifier:
eisbn:
- '9783319990736'
isbn:
- '9783319990729'
issn:
- 0302-9743
- 1611-3349
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'Channels: Horizontal scaling and confidentiality on permissioned blockchains'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11098
year: '2018'
...
---
_id: '8297'
abstract:
- lang: eng
text: "Designing a secure permissionless distributed ledger (blockchain) that performs
on par with centralized payment\r\nprocessors, such as Visa, is a challenging
task. Most existing distributed ledgers are unable to scale-out, i.e., to grow
their totalprocessing capacity with the number of validators; and those that do,
compromise security or decentralization. We present OmniLedger, a novel scale-out
distributed ledger that preserves longterm security under permissionless operation.
It ensures security and correctness by using a bias-resistant public-randomness
protocol for choosing large, statistically representative shards that process
transactions, and by introducing an efficient crossshard commit protocol that
atomically handles transactions affecting multiple shards. OmniLedger also optimizes
performance via parallel intra-shard transaction processing, ledger pruning via
collectively-signed state blocks, and low-latency “trust-butverify” \r\nvalidation
for low-value transactions. An evaluation ofour experimental prototype shows that
OmniLedger’s throughput\r\nscales linearly in the number of active validators,
supporting Visa-level workloads and beyond, while confirming typical transactions
in under two seconds."
article_processing_charge: No
author:
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
- first_name: Philipp
full_name: Jovanovic, Philipp
last_name: Jovanovic
- first_name: Linus
full_name: Gasser, Linus
last_name: Gasser
- first_name: Nicolas
full_name: Gailly, Nicolas
last_name: Gailly
- first_name: Ewa
full_name: Syta, Ewa
last_name: Syta
- first_name: Bryan
full_name: Ford, Bryan
last_name: Ford
citation:
ama: 'Kokoris Kogias E, Jovanovic P, Gasser L, Gailly N, Syta E, Ford B. OmniLedger:
A secure, scale-out, decentralized ledger via sharding. In: 2018 IEEE Symposium
on Security and Privacy. IEEE; 2018:583-598. doi:10.1109/sp.2018.000-5'
apa: 'Kokoris Kogias, E., Jovanovic, P., Gasser, L., Gailly, N., Syta, E., &
Ford, B. (2018). OmniLedger: A secure, scale-out, decentralized ledger via sharding.
In 2018 IEEE Symposium on Security and Privacy (pp. 583–598). San Francisco,
CA, United States: IEEE. https://doi.org/10.1109/sp.2018.000-5'
chicago: 'Kokoris Kogias, Eleftherios, Philipp Jovanovic, Linus Gasser, Nicolas
Gailly, Ewa Syta, and Bryan Ford. “OmniLedger: A Secure, Scale-out, Decentralized
Ledger via Sharding.” In 2018 IEEE Symposium on Security and Privacy, 583–98.
IEEE, 2018. https://doi.org/10.1109/sp.2018.000-5.'
ieee: 'E. Kokoris Kogias, P. Jovanovic, L. Gasser, N. Gailly, E. Syta, and B. Ford,
“OmniLedger: A secure, scale-out, decentralized ledger via sharding,” in 2018
IEEE Symposium on Security and Privacy, San Francisco, CA, United States,
2018, pp. 583–598.'
ista: 'Kokoris Kogias E, Jovanovic P, Gasser L, Gailly N, Syta E, Ford B. 2018.
OmniLedger: A secure, scale-out, decentralized ledger via sharding. 2018 IEEE
Symposium on Security and Privacy. SP: Symposium on Security and Privacy, 583–598.'
mla: 'Kokoris Kogias, Eleftherios, et al. “OmniLedger: A Secure, Scale-out, Decentralized
Ledger via Sharding.” 2018 IEEE Symposium on Security and Privacy, IEEE,
2018, pp. 583–98, doi:10.1109/sp.2018.000-5.'
short: E. Kokoris Kogias, P. Jovanovic, L. Gasser, N. Gailly, E. Syta, B. Ford,
in:, 2018 IEEE Symposium on Security and Privacy, IEEE, 2018, pp. 583–598.
conference:
end_date: 2018-05-24
location: San Francisco, CA, United States
name: 'SP: Symposium on Security and Privacy'
start_date: 2018-05-20
date_created: 2020-08-26T11:46:35Z
date_published: 2018-07-26T00:00:00Z
date_updated: 2021-01-12T08:17:56Z
day: '26'
doi: 10.1109/sp.2018.000-5
extern: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2017/406
month: '07'
oa: 1
oa_version: Preprint
page: 583-598
publication: 2018 IEEE Symposium on Security and Privacy
publication_identifier:
isbn:
- '9781538643532'
issn:
- 2375-1207
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: 'OmniLedger: A secure, scale-out, decentralized ledger via sharding'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '8443'
abstract:
- lang: eng
text: Characterizing the structure of membrane proteins (MPs) generally requires
extraction from their native environment, most commonly with detergents. Yet,
the physicochemical properties of detergent micelles and lipid bilayers differ
markedly and could alter the structural organization of MPs, albeit without general
rules. Dodecylphosphocholine (DPC) is the most widely used detergent for MP structure
determination by NMR, but the physiological relevance of several prominent structures
has been questioned, though indirectly, by other biophysical techniques, e.g.,
functional/thermostability assay (TSA) and molecular dynamics (MD) simulations.
Here, we resolve unambiguously this controversy by probing the functional relevance
of three different mitochondrial carriers (MCs) in DPC at the atomic level, using
an exhaustive set of solution-NMR experiments, complemented by functional/TSA
and MD data. Our results provide atomic-level insight into the structure, substrate
interaction and dynamics of the detergent–membrane protein complexes and demonstrates
cogently that, while high-resolution NMR signals can be obtained for MCs in DPC,
they systematically correspond to nonfunctional states.
article_processing_charge: No
article_type: original
author:
- first_name: Vilius
full_name: Kurauskas, Vilius
last_name: Kurauskas
- first_name: Audrey
full_name: Hessel, Audrey
last_name: Hessel
- first_name: Peixiang
full_name: Ma, Peixiang
last_name: Ma
- first_name: Paola
full_name: Lunetti, Paola
last_name: Lunetti
- first_name: Katharina
full_name: Weinhäupl, Katharina
last_name: Weinhäupl
- first_name: Lionel
full_name: Imbert, Lionel
last_name: Imbert
- first_name: Bernhard
full_name: Brutscher, Bernhard
last_name: Brutscher
- first_name: Martin S.
full_name: King, Martin S.
last_name: King
- first_name: Rémy
full_name: Sounier, Rémy
last_name: Sounier
- first_name: Vincenza
full_name: Dolce, Vincenza
last_name: Dolce
- first_name: Edmund R. S.
full_name: Kunji, Edmund R. S.
last_name: Kunji
- first_name: Loredana
full_name: Capobianco, Loredana
last_name: Capobianco
- first_name: Christophe
full_name: Chipot, Christophe
last_name: Chipot
- first_name: François
full_name: Dehez, François
last_name: Dehez
- first_name: Beate
full_name: Bersch, Beate
last_name: Bersch
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: 'Kurauskas V, Hessel A, Ma P, et al. How detergent impacts membrane proteins:
Atomic-level views of mitochondrial carriers in dodecylphosphocholine. The
Journal of Physical Chemistry Letters. 2018;9(5):933-938. doi:10.1021/acs.jpclett.8b00269'
apa: 'Kurauskas, V., Hessel, A., Ma, P., Lunetti, P., Weinhäupl, K., Imbert, L.,
… Schanda, P. (2018). How detergent impacts membrane proteins: Atomic-level views
of mitochondrial carriers in dodecylphosphocholine. The Journal of Physical
Chemistry Letters. American Chemical Society. https://doi.org/10.1021/acs.jpclett.8b00269'
chicago: 'Kurauskas, Vilius, Audrey Hessel, Peixiang Ma, Paola Lunetti, Katharina
Weinhäupl, Lionel Imbert, Bernhard Brutscher, et al. “How Detergent Impacts Membrane
Proteins: Atomic-Level Views of Mitochondrial Carriers in Dodecylphosphocholine.”
The Journal of Physical Chemistry Letters. American Chemical Society, 2018.
https://doi.org/10.1021/acs.jpclett.8b00269.'
ieee: 'V. Kurauskas et al., “How detergent impacts membrane proteins: Atomic-level
views of mitochondrial carriers in dodecylphosphocholine,” The Journal of Physical
Chemistry Letters, vol. 9, no. 5. American Chemical Society, pp. 933–938,
2018.'
ista: 'Kurauskas V, Hessel A, Ma P, Lunetti P, Weinhäupl K, Imbert L, Brutscher
B, King MS, Sounier R, Dolce V, Kunji ERS, Capobianco L, Chipot C, Dehez F, Bersch
B, Schanda P. 2018. How detergent impacts membrane proteins: Atomic-level views
of mitochondrial carriers in dodecylphosphocholine. The Journal of Physical Chemistry
Letters. 9(5), 933–938.'
mla: 'Kurauskas, Vilius, et al. “How Detergent Impacts Membrane Proteins: Atomic-Level
Views of Mitochondrial Carriers in Dodecylphosphocholine.” The Journal of Physical
Chemistry Letters, vol. 9, no. 5, American Chemical Society, 2018, pp. 933–38,
doi:10.1021/acs.jpclett.8b00269.'
short: V. Kurauskas, A. Hessel, P. Ma, P. Lunetti, K. Weinhäupl, L. Imbert, B. Brutscher,
M.S. King, R. Sounier, V. Dolce, E.R.S. Kunji, L. Capobianco, C. Chipot, F. Dehez,
B. Bersch, P. Schanda, The Journal of Physical Chemistry Letters 9 (2018) 933–938.
date_created: 2020-09-18T10:05:45Z
date_published: 2018-02-03T00:00:00Z
date_updated: 2021-01-12T08:19:18Z
day: '03'
doi: 10.1021/acs.jpclett.8b00269
extern: '1'
intvolume: ' 9'
issue: '5'
keyword:
- General Materials Science
language:
- iso: eng
month: '02'
oa_version: None
page: 933-938
publication: The Journal of Physical Chemistry Letters
publication_identifier:
issn:
- 1948-7185
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: 'How detergent impacts membrane proteins: Atomic-level views of mitochondrial
carriers in dodecylphosphocholine'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '8440'
abstract:
- lang: eng
text: Mycobacterium tuberculosis can remain dormant in the host, an ability that
explains the failure of many current tuberculosis treatments. Recently, the natural
products cyclomarin, ecumicin, and lassomycin have been shown to efficiently kill
Mycobacterium tuberculosis persisters. Their target is the N-terminal domain of
the hexameric AAA+ ATPase ClpC1, which recognizes, unfolds, and translocates protein
substrates, such as proteins containing phosphorylated arginine residues, to the
ClpP1P2 protease for degradation. Surprisingly, these antibiotics do not inhibit
ClpC1 ATPase activity, and how they cause cell death is still unclear. Here, using
NMR and small-angle X-ray scattering, we demonstrate that arginine-phosphate binding
to the ClpC1 N-terminal domain induces millisecond dynamics. We show that these
dynamics are caused by conformational changes and do not result from unfolding
or oligomerization of this domain. Cyclomarin binding to this domain specifically
blocked these N-terminal dynamics. On the basis of these results, we propose a
mechanism of action involving cyclomarin-induced restriction of ClpC1 dynamics,
which modulates the chaperone enzymatic activity leading eventually to cell death.
article_processing_charge: No
article_type: original
author:
- first_name: Katharina
full_name: Weinhäupl, Katharina
last_name: Weinhäupl
- first_name: Martha
full_name: Brennich, Martha
last_name: Brennich
- first_name: Uli
full_name: Kazmaier, Uli
last_name: Kazmaier
- first_name: Joel
full_name: Lelievre, Joel
last_name: Lelievre
- first_name: Lluis
full_name: Ballell, Lluis
last_name: Ballell
- first_name: Alfred
full_name: Goldberg, Alfred
last_name: Goldberg
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Hugo
full_name: Fraga, Hugo
last_name: Fraga
citation:
ama: Weinhäupl K, Brennich M, Kazmaier U, et al. The antibiotic cyclomarin blocks
arginine-phosphate–induced millisecond dynamics in the N-terminal domain of ClpC1
from Mycobacterium tuberculosis. Journal of Biological Chemistry. 2018;293(22):8379-8393.
doi:10.1074/jbc.ra118.002251
apa: Weinhäupl, K., Brennich, M., Kazmaier, U., Lelievre, J., Ballell, L., Goldberg,
A., … Fraga, H. (2018). The antibiotic cyclomarin blocks arginine-phosphate–induced
millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis.
Journal of Biological Chemistry. American Society for Biochemistry &
Molecular Biology. https://doi.org/10.1074/jbc.ra118.002251
chicago: Weinhäupl, Katharina, Martha Brennich, Uli Kazmaier, Joel Lelievre, Lluis
Ballell, Alfred Goldberg, Paul Schanda, and Hugo Fraga. “The Antibiotic Cyclomarin
Blocks Arginine-Phosphate–Induced Millisecond Dynamics in the N-Terminal Domain
of ClpC1 from Mycobacterium Tuberculosis.” Journal of Biological Chemistry.
American Society for Biochemistry & Molecular Biology, 2018. https://doi.org/10.1074/jbc.ra118.002251.
ieee: K. Weinhäupl et al., “The antibiotic cyclomarin blocks arginine-phosphate–induced
millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis,”
Journal of Biological Chemistry, vol. 293, no. 22. American Society for
Biochemistry & Molecular Biology, pp. 8379–8393, 2018.
ista: Weinhäupl K, Brennich M, Kazmaier U, Lelievre J, Ballell L, Goldberg A, Schanda
P, Fraga H. 2018. The antibiotic cyclomarin blocks arginine-phosphate–induced
millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis.
Journal of Biological Chemistry. 293(22), 8379–8393.
mla: Weinhäupl, Katharina, et al. “The Antibiotic Cyclomarin Blocks Arginine-Phosphate–Induced
Millisecond Dynamics in the N-Terminal Domain of ClpC1 from Mycobacterium Tuberculosis.”
Journal of Biological Chemistry, vol. 293, no. 22, American Society for
Biochemistry & Molecular Biology, 2018, pp. 8379–93, doi:10.1074/jbc.ra118.002251.
short: K. Weinhäupl, M. Brennich, U. Kazmaier, J. Lelievre, L. Ballell, A. Goldberg,
P. Schanda, H. Fraga, Journal of Biological Chemistry 293 (2018) 8379–8393.
date_created: 2020-09-18T10:05:18Z
date_published: 2018-06-01T00:00:00Z
date_updated: 2021-01-12T08:19:17Z
day: '01'
doi: 10.1074/jbc.ra118.002251
extern: '1'
intvolume: ' 293'
issue: '22'
keyword:
- Cell Biology
- Biochemistry
- Molecular Biology
language:
- iso: eng
month: '06'
oa_version: None
page: 8379-8393
publication: Journal of Biological Chemistry
publication_identifier:
issn:
- 0021-9258
- 1083-351X
publication_status: published
publisher: American Society for Biochemistry & Molecular Biology
quality_controlled: '1'
status: public
title: The antibiotic cyclomarin blocks arginine-phosphate–induced millisecond dynamics
in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 293
year: '2018'
...
---
_id: '8442'
abstract:
- lang: eng
text: Membrane proteins perform a host of vital cellular functions. Deciphering
the molecular mechanisms whereby they fulfill these functions requires detailed
biophysical and structural investigations. Detergents have proven pivotal to extract
the protein from its native surroundings. Yet, they provide a milieu that departs
significantly from that of the biological membrane, to the extent that the structure,
the dynamics, and the interactions of membrane proteins in detergents may considerably
vary, as compared to the native environment. Understanding the impact of detergents
on membrane proteins is, therefore, crucial to assess the biological relevance
of results obtained in detergents. Here, we review the strengths and weaknesses
of alkyl phosphocholines (or foscholines), the most widely used detergent in solution-NMR
studies of membrane proteins. While this class of detergents is often successful
for membrane protein solubilization, a growing list of examples points to destabilizing
and denaturing properties, in particular for α-helical membrane proteins. Our
comprehensive analysis stresses the importance of stringent controls when working
with this class of detergents and when analyzing the structure and dynamics of
membrane proteins in alkyl phosphocholine detergents.
article_processing_charge: No
article_type: original
author:
- first_name: Christophe
full_name: Chipot, Christophe
last_name: Chipot
- first_name: François
full_name: Dehez, François
last_name: Dehez
- first_name: Jason R.
full_name: Schnell, Jason R.
last_name: Schnell
- first_name: Nicole
full_name: Zitzmann, Nicole
last_name: Zitzmann
- first_name: Eva
full_name: Pebay-Peyroula, Eva
last_name: Pebay-Peyroula
- first_name: Laurent J.
full_name: Catoire, Laurent J.
last_name: Catoire
- first_name: Bruno
full_name: Miroux, Bruno
last_name: Miroux
- first_name: Edmund R. S.
full_name: Kunji, Edmund R. S.
last_name: Kunji
- first_name: Gianluigi
full_name: Veglia, Gianluigi
last_name: Veglia
- first_name: Timothy A.
full_name: Cross, Timothy A.
last_name: Cross
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: 'Chipot C, Dehez F, Schnell JR, et al. Perturbations of native membrane protein
structure in alkyl phosphocholine detergents: A critical assessment of NMR and
biophysical studies. Chemical Reviews. 2018;118(7):3559-3607. doi:10.1021/acs.chemrev.7b00570'
apa: 'Chipot, C., Dehez, F., Schnell, J. R., Zitzmann, N., Pebay-Peyroula, E., Catoire,
L. J., … Schanda, P. (2018). Perturbations of native membrane protein structure
in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical
studies. Chemical Reviews. American Chemical Society. https://doi.org/10.1021/acs.chemrev.7b00570'
chicago: 'Chipot, Christophe, François Dehez, Jason R. Schnell, Nicole Zitzmann,
Eva Pebay-Peyroula, Laurent J. Catoire, Bruno Miroux, et al. “Perturbations of
Native Membrane Protein Structure in Alkyl Phosphocholine Detergents: A Critical
Assessment of NMR and Biophysical Studies.” Chemical Reviews. American
Chemical Society, 2018. https://doi.org/10.1021/acs.chemrev.7b00570.'
ieee: 'C. Chipot et al., “Perturbations of native membrane protein structure
in alkyl phosphocholine detergents: A critical assessment of NMR and biophysical
studies,” Chemical Reviews, vol. 118, no. 7. American Chemical Society,
pp. 3559–3607, 2018.'
ista: 'Chipot C, Dehez F, Schnell JR, Zitzmann N, Pebay-Peyroula E, Catoire LJ,
Miroux B, Kunji ERS, Veglia G, Cross TA, Schanda P. 2018. Perturbations of native
membrane protein structure in alkyl phosphocholine detergents: A critical assessment
of NMR and biophysical studies. Chemical Reviews. 118(7), 3559–3607.'
mla: 'Chipot, Christophe, et al. “Perturbations of Native Membrane Protein Structure
in Alkyl Phosphocholine Detergents: A Critical Assessment of NMR and Biophysical
Studies.” Chemical Reviews, vol. 118, no. 7, American Chemical Society,
2018, pp. 3559–607, doi:10.1021/acs.chemrev.7b00570.'
short: C. Chipot, F. Dehez, J.R. Schnell, N. Zitzmann, E. Pebay-Peyroula, L.J. Catoire,
B. Miroux, E.R.S. Kunji, G. Veglia, T.A. Cross, P. Schanda, Chemical Reviews 118
(2018) 3559–3607.
date_created: 2020-09-18T10:05:35Z
date_published: 2018-02-28T00:00:00Z
date_updated: 2021-01-12T08:19:18Z
day: '28'
doi: 10.1021/acs.chemrev.7b00570
extern: '1'
intvolume: ' 118'
issue: '7'
keyword:
- General Chemistry
language:
- iso: eng
month: '02'
oa_version: None
page: 3559-3607
publication: Chemical Reviews
publication_identifier:
issn:
- 0009-2665
- 1520-6890
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: 'Perturbations of native membrane protein structure in alkyl phosphocholine
detergents: A critical assessment of NMR and biophysical studies'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 118
year: '2018'
...
---
_id: '8441'
abstract:
- lang: eng
text: Solid-state near-rotary-resonance measurements of the spin–lattice relaxation
rate in the rotating frame (R1ρ) is a powerful NMR technique for studying molecular
dynamics in the microsecond time scale. The small difference between the spin-lock
(SL) and magic-angle-spinning (MAS) frequencies allows sampling very slow motions,
at the same time it brings up some methodological challenges. In this work, several
issues affecting correct measurements and analysis of 15N R1ρ data are considered
in detail. Among them are signal amplitude as a function of the difference between
SL and MAS frequencies, “dead time” in the initial part of the relaxation decay
caused by transient spin-dynamic oscillations, measurements under HORROR condition
and proper treatment of the multi-exponential relaxation decays. The multiple
15N R1ρ measurements at different SL fields and temperatures have been conducted
in 1D mode (i.e. without site-specific resolution) for a set of four different
microcrystalline protein samples (GB1, SH3, MPD-ubiquitin and cubic-PEG-ubiquitin)
to study the overall protein rocking in a crystal. While the amplitude of this
motion varies very significantly, its correlation time for all four sample is
practically the same, 30–50 μs. The amplitude of the rocking motion correlates
with the packing density of a protein crystal. It has been suggested that the
rocking motion is not diffusive but likely a jump-like dynamic process.
article_processing_charge: No
article_type: original
author:
- first_name: Alexey
full_name: Krushelnitsky, Alexey
last_name: Krushelnitsky
- first_name: Diego
full_name: Gauto, Diego
last_name: Gauto
- first_name: Diana C.
full_name: Rodriguez Camargo, Diana C.
last_name: Rodriguez Camargo
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Kay
full_name: Saalwächter, Kay
last_name: Saalwächter
citation:
ama: 'Krushelnitsky A, Gauto D, Rodriguez Camargo DC, Schanda P, Saalwächter K.
Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments:
The model case of protein overall-rocking in crystals. Journal of Biomolecular
NMR. 2018;71(1):53-67. doi:10.1007/s10858-018-0191-4'
apa: 'Krushelnitsky, A., Gauto, D., Rodriguez Camargo, D. C., Schanda, P., &
Saalwächter, K. (2018). Microsecond motions probed by near-rotary-resonance R1ρ
15N MAS NMR experiments: The model case of protein overall-rocking in crystals.
