---
_id: '1286'
abstract:
- lang: eng
text: We use recently developed angulon theory [R. Schmidt and M. Lemeshko, Phys.
Rev. Lett. 114, 203001 (2015)PRLTAO0031-900710.1103/PhysRevLett.114.203001] to
study the rotational spectrum of a cyanide molecular anion immersed into Bose-Einstein
condensates of rubidium and strontium. Based on ab initio potential energy surfaces,
we provide a detailed study of the rotational Lamb shift and many-body-induced
fine structure which arise due to dressing of molecular rotation by a field of
phonon excitations. We demonstrate that the magnitude of these effects is large
enough in order to be observed in modern experiments on cold molecular ions. Furthermore,
we introduce a novel method to construct pseudopotentials starting from the ab
initio potential energy surfaces, which provides a means to obtain effective coupling
constants for low-energy polaron models.
acknowledgement: The work was supported by the NSF through a grant for the Institute
for Theoretical Atomic, Molecular, and Optical Physics at Harvard University and
the Smithsonian Astrophysical Observatory. B.M. acknowledges financial support received
from the People Programme (Marie Curie Actions) of the European Union's Seventh
Framework Programme (FP7/2007-2013) under REA grant agreement No. 291734. M.T. acknowledges
support from the EU Marie Curie COFUND action (ICFOnest), the EU Grants ERC AdG
OSYRIS, FP7 SIQS and EQuaM, FETPROACT QUIC, the Spanish Ministry Grants FOQUS (FIS2013-46768-P)
and Severo Ochoa (SEV-2015-0522), Generalitat de Catalunya (SGR 874), Fundacio Cellex,
the National Science Centre (2015/19/D/ST4/02173), and the PL-Grid Infrastructure.
article_number: '041601'
author:
- first_name: Bikashkali
full_name: Midya, Bikashkali
id: 456187FC-F248-11E8-B48F-1D18A9856A87
last_name: Midya
- first_name: Michał
full_name: Tomza, Michał
last_name: Tomza
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Midya B, Tomza M, Schmidt R, Lemeshko M. Rotation of cold molecular ions inside
a Bose-Einstein condensate. Physical Review A - Atomic, Molecular, and Optical
Physics. 2016;94(4). doi:10.1103/PhysRevA.94.041601
apa: Midya, B., Tomza, M., Schmidt, R., & Lemeshko, M. (2016). Rotation of cold
molecular ions inside a Bose-Einstein condensate. Physical Review A - Atomic,
Molecular, and Optical Physics. American Physical Society. https://doi.org/10.1103/PhysRevA.94.041601
chicago: Midya, Bikashkali, Michał Tomza, Richard Schmidt, and Mikhail Lemeshko.
“Rotation of Cold Molecular Ions inside a Bose-Einstein Condensate.” Physical
Review A - Atomic, Molecular, and Optical Physics. American Physical Society,
2016. https://doi.org/10.1103/PhysRevA.94.041601.
ieee: B. Midya, M. Tomza, R. Schmidt, and M. Lemeshko, “Rotation of cold molecular
ions inside a Bose-Einstein condensate,” Physical Review A - Atomic, Molecular,
and Optical Physics, vol. 94, no. 4. American Physical Society, 2016.
ista: Midya B, Tomza M, Schmidt R, Lemeshko M. 2016. Rotation of cold molecular
ions inside a Bose-Einstein condensate. Physical Review A - Atomic, Molecular,
and Optical Physics. 94(4), 041601.
mla: Midya, Bikashkali, et al. “Rotation of Cold Molecular Ions inside a Bose-Einstein
Condensate.” Physical Review A - Atomic, Molecular, and Optical Physics,
vol. 94, no. 4, 041601, American Physical Society, 2016, doi:10.1103/PhysRevA.94.041601.
short: B. Midya, M. Tomza, R. Schmidt, M. Lemeshko, Physical Review A - Atomic,
Molecular, and Optical Physics 94 (2016).
date_created: 2018-12-11T11:51:09Z
date_published: 2016-10-13T00:00:00Z
date_updated: 2021-01-12T06:49:37Z
day: '13'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.94.041601
ec_funded: 1
intvolume: ' 94'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.06092
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review A - Atomic, Molecular, and Optical Physics
publication_status: published
publisher: American Physical Society
publist_id: '6030'
quality_controlled: '1'
scopus_import: 1
status: public
title: Rotation of cold molecular ions inside a Bose-Einstein condensate
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1285'
abstract:
- lang: eng
text: Cell migration is central to a multitude of physiological processes, including
embryonic development, immune surveillance, and wound healing, and deregulated
migration is key to cancer dissemination. Decades of investigations have uncovered
many of the molecular and physical mechanisms underlying cell migration. Together
with protrusion extension and cell body retraction, adhesion to the substrate
via specific focal adhesion points has long been considered an essential step
in cell migration. Although this is true for cells moving on two-dimensional substrates,
recent studies have demonstrated that focal adhesions are not required for cells
moving in three dimensions, in which confinement is sufficient to maintain a cell
in contact with its substrate. Here, we review the investigations that have led
to challenging the requirement of specific adhesions for migration, discuss the
physical mechanisms proposed for cell body translocation during focal adhesion-independent
migration, and highlight the remaining open questions for the future.
acknowledgement: We would like to thank Dani Bodor for critical comments on the manuscript
and Guillaume Salbreux for discussions. The authors are supported by the United
Kingdom's Medical Research Council (MRC) (E.K.P. and I.M.A.; core funding to the
MRC Laboratory for Molecular Cell Biology), by the European Research Council [ERC
GA 311637 (E.K.P.) and ERC GA 281556 (M.S.)], and by a START award from the Austrian
Science Foundation (M.S.).
author:
- first_name: Ewa
full_name: Paluch, Ewa
last_name: Paluch
- first_name: Irene
full_name: Aspalter, Irene
last_name: Aspalter
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Paluch E, Aspalter I, Sixt MK. Focal adhesion-independent cell migration. Annual
Review of Cell and Developmental Biology. 2016;32:469-490. doi:10.1146/annurev-cellbio-111315-125341
apa: Paluch, E., Aspalter, I., & Sixt, M. K. (2016). Focal adhesion-independent
cell migration. Annual Review of Cell and Developmental Biology. Annual
Reviews. https://doi.org/10.1146/annurev-cellbio-111315-125341
chicago: Paluch, Ewa, Irene Aspalter, and Michael K Sixt. “Focal Adhesion-Independent
Cell Migration.” Annual Review of Cell and Developmental Biology. Annual
Reviews, 2016. https://doi.org/10.1146/annurev-cellbio-111315-125341.
ieee: E. Paluch, I. Aspalter, and M. K. Sixt, “Focal adhesion-independent cell migration,”
Annual Review of Cell and Developmental Biology, vol. 32. Annual Reviews,
pp. 469–490, 2016.
ista: Paluch E, Aspalter I, Sixt MK. 2016. Focal adhesion-independent cell migration.
Annual Review of Cell and Developmental Biology. 32, 469–490.
mla: Paluch, Ewa, et al. “Focal Adhesion-Independent Cell Migration.” Annual
Review of Cell and Developmental Biology, vol. 32, Annual Reviews, 2016, pp.
469–90, doi:10.1146/annurev-cellbio-111315-125341.
short: E. Paluch, I. Aspalter, M.K. Sixt, Annual Review of Cell and Developmental
Biology 32 (2016) 469–490.
date_created: 2018-12-11T11:51:08Z
date_published: 2016-10-06T00:00:00Z
date_updated: 2021-01-12T06:49:37Z
day: '06'
department:
- _id: MiSi
doi: 10.1146/annurev-cellbio-111315-125341
ec_funded: 1
intvolume: ' 32'
language:
- iso: eng
month: '10'
oa_version: None
page: 469 - 490
project:
- _id: 25A603A2-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281556'
name: Cytoskeletal force generation and force transduction of migrating leukocytes
(EU)
- _id: 25A8E5EA-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Y 564-B12
name: Cytoskeletal force generation and transduction of leukocytes (FWF)
publication: Annual Review of Cell and Developmental Biology
publication_status: published
publisher: Annual Reviews
publist_id: '6031'
quality_controlled: '1'
scopus_import: 1
status: public
title: Focal adhesion-independent cell migration
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2016'
...
---
_id: '1288'
abstract:
- lang: eng
text: Respiratory complex I transfers electrons from NADH to quinone, utilizing
the reaction energy to translocate protons across the membrane. It is a key enzyme
of the respiratory chain of many prokaryotic and most eukaryotic organisms. The
reversible NADH oxidation reaction is facilitated in complex I by non-covalently
bound flavin mononucleotide (FMN). Here we report that the catalytic activity
of E. coli complex I with artificial electron acceptors potassium ferricyanide
(FeCy) and hexaamineruthenium (HAR) is significantly inhibited in the enzyme pre-reduced
by NADH. Further, we demonstrate that the inhibition is caused by reversible dissociation
of FMN. The binding constant (Kd) for FMN increases from the femto- or picomolar
range in oxidized complex I to the nanomolar range in the NADH reduced enzyme,
with an FMN dissociation time constant of ~ 5 s. The oxidation state of complex
I, rather than that of FMN, proved critical to the dissociation. Such dissociation
is not observed with the T. thermophilus enzyme and our analysis suggests that
the difference may be due to the unusually high redox potential of Fe-S cluster
N1a in E. coli. It is possible that the enzyme attenuates ROS production in vivo
by releasing FMN under highly reducing conditions.
acknowledgement: This work was funded by the UK Medical Research Council.
author:
- first_name: Peter
full_name: Holt, Peter
last_name: Holt
- first_name: Rouslan
full_name: Efremov, Rouslan
last_name: Efremov
- first_name: Eiko
full_name: Nakamaru Ogiso, Eiko
last_name: Nakamaru Ogiso
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: Holt P, Efremov R, Nakamaru Ogiso E, Sazanov LA. Reversible FMN dissociation
from Escherichia coli respiratory complex I. Biochimica et Biophysica Acta
- Bioenergetics. 2016;1857(11):1777-1785. doi:10.1016/j.bbabio.2016.08.008
apa: Holt, P., Efremov, R., Nakamaru Ogiso, E., & Sazanov, L. A. (2016). Reversible
FMN dissociation from Escherichia coli respiratory complex I. Biochimica et
Biophysica Acta - Bioenergetics. Elsevier. https://doi.org/10.1016/j.bbabio.2016.08.008
chicago: Holt, Peter, Rouslan Efremov, Eiko Nakamaru Ogiso, and Leonid A Sazanov.