Journal of Biomolecular NMR. Springer Nature. https://doi.org/10.1007/s10858-018-0191-4'
chicago: 'Krushelnitsky, Alexey, Diego Gauto, Diana C. Rodriguez Camargo, Paul Schanda,
and Kay Saalwächter. “Microsecond Motions Probed by Near-Rotary-Resonance R1ρ
15N MAS NMR Experiments: The Model Case of Protein Overall-Rocking in Crystals.”
Journal of Biomolecular NMR. Springer Nature, 2018. https://doi.org/10.1007/s10858-018-0191-4.'
ieee: 'A. Krushelnitsky, D. Gauto, D. C. Rodriguez Camargo, P. Schanda, and K. Saalwächter,
“Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments:
The model case of protein overall-rocking in crystals,” Journal of Biomolecular
NMR, vol. 71, no. 1. Springer Nature, pp. 53–67, 2018.'
ista: 'Krushelnitsky A, Gauto D, Rodriguez Camargo DC, Schanda P, Saalwächter K.
2018. Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments:
The model case of protein overall-rocking in crystals. Journal of Biomolecular
NMR. 71(1), 53–67.'
mla: 'Krushelnitsky, Alexey, et al. “Microsecond Motions Probed by Near-Rotary-Resonance
R1ρ 15N MAS NMR Experiments: The Model Case of Protein Overall-Rocking in Crystals.”
Journal of Biomolecular NMR, vol. 71, no. 1, Springer Nature, 2018, pp.
53–67, doi:10.1007/s10858-018-0191-4.'
short: A. Krushelnitsky, D. Gauto, D.C. Rodriguez Camargo, P. Schanda, K. Saalwächter,
Journal of Biomolecular NMR 71 (2018) 53–67.
date_created: 2020-09-18T10:05:28Z
date_published: 2018-05-30T00:00:00Z
date_updated: 2021-01-12T08:19:17Z
day: '30'
doi: 10.1007/s10858-018-0191-4
extern: '1'
intvolume: ' 71'
issue: '1'
language:
- iso: eng
month: '05'
oa_version: Published Version
page: 53-67
publication: Journal of Biomolecular NMR
publication_identifier:
issn:
- 0925-2738
- 1573-5001
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'Microsecond motions probed by near-rotary-resonance R1ρ 15N MAS NMR experiments:
The model case of protein overall-rocking in crystals'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 71
year: '2018'
...
---
_id: '8439'
abstract:
- lang: eng
text: Lipopolysaccharides (LPS) are complex glycolipids forming the outside layer
of Gram-negative bacteria. Their hydrophobic and heterogeneous nature greatly
hampers their structural study in an environment similar to the bacterial surface.
We have studied LPS purified from E. coli and pathogenic P. aeruginosa with long
O-antigen polysaccharides assembled in solution as vesicles or elongated micelles.
Solid-state NMR with magic-angle spinning permitted the identification of NMR
signals arising from regions with different flexibilities in the LPS, from the
lipid components to the O-antigen polysaccharides. Atomic scale data on the LPS
enabled the study of the interaction of gentamicin antibiotic bound to P. aeruginosa
LPS, for which we could confirm that a specific oligosaccharide is involved in
the antibiotic binding. The possibility to study LPS alone and bound to a ligand
when it is assembled in membrane-like structures opens great prospects for the
investigation of proteins and antibiotics that specifically target such an important
molecule at the surface of Gram-negative bacteria.
article_processing_charge: No
article_type: original
author:
- first_name: Cedric
full_name: Laguri, Cedric
last_name: Laguri
- first_name: Alba
full_name: Silipo, Alba
last_name: Silipo
- first_name: Alessandra M.
full_name: Martorana, Alessandra M.
last_name: Martorana
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Roberta
full_name: Marchetti, Roberta
last_name: Marchetti
- first_name: Alessandra
full_name: Polissi, Alessandra
last_name: Polissi
- first_name: Antonio
full_name: Molinaro, Antonio
last_name: Molinaro
- first_name: Jean-Pierre
full_name: Simorre, Jean-Pierre
last_name: Simorre
citation:
ama: Laguri C, Silipo A, Martorana AM, et al. Solid state NMR studies of intact
lipopolysaccharide endotoxin. ACS Chemical Biology. 2018;13(8):2106-2113.
doi:10.1021/acschembio.8b00271
apa: Laguri, C., Silipo, A., Martorana, A. M., Schanda, P., Marchetti, R., Polissi,
A., … Simorre, J.-P. (2018). Solid state NMR studies of intact lipopolysaccharide
endotoxin. ACS Chemical Biology. American Chemical Society. https://doi.org/10.1021/acschembio.8b00271
chicago: Laguri, Cedric, Alba Silipo, Alessandra M. Martorana, Paul Schanda, Roberta
Marchetti, Alessandra Polissi, Antonio Molinaro, and Jean-Pierre Simorre. “Solid
State NMR Studies of Intact Lipopolysaccharide Endotoxin.” ACS Chemical Biology.
American Chemical Society, 2018. https://doi.org/10.1021/acschembio.8b00271.
ieee: C. Laguri et al., “Solid state NMR studies of intact lipopolysaccharide
endotoxin,” ACS Chemical Biology, vol. 13, no. 8. American Chemical Society,
pp. 2106–2113, 2018.
ista: Laguri C, Silipo A, Martorana AM, Schanda P, Marchetti R, Polissi A, Molinaro
A, Simorre J-P. 2018. Solid state NMR studies of intact lipopolysaccharide endotoxin.
ACS Chemical Biology. 13(8), 2106–2113.
mla: Laguri, Cedric, et al. “Solid State NMR Studies of Intact Lipopolysaccharide
Endotoxin.” ACS Chemical Biology, vol. 13, no. 8, American Chemical Society,
2018, pp. 2106–13, doi:10.1021/acschembio.8b00271.
short: C. Laguri, A. Silipo, A.M. Martorana, P. Schanda, R. Marchetti, A. Polissi,
A. Molinaro, J.-P. Simorre, ACS Chemical Biology 13 (2018) 2106–2113.
date_created: 2020-09-18T10:05:09Z
date_published: 2018-07-02T00:00:00Z
date_updated: 2021-01-12T08:19:16Z
day: '02'
doi: 10.1021/acschembio.8b00271
extern: '1'
intvolume: ' 13'
issue: '8'
keyword:
- Molecular Medicine
- Biochemistry
- General Medicine
language:
- iso: eng
month: '07'
oa_version: None
page: 2106-2113
publication: ACS Chemical Biology
publication_identifier:
issn:
- 1554-8929
- 1554-8937
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: Solid state NMR studies of intact lipopolysaccharide endotoxin
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2018'
...
---
_id: '8547'
abstract:
- lang: eng
text: The cerebral cortex contains multiple hierarchically organized areas with
distinctive cytoarchitectonical patterns, but the cellular mechanisms underlying
the emergence of this diversity remain unclear. Here, we have quantitatively investigated
the neuronal output of individual progenitor cells in the ventricular zone of
the developing mouse neocortex using a combination of methods that together circumvent
the biases and limitations of individual approaches. We found that individual
cortical progenitor cells show a high degree of stochasticity and generate pyramidal
cell lineages that adopt a wide range of laminar configurations. Mathematical
modelling these lineage data suggests that a small number of progenitor cell populations,
each generating pyramidal cells following different stochastic developmental programs,
suffice to generate the heterogenous complement of pyramidal cell lineages that
collectively build the complex cytoarchitecture of the neocortex.
acknowledgement: We thank I. Andrew and S.E. Bae for excellent technical assistance,
F. Gage for plasmids, and K. Nave (Nex-Cre) for mouse colonies. We thank members
of the Marín and Rico laboratories for stimulating discussions and ideas. Our research
on this topic is supported by grants from the European Research Council (ERC-2017-AdG
787355 to O.M and ERC2016-CoG 725780 to S.H.) and Wellcome Trust (103714MA) to O.M.
L.L. was the recipient of an EMBO long-term postdoctoral fellowship, R.B. received
support from FWF Lise-Meitner program (M 2416) and F.K.W. was supported by an EMBO
postdoctoral fellowship and is currently a Marie Skłodowska-Curie Fellow from the
European Commission under the H2020 Programme.
article_processing_charge: No
author:
- first_name: Alfredo
full_name: Llorca, Alfredo
last_name: Llorca
- first_name: Gabriele
full_name: Ciceri, Gabriele
last_name: Ciceri
- first_name: Robert J
full_name: Beattie, Robert J
id: 2E26DF60-F248-11E8-B48F-1D18A9856A87
last_name: Beattie
orcid: 0000-0002-8483-8753
- first_name: Fong K.
full_name: Wong, Fong K.
last_name: Wong
- first_name: Giovanni
full_name: Diana, Giovanni
last_name: Diana
- first_name: Eleni
full_name: Serafeimidou, Eleni
last_name: Serafeimidou
- first_name: Marian
full_name: Fernández-Otero, Marian
last_name: Fernández-Otero
- first_name: Carmen
full_name: Streicher, Carmen
id: 36BCB99C-F248-11E8-B48F-1D18A9856A87
last_name: Streicher
- first_name: Sebastian J.
full_name: Arnold, Sebastian J.
last_name: Arnold
- first_name: Martin
full_name: Meyer, Martin
last_name: Meyer
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Miguel
full_name: Maravall, Miguel
last_name: Maravall
- first_name: Oscar
full_name: Marín, Oscar
last_name: Marín
citation:
ama: Llorca A, Ciceri G, Beattie RJ, et al. Heterogeneous progenitor cell behaviors
underlie the assembly of neocortical cytoarchitecture. bioRxiv. doi:10.1101/494088
apa: Llorca, A., Ciceri, G., Beattie, R. J., Wong, F. K., Diana, G., Serafeimidou,
E., … Marín, O. (n.d.). Heterogeneous progenitor cell behaviors underlie the assembly
of neocortical cytoarchitecture. bioRxiv. Cold Spring Harbor Laboratory.
https://doi.org/10.1101/494088
chicago: Llorca, Alfredo, Gabriele Ciceri, Robert J Beattie, Fong K. Wong, Giovanni
Diana, Eleni Serafeimidou, Marian Fernández-Otero, et al. “Heterogeneous Progenitor
Cell Behaviors Underlie the Assembly of Neocortical Cytoarchitecture.” BioRxiv.
Cold Spring Harbor Laboratory, n.d. https://doi.org/10.1101/494088.
ieee: A. Llorca et al., “Heterogeneous progenitor cell behaviors underlie
the assembly of neocortical cytoarchitecture,” bioRxiv. Cold Spring Harbor
Laboratory.
ista: Llorca A, Ciceri G, Beattie RJ, Wong FK, Diana G, Serafeimidou E, Fernández-Otero
M, Streicher C, Arnold SJ, Meyer M, Hippenmeyer S, Maravall M, Marín O. Heterogeneous
progenitor cell behaviors underlie the assembly of neocortical cytoarchitecture.
bioRxiv, 10.1101/494088.
mla: Llorca, Alfredo, et al. “Heterogeneous Progenitor Cell Behaviors Underlie the
Assembly of Neocortical Cytoarchitecture.” BioRxiv, Cold Spring Harbor
Laboratory, doi:10.1101/494088.
short: A. Llorca, G. Ciceri, R.J. Beattie, F.K. Wong, G. Diana, E. Serafeimidou,
M. Fernández-Otero, C. Streicher, S.J. Arnold, M. Meyer, S. Hippenmeyer, M. Maravall,
O. Marín, BioRxiv (n.d.).
date_created: 2020-09-21T12:01:50Z
date_published: 2018-12-13T00:00:00Z
date_updated: 2021-01-12T08:20:00Z
day: '13'
department:
- _id: SiHi
doi: 10.1101/494088
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/494088
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
- _id: 264E56E2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02416
name: Molecular Mechanisms Regulating Gliogenesis in the Cerebral Cortex
publication: bioRxiv
publication_status: submitted
publisher: Cold Spring Harbor Laboratory
status: public
title: Heterogeneous progenitor cell behaviors underlie the assembly of neocortical
cytoarchitecture
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '86'
abstract:
- lang: eng
text: Responsiveness—the requirement that every request to a system be eventually
handled—is one of the fundamental liveness properties of a reactive system. Average
response time is a quantitative measure for the responsiveness requirement used
commonly in performance evaluation. We show how average response time can be computed
on state-transition graphs, on Markov chains, and on game graphs. In all three
cases, we give polynomial-time algorithms.
acknowledgement: 'This research was supported in part by the Austrian Science Fund
(FWF) under grants S11402-N23, S11407-N23 (RiSE/SHiNE) and Z211-N23 (Wittgenstein
Award), ERC Start grant (279307: Graph Games), Vienna Science and Technology Fund
(WWTF) through project ICT15-003 and by the National Science Centre (NCN), Poland
under grant 2014/15/D/ST6/04543.'
alternative_title:
- LNCS
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Jan
full_name: Otop, Jan
id: 2FC5DA74-F248-11E8-B48F-1D18A9856A87
last_name: Otop
citation:
ama: 'Chatterjee K, Henzinger TA, Otop J. Computing average response time. In: Lohstroh
M, Derler P, Sirjani M, eds. Principles of Modeling. Vol 10760. Springer;
2018:143-161. doi:10.1007/978-3-319-95246-8_9'
apa: Chatterjee, K., Henzinger, T. A., & Otop, J. (2018). Computing average
response time. In M. Lohstroh, P. Derler, & M. Sirjani (Eds.), Principles
of Modeling (Vol. 10760, pp. 143–161). Springer. https://doi.org/10.1007/978-3-319-95246-8_9
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Computing Average
Response Time.” In Principles of Modeling, edited by Marten Lohstroh, Patricia
Derler, and Marjan Sirjani, 10760:143–61. Springer, 2018. https://doi.org/10.1007/978-3-319-95246-8_9.
ieee: K. Chatterjee, T. A. Henzinger, and J. Otop, “Computing average response time,”
in Principles of Modeling, vol. 10760, M. Lohstroh, P. Derler, and M. Sirjani,
Eds. Springer, 2018, pp. 143–161.
ista: 'Chatterjee K, Henzinger TA, Otop J. 2018.Computing average response time.
In: Principles of Modeling. LNCS, vol. 10760, 143–161.'
mla: Chatterjee, Krishnendu, et al. “Computing Average Response Time.” Principles
of Modeling, edited by Marten Lohstroh et al., vol. 10760, Springer, 2018,
pp. 143–61, doi:10.1007/978-3-319-95246-8_9.
short: K. Chatterjee, T.A. Henzinger, J. Otop, in:, M. Lohstroh, P. Derler, M. Sirjani
(Eds.), Principles of Modeling, Springer, 2018, pp. 143–161.
date_created: 2018-12-11T11:44:33Z
date_published: 2018-07-20T00:00:00Z
date_updated: 2021-01-12T08:20:14Z
day: '20'
ddc:
- '000'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1007/978-3-319-95246-8_9
ec_funded: 1
editor:
- first_name: Marten
full_name: Lohstroh, Marten
last_name: Lohstroh
- first_name: Patricia
full_name: Derler, Patricia
last_name: Derler
- first_name: Marjan
full_name: Sirjani, Marjan
last_name: Sirjani
file:
- access_level: open_access
checksum: 9995c6ce6957333baf616fc4f20be597
content_type: application/pdf
creator: dernst
date_created: 2019-11-19T08:22:18Z
date_updated: 2020-07-14T12:48:14Z
file_id: '7053'
file_name: 2018_PrinciplesModeling_Chatterjee.pdf
file_size: 516307
relation: main_file
file_date_updated: 2020-07-14T12:48:14Z
has_accepted_license: '1'
intvolume: ' 10760'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 143 - 161
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
publication: Principles of Modeling
publication_status: published
publisher: Springer
publist_id: '7968'
quality_controlled: '1'
scopus_import: 1
status: public
title: Computing average response time
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10760
year: '2018'
...
---
_id: '9062'
abstract:
- lang: eng
text: 'Self-assembly is the autonomous organization of components into patterns
or structures: an essential ingredient of biology and a desired route to complex
organization1. At equilibrium, the structure is encoded through specific interactions2,3,4,5,6,7,8,
at an unfavourable entropic cost for the system. An alternative approach, widely
used by nature, uses energy input to bypass the entropy bottleneck and develop
features otherwise impossible at equilibrium9. Dissipative building blocks that
inject energy locally were made available by recent advances in colloidal science10,11
but have not been used to control self-assembly. Here we show the targeted formation
of self-powered microgears from active particles and their autonomous synchronization
into dynamical superstructures. We use a photoactive component that consumes fuel,
haematite, to devise phototactic microswimmers that form self-spinning microgears
following spatiotemporal light patterns. The gears are coupled via their chemical
clouds by diffusiophoresis12 and constitute the elementary bricks of synchronized
superstructures, which autonomously regulate their dynamics. The results are quantitatively
rationalized on the basis of a stochastic description of diffusio-phoretic oscillators
dynamically coupled by chemical gradients. Our findings harness non-equilibrium
phoretic phenomena to program interactions and direct self-assembly with fidelity
and specificity. It lays the groundwork for the autonomous construction of dynamical
architectures and functional micro-machinery.'
article_processing_charge: No
article_type: original
author:
- first_name: Antoine
full_name: Aubret, Antoine
last_name: Aubret
- first_name: Mena
full_name: Youssef, Mena
last_name: Youssef
- first_name: Stefano
full_name: Sacanna, Stefano
last_name: Sacanna
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Aubret A, Youssef M, Sacanna S, Palacci JA. Targeted assembly and synchronization
of self-spinning microgears. Nature Physics. 2018;14(11):1114-1118. doi:10.1038/s41567-018-0227-4
apa: Aubret, A., Youssef, M., Sacanna, S., & Palacci, J. A. (2018). Targeted
assembly and synchronization of self-spinning microgears. Nature Physics.
Springer Nature. https://doi.org/10.1038/s41567-018-0227-4
chicago: Aubret, Antoine, Mena Youssef, Stefano Sacanna, and Jérémie A Palacci.
“Targeted Assembly and Synchronization of Self-Spinning Microgears.” Nature
Physics. Springer Nature, 2018. https://doi.org/10.1038/s41567-018-0227-4.
ieee: A. Aubret, M. Youssef, S. Sacanna, and J. A. Palacci, “Targeted assembly and
synchronization of self-spinning microgears,” Nature Physics, vol. 14,
no. 11. Springer Nature, pp. 1114–1118, 2018.
ista: Aubret A, Youssef M, Sacanna S, Palacci JA. 2018. Targeted assembly and synchronization
of self-spinning microgears. Nature Physics. 14(11), 1114–1118.
mla: Aubret, Antoine, et al. “Targeted Assembly and Synchronization of Self-Spinning
Microgears.” Nature Physics, vol. 14, no. 11, Springer Nature, 2018, pp.
1114–18, doi:10.1038/s41567-018-0227-4.
short: A. Aubret, M. Youssef, S. Sacanna, J.A. Palacci, Nature Physics 14 (2018)
1114–1118.
date_created: 2021-02-02T13:52:49Z
date_published: 2018-11-01T00:00:00Z
date_updated: 2023-02-23T13:48:02Z
day: '01'
doi: 10.1038/s41567-018-0227-4
extern: '1'
external_id:
arxiv:
- '1810.01033'
intvolume: ' 14'
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1810.01033
month: '11'
oa: 1
oa_version: Preprint
page: 1114-1118
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Targeted assembly and synchronization of self-spinning microgears
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 14
year: '2018'
...
---
_id: '9229'
alternative_title:
- Molecular and cellular neuroscience
article_processing_charge: No
article_type: letter_note
author:
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Danzl JG. Diffraction-unlimited optical imaging for synaptic physiology. Opera
Medica et Physiologica. 2018;4(S1):11. doi:10.20388/omp2018.00s1.001
apa: Danzl, J. G. (2018). Diffraction-unlimited optical imaging for synaptic physiology.
Opera Medica et Physiologica. Lobachevsky State University of Nizhny Novgorod.
https://doi.org/10.20388/omp2018.00s1.001
chicago: Danzl, Johann G. “Diffraction-Unlimited Optical Imaging for Synaptic Physiology.”
Opera Medica et Physiologica. Lobachevsky State University of Nizhny Novgorod,
2018. https://doi.org/10.20388/omp2018.00s1.001.
ieee: J. G. Danzl, “Diffraction-unlimited optical imaging for synaptic physiology,”
Opera Medica et Physiologica, vol. 4, no. S1. Lobachevsky State University
of Nizhny Novgorod, p. 11, 2018.
ista: Danzl JG. 2018. Diffraction-unlimited optical imaging for synaptic physiology.
Opera Medica et Physiologica. 4(S1), 11.
mla: Danzl, Johann G. “Diffraction-Unlimited Optical Imaging for Synaptic Physiology.”
Opera Medica et Physiologica, vol. 4, no. S1, Lobachevsky State University
of Nizhny Novgorod, 2018, p. 11, doi:10.20388/omp2018.00s1.001.
short: J.G. Danzl, Opera Medica et Physiologica 4 (2018) 11.
date_created: 2021-03-07T23:01:25Z
date_published: 2018-06-30T00:00:00Z
date_updated: 2021-12-03T07:31:05Z
day: '30'
department:
- _id: JoDa
doi: 10.20388/omp2018.00s1.001
intvolume: ' 4'
issue: S1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://operamedphys.org/content/molecular-and-cellular-neuroscience
month: '06'
oa: 1
oa_version: Published Version
page: '11'
publication: Opera Medica et Physiologica
publication_identifier:
eissn:
- 2500-2295
issn:
- 2500-2287
publication_status: published
publisher: Lobachevsky State University of Nizhny Novgorod
quality_controlled: '1'
scopus_import: '1'
status: public
title: Diffraction-unlimited optical imaging for synaptic physiology
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 4
year: '2018'
...
---
_id: '6005'
abstract:
- lang: eng
text: Network games are widely used as a model for selfish resource-allocation problems.
In the classicalmodel, each player selects a path connecting her source and target
vertices. The cost of traversingan edge depends on theload; namely, number of
players that traverse it. Thus, it abstracts the factthat different users may
use a resource at different times and for different durations, which playsan important
role in determining the costs of the users in reality. For example, when transmittingpackets
in a communication network, routing traffic in a road network, or processing a
task in aproduction system, actual sharing and congestion of resources crucially
depends on time.In [13], we introducedtimed network games, which add a time component
to network games.Each vertexvin the network is associated with a cost function,
mapping the load onvto theprice that a player pays for staying invfor one time
unit with this load. Each edge in thenetwork is guarded by the time intervals
in which it can be traversed, which forces the players tospend time in the vertices.