“Reversible FMN Dissociation from Escherichia Coli Respiratory Complex I.” Biochimica
et Biophysica Acta - Bioenergetics. Elsevier, 2016. https://doi.org/10.1016/j.bbabio.2016.08.008.
ieee: P. Holt, R. Efremov, E. Nakamaru Ogiso, and L. A. Sazanov, “Reversible FMN
dissociation from Escherichia coli respiratory complex I,” Biochimica et Biophysica
Acta - Bioenergetics, vol. 1857, no. 11. Elsevier, pp. 1777–1785, 2016.
ista: Holt P, Efremov R, Nakamaru Ogiso E, Sazanov LA. 2016. Reversible FMN dissociation
from Escherichia coli respiratory complex I. Biochimica et Biophysica Acta - Bioenergetics.
1857(11), 1777–1785.
mla: Holt, Peter, et al. “Reversible FMN Dissociation from Escherichia Coli Respiratory
Complex I.” Biochimica et Biophysica Acta - Bioenergetics, vol. 1857, no.
11, Elsevier, 2016, pp. 1777–85, doi:10.1016/j.bbabio.2016.08.008.
short: P. Holt, R. Efremov, E. Nakamaru Ogiso, L.A. Sazanov, Biochimica et Biophysica
Acta - Bioenergetics 1857 (2016) 1777–1785.
date_created: 2018-12-11T11:51:09Z
date_published: 2016-11-01T00:00:00Z
date_updated: 2021-01-12T06:49:38Z
day: '01'
department:
- _id: LeSa
doi: 10.1016/j.bbabio.2016.08.008
intvolume: ' 1857'
issue: '11'
language:
- iso: eng
month: '11'
oa_version: None
page: 1777 - 1785
publication: Biochimica et Biophysica Acta - Bioenergetics
publication_status: published
publisher: Elsevier
publist_id: '6028'
quality_controlled: '1'
scopus_import: 1
status: public
title: Reversible FMN dissociation from Escherichia coli respiratory complex I
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 1857
year: '2016'
...
---
_id: '1291'
abstract:
- lang: eng
text: We consider Ising models in two and three dimensions, with short range ferromagnetic
and long range, power-law decaying, antiferromagnetic interactions. We let J be
the ratio between the strength of the ferromagnetic to antiferromagnetic interactions.
The competition between these two kinds of interactions induces the system to
form domains of minus spins in a background of plus spins, or vice versa. If the
decay exponent p of the long range interaction is larger than d + 1, with d
the space dimension, this happens for all values of J smaller than a critical
value Jc(p), beyond which the ground state is homogeneous. In this paper, we give
a characterization of the infinite volume ground states of the system, for pÂ
>Â 2d and J in a left neighborhood of Jc(p). In particular, we prove that the
quasi-one-dimensional states consisting of infinite stripes (d = 2) or slabs
(d = 3), all of the same optimal width and orientation, and alternating magnetization,
are infinite volume ground states. Our proof is based on localization bounds combined
with reflection positivity.
acknowledgement: "Open access funding provided by Institute of Science and Technology
(IST Austria). The\r\nresearch leading to these results has received funding from
the European Research Council under the European\r\nUnion’s Seventh Framework Programme
ERC Starting Grant CoMBoS (Grant Agreement No. 239694), from\r\nthe Italian PRIN
National Grant Geometric and analytic theory of Hamiltonian systems in finite and
infinite\r\ndimensions, and the Austrian Science Fund (FWF), project Nr. P 27533-N27.
Part of this work was completed\r\nduring a stay at the Erwin Schrödinger Institute
for Mathematical Physics in Vienna (ESI program 2015\r\n“Quantum many-body systems,
random matrices, and disorder”), whose hospitality and financial support is\r\ngratefully
acknowledged."
author:
- first_name: Alessandro
full_name: Giuliani, Alessandro
last_name: Giuliani
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Giuliani A, Seiringer R. Periodic striped ground states in Ising models with
competing interactions. Communications in Mathematical Physics. 2016;347(3):983-1007.
doi:10.1007/s00220-016-2665-0
apa: Giuliani, A., & Seiringer, R. (2016). Periodic striped ground states in
Ising models with competing interactions. Communications in Mathematical Physics.
Springer. https://doi.org/10.1007/s00220-016-2665-0
chicago: Giuliani, Alessandro, and Robert Seiringer. “Periodic Striped Ground States
in Ising Models with Competing Interactions.” Communications in Mathematical
Physics. Springer, 2016. https://doi.org/10.1007/s00220-016-2665-0.
ieee: A. Giuliani and R. Seiringer, “Periodic striped ground states in Ising models
with competing interactions,” Communications in Mathematical Physics, vol.
347, no. 3. Springer, pp. 983–1007, 2016.
ista: Giuliani A, Seiringer R. 2016. Periodic striped ground states in Ising models
with competing interactions. Communications in Mathematical Physics. 347(3), 983–1007.
mla: Giuliani, Alessandro, and Robert Seiringer. “Periodic Striped Ground States
in Ising Models with Competing Interactions.” Communications in Mathematical
Physics, vol. 347, no. 3, Springer, 2016, pp. 983–1007, doi:10.1007/s00220-016-2665-0.
short: A. Giuliani, R. Seiringer, Communications in Mathematical Physics 347 (2016)
983–1007.
date_created: 2018-12-11T11:51:11Z
date_published: 2016-11-01T00:00:00Z
date_updated: 2021-01-12T06:49:40Z
day: '01'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1007/s00220-016-2665-0
file:
- access_level: open_access
checksum: 3c6e08c048fc462e312788be72874bb1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:02Z
date_updated: 2020-07-14T12:44:42Z
file_id: '4725'
file_name: IST-2016-688-v1+1_s00220-016-2665-0.pdf
file_size: 794983
relation: main_file
file_date_updated: 2020-07-14T12:44:42Z
has_accepted_license: '1'
intvolume: ' 347'
issue: '3'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '11'
oa: 1
oa_version: Published Version
page: 983 - 1007
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Communications in Mathematical Physics
publication_status: published
publisher: Springer
publist_id: '6025'
pubrep_id: '688'
quality_controlled: '1'
scopus_import: 1
status: public
title: Periodic striped ground states in Ising models with competing interactions
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: 347
year: '2016'
...
---
_id: '1293'
abstract:
- lang: eng
text: For a graph G with p vertices the closed convex cone S⪰0(G) consists of all
real positive semidefinite p×p matrices whose sparsity pattern is given by G,
that is, those matrices with zeros in the off-diagonal entries corresponding to
nonedges of G. The extremal rays of this cone and their associated ranks have
applications to matrix completion problems, maximum likelihood estimation in Gaussian
graphical models in statistics, and Gauss elimination for sparse matrices. While
the maximum rank of an extremal ray in S⪰0(G), known as the sparsity order of
G, has been characterized for different classes of graphs, we here study all possible
extremal ranks of S⪰0(G). We investigate when the geometry of the (±1)-cut polytope
of G yields a polyhedral characterization of the set of extremal ranks of S⪰0(G).
For a graph G without K5 minors, we show that appropriately chosen normal vectors
to the facets of the (±1)-cut polytope of G specify the off-diagonal entries of
extremal matrices in S⪰0(G). We also prove that for appropriately chosen scalars
the constant term of the linear equation of each facet-supporting hyperplane is
the rank of its corresponding extremal matrix in S⪰0(G). Furthermore, we show
that if G is series-parallel then this gives a complete characterization of all
possible extremal ranks of S⪰0(G). Consequently, the sparsity order problem for
series-parallel graphs can be solved in terms of polyhedral geometry.
acknowledgement: We wish to thank Alexander Engström and Bernd Sturmfels for various
valuable discussions and insights. We also thank the two anonymous referees for
their thoughtful feedback on the paper. CU was partially supported by the Austrian
Science Fund (FWF) Y 903-N35.
author:
- first_name: Liam T
full_name: Solus, Liam T
id: 2AADA620-F248-11E8-B48F-1D18A9856A87
last_name: Solus
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
- first_name: Ruriko
full_name: Yoshida, Ruriko
last_name: Yoshida
citation:
ama: Solus LT, Uhler C, Yoshida R. Extremal positive semidefinite matrices whose
sparsity pattern is given by graphs without K5 minors. Linear Algebra and Its
Applications. 2016;509:247-275. doi:10.1016/j.laa.2016.07.026
apa: Solus, L. T., Uhler, C., & Yoshida, R. (2016). Extremal positive semidefinite
matrices whose sparsity pattern is given by graphs without K5 minors. Linear
Algebra and Its Applications. Elsevier. https://doi.org/10.1016/j.laa.2016.07.026
chicago: Solus, Liam T, Caroline Uhler, and Ruriko Yoshida. “Extremal Positive Semidefinite
Matrices Whose Sparsity Pattern Is given by Graphs without K5 Minors.” Linear
Algebra and Its Applications. Elsevier, 2016. https://doi.org/10.1016/j.laa.2016.07.026.
ieee: L. T. Solus, C. Uhler, and R. Yoshida, “Extremal positive semidefinite matrices
whose sparsity pattern is given by graphs without K5 minors,” Linear Algebra
and Its Applications, vol. 509. Elsevier, pp. 247–275, 2016.
ista: Solus LT, Uhler C, Yoshida R. 2016. Extremal positive semidefinite matrices
whose sparsity pattern is given by graphs without K5 minors. Linear Algebra and
Its Applications. 509, 247–275.
mla: Solus, Liam T., et al. “Extremal Positive Semidefinite Matrices Whose Sparsity
Pattern Is given by Graphs without K5 Minors.” Linear Algebra and Its Applications,
vol. 509, Elsevier, 2016, pp. 247–75, doi:10.1016/j.laa.2016.07.026.
short: L.T. Solus, C. Uhler, R. Yoshida, Linear Algebra and Its Applications 509
(2016) 247–275.
date_created: 2018-12-11T11:51:11Z
date_published: 2016-11-15T00:00:00Z
date_updated: 2021-01-12T06:49:40Z
day: '15'
department:
- _id: CaUh
doi: 10.1016/j.laa.2016.07.026
intvolume: ' 509'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/pdf/1506.06702.pdf
month: '11'
oa: 1
oa_version: Preprint
page: 247 - 275
project:
- _id: 2530CA10-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Y 903-N35
name: 'Gaussian Graphical Models: Theory and Applications'
publication: Linear Algebra and Its Applications
publication_status: published
publisher: Elsevier
publist_id: '6024'
quality_controlled: '1'
scopus_import: 1
status: public
title: Extremal positive semidefinite matrices whose sparsity pattern is given by
graphs without K5 minors
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 509
year: '2016'
...