In this work we significantly extend the way time can be referred toin timed network
games. In the model we study, the network is equipped withclocks, and, as intimed
automata, edges are guarded by constraints on the values of the clocks, and their
traversalmay involve a reset of some clocks. We argue that the stronger model
captures many realisticnetworks. The addition of clocks breaks the techniques
we developed in [13] and we developnew techniques in order to show that positive
results on classic network games carry over to thestronger timed setting.
alternative_title:
- LIPIcs
article_number: '23'
article_processing_charge: No
author:
- first_name: Guy
full_name: Avni, Guy
id: 463C8BC2-F248-11E8-B48F-1D18A9856A87
last_name: Avni
orcid: 0000-0001-5588-8287
- first_name: Shibashis
full_name: Guha, Shibashis
last_name: Guha
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
citation:
ama: 'Avni G, Guha S, Kupferman O. Timed network games with clocks. In: Vol 117.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:10.4230/LIPICS.MFCS.2018.23'
apa: 'Avni, G., Guha, S., & Kupferman, O. (2018). Timed network games with clocks
(Vol. 117). Presented at the MFCS: Mathematical Foundations of Computer Science,
Liverpool, United Kingdom: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPICS.MFCS.2018.23'
chicago: Avni, Guy, Shibashis Guha, and Orna Kupferman. “Timed Network Games with
Clocks,” Vol. 117. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPICS.MFCS.2018.23.
ieee: 'G. Avni, S. Guha, and O. Kupferman, “Timed network games with clocks,” presented
at the MFCS: Mathematical Foundations of Computer Science, Liverpool, United Kingdom,
2018, vol. 117.'
ista: 'Avni G, Guha S, Kupferman O. 2018. Timed network games with clocks. MFCS:
Mathematical Foundations of Computer Science, LIPIcs, vol. 117, 23.'
mla: Avni, Guy, et al. Timed Network Games with Clocks. Vol. 117, 23, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2018, doi:10.4230/LIPICS.MFCS.2018.23.
short: G. Avni, S. Guha, O. Kupferman, in:, Schloss Dagstuhl - Leibniz-Zentrum für
Informatik, 2018.
conference:
end_date: 2018-08-31
location: Liverpool, United Kingdom
name: 'MFCS: Mathematical Foundations of Computer Science'
start_date: 2018-08-27
date_created: 2019-02-14T14:12:09Z
date_published: 2018-08-01T00:00:00Z
date_updated: 2023-02-23T14:02:58Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.4230/LIPICS.MFCS.2018.23
file:
- access_level: open_access
checksum: 41ab2ae9b63f5eb49fa995250c0ba128
content_type: application/pdf
creator: dernst
date_created: 2019-02-14T14:22:04Z
date_updated: 2020-07-14T12:47:15Z
file_id: '6007'
file_name: 2018_LIPIcs_Avni.pdf
file_size: 542889
relation: main_file
file_date_updated: 2020-07-14T12:47:15Z
has_accepted_license: '1'
intvolume: ' 117'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 264B3912-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02369
name: Formal Methods meets Algorithmic Game Theory
publication_identifier:
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
related_material:
record:
- id: '963'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Timed network games with clocks
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 117
year: '2018'
...
---
_id: '9668'
abstract:
- lang: eng
text: Estimating the homogeneous ice nucleation rate from undercooled liquid water
is crucial for understanding many important physical phenomena and technological
applications, and challenging for both experiments and theory. From a theoretical
point of view, difficulties arise due to the long time scales required, as well
as the numerous nucleation pathways involved to form ice nuclei with different
stacking disorders. We computed the homogeneous ice nucleation rate at a physically
relevant undercooling for a single-site water model, taking into account the diffuse
nature of ice–water interfaces, stacking disorders in ice nuclei, and the addition
rate of particles to the critical nucleus. We disentangled and investigated the
relative importance of all the terms, including interfacial free energy, entropic
contributions and the kinetic prefactor, that contribute to the overall nucleation
rate. Breaking down the problem into pieces not only provides physical insights
into ice nucleation, but also sheds light on the long-standing discrepancy between
different theoretical predictions, as well as between theoretical and experimental
determinations of the nucleation rate. Moreover, we pinpoint the main shortcomings
and suggest strategies to systematically improve the existing simulation methods.
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Christoph
full_name: Dellago, Christoph
last_name: Dellago
- first_name: Michele
full_name: Ceriotti, Michele
last_name: Ceriotti
citation:
ama: 'Cheng B, Dellago C, Ceriotti M. Theoretical prediction of the homogeneous
ice nucleation rate: Disentangling thermodynamics and kinetics. Physical Chemistry
Chemical Physics. 2018;20(45):28732-28740. doi:10.1039/c8cp04561e'
apa: 'Cheng, B., Dellago, C., & Ceriotti, M. (2018). Theoretical prediction
of the homogeneous ice nucleation rate: Disentangling thermodynamics and kinetics.
Physical Chemistry Chemical Physics. Royal Society of Chemistry. https://doi.org/10.1039/c8cp04561e'
chicago: 'Cheng, Bingqing, Christoph Dellago, and Michele Ceriotti. “Theoretical
Prediction of the Homogeneous Ice Nucleation Rate: Disentangling Thermodynamics
and Kinetics.” Physical Chemistry Chemical Physics. Royal Society of Chemistry,
2018. https://doi.org/10.1039/c8cp04561e.'
ieee: 'B. Cheng, C. Dellago, and M. Ceriotti, “Theoretical prediction of the homogeneous
ice nucleation rate: Disentangling thermodynamics and kinetics,” Physical Chemistry
Chemical Physics, vol. 20, no. 45. Royal Society of Chemistry, pp. 28732–28740,
2018.'
ista: 'Cheng B, Dellago C, Ceriotti M. 2018. Theoretical prediction of the homogeneous
ice nucleation rate: Disentangling thermodynamics and kinetics. Physical Chemistry
Chemical Physics. 20(45), 28732–28740.'
mla: 'Cheng, Bingqing, et al. “Theoretical Prediction of the Homogeneous Ice Nucleation
Rate: Disentangling Thermodynamics and Kinetics.” Physical Chemistry Chemical
Physics, vol. 20, no. 45, Royal Society of Chemistry, 2018, pp. 28732–40,
doi:10.1039/c8cp04561e.'
short: B. Cheng, C. Dellago, M. Ceriotti, Physical Chemistry Chemical Physics 20
(2018) 28732–28740.
date_created: 2021-07-15T12:51:44Z
date_published: 2018-12-07T00:00:00Z
date_updated: 2021-08-09T12:36:47Z
day: '07'
doi: 10.1039/c8cp04561e
extern: '1'
external_id:
arxiv:
- '1807.05551'
pmid:
- '30412211'
intvolume: ' 20'
issue: '45'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1807.05551
month: '12'
oa: 1
oa_version: Preprint
page: 28732-28740
pmid: 1
publication: Physical Chemistry Chemical Physics
publication_identifier:
eissn:
- 1463-9084
issn:
- 1463-9076
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Theoretical prediction of the homogeneous ice nucleation rate: Disentangling
thermodynamics and kinetics'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 20
year: '2018'
...
---
_id: '9687'
abstract:
- lang: eng
text: The Gibbs free energy is the fundamental thermodynamic potential underlying
the relative stability of different states of matter under constant-pressure conditions.
However, computing this quantity from atomic-scale simulations is far from trivial,
so the potential energy of a system is often used as a proxy. In this paper, we
use a combination of thermodynamic integration methods to accurately evaluate
the Gibbs free energies associated with defects in crystals, including the vacancy
formation energy in bcc iron, and the stacking fault energy in fcc nickel, iron,
and cobalt. We quantify the importance of entropic and anharmonic effects in determining
the free energies of defects at high temperatures, and show that the potential
energy approximation as well as the harmonic approximation may produce inaccurate
or even qualitatively wrong results. Our calculations manifest the necessity to
employ accurate free energy methods such as thermodynamic integration to estimate
the stability of crystallographic defects at high temperatures.
article_number: '054102'
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Michele
full_name: Ceriotti, Michele
last_name: Ceriotti
citation:
ama: 'Cheng B, Ceriotti M. Computing the absolute Gibbs free energy in atomistic
simulations: Applications to defects in solids. Physical Review B. 2018;97(5).
doi:10.1103/physrevb.97.054102'
apa: 'Cheng, B., & Ceriotti, M. (2018). Computing the absolute Gibbs free energy
in atomistic simulations: Applications to defects in solids. Physical Review
B. American Physical Society. https://doi.org/10.1103/physrevb.97.054102'
chicago: 'Cheng, Bingqing, and Michele Ceriotti. “Computing the Absolute Gibbs Free
Energy in Atomistic Simulations: Applications to Defects in Solids.” Physical
Review B. American Physical Society, 2018. https://doi.org/10.1103/physrevb.97.054102.'
ieee: 'B. Cheng and M. Ceriotti, “Computing the absolute Gibbs free energy in atomistic
simulations: Applications to defects in solids,” Physical Review B, vol.
97, no. 5. American Physical Society, 2018.'
ista: 'Cheng B, Ceriotti M. 2018. Computing the absolute Gibbs free energy in atomistic
simulations: Applications to defects in solids. Physical Review B. 97(5), 054102.'
mla: 'Cheng, Bingqing, and Michele Ceriotti. “Computing the Absolute Gibbs Free
Energy in Atomistic Simulations: Applications to Defects in Solids.” Physical
Review B, vol. 97, no. 5, 054102, American Physical Society, 2018, doi:10.1103/physrevb.97.054102.'
short: B. Cheng, M. Ceriotti, Physical Review B 97 (2018).
date_created: 2021-07-19T09:39:48Z
date_published: 2018-02-01T00:00:00Z
date_updated: 2021-08-09T12:38:26Z
day: '01'
doi: 10.1103/physrevb.97.054102
extern: '1'
external_id:
arxiv:
- '1710.02815'
intvolume: ' 97'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1710.02815
month: '02'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Computing the absolute Gibbs free energy in atomistic simulations: Applications
to defects in solids'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 97
year: '2018'
...
---
_id: '315'
abstract:
- lang: eng
text: 'More than 100 years after Grigg’s influential analysis of species’ borders,
the causes of limits to species’ ranges still represent a puzzle that has never
been understood with clarity. The topic has become especially important recently
as many scientists have become interested in the potential for species’ ranges
to shift in response to climate change—and yet nearly all of those studies fail
to recognise or incorporate evolutionary genetics in a way that relates to theoretical
developments. I show that range margins can be understood based on just two measurable
parameters: (i) the fitness cost of dispersal—a measure of environmental heterogeneity—and
(ii) the strength of genetic drift, which reduces genetic diversity. Together,
these two parameters define an ‘expansion threshold’: adaptation fails when genetic
drift reduces genetic diversity below that required for adaptation to a heterogeneous
environment. When the key parameters drop below this expansion threshold locally,
a sharp range margin forms. When they drop below this threshold throughout the
species’ range, adaptation collapses everywhere, resulting in either extinction
or formation of a fragmented metapopulation. Because the effects of dispersal
differ fundamentally with dimension, the second parameter—the strength of genetic
drift—is qualitatively different compared to a linear habitat. In two-dimensional
habitats, genetic drift becomes effectively independent of selection. It decreases
with ‘neighbourhood size’—the number of individuals accessible by dispersal within
one generation. Moreover, in contrast to earlier predictions, which neglected
evolution of genetic variance and/or stochasticity in two dimensions, dispersal
into small marginal populations aids adaptation. This is because the reduction
of both genetic and demographic stochasticity has a stronger effect than the cost
of dispersal through increased maladaptation. The expansion threshold thus provides
a novel, theoretically justified, and testable prediction for formation of the
range margin and collapse of the species’ range.'
article_number: e2005372
author:
- first_name: Jitka
full_name: Polechova, Jitka
id: 3BBFB084-F248-11E8-B48F-1D18A9856A87
last_name: Polechova
orcid: 0000-0003-0951-3112
citation:
ama: Polechova J. Is the sky the limit? On the expansion threshold of a species’
range. PLoS Biology. 2018;16(6). doi:10.1371/journal.pbio.2005372
apa: Polechova, J. (2018). Is the sky the limit? On the expansion threshold of a
species’ range. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.2005372
chicago: Polechova, Jitka. “Is the Sky the Limit? On the Expansion Threshold of
a Species’ Range.” PLoS Biology. Public Library of Science, 2018. https://doi.org/10.1371/journal.pbio.2005372.
ieee: J. Polechova, “Is the sky the limit? On the expansion threshold of a species’
range,” PLoS Biology, vol. 16, no. 6. Public Library of Science, 2018.
ista: Polechova J. 2018. Is the sky the limit? On the expansion threshold of a species’
range. PLoS Biology. 16(6), e2005372.
mla: Polechova, Jitka. “Is the Sky the Limit? On the Expansion Threshold of a Species’
Range.” PLoS Biology, vol. 16, no. 6, e2005372, Public Library of Science,
2018, doi:10.1371/journal.pbio.2005372.
short: J. Polechova, PLoS Biology 16 (2018).
date_created: 2018-12-11T11:45:46Z
date_published: 2018-06-15T00:00:00Z
date_updated: 2023-02-23T14:10:16Z
day: '15'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1371/journal.pbio.2005372
file:
- access_level: open_access
checksum: 908c52751bba30c55ed36789e5e4c84d
content_type: application/pdf
creator: dernst
date_created: 2019-01-22T08:30:03Z
date_updated: 2020-07-14T12:46:01Z
file_id: '5870'
file_name: 2017_PLOS_Polechova.pdf
file_size: 6968201
relation: main_file
file_date_updated: 2020-07-14T12:46:01Z
has_accepted_license: '1'
intvolume: ' 16'
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_identifier:
issn:
- '15449173'
publication_status: published
publisher: Public Library of Science
publist_id: '7550'
quality_controlled: '1'
related_material:
record:
- id: '9839'
relation: research_data
status: public
scopus_import: 1
status: public
title: Is the sky the limit? On the expansion threshold of a species’ range
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2018'
...
---
_id: '8417'
abstract:
- lang: eng
text: The restricted planar elliptic three body problem (RPETBP) describes the motion
of a massless particle (a comet or an asteroid) under the gravitational field
of two massive bodies (the primaries, say the Sun and Jupiter) revolving around
their center of mass on elliptic orbits with some positive eccentricity. The aim
of this paper is to show the existence of orbits whose angular momentum performs
arbitrary excursions in a large region. In particular, there exist diffusive orbits,
that is, with a large variation of angular momentum. The leading idea of the proof
consists in analyzing parabolic motions of the comet. By a well-known result of
McGehee, the union of future (resp. past) parabolic orbits is an analytic manifold
P+ (resp. P−). In a properly chosen coordinate system these manifolds are stable
(resp. unstable) manifolds of a manifold at infinity P∞, which we call the manifold
at parabolic infinity. On P∞ it is possible to define two scattering maps, which
contain the map structure of the homoclinic trajectories to it, i.e. orbits parabolic
both in the future and the past. Since the inner dynamics inside P∞ is trivial,
two different scattering maps are used. The combination of these two scattering
maps permits the design of the desired diffusive pseudo-orbits. Using shadowing
techniques and these pseudo orbits we show the existence of true trajectories
of the RPETBP whose angular momentum varies in any predetermined fashion.
article_processing_charge: No
article_type: original
author:
- first_name: Amadeu
full_name: Delshams, Amadeu
last_name: Delshams
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Abraham
full_name: de la Rosa, Abraham
last_name: de la Rosa
- first_name: Tere M.
full_name: Seara, Tere M.
last_name: Seara
citation:
ama: Delshams A, Kaloshin V, de la Rosa A, Seara TM. Global instability in the restricted
planar elliptic three body problem. Communications in Mathematical Physics.
2018;366(3):1173-1228. doi:10.1007/s00220-018-3248-z
apa: Delshams, A., Kaloshin, V., de la Rosa, A., & Seara, T. M. (2018). Global
instability in the restricted planar elliptic three body problem. Communications
in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s00220-018-3248-z
chicago: Delshams, Amadeu, Vadim Kaloshin, Abraham de la Rosa, and Tere M. Seara.
“Global Instability in the Restricted Planar Elliptic Three Body Problem.” Communications
in Mathematical Physics. Springer Nature, 2018. https://doi.org/10.1007/s00220-018-3248-z.
ieee: A. Delshams, V. Kaloshin, A. de la Rosa, and T. M. Seara, “Global instability
in the restricted planar elliptic three body problem,” Communications in Mathematical
Physics, vol. 366, no. 3. Springer Nature, pp. 1173–1228, 2018.
ista: Delshams A, Kaloshin V, de la Rosa A, Seara TM. 2018. Global instability in
the restricted planar elliptic three body problem. Communications in Mathematical
Physics. 366(3), 1173–1228.
mla: Delshams, Amadeu, et al. “Global Instability in the Restricted Planar Elliptic
Three Body Problem.” Communications in Mathematical Physics, vol. 366,
no. 3, Springer Nature, 2018, pp. 1173–228, doi:10.1007/s00220-018-3248-z.
short: A. Delshams, V. Kaloshin, A. de la Rosa, T.M. Seara, Communications in Mathematical
Physics 366 (2018) 1173–1228.
date_created: 2020-09-17T10:41:43Z
date_published: 2018-09-05T00:00:00Z
date_updated: 2021-01-12T08:19:08Z
day: '05'
doi: 10.1007/s00220-018-3248-z
extern: '1'
intvolume: ' 366'
issue: '3'
keyword:
- Mathematical Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
month: '09'
oa_version: None
page: 1173-1228
publication: Communications in Mathematical Physics
publication_identifier:
issn:
- 0010-3616
- 1432-0916
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Global instability in the restricted planar elliptic three body problem
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 366
year: '2018'
...
---
_id: '8422'
abstract:
- lang: eng
text: 'The Birkhoff conjecture says that the boundary of a strictly convex integrable
billiard table is necessarily an ellipse. In this article, we consider a stronger
notion of integrability, namely integrability close to the boundary, and prove
a local version of this conjecture: a small perturbation of an ellipse of small
eccentricity which preserves integrability near the boundary, is itself an ellipse.
This extends the result in Avila et al. (Ann Math 184:527–558, ADK16), where integrability
was assumed on a larger set. In particular, it shows that (local) integrability
near the boundary implies global integrability. One of the crucial ideas in the
proof consists in analyzing Taylor expansion of the corresponding action-angle
coordinates with respect to the eccentricity parameter, deriving and studying
higher order conditions for the preservation of integrable rational caustics.'
article_processing_charge: No
article_type: original
author:
- first_name: Guan
full_name: Huang, Guan
last_name: Huang
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Alfonso
full_name: Sorrentino, Alfonso
last_name: Sorrentino
citation:
ama: Huang G, Kaloshin V, Sorrentino A. Nearly circular domains which are integrable
close to the boundary are ellipses. Geometric and Functional Analysis.
2018;28(2):334-392. doi:10.1007/s00039-018-0440-4
apa: Huang, G., Kaloshin, V., & Sorrentino, A. (2018). Nearly circular domains
which are integrable close to the boundary are ellipses. Geometric and Functional
Analysis. Springer Nature. https://doi.org/10.1007/s00039-018-0440-4
chicago: Huang, Guan, Vadim Kaloshin, and Alfonso Sorrentino. “Nearly Circular Domains
Which Are Integrable Close to the Boundary Are Ellipses.” Geometric and Functional
Analysis. Springer Nature, 2018. https://doi.org/10.1007/s00039-018-0440-4.
ieee: G. Huang, V. Kaloshin, and A. Sorrentino, “Nearly circular domains which are
integrable close to the boundary are ellipses,” Geometric and Functional Analysis,
vol. 28, no. 2. Springer Nature, pp. 334–392, 2018.
ista: Huang G, Kaloshin V, Sorrentino A. 2018. Nearly circular domains which are
integrable close to the boundary are ellipses. Geometric and Functional Analysis.
28(2), 334–392.
mla: Huang, Guan, et al. “Nearly Circular Domains Which Are Integrable Close to
the Boundary Are Ellipses.” Geometric and Functional Analysis, vol. 28,
no. 2, Springer Nature, 2018, pp. 334–92, doi:10.1007/s00039-018-0440-4.
short: G. Huang, V. Kaloshin, A. Sorrentino, Geometric and Functional Analysis 28
(2018) 334–392.
date_created: 2020-09-17T10:42:30Z
date_published: 2018-03-18T00:00:00Z
date_updated: 2021-01-12T08:19:11Z
day: '18'
doi: 10.1007/s00039-018-0440-4
extern: '1'
external_id:
arxiv:
- '1705.10601'
intvolume: ' 28'
issue: '2'
keyword:
- Geometry and Topology
- Analysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1705.10601
month: '03'
oa: 1
oa_version: Preprint
page: 334-392
publication: Geometric and Functional Analysis
publication_identifier:
issn:
- 1016-443X
- 1420-8970
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Nearly circular domains which are integrable close to the boundary are ellipses
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 28
year: '2018'
...
---
_id: '8421'
abstract:
- lang: eng
text: 'The classical Birkhoff conjecture claims that the boundary of a strictly
convex integrable billiard table is necessarily an ellipse (or a circle as a special
case). In this article we prove a complete local version of this conjecture: a
small integrable perturbation of an ellipse must be an ellipse. This extends and
completes the result in Avila-De Simoi-Kaloshin, where nearly circular domains
were considered. One of the crucial ideas in the proof is to extend action-angle
coordinates for elliptic billiards into complex domains (with respect to the angle),
and to thoroughly analyze the nature of their complex singularities. As an application,
we are able to prove some spectral rigidity results for elliptic domains.'
article_processing_charge: No
article_type: original
author:
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Alfonso
full_name: Sorrentino, Alfonso
last_name: Sorrentino
citation:
ama: Kaloshin V, Sorrentino A. On the local Birkhoff conjecture for convex billiards.