---
_id: '1290'
abstract:
- lang: eng
text: We developed a competition-based screening strategy to identify compounds
that invert the selective advantage of antibiotic resistance. Using our assay,
we screened over 19,000 compounds for the ability to select against the TetA tetracycline-resistance
efflux pump in Escherichia coli and identified two hits, β-thujaplicin and disulfiram.
Treating a tetracycline-resistant population with β-thujaplicin selects for loss
of the resistance gene, enabling an effective second-phase treatment with doxycycline.
acknowledgement: "This work was supported in part by National Institute of Allergy
and Infectious Diseases grant U54 AI057159, US National Institutes of Health grants
R01 GM081617 (to R.K.) and GM086258 (to J.C.), European Research Council FP7 ERC
grant 281891 (to R.K.) and a National Science Foundation Graduate Fellowship (to
L.K.S.).\r\n"
author:
- first_name: Laura
full_name: Stone, Laura
last_name: Stone
- first_name: Michael
full_name: Baym, Michael
last_name: Baym
- first_name: Tami
full_name: Lieberman, Tami
last_name: Lieberman
- first_name: Remy P
full_name: Chait, Remy P
id: 3464AE84-F248-11E8-B48F-1D18A9856A87
last_name: Chait
orcid: 0000-0003-0876-3187
- first_name: Jon
full_name: Clardy, Jon
last_name: Clardy
- first_name: Roy
full_name: Kishony, Roy
last_name: Kishony
citation:
ama: Stone L, Baym M, Lieberman T, Chait RP, Clardy J, Kishony R. Compounds that
select against the tetracycline-resistance efflux pump. Nature Chemical Biology.
2016;12(11):902-904. doi:10.1038/nchembio.2176
apa: Stone, L., Baym, M., Lieberman, T., Chait, R. P., Clardy, J., & Kishony,
R. (2016). Compounds that select against the tetracycline-resistance efflux pump.
Nature Chemical Biology. Nature Publishing Group. https://doi.org/10.1038/nchembio.2176
chicago: Stone, Laura, Michael Baym, Tami Lieberman, Remy P Chait, Jon Clardy, and
Roy Kishony. “Compounds That Select against the Tetracycline-Resistance Efflux
Pump.” Nature Chemical Biology. Nature Publishing Group, 2016. https://doi.org/10.1038/nchembio.2176.
ieee: L. Stone, M. Baym, T. Lieberman, R. P. Chait, J. Clardy, and R. Kishony, “Compounds
that select against the tetracycline-resistance efflux pump,” Nature Chemical
Biology, vol. 12, no. 11. Nature Publishing Group, pp. 902–904, 2016.
ista: Stone L, Baym M, Lieberman T, Chait RP, Clardy J, Kishony R. 2016. Compounds
that select against the tetracycline-resistance efflux pump. Nature Chemical Biology.
12(11), 902–904.
mla: Stone, Laura, et al. “Compounds That Select against the Tetracycline-Resistance
Efflux Pump.” Nature Chemical Biology, vol. 12, no. 11, Nature Publishing
Group, 2016, pp. 902–04, doi:10.1038/nchembio.2176.
short: L. Stone, M. Baym, T. Lieberman, R.P. Chait, J. Clardy, R. Kishony, Nature
Chemical Biology 12 (2016) 902–904.
date_created: 2018-12-11T11:51:10Z
date_published: 2016-11-01T00:00:00Z
date_updated: 2021-01-12T06:49:39Z
day: '01'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1038/nchembio.2176
intvolume: ' 12'
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5069154/
month: '11'
oa: 1
oa_version: Preprint
page: 902 - 904
publication: Nature Chemical Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '6026'
quality_controlled: '1'
scopus_import: 1
status: public
title: Compounds that select against the tetracycline-resistance efflux pump
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2016'
...
---
_id: '1295'
abstract:
- lang: eng
text: Voronoi diagrams and Delaunay triangulations have been extensively used to
represent and compute geometric features of point configurations. We introduce
a generalization to poset diagrams and poset complexes, which contain order-k
and degree-k Voronoi diagrams and their duals as special cases. Extending a result
of Aurenhammer from 1990, we show how to construct poset diagrams as weighted
Voronoi diagrams of average balls.
acknowledgement: This work is partially supported by the Toposys project FP7-ICT-318493-STREP,
and by ESF under the ACAT Research Network Programme.
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Mabel
full_name: Iglesias Ham, Mabel
id: 41B58C0C-F248-11E8-B48F-1D18A9856A87
last_name: Iglesias Ham
citation:
ama: 'Edelsbrunner H, Iglesias Ham M. Multiple covers with balls II: Weighted averages.
Electronic Notes in Discrete Mathematics. 2016;54:169-174. doi:10.1016/j.endm.2016.09.030'
apa: 'Edelsbrunner, H., & Iglesias Ham, M. (2016). Multiple covers with balls
II: Weighted averages. Electronic Notes in Discrete Mathematics. Elsevier.
https://doi.org/10.1016/j.endm.2016.09.030'
chicago: 'Edelsbrunner, Herbert, and Mabel Iglesias Ham. “Multiple Covers with Balls
II: Weighted Averages.” Electronic Notes in Discrete Mathematics. Elsevier,
2016. https://doi.org/10.1016/j.endm.2016.09.030.'
ieee: 'H. Edelsbrunner and M. Iglesias Ham, “Multiple covers with balls II: Weighted
averages,” Electronic Notes in Discrete Mathematics, vol. 54. Elsevier,
pp. 169–174, 2016.'
ista: 'Edelsbrunner H, Iglesias Ham M. 2016. Multiple covers with balls II: Weighted
averages. Electronic Notes in Discrete Mathematics. 54, 169–174.'
mla: 'Edelsbrunner, Herbert, and Mabel Iglesias Ham. “Multiple Covers with Balls
II: Weighted Averages.” Electronic Notes in Discrete Mathematics, vol.
54, Elsevier, 2016, pp. 169–74, doi:10.1016/j.endm.2016.09.030.'
short: H. Edelsbrunner, M. Iglesias Ham, Electronic Notes in Discrete Mathematics
54 (2016) 169–174.
date_created: 2018-12-11T11:51:12Z
date_published: 2016-10-01T00:00:00Z
date_updated: 2021-01-12T06:49:41Z
day: '01'
department:
- _id: HeEd
doi: 10.1016/j.endm.2016.09.030
ec_funded: 1
intvolume: ' 54'
language:
- iso: eng
month: '10'
oa_version: None
page: 169 - 174
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Electronic Notes in Discrete Mathematics
publication_status: published
publisher: Elsevier
publist_id: '5976'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Multiple covers with balls II: Weighted averages'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2016'
...
---
_id: '1292'
abstract:
- lang: eng
text: We give explicit formulas and algorithms for the computation of the Thurston–Bennequin
invariant of a nullhomologous Legendrian knot on a page of a contact open book
and on Heegaard surfaces in convex position. Furthermore, we extend the results
to rationally nullhomologous knots in arbitrary 3-manifolds.
acknowledgement: "The authors are veryg rateful to Hansj ̈org Geiges \r\nfor fruitful
discussions and advice and Christian Evers for helpful remarks on a draft version."
author:
- first_name: Sebastian
full_name: Durst, Sebastian
last_name: Durst
- first_name: Marc
full_name: Kegel, Marc
last_name: Kegel
- first_name: Mirko D
full_name: Klukas, Mirko D
id: 34927512-F248-11E8-B48F-1D18A9856A87
last_name: Klukas
citation:
ama: Durst S, Kegel M, Klukas MD. Computing the Thurston–Bennequin invariant in
open books. Acta Mathematica Hungarica. 2016;150(2):441-455. doi:10.1007/s10474-016-0648-4
apa: Durst, S., Kegel, M., & Klukas, M. D. (2016). Computing the Thurston–Bennequin
invariant in open books. Acta Mathematica Hungarica. Springer. https://doi.org/10.1007/s10474-016-0648-4
chicago: Durst, Sebastian, Marc Kegel, and Mirko D Klukas. “Computing the Thurston–Bennequin
Invariant in Open Books.” Acta Mathematica Hungarica. Springer, 2016. https://doi.org/10.1007/s10474-016-0648-4.
ieee: S. Durst, M. Kegel, and M. D. Klukas, “Computing the Thurston–Bennequin invariant
in open books,” Acta Mathematica Hungarica, vol. 150, no. 2. Springer,
pp. 441–455, 2016.
ista: Durst S, Kegel M, Klukas MD. 2016. Computing the Thurston–Bennequin invariant
in open books. Acta Mathematica Hungarica. 150(2), 441–455.
mla: Durst, Sebastian, et al. “Computing the Thurston–Bennequin Invariant in Open
Books.” Acta Mathematica Hungarica, vol. 150, no. 2, Springer, 2016, pp.
441–55, doi:10.1007/s10474-016-0648-4.
short: S. Durst, M. Kegel, M.D. Klukas, Acta Mathematica Hungarica 150 (2016) 441–455.
date_created: 2018-12-11T11:51:11Z
date_published: 2016-12-01T00:00:00Z
date_updated: 2021-01-12T06:49:40Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/s10474-016-0648-4
intvolume: ' 150'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1605.00794
month: '12'
oa: 1
oa_version: Preprint
page: 441 - 455
publication: Acta Mathematica Hungarica
publication_status: published
publisher: Springer
publist_id: '6023'
quality_controlled: '1'
scopus_import: 1
status: public
title: Computing the Thurston–Bennequin invariant in open books
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 150
year: '2016'
...
---
_id: '1319'
abstract:
- lang: eng
text: We present a novel optimization-based algorithm for the design and fabrication
of customized, deformable input devices, capable of continuously sensing their
deformation. We propose to embed piezoresistive sensing elements into flexible
3D printed objects. These sensing elements are then utilized to recover rich and
natural user interactions at runtime. Designing such objects is a challenging
and hard problem if attempted manually for all but the simplest geometries and
deformations. Our method simultaneously optimizes the internal routing of the
sensing elements and computes a mapping from low-level sensor readings to user-specified
outputs in order to minimize reconstruction error. We demonstrate the power and
flexibility of the approach by designing and fabricating a set of flexible input
devices. Our results indicate that the optimization-based design greatly outperforms
manual routings in terms of reconstruction accuracy and thus interaction fidelity.
acknowledgement: "We thank Damian Karrer, Rocco Ghielmini and Jemin\r\nHwangbo
for their help in our initial explorations. We would\r\nlike to thank Christian
Schumacher for creating the video and\r\nC\r\n ́\r\necile Edwards-Rietmann for providing
the voiceover. Mau-\r\nrizio Nitti helped us in designing our 3D characters. We
thank\r\nChiara Daraio for insightful discussions on material proper-\r\nties and
3D printing. We also thank the CHI reviewers for\r\ntheir feedback and guidance.
Fabrizio Pece was supported by\r\nan ETH/Marie Curie fellowship (FEL-3314-1)."
author:
- first_name: Moritz
full_name: Bächer, Moritz
last_name: Bächer
- first_name: Benjamin
full_name: Hepp, Benjamin
last_name: Hepp
- first_name: Fabrizio
full_name: Pece, Fabrizio
last_name: Pece
- first_name: Paul
full_name: Kry, Paul
last_name: Kry
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Bernhard
full_name: Thomaszewski, Bernhard
last_name: Thomaszewski
- first_name: Otmar
full_name: Hilliges, Otmar
last_name: Hilliges
citation:
ama: 'Bächer M, Hepp B, Pece F, et al. DefSense: computational design of customized
deformable input devices. In: ACM; 2016:3806-3816. doi:10.1145/2858036.2858354'
apa: 'Bächer, M., Hepp, B., Pece, F., Kry, P., Bickel, B., Thomaszewski, B., &
Hilliges, O. (2016). DefSense: computational design of customized deformable input
devices (pp. 3806–3816). Presented at the CHI: Conference on Human Factors in
Computing Systems, San Jose, California, USA: ACM. https://doi.org/10.1145/2858036.2858354'
chicago: 'Bächer, Moritz, Benjamin Hepp, Fabrizio Pece, Paul Kry, Bernd Bickel,
Bernhard Thomaszewski, and Otmar Hilliges. “DefSense: Computational Design of
Customized Deformable Input Devices,” 3806–16. ACM, 2016. https://doi.org/10.1145/2858036.2858354.'
ieee: 'M. Bächer et al., “DefSense: computational design of customized deformable
input devices,” presented at the CHI: Conference on Human Factors in Computing
Systems, San Jose, California, USA, 2016, pp. 3806–3816.'
ista: 'Bächer M, Hepp B, Pece F, Kry P, Bickel B, Thomaszewski B, Hilliges O. 2016.
DefSense: computational design of customized deformable input devices. CHI: Conference
on Human Factors in Computing Systems, 3806–3816.'
mla: 'Bächer, Moritz, et al. DefSense: Computational Design of Customized Deformable
Input Devices. ACM, 2016, pp. 3806–16, doi:10.1145/2858036.2858354.'
short: M. Bächer, B. Hepp, F. Pece, P. Kry, B. Bickel, B. Thomaszewski, O. Hilliges,
in:, ACM, 2016, pp. 3806–3816.
conference:
end_date: 2016-05-12
location: San Jose, California, USA
name: 'CHI: Conference on Human Factors in Computing Systems'
start_date: 2016-05-07
date_created: 2018-12-11T11:51:21Z
date_published: 2016-05-07T00:00:00Z
date_updated: 2021-01-12T06:49:51Z
day: '07'
department:
- _id: BeBi
doi: 10.1145/2858036.2858354
language:
- iso: eng
month: '05'
oa_version: None
page: 3806 - 3816
publication_status: published
publisher: ACM
publist_id: '5951'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'DefSense: computational design of customized deformable input devices'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1323'
abstract:
- lang: eng
text: Mossy fiber synapses on CA3 pyramidal cells are 'conditional detonators' that
reliably discharge postsynaptic targets. The 'conditional' nature implies that
burst activity in dentate gyrus granule cells is required for detonation. Whether
single unitary excitatory postsynaptic potentials (EPSPs) trigger spikes in CA3
neurons remains unknown. Mossy fiber synapses exhibit both pronounced short-term
facilitation and uniquely large post-tetanic potentiation (PTP). We tested whether
PTP could convert mossy fiber synapses from subdetonator into detonator mode,
using a recently developed method to selectively and noninvasively stimulate individual
presynaptic terminals in rat brain slices. Unitary EPSPs failed to initiate a
spike in CA3 neurons under control conditions, but reliably discharged them after
induction of presynaptic short-term plasticity. Remarkably, PTP switched mossy
fiber synapses into full detonators for tens of seconds. Plasticity-dependent
detonation may be critical for efficient coding, storage, and recall of information
in the granule cell–CA3 cell network.
acknowledged_ssus:
- _id: M-Shop
- _id: PreCl
article_number: e17977
author:
- first_name: Nicholas
full_name: Vyleta, Nicholas
id: 36C4978E-F248-11E8-B48F-1D18A9856A87
last_name: Vyleta
- first_name: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Vyleta N, Borges Merjane C, Jonas PM. Plasticity-dependent, full detonation
at hippocampal mossy fiber–CA3 pyramidal neuron synapses. eLife. 2016;5.
doi:10.7554/eLife.17977
apa: Vyleta, N., Borges Merjane, C., & Jonas, P. M. (2016). Plasticity-dependent,
full detonation at hippocampal mossy fiber–CA3 pyramidal neuron synapses. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.17977
chicago: Vyleta, Nicholas, Carolina Borges Merjane, and Peter M Jonas. “Plasticity-Dependent,
Full Detonation at Hippocampal Mossy Fiber–CA3 Pyramidal Neuron Synapses.” ELife.
eLife Sciences Publications, 2016. https://doi.org/10.7554/eLife.17977.
ieee: N. Vyleta, C. Borges Merjane, and P. M. Jonas, “Plasticity-dependent, full
detonation at hippocampal mossy fiber–CA3 pyramidal neuron synapses,” eLife,
vol. 5. eLife Sciences Publications, 2016.
ista: Vyleta N, Borges Merjane C, Jonas PM. 2016. Plasticity-dependent, full detonation
at hippocampal mossy fiber–CA3 pyramidal neuron synapses. eLife. 5, e17977.
mla: Vyleta, Nicholas, et al. “Plasticity-Dependent, Full Detonation at Hippocampal
Mossy Fiber–CA3 Pyramidal Neuron Synapses.” ELife, vol. 5, e17977, eLife
Sciences Publications, 2016, doi:10.7554/eLife.17977.
short: N. Vyleta, C. Borges Merjane, P.M. Jonas, ELife 5 (2016).
date_created: 2018-12-11T11:51:22Z
date_published: 2016-10-25T00:00:00Z
date_updated: 2023-02-21T10:34:24Z
day: '25'
ddc:
- '571'
- '572'
department:
- _id: PeJo
doi: 10.7554/eLife.17977
ec_funded: 1
file:
- access_level: open_access
checksum: a7201280c571bed88ebd459ce5ce6a47
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:05Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5257'
file_name: IST-2016-715-v1+1_e17977-download.pdf
file_size: 1477891
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 5'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 25C0F108-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '268548'
name: Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
publication: eLife
publication_status: published
publisher: eLife Sciences Publications
publist_id: '5947'
pubrep_id: '715'
quality_controlled: '1'
scopus_import: 1
status: public
title: Plasticity-dependent, full detonation at hippocampal mossy fiber–CA3 pyramidal
neuron synapses
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: 5
year: '2016'
...
---
_id: '1325'
abstract:
- lang: eng
text: We study graphs and two-player games in which rewards are assigned to states,
and the goal of the players is to satisfy or dissatisfy certain property of the
generated outcome, given as a mean payoff property. Since the notion of mean-payoff
does not reflect possible fluctuations from the mean-payoff along a run, we propose
definitions and algorithms for capturing the stability of the system, and give
algorithms for deciding if a given mean payoff and stability objective can be
ensured in the system.
acknowledgement: "The work has been supported by the Czech Science Foundation, grant
No. 15-17564S, by EPSRC grant\r\nEP/M023656/1, and by the People Programme (Marie
Curie Actions) of the European Union’s Seventh\r\nFramework Programme (FP7/2007-2013)
under REA grant agreement no [291734]"
alternative_title:
- LIPIcs
article_number: '10'
author:
- first_name: Tomáš
full_name: Brázdil, Tomáš
last_name: Brázdil
- first_name: Vojtěch
full_name: Forejt, Vojtěch
last_name: Forejt
- first_name: Antonín
full_name: Kučera, Antonín
last_name: Kučera
- first_name: Petr
full_name: Novotny, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotny
citation:
ama: 'Brázdil T, Forejt V, Kučera A, Novotný P. Stability in graphs and games. In:
Vol 59. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2016. doi:10.4230/LIPIcs.CONCUR.2016.10'
apa: 'Brázdil, T., Forejt, V., Kučera, A., & Novotný, P. (2016). Stability in
graphs and games (Vol. 59). Presented at the CONCUR: Concurrency Theory, Quebec
City, Canada: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.CONCUR.2016.10'
chicago: Brázdil, Tomáš, Vojtěch Forejt, Antonín Kučera, and Petr Novotný. “Stability
in Graphs and Games,” Vol. 59. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2016. https://doi.org/10.4230/LIPIcs.CONCUR.2016.10.
ieee: 'T. Brázdil, V. Forejt, A. Kučera, and P. Novotný, “Stability in graphs and
games,” presented at the CONCUR: Concurrency Theory, Quebec City, Canada, 2016,
vol. 59.'
ista: 'Brázdil T, Forejt V, Kučera A, Novotný P. 2016. Stability in graphs and games.
CONCUR: Concurrency Theory, LIPIcs, vol. 59, 10.'
mla: Brázdil, Tomáš, et al. Stability in Graphs and Games. Vol. 59, 10, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2016, doi:10.4230/LIPIcs.CONCUR.2016.10.
short: T. Brázdil, V. Forejt, A. Kučera, P. Novotný, in:, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2016.
conference:
end_date: 2016-08-26
location: Quebec City, Canada
name: 'CONCUR: Concurrency Theory'
start_date: 2016-08-23
date_created: 2018-12-11T11:51:23Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2021-01-12T06:49:53Z
day: '01'
ddc:
- '004'
department:
- _id: KrCh
doi: 10.4230/LIPIcs.CONCUR.2016.10
ec_funded: 1
file:
- access_level: open_access
checksum: 3c2dc6ab0358f8aa8f7aa7d6c1293159
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:40Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5229'
file_name: IST-2016-665-v1+1_Forejt_et_al__Stability_in_graphs_and_games.pdf
file_size: 553648
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 59'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '5944'
pubrep_id: '665'
quality_controlled: '1'
scopus_import: 1
status: public
title: Stability in graphs and games
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 59
year: '2016'
...