Annals of Mathematics. 2018;188(1):315-380. doi:10.4007/annals.2018.188.1.6
apa: Kaloshin, V., & Sorrentino, A. (2018). On the local Birkhoff conjecture
for convex billiards. Annals of Mathematics. Annals of Mathematics, Princeton
U. https://doi.org/10.4007/annals.2018.188.1.6
chicago: Kaloshin, Vadim, and Alfonso Sorrentino. “On the Local Birkhoff Conjecture
for Convex Billiards.” Annals of Mathematics. Annals of Mathematics, Princeton
U, 2018. https://doi.org/10.4007/annals.2018.188.1.6.
ieee: V. Kaloshin and A. Sorrentino, “On the local Birkhoff conjecture for convex
billiards,” Annals of Mathematics, vol. 188, no. 1. Annals of Mathematics,
Princeton U, pp. 315–380, 2018.
ista: Kaloshin V, Sorrentino A. 2018. On the local Birkhoff conjecture for convex
billiards. Annals of Mathematics. 188(1), 315–380.
mla: Kaloshin, Vadim, and Alfonso Sorrentino. “On the Local Birkhoff Conjecture
for Convex Billiards.” Annals of Mathematics, vol. 188, no. 1, Annals of
Mathematics, Princeton U, 2018, pp. 315–80, doi:10.4007/annals.2018.188.1.6.
short: V. Kaloshin, A. Sorrentino, Annals of Mathematics 188 (2018) 315–380.
date_created: 2020-09-17T10:42:22Z
date_published: 2018-07-01T00:00:00Z
date_updated: 2021-01-12T08:19:10Z
day: '01'
doi: 10.4007/annals.2018.188.1.6
extern: '1'
external_id:
arxiv:
- '1612.09194'
intvolume: ' 188'
issue: '1'
keyword:
- Statistics
- Probability and Uncertainty
- Statistics and Probability
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1612.09194
month: '07'
oa: 1
oa_version: Preprint
page: 315-380
publication: Annals of Mathematics
publication_identifier:
issn:
- 0003-486X
publication_status: published
publisher: Annals of Mathematics, Princeton U
quality_controlled: '1'
status: public
title: On the local Birkhoff conjecture for convex billiards
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 188
year: '2018'
...
---
_id: '8419'
abstract:
- lang: eng
text: "In this survey, we provide a concise introduction to convex billiards and
describe some recent results, obtained by the authors and collaborators, on the
classification of integrable billiards, namely the so-called Birkhoff conjecture.\r\n\r\nThis
article is part of the theme issue ‘Finite dimensional integrable systems: new
trends and methods’."
article_number: '20170419'
article_processing_charge: No
article_type: original
author:
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Alfonso
full_name: Sorrentino, Alfonso
last_name: Sorrentino
citation:
ama: 'Kaloshin V, Sorrentino A. On the integrability of Birkhoff billiards. Philosophical
Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences.
2018;376(2131). doi:10.1098/rsta.2017.0419'
apa: 'Kaloshin, V., & Sorrentino, A. (2018). On the integrability of Birkhoff
billiards. Philosophical Transactions of the Royal Society A: Mathematical,
Physical and Engineering Sciences. The Royal Society. https://doi.org/10.1098/rsta.2017.0419'
chicago: 'Kaloshin, Vadim, and Alfonso Sorrentino. “On the Integrability of Birkhoff
Billiards.” Philosophical Transactions of the Royal Society A: Mathematical,
Physical and Engineering Sciences. The Royal Society, 2018. https://doi.org/10.1098/rsta.2017.0419.'
ieee: 'V. Kaloshin and A. Sorrentino, “On the integrability of Birkhoff billiards,”
Philosophical Transactions of the Royal Society A: Mathematical, Physical and
Engineering Sciences, vol. 376, no. 2131. The Royal Society, 2018.'
ista: 'Kaloshin V, Sorrentino A. 2018. On the integrability of Birkhoff billiards.
Philosophical Transactions of the Royal Society A: Mathematical, Physical and
Engineering Sciences. 376(2131), 20170419.'
mla: 'Kaloshin, Vadim, and Alfonso Sorrentino. “On the Integrability of Birkhoff
Billiards.” Philosophical Transactions of the Royal Society A: Mathematical,
Physical and Engineering Sciences, vol. 376, no. 2131, 20170419, The Royal
Society, 2018, doi:10.1098/rsta.2017.0419.'
short: 'V. Kaloshin, A. Sorrentino, Philosophical Transactions of the Royal Society
A: Mathematical, Physical and Engineering Sciences 376 (2018).'
date_created: 2020-09-17T10:42:01Z
date_published: 2018-10-28T00:00:00Z
date_updated: 2021-01-12T08:19:09Z
day: '28'
doi: 10.1098/rsta.2017.0419
extern: '1'
intvolume: ' 376'
issue: '2131'
keyword:
- General Engineering
- General Physics and Astronomy
- General Mathematics
language:
- iso: eng
month: '10'
oa_version: None
publication: 'Philosophical Transactions of the Royal Society A: Mathematical, Physical
and Engineering Sciences'
publication_identifier:
issn:
- 1364-503X
- 1471-2962
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
status: public
title: On the integrability of Birkhoff billiards
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 376
year: '2018'
...
---
_id: '8420'
abstract:
- lang: eng
text: We show that in the space of all convex billiard boundaries, the set of boundaries
with rational caustics is dense. More precisely, the set of billiard boundaries
with caustics of rotation number 1/q is polynomially sense in the smooth case,
and exponentially dense in the analytic case.
article_processing_charge: No
article_type: original
author:
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Ke
full_name: Zhang, Ke
last_name: Zhang
citation:
ama: Kaloshin V, Zhang K. Density of convex billiards with rational caustics. Nonlinearity.
2018;31(11):5214-5234. doi:10.1088/1361-6544/aadc12
apa: Kaloshin, V., & Zhang, K. (2018). Density of convex billiards with rational
caustics. Nonlinearity. IOP Publishing. https://doi.org/10.1088/1361-6544/aadc12
chicago: Kaloshin, Vadim, and Ke Zhang. “Density of Convex Billiards with Rational
Caustics.” Nonlinearity. IOP Publishing, 2018. https://doi.org/10.1088/1361-6544/aadc12.
ieee: V. Kaloshin and K. Zhang, “Density of convex billiards with rational caustics,”
Nonlinearity, vol. 31, no. 11. IOP Publishing, pp. 5214–5234, 2018.
ista: Kaloshin V, Zhang K. 2018. Density of convex billiards with rational caustics.
Nonlinearity. 31(11), 5214–5234.
mla: Kaloshin, Vadim, and Ke Zhang. “Density of Convex Billiards with Rational Caustics.”
Nonlinearity, vol. 31, no. 11, IOP Publishing, 2018, pp. 5214–34, doi:10.1088/1361-6544/aadc12.
short: V. Kaloshin, K. Zhang, Nonlinearity 31 (2018) 5214–5234.
date_created: 2020-09-17T10:42:09Z
date_published: 2018-10-15T00:00:00Z
date_updated: 2021-01-12T08:19:10Z
day: '15'
doi: 10.1088/1361-6544/aadc12
extern: '1'
external_id:
arxiv:
- '1706.07968'
intvolume: ' 31'
issue: '11'
keyword:
- Mathematical Physics
- General Physics and Astronomy
- Applied Mathematics
- Statistical and Nonlinear Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1706.07968
month: '10'
oa: 1
oa_version: Preprint
page: 5214-5234
publication: Nonlinearity
publication_identifier:
issn:
- 0951-7715
- 1361-6544
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
status: public
title: Density of convex billiards with rational caustics
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 31
year: '2018'
...
---
_id: '8437'
abstract:
- lang: eng
text: Chaperonins are ubiquitous protein assemblies present in bacteria, eukaryota,
and archaea, facilitating the folding of proteins, preventing protein aggregation,
and thus participating in maintaining protein homeostasis in the cell. During
their functional cycle, they bind unfolded client proteins inside their double
ring structure and promote protein folding by closing the ring chamber in an adenosine
5′-triphosphate (ATP)–dependent manner. Although the static structures of fully
open and closed forms of chaperonins were solved by x-ray crystallography or electron
microscopy, elucidating the mechanisms of such ATP-driven molecular events requires
studying the proteins at the structural level under working conditions. We introduce
an approach that combines site-specific nuclear magnetic resonance observation
of very large proteins, enabled by advanced isotope labeling methods, with an
in situ ATP regeneration system. Using this method, we provide functional insight
into the 1-MDa large hsp60 chaperonin while processing client proteins and reveal
how nucleotide binding, hydrolysis, and release control switching between closed
and open states. While the open conformation stabilizes the unfolded state of
client proteins, the internalization of the client protein inside the chaperonin
cavity speeds up its functional cycle. This approach opens new perspectives to
study structures and mechanisms of various ATP-driven biological machineries in
the heat of action.
article_number: eaau4196
article_processing_charge: No
article_type: original
author:
- first_name: Guillaume
full_name: Mas, Guillaume
last_name: Mas
- first_name: Jia-Ying
full_name: Guan, Jia-Ying
last_name: Guan
- first_name: Elodie
full_name: Crublet, Elodie
last_name: Crublet
- first_name: Elisa Colas
full_name: Debled, Elisa Colas
last_name: Debled
- first_name: Christine
full_name: Moriscot, Christine
last_name: Moriscot
- first_name: Pierre
full_name: Gans, Pierre
last_name: Gans
- first_name: Guy
full_name: Schoehn, Guy
last_name: Schoehn
- first_name: Pavel
full_name: Macek, Pavel
last_name: Macek
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Jerome
full_name: Boisbouvier, Jerome
last_name: Boisbouvier
citation:
ama: Mas G, Guan J-Y, Crublet E, et al. Structural investigation of a chaperonin
in action reveals how nucleotide binding regulates the functional cycle. Science
Advances. 2018;4(9). doi:10.1126/sciadv.aau4196
apa: Mas, G., Guan, J.-Y., Crublet, E., Debled, E. C., Moriscot, C., Gans, P., …
Boisbouvier, J. (2018). Structural investigation of a chaperonin in action reveals
how nucleotide binding regulates the functional cycle. Science Advances.
American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.aau4196
chicago: Mas, Guillaume, Jia-Ying Guan, Elodie Crublet, Elisa Colas Debled, Christine
Moriscot, Pierre Gans, Guy Schoehn, Pavel Macek, Paul Schanda, and Jerome Boisbouvier.
“Structural Investigation of a Chaperonin in Action Reveals How Nucleotide Binding
Regulates the Functional Cycle.” Science Advances. American Association
for the Advancement of Science, 2018. https://doi.org/10.1126/sciadv.aau4196.
ieee: G. Mas et al., “Structural investigation of a chaperonin in action
reveals how nucleotide binding regulates the functional cycle,” Science Advances,
vol. 4, no. 9. American Association for the Advancement of Science, 2018.
ista: Mas G, Guan J-Y, Crublet E, Debled EC, Moriscot C, Gans P, Schoehn G, Macek
P, Schanda P, Boisbouvier J. 2018. Structural investigation of a chaperonin in
action reveals how nucleotide binding regulates the functional cycle. Science
Advances. 4(9), eaau4196.
mla: Mas, Guillaume, et al. “Structural Investigation of a Chaperonin in Action
Reveals How Nucleotide Binding Regulates the Functional Cycle.” Science Advances,
vol. 4, no. 9, eaau4196, American Association for the Advancement of Science,
2018, doi:10.1126/sciadv.aau4196.
short: G. Mas, J.-Y. Guan, E. Crublet, E.C. Debled, C. Moriscot, P. Gans, G. Schoehn,
P. Macek, P. Schanda, J. Boisbouvier, Science Advances 4 (2018).
date_created: 2020-09-18T10:04:51Z
date_published: 2018-09-19T00:00:00Z
date_updated: 2022-08-26T09:11:06Z
day: '19'
doi: 10.1126/sciadv.aau4196
extern: '1'
intvolume: ' 4'
issue: '9'
language:
- iso: eng
month: '09'
oa_version: None
publication: Science Advances
publication_identifier:
issn:
- 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
status: public
title: Structural investigation of a chaperonin in action reveals how nucleotide binding
regulates the functional cycle
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2018'
...
---
_id: '8436'
abstract:
- lang: eng
text: The exchange of metabolites between the mitochondrial matrix and the cytosol
depends on β-barrel channels in the outer membrane and α-helical carrier proteins
in the inner membrane. The essential translocase of the inner membrane (TIM) chaperones
escort these proteins through the intermembrane space, but the structural and
mechanistic details remain elusive. We have used an integrated structural biology
approach to reveal the functional principle of TIM chaperones. Multiple clamp-like
binding sites hold the mitochondrial membrane proteins in a translocation-competent
elongated form, thus mimicking characteristics of co-translational membrane insertion.
The bound preprotein undergoes conformational dynamics within the chaperone binding
clefts, pointing to a multitude of dynamic local binding events. Mutations in
these binding sites cause cell death or growth defects associated with impairment
of carrier and β-barrel protein biogenesis. Our work reveals how a single mitochondrial
“transfer-chaperone” system is able to guide α-helical and β-barrel membrane proteins
in a “nascent chain-like” conformation through a ribosome-free compartment.
article_processing_charge: No
article_type: original
author:
- first_name: Katharina
full_name: Weinhäupl, Katharina
last_name: Weinhäupl
- first_name: Caroline
full_name: Lindau, Caroline
last_name: Lindau
- first_name: Audrey
full_name: Hessel, Audrey
last_name: Hessel
- first_name: Yong
full_name: Wang, Yong
last_name: Wang
- first_name: Conny
full_name: Schütze, Conny
last_name: Schütze
- first_name: Tobias
full_name: Jores, Tobias
last_name: Jores
- first_name: Laura
full_name: Melchionda, Laura
last_name: Melchionda
- first_name: Birgit
full_name: Schönfisch, Birgit
last_name: Schönfisch
- first_name: Hubert
full_name: Kalbacher, Hubert
last_name: Kalbacher
- first_name: Beate
full_name: Bersch, Beate
last_name: Bersch
- first_name: Doron
full_name: Rapaport, Doron
last_name: Rapaport
- first_name: Martha
full_name: Brennich, Martha
last_name: Brennich
- first_name: Kresten
full_name: Lindorff-Larsen, Kresten
last_name: Lindorff-Larsen
- first_name: Nils
full_name: Wiedemann, Nils
last_name: Wiedemann
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: Weinhäupl K, Lindau C, Hessel A, et al. Structural basis of membrane protein
chaperoning through the mitochondrial intermembrane space. Cell. 2018;175(5):1365-1379.e25.
doi:10.1016/j.cell.2018.10.039
apa: Weinhäupl, K., Lindau, C., Hessel, A., Wang, Y., Schütze, C., Jores, T., …
Schanda, P. (2018). Structural basis of membrane protein chaperoning through the
mitochondrial intermembrane space. Cell. Elsevier. https://doi.org/10.1016/j.cell.2018.10.039
chicago: Weinhäupl, Katharina, Caroline Lindau, Audrey Hessel, Yong Wang, Conny
Schütze, Tobias Jores, Laura Melchionda, et al. “Structural Basis of Membrane
Protein Chaperoning through the Mitochondrial Intermembrane Space.” Cell.
Elsevier, 2018. https://doi.org/10.1016/j.cell.2018.10.039.
ieee: K. Weinhäupl et al., “Structural basis of membrane protein chaperoning
through the mitochondrial intermembrane space,” Cell, vol. 175, no. 5.
Elsevier, p. 1365–1379.e25, 2018.
ista: Weinhäupl K, Lindau C, Hessel A, Wang Y, Schütze C, Jores T, Melchionda L,
Schönfisch B, Kalbacher H, Bersch B, Rapaport D, Brennich M, Lindorff-Larsen K,
Wiedemann N, Schanda P. 2018. Structural basis of membrane protein chaperoning
through the mitochondrial intermembrane space. Cell. 175(5), 1365–1379.e25.
mla: Weinhäupl, Katharina, et al. “Structural Basis of Membrane Protein Chaperoning
through the Mitochondrial Intermembrane Space.” Cell, vol. 175, no. 5,
Elsevier, 2018, p. 1365–1379.e25, doi:10.1016/j.cell.2018.10.039.
short: K. Weinhäupl, C. Lindau, A. Hessel, Y. Wang, C. Schütze, T. Jores, L. Melchionda,
B. Schönfisch, H. Kalbacher, B. Bersch, D. Rapaport, M. Brennich, K. Lindorff-Larsen,
N. Wiedemann, P. Schanda, Cell 175 (2018) 1365–1379.e25.
date_created: 2020-09-18T10:04:39Z
date_published: 2018-11-15T00:00:00Z
date_updated: 2021-01-12T08:19:15Z
day: '15'
doi: 10.1016/j.cell.2018.10.039
extern: '1'
intvolume: ' 175'
issue: '5'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
language:
- iso: eng
month: '11'
oa_version: None
page: 1365-1379.e25
publication: Cell
publication_identifier:
issn:
- 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Structural basis of membrane protein chaperoning through the mitochondrial
intermembrane space
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 175
year: '2018'
...
---
_id: '8426'
abstract:
- lang: eng
text: For any strictly convex planar domain Ω ⊂ R2 with a C∞ boundary one can associate
an infinite sequence of spectral invariants introduced by Marvizi–Merlose [5].
These invariants can generically be determined using the spectrum of the Dirichlet
problem of the Laplace operator. A natural question asks if this collection is
sufficient to determine Ω up to isometry. In this paper we give a counterexample,
namely, we present two nonisometric domains Ω and Ω¯ with the same collection
of Marvizi–Melrose invariants. Moreover, each domain has countably many periodic
orbits {Sn}n≥1 (resp. {S¯n}n⩾1) of period going to infinity such that Sn and S¯n
have the same period and perimeter for each n.
article_processing_charge: No
article_type: original
author:
- first_name: Lev
full_name: Buhovsky, Lev
last_name: Buhovsky
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
citation:
ama: Buhovsky L, Kaloshin V. Nonisometric domains with the same Marvizi-Melrose
invariants. Regular and Chaotic Dynamics. 2018;23:54-59. doi:10.1134/s1560354718010057
apa: Buhovsky, L., & Kaloshin, V. (2018). Nonisometric domains with the same
Marvizi-Melrose invariants. Regular and Chaotic Dynamics. Springer Nature.
https://doi.org/10.1134/s1560354718010057
chicago: Buhovsky, Lev, and Vadim Kaloshin. “Nonisometric Domains with the Same
Marvizi-Melrose Invariants.” Regular and Chaotic Dynamics. Springer Nature,
2018. https://doi.org/10.1134/s1560354718010057.
ieee: L. Buhovsky and V. Kaloshin, “Nonisometric domains with the same Marvizi-Melrose
invariants,” Regular and Chaotic Dynamics, vol. 23. Springer Nature, pp.
54–59, 2018.
ista: Buhovsky L, Kaloshin V. 2018. Nonisometric domains with the same Marvizi-Melrose
invariants. Regular and Chaotic Dynamics. 23, 54–59.
mla: Buhovsky, Lev, and Vadim Kaloshin. “Nonisometric Domains with the Same Marvizi-Melrose
Invariants.” Regular and Chaotic Dynamics, vol. 23, Springer Nature, 2018,
pp. 54–59, doi:10.1134/s1560354718010057.
short: L. Buhovsky, V. Kaloshin, Regular and Chaotic Dynamics 23 (2018) 54–59.
date_created: 2020-09-17T10:43:21Z
date_published: 2018-02-05T00:00:00Z
date_updated: 2021-01-12T08:19:11Z
day: '05'
doi: 10.1134/s1560354718010057
extern: '1'
external_id:
arxiv:
- '1801.00952'
intvolume: ' 23'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1801.00952
month: '02'
oa: 1
oa_version: Preprint
page: 54-59
publication: Regular and Chaotic Dynamics
publication_identifier:
issn:
- 1560-3547
- 1468-4845
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Nonisometric domains with the same Marvizi-Melrose invariants
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2018'
...
---
_id: '8438'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Vilius
full_name: Kurauskas, Vilius
last_name: Kurauskas
- first_name: Audrey
full_name: Hessel, Audrey
last_name: Hessel
- first_name: François
full_name: Dehez, François
last_name: Dehez
- first_name: Christophe
full_name: Chipot, Christophe
last_name: Chipot
- first_name: Beate
full_name: Bersch, Beate
last_name: Bersch
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: Kurauskas V, Hessel A, Dehez F, Chipot C, Bersch B, Schanda P. Dynamics and
interactions of AAC3 in DPC are not functionally relevant. Nature Structural
& Molecular Biology. 2018;25(9):745-747. doi:10.1038/s41594-018-0127-4
apa: Kurauskas, V., Hessel, A., Dehez, F., Chipot, C., Bersch, B., & Schanda,
P. (2018). Dynamics and interactions of AAC3 in DPC are not functionally relevant.
Nature Structural & Molecular Biology. Springer Nature. https://doi.org/10.1038/s41594-018-0127-4
chicago: Kurauskas, Vilius, Audrey Hessel, François Dehez, Christophe Chipot, Beate
Bersch, and Paul Schanda. “Dynamics and Interactions of AAC3 in DPC Are Not Functionally
Relevant.” Nature Structural & Molecular Biology. Springer Nature,
2018. https://doi.org/10.1038/s41594-018-0127-4.
ieee: V. Kurauskas, A. Hessel, F. Dehez, C. Chipot, B. Bersch, and P. Schanda, “Dynamics
and interactions of AAC3 in DPC are not functionally relevant,” Nature Structural
& Molecular Biology, vol. 25, no. 9. Springer Nature, pp. 745–747, 2018.
ista: Kurauskas V, Hessel A, Dehez F, Chipot C, Bersch B, Schanda P. 2018. Dynamics
and interactions of AAC3 in DPC are not functionally relevant. Nature Structural
& Molecular Biology. 25(9), 745–747.
mla: Kurauskas, Vilius, et al. “Dynamics and Interactions of AAC3 in DPC Are Not
Functionally Relevant.” Nature Structural & Molecular Biology, vol.
25, no. 9, Springer Nature, 2018, pp. 745–47, doi:10.1038/s41594-018-0127-4.
short: V. Kurauskas, A. Hessel, F. Dehez, C. Chipot, B. Bersch, P. Schanda, Nature
Structural & Molecular Biology 25 (2018) 745–747.
date_created: 2020-09-18T10:04:59Z
date_published: 2018-09-03T00:00:00Z
date_updated: 2021-01-12T08:19:16Z
day: '03'
doi: 10.1038/s41594-018-0127-4
extern: '1'
intvolume: ' 25'
issue: '9'
keyword:
- Molecular Biology
- Structural Biology
language:
- iso: eng
month: '09'
oa_version: None
page: 745-747
publication: Nature Structural & Molecular Biology
publication_identifier:
issn:
- 1545-9993
- 1545-9985
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Dynamics and interactions of AAC3 in DPC are not functionally relevant
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2018'
...