---
_id: '1320'
abstract:
- lang: eng
text: 'In recent years, several biomolecular systems have been shown to be scale-invariant
(SI), i.e. to show the same output dynamics when exposed to geometrically scaled
input signals (u → pu, p > 0) after pre-adaptation to accordingly scaled constant
inputs. In this article, we show that SI systems-as well as systems invariant
with respect to other input transformations-can realize nonlinear differential
operators: when excited by inputs obeying functional forms characteristic for
a given class of invariant systems, the systems'' outputs converge to constant
values directly quantifying the speed of the input.'
acknowledgement: The research leading to these results has received funding from the
People Programme (Marie Curie Actions) of the European Union's Seventh Framework
Programme (FP7/2007-2013) under REA grant agreement n° [291734]. Work supported
in part by grants AFOSR FA9550-14-1-0060 and NIH 1R01GM100473.
article_number: '7526722'
author:
- first_name: Moritz
full_name: Lang, Moritz
id: 29E0800A-F248-11E8-B48F-1D18A9856A87
last_name: Lang
- first_name: Eduardo
full_name: Sontag, Eduardo
last_name: Sontag
citation:
ama: 'Lang M, Sontag E. Scale-invariant systems realize nonlinear differential operators.
In: Vol 2016-July. IEEE; 2016. doi:10.1109/ACC.2016.7526722'
apa: 'Lang, M., & Sontag, E. (2016). Scale-invariant systems realize nonlinear
differential operators (Vol. 2016–July). Presented at the ACC: American Control
Conference, Boston, MA, USA: IEEE. https://doi.org/10.1109/ACC.2016.7526722'
chicago: Lang, Moritz, and Eduardo Sontag. “Scale-Invariant Systems Realize Nonlinear
Differential Operators,” Vol. 2016–July. IEEE, 2016. https://doi.org/10.1109/ACC.2016.7526722.
ieee: 'M. Lang and E. Sontag, “Scale-invariant systems realize nonlinear differential
operators,” presented at the ACC: American Control Conference, Boston, MA, USA,
2016, vol. 2016–July.'
ista: 'Lang M, Sontag E. 2016. Scale-invariant systems realize nonlinear differential
operators. ACC: American Control Conference vol. 2016–July, 7526722.'
mla: Lang, Moritz, and Eduardo Sontag. Scale-Invariant Systems Realize Nonlinear
Differential Operators. Vol. 2016–July, 7526722, IEEE, 2016, doi:10.1109/ACC.2016.7526722.
short: M. Lang, E. Sontag, in:, IEEE, 2016.
conference:
end_date: 2016-07-08
location: Boston, MA, USA
name: 'ACC: American Control Conference'
start_date: 2016-07-06
date_created: 2018-12-11T11:51:21Z
date_published: 2016-07-28T00:00:00Z
date_updated: 2021-01-12T06:49:51Z
day: '28'
ddc:
- '003'
- '621'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1109/ACC.2016.7526722
ec_funded: 1
file:
- access_level: local
checksum: 7219432b43defc62a0d45f48d4ce6a19
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:17Z
date_updated: 2020-07-14T12:44:43Z
file_id: '5203'
file_name: IST-2017-810-v1+1_root.pdf
file_size: 539166
relation: main_file
file_date_updated: 2020-07-14T12:44:43Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: IEEE
publist_id: '5950'
pubrep_id: '810'
quality_controlled: '1'
scopus_import: 1
status: public
title: Scale-invariant systems realize nonlinear differential operators
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 2016-July
year: '2016'
...
---
_id: '1324'
abstract:
- lang: eng
text: 'DEC-POMDPs extend POMDPs to a multi-agent setting, where several agents operate
in an uncertain environment independently to achieve a joint objective. DEC-POMDPs
have been studied with finite-horizon and infinite-horizon discounted-sum objectives,
and there exist solvers both for exact and approximate solutions. In this work
we consider Goal-DEC-POMDPs, where given a set of target states, the objective
is to ensure that the target set is reached with minimal cost. We consider the
indefinite-horizon (infinite-horizon with either discounted-sum, or undiscounted-sum,
where absorbing goal states have zero-cost) problem. We present a new and novel
method to solve the problem that extends methods for finite-horizon DEC-POMDPs
and the RTDP-Bel approach for POMDPs. We present experimental results on several
examples, and show that our approach presents promising results. Copyright '
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Chmelik, Martin
id: 3624234E-F248-11E8-B48F-1D18A9856A87
last_name: Chmelik
citation:
ama: 'Chatterjee K, Chmelik M. Indefinite-horizon reachability in Goal-DEC-POMDPs.
In: Proceedings of the Twenty-Sixth International Conference on International
Conference on Automated Planning and Scheduling. Vol 2016-January. AAAI Press;
2016:88-96.'
apa: 'Chatterjee, K., & Chmelik, M. (2016). Indefinite-horizon reachability
in Goal-DEC-POMDPs. In Proceedings of the Twenty-Sixth International Conference
on International Conference on Automated Planning and Scheduling (Vol. 2016–January,
pp. 88–96). London, United Kingdom: AAAI Press.'
chicago: Chatterjee, Krishnendu, and Martin Chmelik. “Indefinite-Horizon Reachability
in Goal-DEC-POMDPs.” In Proceedings of the Twenty-Sixth International Conference
on International Conference on Automated Planning and Scheduling, 2016–January:88–96.
AAAI Press, 2016.
ieee: K. Chatterjee and M. Chmelik, “Indefinite-horizon reachability in Goal-DEC-POMDPs,”
in Proceedings of the Twenty-Sixth International Conference on International
Conference on Automated Planning and Scheduling, London, United Kingdom, 2016,
vol. 2016–January, pp. 88–96.
ista: 'Chatterjee K, Chmelik M. 2016. Indefinite-horizon reachability in Goal-DEC-POMDPs.
Proceedings of the Twenty-Sixth International Conference on International Conference
on Automated Planning and Scheduling. ICAPS: International Conference on Automated
Planning and Scheduling vol. 2016–January, 88–96.'
mla: Chatterjee, Krishnendu, and Martin Chmelik. “Indefinite-Horizon Reachability
in Goal-DEC-POMDPs.” Proceedings of the Twenty-Sixth International Conference
on International Conference on Automated Planning and Scheduling, vol. 2016–January,
AAAI Press, 2016, pp. 88–96.
short: K. Chatterjee, M. Chmelik, in:, Proceedings of the Twenty-Sixth International
Conference on International Conference on Automated Planning and Scheduling, AAAI
Press, 2016, pp. 88–96.
conference:
end_date: 2016-06-17
location: London, United Kingdom
name: 'ICAPS: International Conference on Automated Planning and Scheduling'
start_date: 2016-06-12
date_created: 2018-12-11T11:51:22Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:53Z
day: '01'
department:
- _id: KrCh
ec_funded: 1
language:
- iso: eng
main_file_link:
- url: http://www.aaai.org/ocs/index.php/ICAPS/ICAPS16/paper/view/12999
month: '01'
oa_version: None
page: 88 - 96
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication: Proceedings of the Twenty-Sixth International Conference on International
Conference on Automated Planning and Scheduling
publication_status: published
publisher: AAAI Press
publist_id: '5946'
quality_controlled: '1'
scopus_import: 1
status: public
title: Indefinite-horizon reachability in Goal-DEC-POMDPs
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 2016-January
year: '2016'
...
---
_id: '1329'
abstract:
- lang: eng
text: Daphnia species have become models for ecological genomics and exhibit interesting
features, such as high phenotypic plasticity and a densely packed genome with
many lineage-specific genes. They are also cyclic parthenogenetic, with alternating
asexual and sexual cycles and environmental sex determination. Here, we present
a de novo transcriptome assembly of over 32,000 D. galeata genes and use it to
investigate gene expression in females and spontaneously produced males of two
clonal lines derived from lakes in Germany and the Czech Republic. We find that
only a low percentage (18%) of genes shows sex-biased expression and that there
are many more female-biased gene (FBG) than male-biased gene (MBG). Furthermore,
FBGs tend to be more conserved between species than MBGs in both sequence and
expression. These patterns may be a consequence of cyclic parthenogenesis leading
to a relaxation of purifying selection on MBGs. The two clonal lines show considerable
differences in both number and identity of sex-biased genes, suggesting that they
may have reproductive strategies differing in their investment in sexual reproduction.
Orthologs of key genes in the sex determination and juvenile hormone pathways,
which are thought to be important for the transition from asexual to sexual reproduction,
are present in D. galeata and highly conserved among Daphnia species.
acknowledgement: This study was financially supported by individual grants from the
Volkswagen Stiftung (to M.C.), the Deutsche Forschungsgemeinschaft (grant PA 903/6
to J.P.) and the DAAD (to A.K.H.). The authors would like to thank I. Schrank, L.
Theodosiou, M. Kredler, C. Laforsch, J. Wolinska, J. Griebel, R. Jaenichen, and
K. Otte for providing the necessary resources and help for maintaining Daphnia cultures
in the laboratory. H. Lainer supported us for the molecular laboratory work. D.
Gilbert and J. K. Colbourne contributed ideas for the bioinformatics analysis, and
L. Hardulak did the orthology mapping including more insect species. This study
was financially supported by individual grants from the Volkswagen Stiftung (to
M.C.), the Deutsche Forschungsgemeinschaft (grant PA 903/6 to J.P.) and the DAAD
(to A.K.H.). This work benefits from and contributes to the Daphnia Genomics Consortium.
author:
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Alberto
full_name: López Ezquerra, Alberto
last_name: López Ezquerra
- first_name: John
full_name: Parsch, John
last_name: Parsch
- first_name: Mathilde
full_name: Cordellier, Mathilde
last_name: Cordellier
citation:
ama: Huylmans AK, López Ezquerra A, Parsch J, Cordellier M. De novo transcriptome
assembly and sex-biased gene expression in the cyclical parthenogenetic Daphnia
galeata. Genome Biology and Evolution. 2016;8(10):3120-3139. doi:10.1093/gbe/evw221
apa: Huylmans, A. K., López Ezquerra, A., Parsch, J., & Cordellier, M. (2016).
De novo transcriptome assembly and sex-biased gene expression in the cyclical
parthenogenetic Daphnia galeata. Genome Biology and Evolution. Oxford University
Press. https://doi.org/10.1093/gbe/evw221
chicago: Huylmans, Ann K, Alberto López Ezquerra, John Parsch, and Mathilde Cordellier.
“De Novo Transcriptome Assembly and Sex-Biased Gene Expression in the Cyclical
Parthenogenetic Daphnia Galeata.” Genome Biology and Evolution. Oxford
University Press, 2016. https://doi.org/10.1093/gbe/evw221.
ieee: A. K. Huylmans, A. López Ezquerra, J. Parsch, and M. Cordellier, “De novo
transcriptome assembly and sex-biased gene expression in the cyclical parthenogenetic
Daphnia galeata,” Genome Biology and Evolution, vol. 8, no. 10. Oxford
University Press, pp. 3120–3139, 2016.
ista: Huylmans AK, López Ezquerra A, Parsch J, Cordellier M. 2016. De novo transcriptome
assembly and sex-biased gene expression in the cyclical parthenogenetic Daphnia
galeata. Genome Biology and Evolution. 8(10), 3120–3139.
mla: Huylmans, Ann K., et al. “De Novo Transcriptome Assembly and Sex-Biased Gene
Expression in the Cyclical Parthenogenetic Daphnia Galeata.” Genome Biology
and Evolution, vol. 8, no. 10, Oxford University Press, 2016, pp. 3120–39,
doi:10.1093/gbe/evw221.
short: A.K. Huylmans, A. López Ezquerra, J. Parsch, M. Cordellier, Genome Biology
and Evolution 8 (2016) 3120–3139.
date_created: 2018-12-11T11:51:24Z
date_published: 2016-10-01T00:00:00Z
date_updated: 2021-01-12T06:49:55Z
day: '01'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.1093/gbe/evw221
file:
- access_level: open_access
checksum: 25c7adcb452d39d3b6343ff4b57a652d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:06Z
date_updated: 2020-07-14T12:44:44Z
file_id: '4924'
file_name: IST-2016-663-v1+1_Genome_Biol_Evol-2016-Huylmans-3120-39.pdf
file_size: 1406265
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 8'
issue: '10'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '10'
oa: 1
oa_version: Published Version
page: 3120 - 3139
publication: Genome Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '5940'
pubrep_id: '663'
quality_controlled: '1'
scopus_import: 1
status: public
title: De novo transcriptome assembly and sex-biased gene expression in the cyclical
parthenogenetic Daphnia galeata
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2016'
...
---
_id: '1327'
abstract:
- lang: eng
text: 'We consider partially observable Markov decision processes (POMDPs) with
a set of target states and positive integer costs associated with every transition.
The traditional optimization objective (stochastic shortest path) asks to minimize
the expected total cost until the target set is reached. We extend the traditional
framework of POMDPs to model energy consumption, which represents a hard constraint.
The energy levels may increase and decrease with transitions, and the hard constraint
requires that the energy level must remain positive in all steps till the target
is reached. First, we present a novel algorithm for solving POMDPs with energy
levels, developing on existing POMDP solvers and using RTDP as its main method.
Our second contribution is related to policy representation. For larger POMDP
instances the policies computed by existing solvers are too large to be understandable.
We present an automated procedure based on machine learning techniques that automatically
extracts important decisions of the policy allowing us to compute succinct human
readable policies. Finally, we show experimentally that our algorithm performs
well and computes succinct policies on a number of POMDP instances from the literature
that were naturally enhanced with energy levels. '
author:
- first_name: Tomáš
full_name: Brázdil, Tomáš
last_name: Brázdil
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Chmelik, Martin
id: 3624234E-F248-11E8-B48F-1D18A9856A87
last_name: Chmelik
- first_name: Anchit
full_name: Gupta, Anchit
last_name: Gupta
- first_name: Petr
full_name: Novotny, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotny
citation:
ama: 'Brázdil T, Chatterjee K, Chmelik M, Gupta A, Novotný P. Stochastic shortest
path with energy constraints in POMDPs. In: Proceedings of the 15th International
Conference on Autonomous Agents and Multiagent Systems. ACM; 2016:1465-1466.'
apa: 'Brázdil, T., Chatterjee, K., Chmelik, M., Gupta, A., & Novotný, P. (2016).
Stochastic shortest path with energy constraints in POMDPs. In Proceedings
of the 15th International Conference on Autonomous Agents and Multiagent Systems
(pp. 1465–1466). Singapore: ACM.'
chicago: Brázdil, Tomáš, Krishnendu Chatterjee, Martin Chmelik, Anchit Gupta, and
Petr Novotný. “Stochastic Shortest Path with Energy Constraints in POMDPs.” In
Proceedings of the 15th International Conference on Autonomous Agents and Multiagent
Systems, 1465–66. ACM, 2016.
ieee: T. Brázdil, K. Chatterjee, M. Chmelik, A. Gupta, and P. Novotný, “Stochastic
shortest path with energy constraints in POMDPs,” in Proceedings of the 15th
International Conference on Autonomous Agents and Multiagent Systems, Singapore,
2016, pp. 1465–1466.
ista: 'Brázdil T, Chatterjee K, Chmelik M, Gupta A, Novotný P. 2016. Stochastic
shortest path with energy constraints in POMDPs. Proceedings of the 15th International
Conference on Autonomous Agents and Multiagent Systems. AAMAS: Autonomous Agents
& Multiagent Systems, 1465–1466.'
mla: Brázdil, Tomáš, et al. “Stochastic Shortest Path with Energy Constraints in
POMDPs.” Proceedings of the 15th International Conference on Autonomous Agents
and Multiagent Systems, ACM, 2016, pp. 1465–66.
short: T. Brázdil, K. Chatterjee, M. Chmelik, A. Gupta, P. Novotný, in:, Proceedings
of the 15th International Conference on Autonomous Agents and Multiagent Systems,
ACM, 2016, pp. 1465–1466.
conference:
end_date: 2016-05-13
location: Singapore
name: 'AAMAS: Autonomous Agents & Multiagent Systems'
start_date: 2016-05-09
date_created: 2018-12-11T11:51:23Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:49:54Z
day: '01'
department:
- _id: KrCh
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1602.07565
month: '01'
oa: 1
oa_version: Preprint
page: 1465 - 1466
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Proceedings of the 15th International Conference on Autonomous Agents
and Multiagent Systems
publication_status: published
publisher: ACM
publist_id: '5942'
quality_controlled: '1'
scopus_import: 1
status: public
title: Stochastic shortest path with energy constraints in POMDPs
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1326'
abstract:
- lang: eng
text: 'Energy Markov Decision Processes (EMDPs) are finite-state Markov decision
processes where each transition is assigned an integer counter update and a rational
payoff. An EMDP configuration is a pair s(n), where s is a control state and n
is the current counter value. The configurations are changed by performing transitions
in the standard way. We consider the problem of computing a safe strategy (i.e.,
a strategy that keeps the counter non-negative) which maximizes the expected mean
payoff. '
acknowledgement: The research was funded by the Czech Science Foundation Grant No.
P202/12/G061 and by the People Programme (Marie Curie Actions) of the European Union’s
Seventh Framework Programme (FP7/2007-2013) under REA grant agreement no [291734].
alternative_title:
- LNCS
author:
- first_name: Tomáš
full_name: Brázdil, Tomáš
last_name: Brázdil
- first_name: Antonín
full_name: Kučera, Antonín
last_name: Kučera
- first_name: Petr
full_name: Novotny, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotny
citation:
ama: 'Brázdil T, Kučera A, Novotný P. Optimizing the expected mean payoff in Energy
Markov Decision Processes. In: Vol 9938. Springer; 2016:32-49. doi:10.1007/978-3-319-46520-3_3'
apa: 'Brázdil, T., Kučera, A., & Novotný, P. (2016). Optimizing the expected
mean payoff in Energy Markov Decision Processes (Vol. 9938, pp. 32–49). Presented
at the ATVA: Automated Technology for Verification and Analysis, Chiba, Japan:
Springer. https://doi.org/10.1007/978-3-319-46520-3_3'
chicago: Brázdil, Tomáš, Antonín Kučera, and Petr Novotný. “Optimizing the Expected
Mean Payoff in Energy Markov Decision Processes,” 9938:32–49. Springer, 2016.
https://doi.org/10.1007/978-3-319-46520-3_3.
ieee: 'T. Brázdil, A. Kučera, and P. Novotný, “Optimizing the expected mean payoff
in Energy Markov Decision Processes,” presented at the ATVA: Automated Technology
for Verification and Analysis, Chiba, Japan, 2016, vol. 9938, pp. 32–49.'
ista: 'Brázdil T, Kučera A, Novotný P. 2016. Optimizing the expected mean payoff
in Energy Markov Decision Processes. ATVA: Automated Technology for Verification
and Analysis, LNCS, vol. 9938, 32–49.'
mla: Brázdil, Tomáš, et al. Optimizing the Expected Mean Payoff in Energy Markov
Decision Processes. Vol. 9938, Springer, 2016, pp. 32–49, doi:10.1007/978-3-319-46520-3_3.
short: T. Brázdil, A. Kučera, P. Novotný, in:, Springer, 2016, pp. 32–49.
conference:
end_date: 2016-10-20
location: Chiba, Japan
name: 'ATVA: Automated Technology for Verification and Analysis'
start_date: 2016-10-17
date_created: 2018-12-11T11:51:23Z
date_published: 2016-09-22T00:00:00Z
date_updated: 2021-01-12T06:49:53Z
day: '22'
department:
- _id: KrCh
doi: 10.1007/978-3-319-46520-3_3
ec_funded: 1
intvolume: ' 9938'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.00678
month: '09'
oa: 1
oa_version: Preprint
page: 32 - 49
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: Springer
publist_id: '5943'
quality_controlled: '1'
scopus_import: 1
status: public
title: Optimizing the expected mean payoff in Energy Markov Decision Processes
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9938
year: '2016'
...
---
_id: '1330'
abstract:
- lang: eng
text: In this paper we investigate the existence of closed billiard trajectories
in not necessarily smooth convex bodies. In particular, we show that if a body
K ⊂ Rd has the property that the tangent cone of every non-smooth point q ∉ ∂K
is acute (in a certain sense), then there is a closed billiard trajectory in K.
acknowledgement: Supported by People Programme (Marie Curie Actions) of the European
Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement n°[291734].
Supported by the Russian Foundation for Basic Research grant 15-31-20403 (mol a
ved), by the Russian Foundation for Basic Research grant 15-01-99563 A, in part
by the Moebius Contest Foundation for Young Scientists, and in part by the Simons
Foundation.
author:
- first_name: Arseniy
full_name: Akopyan, Arseniy
id: 430D2C90-F248-11E8-B48F-1D18A9856A87
last_name: Akopyan
orcid: 0000-0002-2548-617X
- first_name: Alexey
full_name: Balitskiy, Alexey
last_name: Balitskiy
citation:
ama: Akopyan A, Balitskiy A. Billiards in convex bodies with acute angles. Israel
Journal of Mathematics. 2016;216(2):833-845. doi:10.1007/s11856-016-1429-z
apa: Akopyan, A., & Balitskiy, A. (2016). Billiards in convex bodies with acute
angles. Israel Journal of Mathematics. Springer. https://doi.org/10.1007/s11856-016-1429-z
chicago: Akopyan, Arseniy, and Alexey Balitskiy. “Billiards in Convex Bodies with
Acute Angles.” Israel Journal of Mathematics. Springer, 2016. https://doi.org/10.1007/s11856-016-1429-z.
ieee: A. Akopyan and A. Balitskiy, “Billiards in convex bodies with acute angles,”
Israel Journal of Mathematics, vol. 216, no. 2. Springer, pp. 833–845,
2016.
ista: Akopyan A, Balitskiy A. 2016. Billiards in convex bodies with acute angles.