---
_id: '9053'
abstract:
- lang: eng
text: The development of strategies to assemble microscopic machines from dissipative
building blocks are essential on the route to novel active materials. We recently
demonstrated the hierarchical self-assembly of phoretic microswimmers into self-spinning
microgears and their synchronization by diffusiophoretic interactions [Aubret
et al., Nat. Phys., 2018]. In this paper, we adopt a pedagogical approach and
expose our strategy to control self-assembly and build machines using phoretic
phenomena. We notably introduce Highly Inclined Laminated Optical sheets microscopy
(HILO) to image and characterize anisotropic and dynamic diffusiophoretic interactions,
which cannot be performed by conventional fluorescence microscopy. The dynamics
of a (haematite) photocatalytic material immersed in (hydrogen peroxide) fuel
under various illumination patterns is first described and quantitatively rationalized
by a model of diffusiophoresis, the migration of a colloidal particle in a concentration
gradient. It is further exploited to design phototactic microswimmers that direct
towards the high intensity of light, as a result of the reorientation of the haematite
in a light gradient. We finally show the assembly of self-spinning microgears
from colloidal microswimmers and carefully characterize the interactions using
HILO techniques. The results are compared with analytical and numerical predictions
and agree quantitatively, stressing the important role played by concentration
gradients induced by chemical activity to control and design interactions. Because
the approach described hereby is generic, this works paves the way for the rational
design of machines by controlling phoretic phenomena.
article_processing_charge: No
article_type: original
author:
- first_name: Antoine
full_name: Aubret, Antoine
last_name: Aubret
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Aubret A, Palacci JA. Diffusiophoretic design of self-spinning microgears from
colloidal microswimmers. Soft Matter. 2018;14(47):9577-9588. doi:10.1039/c8sm01760c
apa: Aubret, A., & Palacci, J. A. (2018). Diffusiophoretic design of self-spinning
microgears from colloidal microswimmers. Soft Matter. Royal Society of
Chemistry . https://doi.org/10.1039/c8sm01760c
chicago: Aubret, Antoine, and Jérémie A Palacci. “Diffusiophoretic Design of Self-Spinning
Microgears from Colloidal Microswimmers.” Soft Matter. Royal Society of
Chemistry , 2018. https://doi.org/10.1039/c8sm01760c.
ieee: A. Aubret and J. A. Palacci, “Diffusiophoretic design of self-spinning microgears
from colloidal microswimmers,” Soft Matter, vol. 14, no. 47. Royal Society
of Chemistry , pp. 9577–9588, 2018.
ista: Aubret A, Palacci JA. 2018. Diffusiophoretic design of self-spinning microgears
from colloidal microswimmers. Soft Matter. 14(47), 9577–9588.
mla: Aubret, Antoine, and Jérémie A. Palacci. “Diffusiophoretic Design of Self-Spinning
Microgears from Colloidal Microswimmers.” Soft Matter, vol. 14, no. 47,
Royal Society of Chemistry , 2018, pp. 9577–88, doi:10.1039/c8sm01760c.
short: A. Aubret, J.A. Palacci, Soft Matter 14 (2018) 9577–9588.
date_created: 2021-02-01T13:44:41Z
date_published: 2018-12-21T00:00:00Z
date_updated: 2023-02-23T13:47:43Z
day: '21'
doi: 10.1039/c8sm01760c
extern: '1'
external_id:
arxiv:
- '1909.11121'
pmid:
- '30456407'
intvolume: ' 14'
issue: '47'
keyword:
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1909.11121
month: '12'
oa: 1
oa_version: Preprint
page: 9577-9588
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Diffusiophoretic design of self-spinning microgears from colloidal microswimmers
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 14
year: '2018'
...
---
_id: '9066'
abstract:
- lang: eng
text: The novel electronic state of the canted antiferromagnetic (AFM) insulator,
strontium iridate (Sr2IrO4) has been well described by the spin-orbit-entangled
isospin Jeff = 1/2, but the role of isospin in transport phenomena remains poorly
understood. In this study, antiferromagnet-based spintronic functionality is demonstrated
by combining unique characteristics of the isospin state in Sr2IrO4. Based on
magnetic and transport measurements, large and highly anisotropic magnetoresistance
(AMR) is obtained by manipulating the antiferromagnetic isospin domains. First-principles
calculations suggest that electrons whose isospin directions are strongly coupled
to in-plane net magnetic moment encounter the isospin mismatch when moving across
antiferromagnetic domain boundaries, which generates a high resistance state.
By rotating a magnetic field that aligns in-plane net moments and removes domain
boundaries, the macroscopically-ordered isospins govern dynamic transport through
the system, which leads to the extremely angle-sensitive AMR. As with this work
that establishes a link between isospins and magnetotransport in strongly spin-orbit-coupled
AFM Sr2IrO4, the peculiar AMR effect provides a beneficial foundation for fundamental
and applied research on AFM spintronics.
article_number: '1805564'
article_processing_charge: No
article_type: original
author:
- first_name: Nara
full_name: Lee, Nara
last_name: Lee
- first_name: Eunjung
full_name: Ko, Eunjung
last_name: Ko
- first_name: Hwan Young
full_name: Choi, Hwan Young
last_name: Choi
- first_name: Yun Jeong
full_name: Hong, Yun Jeong
last_name: Hong
- first_name: Muhammad
full_name: Nauman, Muhammad
id: 32c21954-2022-11eb-9d5f-af9f93c24e71
last_name: Nauman
orcid: 0000-0002-2111-4846
- first_name: Woun
full_name: Kang, Woun
last_name: Kang
- first_name: Hyoung Joon
full_name: Choi, Hyoung Joon
last_name: Choi
- first_name: Young Jai
full_name: Choi, Young Jai
last_name: Choi
- first_name: Younjung
full_name: Jo, Younjung
last_name: Jo
citation:
ama: Lee N, Ko E, Choi HY, et al. Antiferromagnet‐based spintronic functionality
by controlling isospin domains in a layered perovskite iridate. Advanced Materials.
2018;30(52). doi:10.1002/adma.201805564
apa: Lee, N., Ko, E., Choi, H. Y., Hong, Y. J., Nauman, M., Kang, W., … Jo, Y. (2018).
Antiferromagnet‐based spintronic functionality by controlling isospin domains
in a layered perovskite iridate. Advanced Materials. Wiley. https://doi.org/10.1002/adma.201805564
chicago: Lee, Nara, Eunjung Ko, Hwan Young Choi, Yun Jeong Hong, Muhammad Nauman,
Woun Kang, Hyoung Joon Choi, Young Jai Choi, and Younjung Jo. “Antiferromagnet‐based
Spintronic Functionality by Controlling Isospin Domains in a Layered Perovskite
Iridate.” Advanced Materials. Wiley, 2018. https://doi.org/10.1002/adma.201805564.
ieee: N. Lee et al., “Antiferromagnet‐based spintronic functionality by controlling
isospin domains in a layered perovskite iridate,” Advanced Materials, vol.
30, no. 52. Wiley, 2018.
ista: Lee N, Ko E, Choi HY, Hong YJ, Nauman M, Kang W, Choi HJ, Choi YJ, Jo Y. 2018.
Antiferromagnet‐based spintronic functionality by controlling isospin domains
in a layered perovskite iridate. Advanced Materials. 30(52), 1805564.
mla: Lee, Nara, et al. “Antiferromagnet‐based Spintronic Functionality by Controlling
Isospin Domains in a Layered Perovskite Iridate.” Advanced Materials, vol.
30, no. 52, 1805564, Wiley, 2018, doi:10.1002/adma.201805564.
short: N. Lee, E. Ko, H.Y. Choi, Y.J. Hong, M. Nauman, W. Kang, H.J. Choi, Y.J.
Choi, Y. Jo, Advanced Materials 30 (2018).
date_created: 2021-02-02T15:50:58Z
date_published: 2018-10-29T00:00:00Z
date_updated: 2021-02-03T13:58:39Z
day: '29'
doi: 10.1002/adma.201805564
extern: '1'
external_id:
arxiv:
- '1811.04562'
intvolume: ' 30'
issue: '52'
keyword:
- Mechanical Engineering
- General Materials Science
- Mechanics of Materials
language:
- iso: eng
month: '10'
oa_version: Preprint
publication: Advanced Materials
publication_identifier:
issn:
- 0935-9648
- 1521-4095
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Antiferromagnet‐based spintronic functionality by controlling isospin domains
in a layered perovskite iridate
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2018'
...
---
_id: '9068'
abstract:
- lang: eng
text: We report the temperature-dependent resistivity ρ(T) of chalcogenide NiS2-xSex
(x = 0.1) using hydrostatic pressure as a control parameter in the temperature
range of 4–300 K. The insulating behavior of ρ(T) survives at low temperatures
in the pressure regime below 7.5 kbar, whereas a clear insulator-to-metallic transition
is observed above 7.5 kbar. Two types of magnetic transitions, from the paramagnetic
(PM) to the antiferromagnetic (AFM) state and from the AFM state to the weak ferromagnetic
(WF) state, were evaluated and confirmed by magnetization measurement. According
to the temperature–pressure phase diagram, the WF phase survives up to 7.5 kbar,
and the transition temperature of the WF transition decreases as the pressure
increases, whereas the metal–insulator transition temperature increases up to
9.4 kbar. We analyzed the metallic behavior and proposed Fermi-liquid behavior
of NiS1.9Se0.1.
article_processing_charge: No
article_type: original
author:
- first_name: Tayyaba
full_name: Hussain, Tayyaba
last_name: Hussain
- first_name: Myeong-jun
full_name: Oh, Myeong-jun
last_name: Oh
- first_name: Muhammad
full_name: Nauman, Muhammad
id: 32c21954-2022-11eb-9d5f-af9f93c24e71
last_name: Nauman
orcid: 0000-0002-2111-4846
- first_name: Younjung
full_name: Jo, Younjung
last_name: Jo
- first_name: Garam
full_name: Han, Garam
last_name: Han
- first_name: Changyoung
full_name: Kim, Changyoung
last_name: Kim
- first_name: Woun
full_name: Kang, Woun
last_name: Kang
citation:
ama: 'Hussain T, Oh M, Nauman M, et al. Pressure-induced metal–insulator transitions
in chalcogenide NiS2-Se. Physica B: Condensed Matter. 2018;536:235-238.
doi:10.1016/j.physb.2017.11.032'
apa: 'Hussain, T., Oh, M., Nauman, M., Jo, Y., Han, G., Kim, C., & Kang, W.
(2018). Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se.
Physica B: Condensed Matter. Elsevier. https://doi.org/10.1016/j.physb.2017.11.032'
chicago: 'Hussain, Tayyaba, Myeong-jun Oh, Muhammad Nauman, Younjung Jo, Garam Han,
Changyoung Kim, and Woun Kang. “Pressure-Induced Metal–Insulator Transitions in
Chalcogenide NiS2-Se.” Physica B: Condensed Matter. Elsevier, 2018. https://doi.org/10.1016/j.physb.2017.11.032.'
ieee: 'T. Hussain et al., “Pressure-induced metal–insulator transitions in
chalcogenide NiS2-Se,” Physica B: Condensed Matter, vol. 536. Elsevier,
pp. 235–238, 2018.'
ista: 'Hussain T, Oh M, Nauman M, Jo Y, Han G, Kim C, Kang W. 2018. Pressure-induced
metal–insulator transitions in chalcogenide NiS2-Se. Physica B: Condensed Matter.
536, 235–238.'
mla: 'Hussain, Tayyaba, et al. “Pressure-Induced Metal–Insulator Transitions in
Chalcogenide NiS2-Se.” Physica B: Condensed Matter, vol. 536, Elsevier,
2018, pp. 235–38, doi:10.1016/j.physb.2017.11.032.'
short: 'T. Hussain, M. Oh, M. Nauman, Y. Jo, G. Han, C. Kim, W. Kang, Physica B:
Condensed Matter 536 (2018) 235–238.'
date_created: 2021-02-02T15:52:43Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2021-02-04T07:18:57Z
day: '01'
doi: 10.1016/j.physb.2017.11.032
extern: '1'
intvolume: ' 536'
language:
- iso: eng
month: '05'
oa_version: None
page: 235-238
publication: 'Physica B: Condensed Matter'
publication_identifier:
issn:
- 0921-4526
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Pressure-induced metal–insulator transitions in chalcogenide NiS2-Se
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 536
year: '2018'
...
---
_id: '9136'
abstract:
- lang: eng
text: In this study we investigate the scaling of precipitation extremes with temperature
in the Mediterranean region by assessing against observations the present day
and future regional climate simulations performed in the frame of the HyMeX and
MED-CORDEX programs. Over the 1979–2008 period, despite differences in quantitative
precipitation simulation across the various models, the change in precipitation
extremes with respect to temperature is robust and consistent. The spatial variability
of the temperature–precipitation extremes relationship displays a hook shape across
the Mediterranean, with negative slope at high temperatures and a slope following
Clausius–Clapeyron (CC)-scaling at low temperatures. The temperature at which
the slope of the temperature–precipitation extreme relation sharply changes (or
temperature break), ranges from about 20 °C in the western Mediterranean to <10
°C in Greece. In addition, this slope is always negative in the arid regions of
the Mediterranean. The scaling of the simulated precipitation extremes is insensitive
to ocean–atmosphere coupling, while it depends very weakly on the resolution at
high temperatures for short precipitation accumulation times. In future climate
scenario simulations covering the 2070–2100 period, the temperature break shifts
to higher temperatures by a value which is on average the mean regional temperature
change due to global warming. The slope of the simulated future temperature–precipitation
extremes relationship is close to CC-scaling at temperatures below the temperature
break, while at high temperatures, the negative slope is close, but somewhat flatter
or steeper, than in the current climate depending on the model. Overall, models
predict more intense precipitation extremes in the future. Adjusting the temperature–precipitation
extremes relationship in the present climate using the CC law and the temperature
shift in the future allows the recovery of the temperature–precipitation extremes
relationship in the future climate. This implies negligible regional changes of
relative humidity in the future despite the large warming and drying over the
Mediterranean. This suggests that the Mediterranean Sea is the primary source
of moisture which counteracts the drying and warming impacts on relative humidity
in parts of the Mediterranean region.
article_processing_charge: No
article_type: original
author:
- first_name: Philippe
full_name: Drobinski, Philippe
last_name: Drobinski
- first_name: Nicolas Da
full_name: Silva, Nicolas Da
last_name: Silva
- first_name: Gérémy
full_name: Panthou, Gérémy
last_name: Panthou
- first_name: Sophie
full_name: Bastin, Sophie
last_name: Bastin
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: Bodo
full_name: Ahrens, Bodo
last_name: Ahrens
- first_name: Marco
full_name: Borga, Marco
last_name: Borga
- first_name: Dario
full_name: Conte, Dario
last_name: Conte
- first_name: Giorgia
full_name: Fosser, Giorgia
last_name: Fosser
- first_name: Filippo
full_name: Giorgi, Filippo
last_name: Giorgi
- first_name: Ivan
full_name: Güttler, Ivan
last_name: Güttler
- first_name: Vassiliki
full_name: Kotroni, Vassiliki
last_name: Kotroni
- first_name: Laurent
full_name: Li, Laurent
last_name: Li
- first_name: Efrat
full_name: Morin, Efrat
last_name: Morin
- first_name: Bariş
full_name: Önol, Bariş
last_name: Önol
- first_name: Pere
full_name: Quintana-Segui, Pere
last_name: Quintana-Segui
- first_name: Raquel
full_name: Romera, Raquel
last_name: Romera
- first_name: Csaba Zsolt
full_name: Torma, Csaba Zsolt
last_name: Torma
citation:
ama: 'Drobinski P, Silva ND, Panthou G, et al. Scaling precipitation extremes with
temperature in the Mediterranean: Past climate assessment and projection in anthropogenic
scenarios. Climate Dynamics. 2018;51(3):1237-1257. doi:10.1007/s00382-016-3083-x'
apa: 'Drobinski, P., Silva, N. D., Panthou, G., Bastin, S., Muller, C. J., Ahrens,
B., … Torma, C. Z. (2018). Scaling precipitation extremes with temperature in
the Mediterranean: Past climate assessment and projection in anthropogenic scenarios.
Climate Dynamics. Springer Nature. https://doi.org/10.1007/s00382-016-3083-x'
chicago: 'Drobinski, Philippe, Nicolas Da Silva, Gérémy Panthou, Sophie Bastin,
Caroline J Muller, Bodo Ahrens, Marco Borga, et al. “Scaling Precipitation Extremes
with Temperature in the Mediterranean: Past Climate Assessment and Projection
in Anthropogenic Scenarios.” Climate Dynamics. Springer Nature, 2018. https://doi.org/10.1007/s00382-016-3083-x.'
ieee: 'P. Drobinski et al., “Scaling precipitation extremes with temperature
in the Mediterranean: Past climate assessment and projection in anthropogenic
scenarios,” Climate Dynamics, vol. 51, no. 3. Springer Nature, pp. 1237–1257,
2018.'
ista: 'Drobinski P, Silva ND, Panthou G, Bastin S, Muller CJ, Ahrens B, Borga M,
Conte D, Fosser G, Giorgi F, Güttler I, Kotroni V, Li L, Morin E, Önol B, Quintana-Segui
P, Romera R, Torma CZ. 2018. Scaling precipitation extremes with temperature in
the Mediterranean: Past climate assessment and projection in anthropogenic scenarios.
Climate Dynamics. 51(3), 1237–1257.'
mla: 'Drobinski, Philippe, et al. “Scaling Precipitation Extremes with Temperature
in the Mediterranean: Past Climate Assessment and Projection in Anthropogenic
Scenarios.” Climate Dynamics, vol. 51, no. 3, Springer Nature, 2018, pp.
1237–57, doi:10.1007/s00382-016-3083-x.'
short: P. Drobinski, N.D. Silva, G. Panthou, S. Bastin, C.J. Muller, B. Ahrens,
M. Borga, D. Conte, G. Fosser, F. Giorgi, I. Güttler, V. Kotroni, L. Li, E. Morin,
B. Önol, P. Quintana-Segui, R. Romera, C.Z. Torma, Climate Dynamics 51 (2018)
1237–1257.
date_created: 2021-02-15T14:18:53Z
date_published: 2018-08-01T00:00:00Z
date_updated: 2022-01-24T12:40:40Z
day: '01'
doi: 10.1007/s00382-016-3083-x
extern: '1'
intvolume: ' 51'
issue: '3'
keyword:
- Atmospheric Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00382-016-3083-x
month: '08'
oa: 1
oa_version: Published Version
page: 1237-1257
publication: Climate Dynamics
publication_identifier:
issn:
- 0930-7575
- 1432-0894
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'Scaling precipitation extremes with temperature in the Mediterranean: Past
climate assessment and projection in anthropogenic scenarios'
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 51
year: '2018'
...
---
_id: '9134'
abstract:
- lang: eng
text: Several studies have shown the existence of a critical latitude where the
dissipation of internal tides is strongly enhanced. Internal tides are internal
waves generated by barotropic tidal currents impinging rough topography at the
seafloor. Their dissipation and concomitant diapycnal mixing are believed to be
important for water masses and the large‐scale ocean circulation. The purpose
of this study is to clarify the physical processes at the origin of this strong
latitudinal dependence of tidal energy dissipation. We find that different mechanisms
are involved equatorward and poleward of the critical latitude. Triadic resonant
instabilities are responsible for the dissipation of internal tides equatorward
of the critical latitude. In particular, a dominant triad involving the primary
internal tide and near‐inertial waves is key. At the critical latitude, the peak
of energy dissipation is explained by both increased instability growth rates,
and smaller scales of secondary waves thus more prone to break and dissipate their
energy. Surprisingly, poleward of the critical latitude, the generation of evanescent
waves appears to be crucial. Triadic instabilities have been widely studied, but
the transfer of energy to evanescent waves has received comparatively little attention.
Our work suggests that the nonlinear transfer of energy from the internal tide
to evanescent waves (corresponding to the 2f‐pump mechanism described by Young
et al., 2008, https://doi.org/10.1017/S0022112008001742) is an efficient mechanism
to dissipate internal tide energy near and poleward of the critical latitude.
The theoretical results are confirmed in idealized high‐resolution numerical simulations
of a barotropic M2 tide impinging sinusoidal topography in a linearly stratified
fluid.
article_processing_charge: No
article_type: original
author:
- first_name: O.
full_name: Richet, O.
last_name: Richet
- first_name: J.-M.
full_name: Chomaz, J.-M.
last_name: Chomaz
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
citation:
ama: 'Richet O, Chomaz J-M, Muller CJ. Internal tide dissipation at topography:
Triadic resonant instability equatorward and evanescent waves poleward of the
critical latitude. Journal of Geophysical Research: Oceans. 2018;123(9):6136-6155.
doi:10.1029/2017jc013591'
apa: 'Richet, O., Chomaz, J.-M., & Muller, C. J. (2018). Internal tide dissipation
at topography: Triadic resonant instability equatorward and evanescent waves poleward
of the critical latitude. Journal of Geophysical Research: Oceans. American
Geophysical Union. https://doi.org/10.1029/2017jc013591'
chicago: 'Richet, O., J.-M. Chomaz, and Caroline J Muller. “Internal Tide Dissipation
at Topography: Triadic Resonant Instability Equatorward and Evanescent Waves Poleward
of the Critical Latitude.” Journal of Geophysical Research: Oceans. American
Geophysical Union, 2018. https://doi.org/10.1029/2017jc013591.'
ieee: 'O. Richet, J.-M. Chomaz, and C. J. Muller, “Internal tide dissipation at
topography: Triadic resonant instability equatorward and evanescent waves poleward
of the critical latitude,” Journal of Geophysical Research: Oceans, vol.
123, no. 9. American Geophysical Union, pp. 6136–6155, 2018.'
ista: 'Richet O, Chomaz J-M, Muller CJ. 2018. Internal tide dissipation at topography:
Triadic resonant instability equatorward and evanescent waves poleward of the
critical latitude. Journal of Geophysical Research: Oceans. 123(9), 6136–6155.'
mla: 'Richet, O., et al. “Internal Tide Dissipation at Topography: Triadic Resonant
Instability Equatorward and Evanescent Waves Poleward of the Critical Latitude.”
Journal of Geophysical Research: Oceans, vol. 123, no. 9, American Geophysical
Union, 2018, pp. 6136–55, doi:10.1029/2017jc013591.'
short: 'O. Richet, J.-M. Chomaz, C.J. Muller, Journal of Geophysical Research: Oceans
123 (2018) 6136–6155.'
date_created: 2021-02-15T14:17:25Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2022-01-24T12:39:03Z
day: '01'
doi: 10.1029/2017jc013591
extern: '1'
intvolume: ' 123'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1029/2017JC013591
month: '09'
oa: 1
oa_version: Published Version
page: 6136-6155
publication: 'Journal of Geophysical Research: Oceans'
publication_identifier:
issn:
- 2169-9275
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
status: public
title: 'Internal tide dissipation at topography: Triadic resonant instability equatorward
and evanescent waves poleward of the critical latitude'
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 123
year: '2018'
...
---
_id: '9135'
abstract:
- lang: eng
text: Idealized simulations of tropical moist convection have revealed that clouds
can spontaneously clump together in a process called self-aggregation. This results
in a state where a moist cloudy region with intense deep convection is surrounded
by extremely dry subsiding air devoid of deep convection. Because of the idealized
settings of the simulations where it was discovered, the relevance of self-aggregation
to the real world is still debated. Here, we show that self-aggregation feedbacks
play a leading-order role in the spontaneous genesis of tropical cyclones in cloud-resolving
simulations. Those feedbacks accelerate the cyclogenesis process by a factor of
2, and the feedbacks contributing to the cyclone formation show qualitative and
quantitative agreement with the self-aggregation process. Once the cyclone is
formed, wind-induced surface heat exchange (WISHE) effects dominate, although
we find that self-aggregation feedbacks have a small but nonnegligible contribution
to the maintenance of the mature cyclone. Our results suggest that self-aggregation,
and the framework developed for its study, can help shed more light into the physical
processes leading to cyclogenesis and cyclone intensification. In particular,
our results point out the importance of the longwave radiative cooling outside
the cyclone.
article_processing_charge: No
article_type: original
author:
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: David M.
full_name: Romps, David M.
last_name: Romps
citation:
ama: Muller CJ, Romps DM. Acceleration of tropical cyclogenesis by self-aggregation
feedbacks. Proceedings of the National Academy of Sciences. 2018;115(12):2930-2935.
doi:10.1073/pnas.1719967115
apa: Muller, C. J., & Romps, D. M. (2018). Acceleration of tropical cyclogenesis
by self-aggregation feedbacks. Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1719967115
chicago: Muller, Caroline J, and David M. Romps. “Acceleration of Tropical Cyclogenesis
by Self-Aggregation Feedbacks.” Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1719967115.
ieee: C. J. Muller and D. M. Romps, “Acceleration of tropical cyclogenesis by self-aggregation
feedbacks,” Proceedings of the National Academy of Sciences, vol. 115,
no. 12. Proceedings of the National Academy of Sciences, pp. 2930–2935, 2018.
ista: Muller CJ, Romps DM. 2018. Acceleration of tropical cyclogenesis by self-aggregation
feedbacks. Proceedings of the National Academy of Sciences. 115(12), 2930–2935.
mla: Muller, Caroline J., and David M. Romps. “Acceleration of Tropical Cyclogenesis
by Self-Aggregation Feedbacks.” Proceedings of the National Academy of Sciences,
vol. 115, no. 12, Proceedings of the National Academy of Sciences, 2018, pp. 2930–35,
doi:10.1073/pnas.1719967115.
short: C.J. Muller, D.M. Romps, Proceedings of the National Academy of Sciences
115 (2018) 2930–2935.
date_created: 2021-02-15T14:18:16Z
date_published: 2018-03-20T00:00:00Z
date_updated: 2022-01-24T12:39:49Z
day: '20'
doi: 10.1073/pnas.1719967115
extern: '1'
intvolume: ' 115'
issue: '12'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1719967115
month: '03'
oa: 1
oa_version: Published Version
page: 2930-2935
publication: Proceedings of the National Academy of Sciences
publication_identifier:
issn:
- 0027-8424
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
status: public
title: Acceleration of tropical cyclogenesis by self-aggregation feedbacks
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 115
year: '2018'
...
---
_id: '9471'
abstract:
- lang: eng
text: The DEMETER (DME) DNA glycosylase catalyzes genome-wide DNA demethylation
and is required for endosperm genomic imprinting and embryo viability. Targets
of DME-mediated DNA demethylation reside in small, euchromatic, AT-rich transposons
and at the boundaries of large transposons, but how DME interacts with these diverse
chromatin states is unknown. The STRUCTURE SPECIFIC RECOGNITION PROTEIN 1 (SSRP1)
subunit of the chromatin remodeler FACT (facilitates chromatin transactions),
was previously shown to be involved in the DME-dependent regulation of genomic
imprinting in Arabidopsis endosperm. Therefore, to investigate the interaction
between DME and chromatin, we focused on the activity of the two FACT subunits,
SSRP1 and SUPPRESSOR of TY16 (SPT16), during reproduction in Arabidopsis. We found
that FACT colocalizes with nuclear DME in vivo, and that DME has two classes of
target sites, the first being euchromatic and accessible to DME, but the second,
representing over half of DME targets, requiring the action of FACT for DME-mediated
DNA demethylation genome-wide. Our results show that the FACT-dependent DME targets
are GC-rich heterochromatin domains with high nucleosome occupancy enriched with
H3K9me2 and H3K27me1. Further, we demonstrate that heterochromatin-associated
linker histone H1 specifically mediates the requirement for FACT at a subset of
DME-target loci. Overall, our results demonstrate that FACT is required for DME
targeting by facilitating its access to heterochromatin.
article_processing_charge: No
article_type: original
author:
- first_name: Jennifer M.
full_name: Frost, Jennifer M.
last_name: Frost
- first_name: M. Yvonne
full_name: Kim, M. Yvonne
last_name: Kim
- first_name: Guen Tae
full_name: Park, Guen Tae
last_name: Park
- first_name: Ping-Hung
full_name: Hsieh, Ping-Hung
last_name: Hsieh
- first_name: Miyuki
full_name: Nakamura, Miyuki
last_name: Nakamura
- first_name: Samuel J. H.
full_name: Lin, Samuel J. H.
last_name: Lin
- first_name: Hyunjin
full_name: Yoo, Hyunjin
last_name: Yoo
- first_name: Jaemyung
full_name: Choi, Jaemyung
last_name: Choi
- first_name: Yoko
full_name: Ikeda, Yoko
last_name: Ikeda
- first_name: Tetsu
full_name: Kinoshita, Tetsu
last_name: Kinoshita
- first_name: Yeonhee
full_name: Choi, Yeonhee
last_name: Choi
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Robert L.
full_name: Fischer, Robert L.
last_name: Fischer
citation:
ama: Frost JM, Kim MY, Park GT, et al. FACT complex is required for DNA demethylation
at heterochromatin during reproduction in Arabidopsis. Proceedings of the National
Academy of Sciences. 2018;115(20):E4720-E4729. doi:10.1073/pnas.1713333115
apa: Frost, J. M., Kim, M. Y., Park, G. T., Hsieh, P.-H., Nakamura, M., Lin, S.
J. H., … Fischer, R. L. (2018). FACT complex is required for DNA demethylation
at heterochromatin during reproduction in Arabidopsis. Proceedings of the National
Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1713333115
chicago: Frost, Jennifer M., M. Yvonne Kim, Guen Tae Park, Ping-Hung Hsieh, Miyuki
Nakamura, Samuel J. H. Lin, Hyunjin Yoo, et al. “FACT Complex Is Required for
DNA Demethylation at Heterochromatin during Reproduction in Arabidopsis.” Proceedings
of the National Academy of Sciences. National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1713333115.
ieee: J. M. Frost et al., “FACT complex is required for DNA demethylation
at heterochromatin during reproduction in Arabidopsis,” Proceedings of the
National Academy of Sciences, vol. 115, no. 20. National Academy of Sciences,
pp. E4720–E4729, 2018.
ista: Frost JM, Kim MY, Park GT, Hsieh P-H, Nakamura M, Lin SJH, Yoo H, Choi J,
Ikeda Y, Kinoshita T, Choi Y, Zilberman D, Fischer RL. 2018. FACT complex is required
for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings
of the National Academy of Sciences. 115(20), E4720–E4729.
mla: Frost, Jennifer M., et al. “FACT Complex Is Required for DNA Demethylation
at Heterochromatin during Reproduction in Arabidopsis.” Proceedings of the
National Academy of Sciences, vol. 115, no. 20, National Academy of Sciences,
2018, pp. E4720–29, doi:10.1073/pnas.1713333115.
short: J.M. Frost, M.Y. Kim, G.T. Park, P.-H. Hsieh, M. Nakamura, S.J.H. Lin, H.
Yoo, J. Choi, Y. Ikeda, T. Kinoshita, Y. Choi, D. Zilberman, R.L. Fischer, Proceedings
of the National Academy of Sciences 115 (2018) E4720–E4729.
date_created: 2021-06-07T06:11:28Z
date_published: 2018-05-15T00:00:00Z
date_updated: 2021-12-14T07:53:40Z
day: '15'
ddc:
- '580'
department:
- _id: DaZi
doi: 10.1073/pnas.1713333115
extern: '1'
external_id:
pmid:
- '29712855'
file:
- access_level: open_access
checksum: 810260dc0e3cc3033e15c19ad0dc123e
content_type: application/pdf
creator: asandaue
date_created: 2021-06-07T06:16:38Z
date_updated: 2021-06-07T06:16:38Z
file_id: '9472'
file_name: 2018_PNAS_Frost.pdf
file_size: 3045260
relation: main_file
success: 1
file_date_updated: 2021-06-07T06:16:38Z
has_accepted_license: '1'
intvolume: ' 115'
issue: '20'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: E4720-E4729
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- relation: earlier_version
url: 'https://doi.org/10.1101/187674 '
scopus_import: '1'
status: public
title: FACT complex is required for DNA demethylation at heterochromatin during reproduction
in Arabidopsis
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 115
year: '2018'
...
---
_id: '95'
abstract:
- lang: eng
text: Electrostatic charging of insulating fine particles can be responsible for
numerous phenomena ranging from lightning in volcanic plumes to dust explosions.
However, even basic aspects of how fine particles become charged are still unclear.
Studying particle charging is challenging because it usually involves the complexities
associated with many-particle collisions. To address these issues, we introduce
a method based on acoustic levitation, which makes it possible to initiate sequences
of repeated collisions of a single submillimeter particle with a flat plate, and
to precisely measure the particle charge in situ after each collision. We show
that collisional charge transfer between insulators is dependent on the hydrophobicity
of the contacting surfaces. We use glass, which we modify by attaching nonpolar
molecules to the particle, the plate, or both. We find that hydrophilic surfaces
develop significant positive charges after contacting hydrophobic surfaces. Moreover,
we demonstrate that charging between a hydrophilic and a hydrophobic surface is
suppressed in an acidic environment and enhanced in a basic one. Application of
an electric field during each collision is found to modify the charge transfer,
again depending on surface hydrophobicity. We discuss these results within the
context of contact charging due to ion transfer, and we show that they lend strong
support to OH− ions as the charge carriers.
article_number: '035602'
author:
- first_name: Victor
full_name: Lee, Victor
last_name: Lee
- first_name: Nicole
full_name: James, Nicole
last_name: James
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
- first_name: Heinrich
full_name: Jaeger, Heinrich
last_name: Jaeger
citation:
ama: 'Lee V, James N, Waitukaitis SR, Jaeger H. Collisional charging of individual
submillimeter particles: Using ultrasonic levitation to initiate and track charge
transfer. Physical Review Materials. 2018;2(3). doi:10.1103/PhysRevMaterials.2.035602'
apa: 'Lee, V., James, N., Waitukaitis, S. R., & Jaeger, H. (2018). Collisional
charging of individual submillimeter particles: Using ultrasonic levitation to
initiate and track charge transfer. Physical Review Materials. American
Physical Society. https://doi.org/10.1103/PhysRevMaterials.2.035602'
chicago: 'Lee, Victor, Nicole James, Scott R Waitukaitis, and Heinrich Jaeger. “Collisional
Charging of Individual Submillimeter Particles: Using Ultrasonic Levitation to
Initiate and Track Charge Transfer.” Physical Review Materials. American
Physical Society, 2018. https://doi.org/10.1103/PhysRevMaterials.2.035602.'
ieee: 'V. Lee, N. James, S. R. Waitukaitis, and H. Jaeger, “Collisional charging
of individual submillimeter particles: Using ultrasonic levitation to initiate
and track charge transfer,” Physical Review Materials, vol. 2, no. 3. American
Physical Society, 2018.'
ista: 'Lee V, James N, Waitukaitis SR, Jaeger H. 2018. Collisional charging of individual
submillimeter particles: Using ultrasonic levitation to initiate and track charge
transfer. Physical Review Materials. 2(3), 035602.'
mla: 'Lee, Victor, et al. “Collisional Charging of Individual Submillimeter Particles:
Using Ultrasonic Levitation to Initiate and Track Charge Transfer.” Physical
Review Materials, vol. 2, no. 3, 035602, American Physical Society, 2018,
doi:10.1103/PhysRevMaterials.2.035602.'
short: V. Lee, N. James, S.R. Waitukaitis, H. Jaeger, Physical Review Materials
2 (2018).
date_created: 2018-12-11T11:44:36Z
date_published: 2018-03-29T00:00:00Z
date_updated: 2021-01-12T08:22:09Z
day: '29'
doi: 10.1103/PhysRevMaterials.2.035602
extern: '1'
external_id:
arxiv:
- '1801.09278'
intvolume: ' 2'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1801.09278
month: '03'
oa: 1
oa_version: Preprint
publication: Physical Review Materials
publication_status: published
publisher: American Physical Society
publist_id: '7959'
quality_controlled: '1'
status: public
title: 'Collisional charging of individual submillimeter particles: Using ultrasonic
levitation to initiate and track charge transfer'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2018'
...
---
_id: '9567'
abstract:
- lang: eng
text: Let P be a graph property which is preserved by removal of edges, and consider
the random graph process that starts with the empty n-vertex graph and then adds
edges one-by-one, each chosen uniformly at random subject to the constraint that
P is not violated. These types of random processes have been the subject of extensive
research over the last 20 years, having striking applications in extremal combinatorics,
and leading to the discovery of important probabilistic tools. In this paper we
consider the k-matching-free process, where P is the property of not containing
a matching of size k. We are able to analyse the behaviour of this process for
a wide range of values of k; in particular we prove that if k=o(n) or if n−2k=o(n−−√/logn)
then this process is likely to terminate in a k-matching-free graph with the maximum
possible number of edges, as characterised by Erdős and Gallai. We also show that
these bounds on k are essentially best possible, and we make a first step towards
understanding the behaviour of the process in the intermediate regime.
article_processing_charge: No
article_type: original
author:
- first_name: Michael
full_name: Krivelevich, Michael
last_name: Krivelevich
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
- first_name: Po‐Shen
full_name: Loh, Po‐Shen
last_name: Loh
- first_name: Benny
full_name: Sudakov, Benny
last_name: Sudakov
citation:
ama: Krivelevich M, Kwan MA, Loh P, Sudakov B. The random k‐matching‐free process.
Random Structures and Algorithms. 2018;53(4):692-716. doi:10.1002/rsa.20814
apa: Krivelevich, M., Kwan, M. A., Loh, P., & Sudakov, B. (2018). The random
k‐matching‐free process. Random Structures and Algorithms. Wiley. https://doi.org/10.1002/rsa.20814
chicago: Krivelevich, Michael, Matthew Alan Kwan, Po‐Shen Loh, and Benny Sudakov.
“The Random K‐matching‐free Process.” Random Structures and Algorithms.
Wiley, 2018. https://doi.org/10.1002/rsa.20814.
ieee: M. Krivelevich, M. A. Kwan, P. Loh, and B. Sudakov, “The random k‐matching‐free
process,” Random Structures and Algorithms, vol. 53, no. 4. Wiley, pp.
692–716, 2018.
ista: Krivelevich M, Kwan MA, Loh P, Sudakov B. 2018. The random k‐matching‐free
process. Random Structures and Algorithms. 53(4), 692–716.
mla: Krivelevich, Michael, et al. “The Random K‐matching‐free Process.” Random
Structures and Algorithms, vol. 53, no. 4, Wiley, 2018, pp. 692–716, doi:10.1002/rsa.20814.
short: M. Krivelevich, M.A. Kwan, P. Loh, B. Sudakov, Random Structures and Algorithms
53 (2018) 692–716.
date_created: 2021-06-18T12:37:40Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2023-02-23T14:01:07Z
day: '01'
doi: 10.1002/rsa.20814
extern: '1'
external_id:
arxiv:
- '1708.01054'
intvolume: ' 53'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1708.01054
month: '12'
oa: 1
oa_version: Preprint
page: 692-716
publication: Random Structures and Algorithms
publication_identifier:
eissn:
- 1098-2418
issn:
- 1042-9832
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: The random k‐matching‐free process
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 53
year: '2018'
...
---
_id: '9565'
abstract:
- lang: eng
text: Let D(n,p) be the random directed graph on n vertices where each of the n(n-1)
possible arcs is present independently with probability p. A celebrated result
of Frieze shows that if p≥(logn+ω(1))/n then D(n,p) typically has a directed Hamilton
cycle, and this is best possible. In this paper, we obtain a strengthening of
this result, showing that under the same condition, the number of directed Hamilton
cycles in D(n,p) is typically n!(p(1+o(1)))n. We also prove a hitting-time version
of this statement, showing that in the random directed graph process, as soon
as every vertex has in-/out-degrees at least 1, there are typically n!(logn/n(1+o(1)))n
directed Hamilton cycles.
article_processing_charge: No
article_type: original
author:
- first_name: Asaf
full_name: Ferber, Asaf
last_name: Ferber
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
- first_name: Benny
full_name: Sudakov, Benny
last_name: Sudakov
citation:
ama: Ferber A, Kwan MA, Sudakov B. Counting Hamilton cycles in sparse random directed
graphs. Random Structures and Algorithms. 2018;53(4):592-603. doi:10.1002/rsa.20815
apa: Ferber, A., Kwan, M. A., & Sudakov, B. (2018). Counting Hamilton cycles
in sparse random directed graphs. Random Structures and Algorithms. Wiley.
https://doi.org/10.1002/rsa.20815
chicago: Ferber, Asaf, Matthew Alan Kwan, and Benny Sudakov. “Counting Hamilton
Cycles in Sparse Random Directed Graphs.” Random Structures and Algorithms.
Wiley, 2018. https://doi.org/10.1002/rsa.20815.
ieee: A. Ferber, M. A. Kwan, and B. Sudakov, “Counting Hamilton cycles in sparse
random directed graphs,” Random Structures and Algorithms, vol. 53, no.
4. Wiley, pp. 592–603, 2018.
ista: Ferber A, Kwan MA, Sudakov B. 2018. Counting Hamilton cycles in sparse random
directed graphs. Random Structures and Algorithms. 53(4), 592–603.
mla: Ferber, Asaf, et al. “Counting Hamilton Cycles in Sparse Random Directed Graphs.”
Random Structures and Algorithms, vol. 53, no. 4, Wiley, 2018, pp. 592–603,
doi:10.1002/rsa.20815.
short: A. Ferber, M.A. Kwan, B. Sudakov, Random Structures and Algorithms 53 (2018)
592–603.
date_created: 2021-06-18T12:06:28Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2023-02-23T14:01:03Z
day: '01'
doi: 10.1002/rsa.20815
extern: '1'
external_id:
arxiv:
- '1708.07746'
intvolume: ' 53'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1708.07746
month: '12'
oa: 1
oa_version: Preprint
page: 592-603
publication: Random Structures and Algorithms
publication_identifier:
eissn:
- 1098-2418
issn:
- 1042-9832
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Counting Hamilton cycles in sparse random directed graphs
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 53
year: '2018'
...
---
_id: '9568'
abstract:
- lang: eng
text: An intercalate in a Latin square is a 2×2 Latin subsquare. Let N be the number
of intercalates in a uniformly random n×n Latin square. We prove that asymptotically
almost surely N≥(1−o(1))n2/4, and that EN≤(1+o(1))n2/2 (therefore asymptotically
almost surely N≤fn2 for any f→∞). This significantly improves the previous best
lower and upper bounds. We also give an upper tail bound for the number of intercalates
in two fixed rows of a random Latin square. In addition, we discuss a problem
of Linial and Luria on low-discrepancy Latin squares.
article_processing_charge: No
article_type: original
author:
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
- first_name: Benny
full_name: Sudakov, Benny
last_name: Sudakov
citation:
ama: Kwan MA, Sudakov B. Intercalates and discrepancy in random Latin squares. Random
Structures and Algorithms. 2018;52(2):181-196. doi:10.1002/rsa.20742
apa: Kwan, M. A., & Sudakov, B. (2018). Intercalates and discrepancy in random
Latin squares. Random Structures and Algorithms. Wiley. https://doi.org/10.1002/rsa.20742
chicago: Kwan, Matthew Alan, and Benny Sudakov. “Intercalates and Discrepancy in
Random Latin Squares.” Random Structures and Algorithms. Wiley, 2018. https://doi.org/10.1002/rsa.20742.
ieee: M. A. Kwan and B. Sudakov, “Intercalates and discrepancy in random Latin squares,”
Random Structures and Algorithms, vol. 52, no. 2. Wiley, pp. 181–196, 2018.
ista: Kwan MA, Sudakov B. 2018. Intercalates and discrepancy in random Latin squares.
Random Structures and Algorithms. 52(2), 181–196.
mla: Kwan, Matthew Alan, and Benny Sudakov. “Intercalates and Discrepancy in Random
Latin Squares.” Random Structures and Algorithms, vol. 52, no. 2, Wiley,
2018, pp. 181–96, doi:10.1002/rsa.20742.
short: M.A. Kwan, B. Sudakov, Random Structures and Algorithms 52 (2018) 181–196.
date_created: 2021-06-18T12:47:25Z
date_published: 2018-03-01T00:00:00Z
date_updated: 2023-02-23T14:01:09Z
day: '01'
doi: 10.1002/rsa.20742
extern: '1'
external_id:
arxiv:
- '1607.04981'
intvolume: ' 52'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.04981
month: '03'
oa: 1
oa_version: Preprint
page: 181-196
publication: Random Structures and Algorithms
publication_identifier:
eissn:
- 1098-2418
issn:
- 1042-9832
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Intercalates and discrepancy in random Latin squares
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 52
year: '2018'
...
---
_id: '9587'
abstract:
- lang: eng
text: We say a family of sets is intersecting if any two of its sets intersect,
and we say it is trivially intersecting if there is an element which appears in
every set of the family. In this paper we study the maximum size of a non-trivially
intersecting family in a natural “multi-part” setting. Here the ground set is
divided into parts, and one considers families of sets whose intersection with
each part is of a prescribed size. Our work is motivated by classical results
in the single-part setting due to Erdős, Ko and Rado, and Hilton and Milner, and
by a theorem of Frankl concerning intersecting families in this multi-part setting.
In the case where the part sizes are sufficiently large we determine the maximum
size of a non-trivially intersecting multi-part family, disproving a conjecture
of Alon and Katona.
article_processing_charge: No
article_type: original
author:
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
- first_name: Benny
full_name: Sudakov, Benny
last_name: Sudakov
- first_name: Pedro
full_name: Vieira, Pedro
last_name: Vieira
citation:
ama: Kwan MA, Sudakov B, Vieira P. Non-trivially intersecting multi-part families.