Israel Journal of Mathematics. 216(2), 833–845.
mla: Akopyan, Arseniy, and Alexey Balitskiy. “Billiards in Convex Bodies with Acute
Angles.” Israel Journal of Mathematics, vol. 216, no. 2, Springer, 2016,
pp. 833–45, doi:10.1007/s11856-016-1429-z.
short: A. Akopyan, A. Balitskiy, Israel Journal of Mathematics 216 (2016) 833–845.
date_created: 2018-12-11T11:51:24Z
date_published: 2016-10-15T00:00:00Z
date_updated: 2021-01-12T06:49:56Z
day: '15'
department:
- _id: HeEd
doi: 10.1007/s11856-016-1429-z
ec_funded: 1
intvolume: ' 216'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1506.06014
month: '10'
oa: 1
oa_version: Preprint
page: 833 - 845
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Israel Journal of Mathematics
publication_status: published
publisher: Springer
publist_id: '5938'
quality_controlled: '1'
scopus_import: 1
status: public
title: Billiards in convex bodies with acute angles
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 216
year: '2016'
...
---
_id: '1334'
abstract:
- lang: eng
text: Hippocampal neurons encode a cognitive map of space. These maps are thought
to be updated during learning and in response to changes in the environment through
activity-dependent synaptic plasticity. Here we examine how changes in activity
influence spatial coding in rats using halorhodopsin-mediated, spatially selective
optogenetic silencing. Halorhoposin stimulation leads to light-induced suppression
in many place cells and interneurons; some place cells increase their firing through
disinhibition, whereas some show no effect. We find that place fields of the unaffected
subpopulation remain stable. On the other hand, place fields of suppressed place
cells were unstable, showing remapping across sessions before and after optogenetic
inhibition. Disinhibited place cells had stable maps but sustained an elevated
firing rate. These findings suggest that place representation in the hippocampus
is constantly governed by activity-dependent processes, and that disinhibition
may provide a mechanism for rate remapping.
article_number: '11824'
author:
- first_name: Philipp
full_name: Schönenberger, Philipp
id: 3B9D816C-F248-11E8-B48F-1D18A9856A87
last_name: Schönenberger
- first_name: Joseph
full_name: O'Neill, Joseph
id: 426376DC-F248-11E8-B48F-1D18A9856A87
last_name: O'Neill
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
citation:
ama: Schönenberger P, O’Neill J, Csicsvari JL. Activity dependent plasticity of
hippocampal place maps. Nature Communications. 2016;7. doi:10.1038/ncomms11824
apa: Schönenberger, P., O’Neill, J., & Csicsvari, J. L. (2016). Activity dependent
plasticity of hippocampal place maps. Nature Communications. Nature Publishing
Group. https://doi.org/10.1038/ncomms11824
chicago: Schönenberger, Philipp, Joseph O’Neill, and Jozsef L Csicsvari. “Activity
Dependent Plasticity of Hippocampal Place Maps.” Nature Communications.
Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms11824.
ieee: P. Schönenberger, J. O’Neill, and J. L. Csicsvari, “Activity dependent plasticity
of hippocampal place maps,” Nature Communications, vol. 7. Nature Publishing
Group, 2016.
ista: Schönenberger P, O’Neill J, Csicsvari JL. 2016. Activity dependent plasticity
of hippocampal place maps. Nature Communications. 7, 11824.
mla: Schönenberger, Philipp, et al. “Activity Dependent Plasticity of Hippocampal
Place Maps.” Nature Communications, vol. 7, 11824, Nature Publishing Group,
2016, doi:10.1038/ncomms11824.
short: P. Schönenberger, J. O’Neill, J.L. Csicsvari, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:26Z
date_published: 2016-06-10T00:00:00Z
date_updated: 2021-01-12T06:49:57Z
day: '10'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1038/ncomms11824
ec_funded: 1
file:
- access_level: open_access
checksum: e43307754abe65b840a21939fe163618
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:10Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5196'
file_name: IST-2016-660-v1+1_ncomms11824.pdf
file_size: 1793846
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 257A4776-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281511'
name: Memory-related information processing in neuronal circuits of the hippocampus
and entorhinal cortex
- _id: 257D4372-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I2072-B27
name: Interneuron plasticity during spatial learning
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5934'
pubrep_id: '660'
quality_controlled: '1'
scopus_import: 1
status: public
title: Activity dependent plasticity of hippocampal place maps
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: 7
year: '2016'
...
---
_id: '1331'
abstract:
- lang: eng
text: 'Cytokinin is a phytohormone that is well known for its roles in numerous
plant growth and developmental processes, yet it has also been linked to abiotic
stress response in a less defined manner. Arabidopsis (Arabidopsis thaliana) Cytokinin
Response Factor 6 (CRF6) is a cytokinin-responsive AP2/ERF-family transcription
factor that, through the cytokinin signaling pathway, plays a key role in the
inhibition of dark-induced senescence. CRF6 expression is also induced by oxidative
stress, and here we show a novel function for CRF6 in relation to oxidative stress
and identify downstream transcriptional targets of CRF6 that are repressed in
response to oxidative stress. Analysis of transcriptomic changes in wild-type
and crf6 mutant plants treated with H2O2 identified CRF6-dependent differentially
expressed transcripts, many of which were repressed rather than induced. Moreover,
many repressed genes also show decreased expression in 35S:CRF6 overexpressing
plants. Together, these findings suggest that CRF6 functions largely as a transcriptional
repressor. Interestingly, among the H2O2 repressed CRF6-dependent transcripts
was a set of five genes associated with cytokinin processes: (signaling) ARR6,
ARR9, ARR11, (biosynthesis) LOG7, and (transport) ABCG14. We have examined mutants
of these cytokinin-associated target genes to reveal novel connections to oxidative
stress. Further examination of CRF6-DNA interactions indicated that CRF6 may regulate
its targets both directly and indirectly. Together, this shows that CRF6 functions
during oxidative stress as a negative regulator to control this cytokinin-associated
module of CRF6- dependent genes and establishes a novel connection between cytokinin
and oxidative stress response.'
acknowledgement: "This work was financially supported by the following: The Alabama
Agricultural Experiment Station HATCH grants 370222-310010-2055 and 370225-310006-2055
for funding to P.J.Z., E.A.K, A.M.P., and A.M.R. P.J.Z. and E.A.K were supported
by an Auburn University Cellular and Molecular Biosciences Research Fellowship.
I.D.C. is a postdoctoral fellow of the Research Foundation Flanders (FWO) (FWO/PDO14/043)
and is also supported by FWO travel\r\ngrant 12N2415N. F.V.B. was supported by grants
from the Interuniversity Attraction Poles Programme (IUAP P7/29 MARS) initiated
by the Belgian Science Policy Office and Ghent University (Multidisciplinary Research
Partnership Biotechnology for a Sustainable Economy, grant 01MRB510W)."
article_processing_charge: No
article_type: original
author:
- first_name: Paul
full_name: Zwack, Paul
last_name: Zwack
- first_name: Inge
full_name: De Clercq, Inge
last_name: De Clercq
- first_name: Timothy
full_name: Howton, Timothy
last_name: Howton
- first_name: H Tucker
full_name: Hallmark, H Tucker
last_name: Hallmark
- first_name: Andrej
full_name: Hurny, Andrej
id: 4DC4AF46-F248-11E8-B48F-1D18A9856A87
last_name: Hurny
- first_name: Erika
full_name: Keshishian, Erika
last_name: Keshishian
- first_name: Alyssa
full_name: Parish, Alyssa
last_name: Parish
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: M Shahid
full_name: Mukhtar, M Shahid
last_name: Mukhtar
- first_name: Frank
full_name: Van Breusegem, Frank
last_name: Van Breusegem
- first_name: Aaron
full_name: Rashotte, Aaron
last_name: Rashotte
citation:
ama: Zwack P, De Clercq I, Howton T, et al. Cytokinin response factor 6 represses
cytokinin-associated genes during oxidative stress. Plant Physiology. 2016;172(2):1249-1258.
doi:10.1104/pp.16.00415
apa: Zwack, P., De Clercq, I., Howton, T., Hallmark, H. T., Hurny, A., Keshishian,
E., … Rashotte, A. (2016). Cytokinin response factor 6 represses cytokinin-associated
genes during oxidative stress. Plant Physiology. American Society of Plant
Biologists. https://doi.org/10.1104/pp.16.00415
chicago: Zwack, Paul, Inge De Clercq, Timothy Howton, H Tucker Hallmark, Andrej
Hurny, Erika Keshishian, Alyssa Parish, et al. “Cytokinin Response Factor 6 Represses
Cytokinin-Associated Genes during Oxidative Stress.” Plant Physiology.
American Society of Plant Biologists, 2016. https://doi.org/10.1104/pp.16.00415.
ieee: P. Zwack et al., “Cytokinin response factor 6 represses cytokinin-associated
genes during oxidative stress,” Plant Physiology, vol. 172, no. 2. American
Society of Plant Biologists, pp. 1249–1258, 2016.
ista: Zwack P, De Clercq I, Howton T, Hallmark HT, Hurny A, Keshishian E, Parish
A, Benková E, Mukhtar MS, Van Breusegem F, Rashotte A. 2016. Cytokinin response
factor 6 represses cytokinin-associated genes during oxidative stress. Plant Physiology.
172(2), 1249–1258.
mla: Zwack, Paul, et al. “Cytokinin Response Factor 6 Represses Cytokinin-Associated
Genes during Oxidative Stress.” Plant Physiology, vol. 172, no. 2, American
Society of Plant Biologists, 2016, pp. 1249–58, doi:10.1104/pp.16.00415.
short: P. Zwack, I. De Clercq, T. Howton, H.T. Hallmark, A. Hurny, E. Keshishian,
A. Parish, E. Benková, M.S. Mukhtar, F. Van Breusegem, A. Rashotte, Plant Physiology
172 (2016) 1249–1258.
date_created: 2018-12-11T11:51:25Z
date_published: 2016-10-02T00:00:00Z
date_updated: 2022-05-24T09:26:03Z
day: '02'
department:
- _id: EvBe
doi: 10.1104/pp.16.00415
intvolume: ' 172'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1104/pp.16.00415
month: '10'
oa: 1
oa_version: Published Version
page: 1249 - 1258
publication: Plant Physiology
publication_identifier:
eissn:
- 1532-2548
issn:
- 0032-0889
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '5937'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cytokinin response factor 6 represses cytokinin-associated genes during oxidative
stress
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 172
year: '2016'
...