Journal of Combinatorial Theory Series A. 2018;156:44-60. doi:10.1016/j.jcta.2017.12.001
apa: Kwan, M. A., Sudakov, B., & Vieira, P. (2018). Non-trivially intersecting
multi-part families. Journal of Combinatorial Theory Series A. Elsevier.
https://doi.org/10.1016/j.jcta.2017.12.001
chicago: Kwan, Matthew Alan, Benny Sudakov, and Pedro Vieira. “Non-Trivially Intersecting
Multi-Part Families.” Journal of Combinatorial Theory Series A. Elsevier,
2018. https://doi.org/10.1016/j.jcta.2017.12.001.
ieee: M. A. Kwan, B. Sudakov, and P. Vieira, “Non-trivially intersecting multi-part
families,” Journal of Combinatorial Theory Series A, vol. 156. Elsevier,
pp. 44–60, 2018.
ista: Kwan MA, Sudakov B, Vieira P. 2018. Non-trivially intersecting multi-part
families. Journal of Combinatorial Theory Series A. 156, 44–60.
mla: Kwan, Matthew Alan, et al. “Non-Trivially Intersecting Multi-Part Families.”
Journal of Combinatorial Theory Series A, vol. 156, Elsevier, 2018, pp.
44–60, doi:10.1016/j.jcta.2017.12.001.
short: M.A. Kwan, B. Sudakov, P. Vieira, Journal of Combinatorial Theory Series
A 156 (2018) 44–60.
date_created: 2021-06-22T11:42:48Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2023-02-23T14:01:55Z
day: '01'
doi: 10.1016/j.jcta.2017.12.001
extern: '1'
external_id:
arxiv:
- '1703.09946'
intvolume: ' 156'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1703.09946
month: '05'
oa: 1
oa_version: Preprint
page: 44-60
publication: Journal of Combinatorial Theory Series A
publication_identifier:
issn:
- 0097-3165
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Non-trivially intersecting multi-part families
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 156
year: '2018'
...
---
_id: '9665'
abstract:
- lang: eng
text: We investigate the thermodynamics and kinetics of a hydrogen interstitial
in magnetic α-iron, taking account of the quantum fluctuations of the proton as
well as the anharmonicities of lattice vibrations and hydrogen hopping. We show
that the diffusivity of hydrogen in the lattice of bcc iron deviates strongly
from an Arrhenius behavior at and below room temperature. We compare a quantum
transition state theory to explicit ring polymer molecular dynamics in the calculation
of diffusivity. We then address the trapping of hydrogen by a vacancy as a prototype
lattice defect. By a sequence of steps in a thought experiment, each involving
a thermodynamic integration, we are able to separate out the binding free energy
of a proton to a defect into harmonic and anharmonic, and classical and quantum
contributions. We find that about 30% of a typical binding free energy of hydrogen
to a lattice defect in iron is accounted for by finite temperature effects, and
about half of these arise from quantum proton fluctuations. This has huge implications
for the comparison between thermal desorption and permeation experiments and standard
electronic structure theory. The implications are even greater for the interpretation
of muon spin resonance experiments.
article_number: '225901'
article_processing_charge: No
article_type: review
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Anthony T.
full_name: Paxton, Anthony T.
last_name: Paxton
- first_name: Michele
full_name: Ceriotti, Michele
last_name: Ceriotti
citation:
ama: 'Cheng B, Paxton AT, Ceriotti M. Hydrogen diffusion and trapping in α-iron:
The role of quantum and anharmonic fluctuations. Physical Review Letters.
2018;120(22). doi:10.1103/physrevlett.120.225901'
apa: 'Cheng, B., Paxton, A. T., & Ceriotti, M. (2018). Hydrogen diffusion and
trapping in α-iron: The role of quantum and anharmonic fluctuations. Physical
Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.120.225901'
chicago: 'Cheng, Bingqing, Anthony T. Paxton, and Michele Ceriotti. “Hydrogen Diffusion
and Trapping in α-Iron: The Role of Quantum and Anharmonic Fluctuations.” Physical
Review Letters. American Physical Society, 2018. https://doi.org/10.1103/physrevlett.120.225901.'
ieee: 'B. Cheng, A. T. Paxton, and M. Ceriotti, “Hydrogen diffusion and trapping
in α-iron: The role of quantum and anharmonic fluctuations,” Physical Review
Letters, vol. 120, no. 22. American Physical Society, 2018.'
ista: 'Cheng B, Paxton AT, Ceriotti M. 2018. Hydrogen diffusion and trapping in
α-iron: The role of quantum and anharmonic fluctuations. Physical Review Letters.
120(22), 225901.'
mla: 'Cheng, Bingqing, et al. “Hydrogen Diffusion and Trapping in α-Iron: The Role
of Quantum and Anharmonic Fluctuations.” Physical Review Letters, vol.
120, no. 22, 225901, American Physical Society, 2018, doi:10.1103/physrevlett.120.225901.'
short: B. Cheng, A.T. Paxton, M. Ceriotti, Physical Review Letters 120 (2018).
date_created: 2021-07-15T12:22:41Z
date_published: 2018-06-01T00:00:00Z
date_updated: 2021-08-09T12:36:22Z
day: '01'
doi: 10.1103/physrevlett.120.225901
extern: '1'
external_id:
arxiv:
- '1803.00600'
pmid:
- '29906144'
intvolume: ' 120'
issue: '22'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1803.00600
month: '06'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Hydrogen diffusion and trapping in α-iron: The role of quantum and anharmonic
fluctuations'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 120
year: '2018'
...
---
_id: '9659'
abstract:
- lang: eng
text: The curvature dependence of interfacial free energy, which is crucial in quantitatively
predicting nucleation kinetics and the stability of bubbles and droplets, is quantified
by the Tolman length δ. For solid-liquid interfaces, however, δ has never been
computed directly due to various theoretical and practical challenges. Here we
perform a direct evaluation of the Tolman length from atomistic simulations of
a solid-liquid planar interface in out-of-equilibrium conditions, by first computing
the surface tension from the amplitude of thermal capillary fluctuations of a
localized version of the Gibbs dividing surface and by then calculating how much
the surface energy changes when it is defined relative to the equimolar dividing
surface. We computed δ for a model potential, and found a good agreement with
the values indirectly inferred from nucleation simulations. The agreement not
only validates our approach but also suggests that the nucleation free energy
of the system can be perfectly described using classical nucleation theory if
the Tolman length is taken into account.
article_number: '231102'
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Michele
full_name: Ceriotti, Michele
last_name: Ceriotti
citation:
ama: 'Cheng B, Ceriotti M. Communication: Computing the Tolman length for solid-liquid
interfaces. The Journal of Chemical Physics. 2018;148(23). doi:10.1063/1.5038396'
apa: 'Cheng, B., & Ceriotti, M. (2018). Communication: Computing the Tolman
length for solid-liquid interfaces. The Journal of Chemical Physics. AIP
Publishing. https://doi.org/10.1063/1.5038396'
chicago: 'Cheng, Bingqing, and Michele Ceriotti. “Communication: Computing the Tolman
Length for Solid-Liquid Interfaces.” The Journal of Chemical Physics. AIP
Publishing, 2018. https://doi.org/10.1063/1.5038396.'
ieee: 'B. Cheng and M. Ceriotti, “Communication: Computing the Tolman length for
solid-liquid interfaces,” The Journal of Chemical Physics, vol. 148, no.
23. AIP Publishing, 2018.'
ista: 'Cheng B, Ceriotti M. 2018. Communication: Computing the Tolman length for
solid-liquid interfaces. The Journal of Chemical Physics. 148(23), 231102.'
mla: 'Cheng, Bingqing, and Michele Ceriotti. “Communication: Computing the Tolman
Length for Solid-Liquid Interfaces.” The Journal of Chemical Physics, vol.
148, no. 23, 231102, AIP Publishing, 2018, doi:10.1063/1.5038396.'
short: B. Cheng, M. Ceriotti, The Journal of Chemical Physics 148 (2018).
date_created: 2021-07-15T07:51:42Z
date_published: 2018-06-21T00:00:00Z
date_updated: 2023-02-23T14:03:57Z
day: '21'
doi: 10.1063/1.5038396
extern: '1'
external_id:
arxiv:
- '1803.09140'
pmid:
- '29935495'
intvolume: ' 148'
issue: '23'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1063/1.5038396
month: '06'
oa: 1
oa_version: Submitted Version
pmid: 1
publication: The Journal of Chemical Physics
publication_identifier:
eissn:
- 1089-7690
issn:
- 0021-9606
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Communication: Computing the Tolman length for solid-liquid interfaces'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 148
year: '2018'
...
---
_id: '12603'
abstract:
- lang: eng
text: We present a field-data rich modelling analysis to reconstruct the climatic
forcing, glacier response, and runoff generation from a high-elevation catchment
in central Chile over the period 2000–2015 to provide insights into the differing
contributions of debris-covered and debris-free glaciers under current and future
changing climatic conditions. Model simulations with the physically based glacio-hydrological
model TOPKAPI-ETH reveal a period of neutral or slightly positive mass balance
between 2000 and 2010, followed by a transition to increasingly large annual mass
losses, associated with a recent mega drought. Mass losses commence earlier, and
are more severe, for a heavily debris-covered glacier, most likely due to its
strong dependence on snow avalanche accumulation, which has declined in recent
years. Catchment runoff shows a marked decreasing trend over the study period,
but with high interannual variability directly linked to winter snow accumulation,
and high contribution from ice melt in dry periods and drought conditions. The
study demonstrates the importance of incorporating local-scale processes such
as snow avalanche accumulation and spatially variable debris thickness, in understanding
the responses of different glacier types to climate change. We highlight the increased
dependency of runoff from high Andean catchments on the diminishing resource of
glacier ice during dry years.
article_processing_charge: No
article_type: original
author:
- first_name: Flavia
full_name: Burger, Flavia
last_name: Burger
- first_name: Alvaro
full_name: Ayala, Alvaro
last_name: Ayala
- first_name: David
full_name: Farias, David
last_name: Farias
- first_name: Thomas E.
full_name: Shaw, Thomas E.
last_name: Shaw
- first_name: Shelley
full_name: MacDonell, Shelley
last_name: MacDonell
- first_name: Ben
full_name: Brock, Ben
last_name: Brock
- first_name: James
full_name: McPhee, James
last_name: McPhee
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: 'Burger F, Ayala A, Farias D, et al. Interannual variability in glacier contribution
to runoff from a high‐elevation Andean catchment: Understanding the role of debris
cover in glacier hydrology. Hydrological Processes. 2018;33(2):214-229.
doi:10.1002/hyp.13354'
apa: 'Burger, F., Ayala, A., Farias, D., Shaw, T. E., MacDonell, S., Brock, B.,
… Pellicciotti, F. (2018). Interannual variability in glacier contribution to
runoff from a high‐elevation Andean catchment: Understanding the role of debris
cover in glacier hydrology. Hydrological Processes. Wiley. https://doi.org/10.1002/hyp.13354'
chicago: 'Burger, Flavia, Alvaro Ayala, David Farias, Thomas E. Shaw, Shelley MacDonell,
Ben Brock, James McPhee, and Francesca Pellicciotti. “Interannual Variability
in Glacier Contribution to Runoff from a High‐elevation Andean Catchment: Understanding
the Role of Debris Cover in Glacier Hydrology.” Hydrological Processes.
Wiley, 2018. https://doi.org/10.1002/hyp.13354.'
ieee: 'F. Burger et al., “Interannual variability in glacier contribution
to runoff from a high‐elevation Andean catchment: Understanding the role of debris
cover in glacier hydrology,” Hydrological Processes, vol. 33, no. 2. Wiley,
pp. 214–229, 2018.'
ista: 'Burger F, Ayala A, Farias D, Shaw TE, MacDonell S, Brock B, McPhee J, Pellicciotti
F. 2018. Interannual variability in glacier contribution to runoff from a high‐elevation
Andean catchment: Understanding the role of debris cover in glacier hydrology.
Hydrological Processes. 33(2), 214–229.'
mla: 'Burger, Flavia, et al. “Interannual Variability in Glacier Contribution to
Runoff from a High‐elevation Andean Catchment: Understanding the Role of Debris
Cover in Glacier Hydrology.” Hydrological Processes, vol. 33, no. 2, Wiley,
2018, pp. 214–29, doi:10.1002/hyp.13354.'
short: F. Burger, A. Ayala, D. Farias, T.E. Shaw, S. MacDonell, B. Brock, J. McPhee,
F. Pellicciotti, Hydrological Processes 33 (2018) 214–229.
date_created: 2023-02-20T08:13:14Z
date_published: 2018-11-26T00:00:00Z
date_updated: 2023-02-28T11:49:36Z
day: '26'
doi: 10.1002/hyp.13354
extern: '1'
intvolume: ' 33'
issue: '2'
keyword:
- Water Science and Technology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/hyp.13354
month: '11'
oa: 1
oa_version: Published Version
page: 214-229
publication: Hydrological Processes
publication_identifier:
eissn:
- 1099-1085
issn:
- 0885-6087
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Interannual variability in glacier contribution to runoff from a high‐elevation
Andean catchment: Understanding the role of debris cover in glacier hydrology'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 33
year: '2018'
...
---
_id: '12605'
abstract:
- lang: eng
text: Snow depth patterns over glaciers are controlled by precipitation, snow redistribution
due to wind and avalanches, and the exchange of energy with the atmosphere that
determines snow ablation. While many studies have advanced the understanding of
ablation processes, less is known about winter snow patterns and their variability
over glaciers. We analyze snow depth on Haut Glacier d'Arolla, Switzerland, in
the two winter seasons 2006–2007 and 2010–2011 to (1) understand whether snow
depth over an alpine glacier at the end of the accumulation season exhibits a
behavior similar to the one observed on single slopes and vegetated areas; and
(2) investigate the snow pattern consistency over the two accumulation seasons.
We perform this analysis on a data set of high-resolution lidar-derived snow depth
using variograms and fractal parameters. Our first main result is that snow depth
patterns on the glacier exhibit a multiscale behavior, with a scale break around
20 m after which the fractal dimension increases, indicating more autocorrelated
structure before the scale break than after. Second, this behavior is consistent
over the two years, with fractal parameters and their spatial variability almost
constant in the two seasons. We also show that snow depth patterns exhibit a distinct
behavior in the glacier tongue and the upper catchment, with longer correlation
distances on the tongue in the direction of the main winds, suggesting spatial
distinctions that are likely induced by different processes and that should be
taken into account when extrapolating snow depth from limited samples.
article_processing_charge: No
article_type: original
author:
- first_name: I.
full_name: Clemenzi, I.
last_name: Clemenzi
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
- first_name: P.
full_name: Burlando, P.
last_name: Burlando
citation:
ama: Clemenzi I, Pellicciotti F, Burlando P. Snow depth structure, fractal behavior,
and interannual consistency over Haut Glacier d’Arolla, Switzerland. Water
Resources Research. 2018;54(10):7929-7945. doi:10.1029/2017wr021606
apa: Clemenzi, I., Pellicciotti, F., & Burlando, P. (2018). Snow depth structure,
fractal behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland.
Water Resources Research. American Geophysical Union. https://doi.org/10.1029/2017wr021606
chicago: Clemenzi, I., Francesca Pellicciotti, and P. Burlando. “Snow Depth Structure,
Fractal Behavior, and Interannual Consistency over Haut Glacier d’Arolla, Switzerland.”
Water Resources Research. American Geophysical Union, 2018. https://doi.org/10.1029/2017wr021606.
ieee: I. Clemenzi, F. Pellicciotti, and P. Burlando, “Snow depth structure, fractal
behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland,”
Water Resources Research, vol. 54, no. 10. American Geophysical Union,
pp. 7929–7945, 2018.
ista: Clemenzi I, Pellicciotti F, Burlando P. 2018. Snow depth structure, fractal
behavior, and interannual consistency over Haut Glacier d’Arolla, Switzerland.
Water Resources Research. 54(10), 7929–7945.
mla: Clemenzi, I., et al. “Snow Depth Structure, Fractal Behavior, and Interannual
Consistency over Haut Glacier d’Arolla, Switzerland.” Water Resources Research,
vol. 54, no. 10, American Geophysical Union, 2018, pp. 7929–45, doi:10.1029/2017wr021606.
short: I. Clemenzi, F. Pellicciotti, P. Burlando, Water Resources Research 54 (2018)
7929–7945.
date_created: 2023-02-20T08:13:31Z
date_published: 2018-06-07T00:00:00Z
date_updated: 2023-02-28T11:42:40Z
day: '07'
doi: 10.1029/2017wr021606
extern: '1'
intvolume: ' 54'
issue: '10'
keyword:
- Water Science and Technology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1029/2017WR021606
month: '06'
oa: 1
oa_version: Published Version
page: 7929-7945
publication: Water Resources Research
publication_identifier:
eissn:
- 1944-7973
issn:
- 0043-1397
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: Snow depth structure, fractal behavior, and interannual consistency over Haut
Glacier d'Arolla, Switzerland
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2018'
...
---
_id: '12604'
abstract:
- lang: eng
text: Glaciers in the high mountains of Asia provide an important water resource
for millions of people. Many of these glaciers are partially covered by rocky
debris, which protects the ice from solar radiation and warm air. However, studies
have found that the surface of these debris-covered glaciers is actually lowering
as fast as glaciers without debris. Water ponded on the surface of the glaciers
may be partially responsible, as water can absorb atmospheric energy very efficiently.
However, the overall effect of these ponds has not been thoroughly assessed yet.
We study a valley in Nepal for which we have extensive weather measurements, and
we use a numerical model to calculate the energy absorbed by ponds on the surface
of the glaciers over 6 months. As we have not observed each individual pond thoroughly,
we run the model 5,000 times with different setups. We find that ponds are extremely
important for glacier melt and absorb energy 14 times as quickly as the debris-covered
ice. Although the ponds account for 1% of the glacier area covered by rocks, and
only 0.3% of the total glacier area, they absorb enough energy to account for
one eighth of the whole valley's ice loss.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Evan S.
full_name: Miles, Evan S.
last_name: Miles
- first_name: Ian
full_name: Willis, Ian
last_name: Willis
- first_name: Pascal
full_name: Buri, Pascal
last_name: Buri
- first_name: Jakob F.
full_name: Steiner, Jakob F.
last_name: Steiner
- first_name: Neil S.
full_name: Arnold, Neil S.
last_name: Arnold
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: Miles ES, Willis I, Buri P, Steiner JF, Arnold NS, Pellicciotti F. Surface
pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total
catchment ice loss. Geophysical Research Letters. 2018;45(19):10464-10473.
doi:10.1029/2018gl079678
apa: Miles, E. S., Willis, I., Buri, P., Steiner, J. F., Arnold, N. S., & Pellicciotti,
F. (2018). Surface pond energy absorption across four Himalayan Glaciers accounts
for 1/8 of total catchment ice loss. Geophysical Research Letters. American
Geophysical Union. https://doi.org/10.1029/2018gl079678
chicago: Miles, Evan S., Ian Willis, Pascal Buri, Jakob F. Steiner, Neil S. Arnold,
and Francesca Pellicciotti. “Surface Pond Energy Absorption across Four Himalayan
Glaciers Accounts for 1/8 of Total Catchment Ice Loss.” Geophysical Research
Letters. American Geophysical Union, 2018. https://doi.org/10.1029/2018gl079678.
ieee: E. S. Miles, I. Willis, P. Buri, J. F. Steiner, N. S. Arnold, and F. Pellicciotti,
“Surface pond energy absorption across four Himalayan Glaciers accounts for 1/8
of total catchment ice loss,” Geophysical Research Letters, vol. 45, no.
19. American Geophysical Union, pp. 10464–10473, 2018.
ista: Miles ES, Willis I, Buri P, Steiner JF, Arnold NS, Pellicciotti F. 2018. Surface
pond energy absorption across four Himalayan Glaciers accounts for 1/8 of total
catchment ice loss. Geophysical Research Letters. 45(19), 10464–10473.
mla: Miles, Evan S., et al. “Surface Pond Energy Absorption across Four Himalayan
Glaciers Accounts for 1/8 of Total Catchment Ice Loss.” Geophysical Research
Letters, vol. 45, no. 19, American Geophysical Union, 2018, pp. 10464–73,
doi:10.1029/2018gl079678.
short: E.S. Miles, I. Willis, P. Buri, J.F. Steiner, N.S. Arnold, F. Pellicciotti,
Geophysical Research Letters 45 (2018) 10464–10473.
date_created: 2023-02-20T08:13:18Z
date_published: 2018-10-18T00:00:00Z
date_updated: 2023-02-28T11:46:48Z
day: '18'
doi: 10.1029/2018gl079678
extern: '1'
intvolume: ' 45'
issue: '19'
keyword:
- General Earth and Planetary Sciences
- Geophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1029/2018GL079678
month: '10'
oa: 1
oa_version: Published Version
page: 10464-10473
publication: Geophysical Research Letters
publication_identifier:
eissn:
- 1944-8007
issn:
- 0094-8276
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: Surface pond energy absorption across four Himalayan Glaciers accounts for
1/8 of total catchment ice loss
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 45
year: '2018'
...
---
_id: '12607'
abstract:
- lang: eng
text: Supraglacial ice cliffs exist on debris-covered glaciers worldwide, but despite
their importance as melt hot spots, their life cycle is little understood. Early
field observations had advanced a hypothesis of survival of north-facing and disappearance
of south-facing cliffs, which is central for predicting the contribution of cliffs
to total glacier mass losses. Their role as windows of energy transfer suggests
they may explain the anomalously high mass losses of debris-covered glaciers in
High Mountain Asia (HMA) despite the insulating debris, currently at the center
of a debated controversy. We use a 3D model of cliff evolution coupled to very
high-resolution topographic data to demonstrate that ice cliffs facing south (in
the Northern Hemisphere) disappear within a few months due to enhanced solar radiation
receipts and that aspect is the key control on cliffs evolution. We reproduce
continuous flattening of south-facing cliffs, a result of their vertical gradient
of incoming solar radiation and sky view factor. Our results establish that only
north-facing cliffs are recurrent features and thus stable contributors to the
melting of debris-covered glaciers. Satellite observations and mass balance modeling
confirms that few south-facing cliffs of small size exist on the glaciers of Langtang,
and their contribution to the glacier volume losses is very small (∼1%). This
has major implications for the mass balance of HMA debris-covered glaciers as
it provides the basis for new parameterizations of cliff evolution and distribution
to constrain volume losses in a region where glaciers are highly relevant as water
sources for millions of people.
article_processing_charge: No
article_type: original
author:
- first_name: Pascal
full_name: Buri, Pascal
last_name: Buri
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: Buri P, Pellicciotti F. Aspect controls the survival of ice cliffs on debris-covered
glaciers. PNAS. 2018;115(17):4369-4374. doi:10.1073/pnas.1713892115
apa: Buri, P., & Pellicciotti, F. (2018). Aspect controls the survival of ice
cliffs on debris-covered glaciers. PNAS. Proceedings of the National Academy
of Sciences. https://doi.org/10.1073/pnas.1713892115
chicago: Buri, Pascal, and Francesca Pellicciotti. “Aspect Controls the Survival
of Ice Cliffs on Debris-Covered Glaciers.” PNAS. Proceedings of the National
Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1713892115.
ieee: P. Buri and F. Pellicciotti, “Aspect controls the survival of ice cliffs on
debris-covered glaciers,” PNAS, vol. 115, no. 17. Proceedings of the National
Academy of Sciences, pp. 4369–4374, 2018.
ista: Buri P, Pellicciotti F. 2018. Aspect controls the survival of ice cliffs on
debris-covered glaciers. PNAS. 115(17), 4369–4374.
mla: Buri, Pascal, and Francesca Pellicciotti. “Aspect Controls the Survival of
Ice Cliffs on Debris-Covered Glaciers.” PNAS, vol. 115, no. 17, Proceedings
of the National Academy of Sciences, 2018, pp. 4369–74, doi:10.1073/pnas.1713892115.
short: P. Buri, F. Pellicciotti, PNAS 115 (2018) 4369–4374.
date_created: 2023-02-20T08:13:41Z
date_published: 2018-04-09T00:00:00Z
date_updated: 2023-02-28T11:35:18Z
day: '09'
doi: 10.1073/pnas.1713892115
extern: '1'
intvolume: ' 115'
issue: '17'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1713892115
month: '04'
oa: 1
oa_version: Published Version
page: 4369-4374
publication: PNAS
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Aspect controls the survival of ice cliffs on debris-covered glaciers
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 115
year: '2018'
...
---
_id: '12606'
abstract:
- lang: eng
text: Ice cliffs within a supraglacial debris cover have been identified as a source
for high ablation relative to the surrounding debris-covered area. Due to their
small relative size and steep orientation, ice cliffs are difficult to detect
using nadir-looking space borne sensors. The method presented here uses surface
slopes calculated from digital elevation model (DEM) data to map ice cliff geometry
and produce an ice cliff probability map. Surface slope thresholds, which can
be sensitive to geographic location and/or data quality, are selected automatically.
The method also attempts to include area at the (often narrowing) ends of ice
cliffs which could otherwise be neglected due to signal saturation in surface
slope data. The method was calibrated in the eastern Alaska Range, Alaska, USA,
against a control ice cliff dataset derived from high-resolution visible and thermal
data. Using the same input parameter set that performed best in Alaska, the method
was tested against ice cliffs manually mapped in the Khumbu Himal, Nepal. Our
results suggest the method can accommodate different glaciological settings and
different DEM data sources without a data intensive (high-resolution, multi-data
source) recalibration.
article_processing_charge: No
article_type: original
author:
- first_name: Sam
full_name: Herreid, Sam
last_name: Herreid
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: Herreid S, Pellicciotti F. Automated detection of ice cliffs within supraglacial
debris cover. The Cryosphere. 2018;12(5):1811-1829. doi:10.5194/tc-12-1811-2018
apa: Herreid, S., & Pellicciotti, F. (2018). Automated detection of ice cliffs
within supraglacial debris cover. The Cryosphere. Copernicus Publications.
https://doi.org/10.5194/tc-12-1811-2018
chicago: Herreid, Sam, and Francesca Pellicciotti. “Automated Detection of Ice Cliffs
within Supraglacial Debris Cover.” The Cryosphere. Copernicus Publications,
2018. https://doi.org/10.5194/tc-12-1811-2018.
ieee: S. Herreid and F. Pellicciotti, “Automated detection of ice cliffs within
supraglacial debris cover,” The Cryosphere, vol. 12, no. 5. Copernicus
Publications, pp. 1811–1829, 2018.
ista: Herreid S, Pellicciotti F. 2018. Automated detection of ice cliffs within
supraglacial debris cover. The Cryosphere. 12(5), 1811–1829.
mla: Herreid, Sam, and Francesca Pellicciotti. “Automated Detection of Ice Cliffs
within Supraglacial Debris Cover.” The Cryosphere, vol. 12, no. 5, Copernicus
Publications, 2018, pp. 1811–29, doi:10.5194/tc-12-1811-2018.
short: S. Herreid, F. Pellicciotti, The Cryosphere 12 (2018) 1811–1829.
date_created: 2023-02-20T08:13:36Z
date_published: 2018-05-31T00:00:00Z
date_updated: 2023-02-28T11:39:26Z
day: '31'
doi: 10.5194/tc-12-1811-2018
extern: '1'
intvolume: ' 12'
issue: '5'
keyword:
- Earth-Surface Processes
- Water Science and Technology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.5194/tc-12-1811-2018
month: '05'
oa: 1
oa_version: Published Version
page: 1811-1829
publication: The Cryosphere
publication_identifier:
issn:
- 1994-0424
publication_status: published
publisher: Copernicus Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Automated detection of ice cliffs within supraglacial debris cover
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2018'
...
---
_id: '13255'
abstract:
- lang: eng
text: Focused ion beams perfectly suit for patterning two-dimensional (2D) materials,
but the optimization of irradiation parameters requires full microscopic understanding
of defect production mechanisms. In contrast to freestanding 2D systems, the details
of damage creation in supported 2D materials are not fully understood, whereas
the majority of experiments have been carried out for 2D targets deposited on
substrates. Here, we suggest a universal and computationally efficient scheme
to model the irradiation of supported 2D materials, which combines analytical
potential molecular dynamics with Monte Carlo simulations and makes it possible
to independently assess the contributions to the damage from backscattered ions
and atoms sputtered from the substrate. Using the scheme, we study the defect
production in graphene and MoS2 sheets, which are the two most important and wide-spread
2D materials, deposited on a SiO2 substrate. For helium and neon ions with a wide
range of initial ion energies including those used in a commercial helium ion
microscope (HIM), we demonstrate that depending on the ion energy and mass, the
defect production in 2D systems can be dominated by backscattered ions and sputtered
substrate atoms rather than by the direct ion impacts and that the amount of damage
in 2D materials heavily depends on whether a substrate is present or not. We also
study the factors which limit the spatial resolution of the patterning process.
Our results, which agree well with the available experimental data, provide not
only insights into defect production but also quantitative information, which
can be used for the minimization of damage during imaging in HIM or optimization
of the patterning process.
article_processing_charge: No
article_type: original
author:
- first_name: Silvan
full_name: Kretschmer, Silvan
last_name: Kretschmer
- first_name: Mikhail
full_name: Maslov, Mikhail
id: 2E65BB0E-F248-11E8-B48F-1D18A9856A87
last_name: Maslov
orcid: 0000-0003-4074-2570
- first_name: Sadegh
full_name: Ghaderzadeh, Sadegh
last_name: Ghaderzadeh
- first_name: Mahdi
full_name: Ghorbani-Asl, Mahdi
last_name: Ghorbani-Asl
- first_name: Gregor
full_name: Hlawacek, Gregor
last_name: Hlawacek
- first_name: Arkady V.
full_name: Krasheninnikov, Arkady V.
last_name: Krasheninnikov
citation:
ama: 'Kretschmer S, Maslov M, Ghaderzadeh S, Ghorbani-Asl M, Hlawacek G, Krasheninnikov
AV. Supported two-dimensional materials under ion irradiation: The substrate governs
defect production. ACS Applied Materials & Interfaces. 2018;10(36):30827-30836.
doi:10.1021/acsami.8b08471'
apa: 'Kretschmer, S., Maslov, M., Ghaderzadeh, S., Ghorbani-Asl, M., Hlawacek, G.,
& Krasheninnikov, A. V. (2018). Supported two-dimensional materials under
ion irradiation: The substrate governs defect production. ACS Applied Materials
& Interfaces. American Chemical Society. https://doi.org/10.1021/acsami.8b08471'
chicago: 'Kretschmer, Silvan, Mikhail Maslov, Sadegh Ghaderzadeh, Mahdi Ghorbani-Asl,
Gregor Hlawacek, and Arkady V. Krasheninnikov. “Supported Two-Dimensional Materials
under Ion Irradiation: The Substrate Governs Defect Production.” ACS Applied
Materials & Interfaces. American Chemical Society, 2018. https://doi.org/10.1021/acsami.8b08471.'
ieee: 'S. Kretschmer, M. Maslov, S. Ghaderzadeh, M. Ghorbani-Asl, G. Hlawacek, and
A. V. Krasheninnikov, “Supported two-dimensional materials under ion irradiation:
The substrate governs defect production,” ACS Applied Materials & Interfaces,
vol. 10, no. 36. American Chemical Society, pp. 30827–30836, 2018.'
ista: 'Kretschmer S, Maslov M, Ghaderzadeh S, Ghorbani-Asl M, Hlawacek G, Krasheninnikov
AV. 2018. Supported two-dimensional materials under ion irradiation: The substrate
governs defect production. ACS Applied Materials & Interfaces. 10(36), 30827–30836.'
mla: 'Kretschmer, Silvan, et al. “Supported Two-Dimensional Materials under Ion
Irradiation: The Substrate Governs Defect Production.” ACS Applied Materials
& Interfaces, vol. 10, no. 36, American Chemical Society, 2018, pp. 30827–36,
doi:10.1021/acsami.8b08471.'
short: S. Kretschmer, M. Maslov, S. Ghaderzadeh, M. Ghorbani-Asl, G. Hlawacek, A.V.
Krasheninnikov, ACS Applied Materials & Interfaces 10 (2018) 30827–30836.
date_created: 2023-07-21T11:43:00Z
date_published: 2018-08-17T00:00:00Z
date_updated: 2023-08-01T07:18:30Z
day: '17'
doi: 10.1021/acsami.8b08471
extern: '1'
external_id:
pmid:
- '30117320'
intvolume: ' 10'
issue: '36'
keyword:
- General Materials Science
language:
- iso: eng
month: '08'
oa_version: None
page: 30827-30836
pmid: 1
publication: ACS Applied Materials & Interfaces
publication_identifier:
issn:
- 1944-8244
- 1944-8252
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: 'Supported two-dimensional materials under ion irradiation: The substrate governs
defect production'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10
year: '2018'
...
---
_id: '13376'
abstract:
- lang: eng
text: Efficient molecular switching in confined spaces is critical for the successful
development of artificial molecular machines. However, molecular switching events
often entail large structural changes and therefore require conformational freedom,
which is typically limited under confinement conditions. Here, we investigated
the behavior of azobenzene—the key building block of light-controlled molecular
machines—in a confined environment that is flexible and can adapt its shape to
that of the bound guest. To this end, we encapsulated several structurally diverse
azobenzenes within the cavity of a flexible, water-soluble coordination cage,
and investigated their light-responsive behavior. Using UV/Vis absorption spectroscopy
and a combination of NMR methods, we showed that each of the encapsulated azobenzenes
exhibited distinct switching properties. An azobenzene forming a 1:1 host–guest
inclusion complex could be efficiently photoisomerized in a reversible fashion.
In contrast, successful switching in inclusion complexes incorporating two azobenzene
guests was dependent on the availability of free cages in the system, and it involved
reversible trafficking of azobenzene between the cages. In the absence of extra
cages, photoswitching was either suppressed or it involved expulsion of azobenzene
from the cage and consequently its precipitation from the solution. This finding
was utilized to develop an information storage medium in which messages could
be written and erased in a reversible fashion using light.
article_processing_charge: No
article_type: original
author:
- first_name: Dipak
full_name: Samanta, Dipak
last_name: Samanta
- first_name: Julius
full_name: Gemen, Julius
last_name: Gemen
- first_name: Zonglin
full_name: Chu, Zonglin
last_name: Chu
- first_name: Yael
full_name: Diskin-Posner, Yael
last_name: Diskin-Posner
- first_name: Linda J. W.
full_name: Shimon, Linda J. W.
last_name: Shimon
- first_name: Rafal
full_name: Klajn, Rafal
id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b
last_name: Klajn
citation:
ama: Samanta D, Gemen J, Chu Z, Diskin-Posner Y, Shimon LJW, Klajn R. Reversible
photoswitching of encapsulated azobenzenes in water. Proceedings of the National
Academy of Sciences. 2018;115(38):9379-9384. doi:10.1073/pnas.1712787115
apa: Samanta, D., Gemen, J., Chu, Z., Diskin-Posner, Y., Shimon, L. J. W., &
Klajn, R. (2018). Reversible photoswitching of encapsulated azobenzenes in water.
Proceedings of the National Academy of Sciences. Proceedings of the National
Academy of Sciences. https://doi.org/10.1073/pnas.1712787115
chicago: Samanta, Dipak, Julius Gemen, Zonglin Chu, Yael Diskin-Posner, Linda J.
W. Shimon, and Rafal Klajn. “Reversible Photoswitching of Encapsulated Azobenzenes
in Water.” Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1712787115.
ieee: D. Samanta, J. Gemen, Z. Chu, Y. Diskin-Posner, L. J. W. Shimon, and R. Klajn,
“Reversible photoswitching of encapsulated azobenzenes in water,” Proceedings
of the National Academy of Sciences, vol. 115, no. 38. Proceedings of the
National Academy of Sciences, pp. 9379–9384, 2018.
ista: Samanta D, Gemen J, Chu Z, Diskin-Posner Y, Shimon LJW, Klajn R. 2018. Reversible
photoswitching of encapsulated azobenzenes in water. Proceedings of the National
Academy of Sciences. 115(38), 9379–9384.
mla: Samanta, Dipak, et al. “Reversible Photoswitching of Encapsulated Azobenzenes
in Water.” Proceedings of the National Academy of Sciences, vol. 115, no.
38, Proceedings of the National Academy of Sciences, 2018, pp. 9379–84, doi:10.1073/pnas.1712787115.
short: D. Samanta, J. Gemen, Z. Chu, Y. Diskin-Posner, L.J.W. Shimon, R. Klajn,
Proceedings of the National Academy of Sciences 115 (2018) 9379–9384.
date_created: 2023-08-01T09:40:00Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2023-08-07T10:58:11Z
day: '01'
doi: 10.1073/pnas.1712787115
extern: '1'
external_id:
pmid:
- '29717041'
intvolume: ' 115'
issue: '38'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1712787115
month: '05'
oa: 1
oa_version: Published Version
page: 9379-9384
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Reversible photoswitching of encapsulated azobenzenes in water
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 115
year: '2018'
...
---
_id: '13374'
abstract:
- lang: eng
text: Confining molecules to volumes only slightly larger than the molecules themselves
can profoundly alter their properties. Molecular switches—entities that can be
toggled between two or more forms upon exposure to an external stimulus—often
require conformational freedom to isomerize. Therefore, placing these switches
in confined spaces can render them non-operational. To preserve the switchability
of these species under confinement, we work with a water-soluble coordination
cage that is flexible enough to adapt its shape to the conformation of the encapsulated
guest. We show that owing to its flexibility, the cage is not only capable of
accommodating—and solubilizing in water—several light-responsive spiropyran-based
molecular switches, but, more importantly, it also provides an environment suitable
for the efficient, reversible photoisomerization of the bound guests. Our findings
pave the way towards studying various molecular switching processes in confined
environments.
article_number: '641'
article_processing_charge: No
article_type: original
author:
- first_name: Dipak
full_name: Samanta, Dipak
last_name: Samanta
- first_name: Daria
full_name: Galaktionova, Daria
last_name: Galaktionova
- first_name: Julius
full_name: Gemen, Julius
last_name: Gemen
- first_name: Linda J. W.
full_name: Shimon, Linda J. W.
last_name: Shimon
- first_name: Yael
full_name: Diskin-Posner, Yael
last_name: Diskin-Posner
- first_name: Liat
full_name: Avram, Liat
last_name: Avram
- first_name: Petr
full_name: Král, Petr
last_name: Král
- first_name: Rafal
full_name: Klajn, Rafal
id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b
last_name: Klajn
citation:
ama: Samanta D, Galaktionova D, Gemen J, et al. Reversible chromism of spiropyran
in the cavity of a flexible coordination cage. Nature Communications. 2018;9.
doi:10.1038/s41467-017-02715-6
apa: Samanta, D., Galaktionova, D., Gemen, J., Shimon, L. J. W., Diskin-Posner,
Y., Avram, L., … Klajn, R. (2018). Reversible chromism of spiropyran in the cavity
of a flexible coordination cage. Nature Communications. Springer Nature.
https://doi.org/10.1038/s41467-017-02715-6
chicago: Samanta, Dipak, Daria Galaktionova, Julius Gemen, Linda J. W. Shimon, Yael
Diskin-Posner, Liat Avram, Petr Král, and Rafal Klajn. “Reversible Chromism of
Spiropyran in the Cavity of a Flexible Coordination Cage.” Nature Communications.
Springer Nature, 2018. https://doi.org/10.1038/s41467-017-02715-6.
ieee: D. Samanta et al., “Reversible chromism of spiropyran in the cavity
of a flexible coordination cage,” Nature Communications, vol. 9. Springer
Nature, 2018.
ista: Samanta D, Galaktionova D, Gemen J, Shimon LJW, Diskin-Posner Y, Avram L,
Král P, Klajn R. 2018. Reversible chromism of spiropyran in the cavity of a flexible
coordination cage. Nature Communications. 9, 641.
mla: Samanta, Dipak, et al. “Reversible Chromism of Spiropyran in the Cavity of
a Flexible Coordination Cage.” Nature Communications, vol. 9, 641, Springer
Nature, 2018, doi:10.1038/s41467-017-02715-6.
short: D. Samanta, D. Galaktionova, J. Gemen, L.J.W. Shimon, Y. Diskin-Posner, L.
Avram, P. Král, R. Klajn, Nature Communications 9 (2018).
date_created: 2023-08-01T09:39:32Z
date_published: 2018-02-13T00:00:00Z
date_updated: 2023-08-07T10:54:05Z
day: '13'
doi: 10.1038/s41467-017-02715-6
extern: '1'
external_id:
pmid:
- '29440687'
intvolume: ' 9'
keyword:
- General Physics and Astronomy
- General Biochemistry
- Genetics and Molecular Biology
- General Chemistry
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-017-02715-6
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1038/s41467-018-03701-2
scopus_import: '1'
status: public
title: Reversible chromism of spiropyran in the cavity of a flexible coordination
cage
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2018'
...
---
_id: '13377'
abstract:
- lang: eng
text: Confining organic molecules to the surfaces of inorganic nanoparticles can
induce intermolecular interactions between them, which can affect the composition
of the mixed self-assembled monolayers obtained by co-adsorption from solution
of two different molecules. Two thiolated ligands (a dialkylviologen and a zwitterionic
sulfobetaine) that can interact with each other electrostatically were coadsorbed
onto gold nanoparticles. The nanoparticles favor a narrow range of ratios of these
two molecules that is largely independent of the molar ratio in solution. Changing
the solution molar ratio of the two ligands by a factor of 5 000 affects the on-nanoparticle
ratio of these ligands by only threefold. This behavior is reminiscent of the
formation of insoluble inorganic salts (such as AgCl), which similarly compensate
positive and negative charges upon crystallizing. Our results pave the way towards
developing well-defined hybrid organic–inorganic nanostructures.
article_processing_charge: No
article_type: original
author:
- first_name: Zonglin
full_name: Chu, Zonglin
last_name: Chu
- first_name: Yanxiao
full_name: Han, Yanxiao
last_name: Han
- first_name: Petr
full_name: Král, Petr
last_name: Král
- first_name: Rafal
full_name: Klajn, Rafal
id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b
last_name: Klajn
citation:
ama: 'Chu Z, Han Y, Král P, Klajn R. “Precipitation on nanoparticles”: Attractive
intermolecular interactions stabilize specific ligand ratios on the surfaces of
nanoparticles. Angewandte Chemie International Edition. 2018;57(24):7023-7027.
doi:10.1002/anie.201800673'
apa: 'Chu, Z., Han, Y., Král, P., & Klajn, R. (2018). “Precipitation on nanoparticles”:
Attractive intermolecular interactions stabilize specific ligand ratios on the
surfaces of nanoparticles. Angewandte Chemie International Edition. Wiley.
https://doi.org/10.1002/anie.201800673'
chicago: 'Chu, Zonglin, Yanxiao Han, Petr Král, and Rafal Klajn. “‘Precipitation
on Nanoparticles’: Attractive Intermolecular Interactions Stabilize Specific Ligand
Ratios on the Surfaces of Nanoparticles.” Angewandte Chemie International Edition.
Wiley, 2018. https://doi.org/10.1002/anie.201800673.'
ieee: 'Z. Chu, Y. Han, P. Král, and R. Klajn, “‘Precipitation on nanoparticles’:
Attractive intermolecular interactions stabilize specific ligand ratios on the
surfaces of nanoparticles,” Angewandte Chemie International Edition, vol.
57, no. 24. Wiley, pp. 7023–7027, 2018.'
ista: 'Chu Z, Han Y, Král P, Klajn R. 2018. “Precipitation on nanoparticles”: Attractive
intermolecular interactions stabilize specific ligand ratios on the surfaces of
nanoparticles. Angewandte Chemie International Edition. 57(24), 7023–7027.'
mla: 'Chu, Zonglin, et al. “‘Precipitation on Nanoparticles’: Attractive Intermolecular
Interactions Stabilize Specific Ligand Ratios on the Surfaces of Nanoparticles.”
Angewandte Chemie International Edition, vol. 57, no. 24, Wiley, 2018,
pp. 7023–27, doi:10.1002/anie.201800673.'
short: Z. Chu, Y. Han, P. Král, R. Klajn, Angewandte Chemie International Edition
57 (2018) 7023–7027.
date_created: 2023-08-01T09:40:16Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2023-08-07T11:14:28Z
day: '11'
doi: 10.1002/anie.201800673
extern: '1'
external_id:
pmid:
- '29673022'
intvolume: ' 57'
issue: '24'
keyword:
- General Chemistry
- Catalysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/anie.201800673
month: '06'
oa: 1
oa_version: Published Version
page: 7023-7027
pmid: 1
publication: Angewandte Chemie International Edition
publication_identifier:
eissn:
- 1521-3773
issn:
- 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: '“Precipitation on nanoparticles”: Attractive intermolecular interactions stabilize
specific ligand ratios on the surfaces of nanoparticles'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 57
year: '2018'
...