---
_id: '1333'
abstract:
- lang: eng
text: Social dilemmas force players to balance between personal and collective gain.
In many dilemmas, such as elected governments negotiating climate-change mitigation
measures, the decisions are made not by individual players but by their representatives.
However, the behaviour of representatives in social dilemmas has not been investigated
experimentally. Here inspired by the negotiations for greenhouse-gas emissions
reductions, we experimentally study a collective-risk social dilemma that involves
representatives deciding on behalf of their fellow group members. Representatives
can be re-elected or voted out after each consecutive collective-risk game. Selfish
players are preferentially elected and are hence found most frequently in the
"representatives" treatment. Across all treatments, we identify the
selfish players as extortioners. As predicted by our mathematical model, their
steadfast strategies enforce cooperation from fair players who finally compensate
almost completely the deficit caused by the extortionate co-players. Everybody
gains, but the extortionate representatives and their groups gain the most.
acknowledgement: We thank the students for participation; H.-J. Krambeck for writing
the software for the game; H. Arndt, T. Bakker, L. Becks, H. Brendelberger, S. Dobler
and T. Reusch for support; and the Max Planck Society for the Advancement of Science
for funding.
article_number: '10915'
author:
- first_name: Manfred
full_name: Milinski, Manfred
last_name: Milinski
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Dirk
full_name: Semmann, Dirk
last_name: Semmann
- first_name: Ralf
full_name: Sommerfeld, Ralf
last_name: Sommerfeld
- first_name: Jochem
full_name: Marotzke, Jochem
last_name: Marotzke
citation:
ama: Milinski M, Hilbe C, Semmann D, Sommerfeld R, Marotzke J. Humans choose representatives
who enforce cooperation in social dilemmas through extortion. Nature Communications.
2016;7. doi:10.1038/ncomms10915
apa: Milinski, M., Hilbe, C., Semmann, D., Sommerfeld, R., & Marotzke, J. (2016).
Humans choose representatives who enforce cooperation in social dilemmas through
extortion. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms10915
chicago: Milinski, Manfred, Christian Hilbe, Dirk Semmann, Ralf Sommerfeld, and
Jochem Marotzke. “Humans Choose Representatives Who Enforce Cooperation in Social
Dilemmas through Extortion.” Nature Communications. Nature Publishing Group,
2016. https://doi.org/10.1038/ncomms10915.
ieee: M. Milinski, C. Hilbe, D. Semmann, R. Sommerfeld, and J. Marotzke, “Humans
choose representatives who enforce cooperation in social dilemmas through extortion,”
Nature Communications, vol. 7. Nature Publishing Group, 2016.
ista: Milinski M, Hilbe C, Semmann D, Sommerfeld R, Marotzke J. 2016. Humans choose
representatives who enforce cooperation in social dilemmas through extortion.
Nature Communications. 7, 10915.
mla: Milinski, Manfred, et al. “Humans Choose Representatives Who Enforce Cooperation
in Social Dilemmas through Extortion.” Nature Communications, vol. 7, 10915,
Nature Publishing Group, 2016, doi:10.1038/ncomms10915.
short: M. Milinski, C. Hilbe, D. Semmann, R. Sommerfeld, J. Marotzke, Nature Communications
7 (2016).
date_created: 2018-12-11T11:51:25Z
date_published: 2016-03-07T00:00:00Z
date_updated: 2021-01-12T06:49:57Z
day: '07'
ddc:
- '519'
- '530'
- '599'
department:
- _id: KrCh
doi: 10.1038/ncomms10915
file:
- access_level: open_access
checksum: 9ea0d7ce59a555a1cb8353d5559407cb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:44Z
date_updated: 2020-07-14T12:44:44Z
file_id: '4834'
file_name: IST-2016-661-v1+1_ncomms10915.pdf
file_size: 1432577
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5935'
pubrep_id: '661'
quality_controlled: '1'
scopus_import: 1
status: public
title: Humans choose representatives who enforce cooperation in social dilemmas through
extortion
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: 7
year: '2016'
...
---
_id: '1332'
abstract:
- lang: eng
text: Antibiotic-sensitive and -resistant bacteria coexist in natural environments
with low, if detectable, antibiotic concentrations. Except possibly around localized
antibiotic sources, where resistance can provide a strong advantage, bacterial
fitness is dominated by stresses unaffected by resistance to the antibiotic. How
do such mixed and heterogeneous conditions influence the selective advantage or
disadvantage of antibiotic resistance? Here we find that sub-inhibitory levels
of tetracyclines potentiate selection for or against tetracycline resistance around
localized sources of almost any toxin or stress. Furthermore, certain stresses
generate alternating rings of selection for and against resistance around a localized
source of the antibiotic. In these conditions, localized antibiotic sources, even
at high strengths, can actually produce a net selection against resistance to
the antibiotic. Our results show that interactions between the effects of an antibiotic
and other stresses in inhomogeneous environments can generate pervasive, complex
patterns of selection both for and against antibiotic resistance.
acknowledgement: This work was partially supported by US National Institutes of Health
grant R01-GM081617, Israeli Centers of Research Excellence I-CORE Program ISF Grant
No. 152/11, and the European Research Council FP7 ERC Grant 281891.
article_number: '10333'
author:
- first_name: Remy P
full_name: Chait, Remy P
id: 3464AE84-F248-11E8-B48F-1D18A9856A87
last_name: Chait
orcid: 0000-0003-0876-3187
- first_name: Adam
full_name: Palmer, Adam
last_name: Palmer
- first_name: Idan
full_name: Yelin, Idan
last_name: Yelin
- first_name: Roy
full_name: Kishony, Roy
last_name: Kishony
citation:
ama: Chait RP, Palmer A, Yelin I, Kishony R. Pervasive selection for and against
antibiotic resistance in inhomogeneous multistress environments. Nature Communications.
2016;7. doi:10.1038/ncomms10333
apa: Chait, R. P., Palmer, A., Yelin, I., & Kishony, R. (2016). Pervasive selection
for and against antibiotic resistance in inhomogeneous multistress environments.
Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms10333
chicago: Chait, Remy P, Adam Palmer, Idan Yelin, and Roy Kishony. “Pervasive Selection
for and against Antibiotic Resistance in Inhomogeneous Multistress Environments.”
Nature Communications. Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms10333.
ieee: R. P. Chait, A. Palmer, I. Yelin, and R. Kishony, “Pervasive selection for
and against antibiotic resistance in inhomogeneous multistress environments,”
Nature Communications, vol. 7. Nature Publishing Group, 2016.
ista: Chait RP, Palmer A, Yelin I, Kishony R. 2016. Pervasive selection for and
against antibiotic resistance in inhomogeneous multistress environments. Nature
Communications. 7, 10333.
mla: Chait, Remy P., et al. “Pervasive Selection for and against Antibiotic Resistance
in Inhomogeneous Multistress Environments.” Nature Communications, vol.
7, 10333, Nature Publishing Group, 2016, doi:10.1038/ncomms10333.
short: R.P. Chait, A. Palmer, I. Yelin, R. Kishony, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:25Z
date_published: 2016-01-20T00:00:00Z
date_updated: 2021-01-12T06:49:57Z
day: '20'
ddc:
- '570'
- '579'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1038/ncomms10333
file:
- access_level: open_access
checksum: ef147bcbb8bd37e9079cf3ce06f5815d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:52Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5039'
file_name: IST-2016-662-v1+1_ncomms10333.pdf
file_size: 1844107
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5936'
pubrep_id: '662'
quality_controlled: '1'
scopus_import: 1
status: public
title: Pervasive selection for and against antibiotic resistance in inhomogeneous
multistress environments
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: 7
year: '2016'
...
---
_id: '1335'
abstract:
- lang: eng
text: In this paper we review various automata-theoretic formalisms for expressing
quantitative properties. We start with finite-state Boolean automata that express
the traditional regular properties. We then consider weighted ω-automata that
can measure the average density of events, which finite-state Boolean automata
cannot. However, even weighted ω-automata cannot express basic performance properties
like average response time. We finally consider two formalisms of weighted ω-automata
with monitors, where the monitors are either (a) counters or (b) weighted automata
themselves. We present a translation result to establish that these two formalisms
are equivalent. Weighted ω-automata with monitors generalize weighted ω-automata,
and can express average response time property. They present a natural, robust,
and expressive framework for quantitative specifications, with important decidable
properties.
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. Quantitative monitor automata. In: Vol
9837. Springer; 2016:23-38. doi:10.1007/978-3-662-53413-7_2'
apa: 'Chatterjee, K., Henzinger, T. A., & Otop, J. (2016). Quantitative monitor
automata (Vol. 9837, pp. 23–38). Presented at the SAS: Static Analysis Symposium,
Edinburgh, United Kingdom: Springer. https://doi.org/10.1007/978-3-662-53413-7_2'
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Quantitative
Monitor Automata,” 9837:23–38. Springer, 2016. https://doi.org/10.1007/978-3-662-53413-7_2.
ieee: 'K. Chatterjee, T. A. Henzinger, and J. Otop, “Quantitative monitor automata,”
presented at the SAS: Static Analysis Symposium, Edinburgh, United Kingdom, 2016,
vol. 9837, pp. 23–38.'
ista: 'Chatterjee K, Henzinger TA, Otop J. 2016. Quantitative monitor automata.
SAS: Static Analysis Symposium, LNCS, vol. 9837, 23–38.'
mla: Chatterjee, Krishnendu, et al. Quantitative Monitor Automata. Vol. 9837,
Springer, 2016, pp. 23–38, doi:10.1007/978-3-662-53413-7_2.
short: K. Chatterjee, T.A. Henzinger, J. Otop, in:, Springer, 2016, pp. 23–38.
conference:
end_date: 2016-09-10
location: Edinburgh, United Kingdom
name: 'SAS: Static Analysis Symposium'
start_date: 2016-09-08
date_created: 2018-12-11T11:51:26Z
date_published: 2016-08-31T00:00:00Z
date_updated: 2021-01-12T06:49:58Z
day: '31'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1007/978-3-662-53413-7_2
ec_funded: 1
intvolume: ' 9837'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1604.06764
month: '08'
oa: 1
oa_version: Preprint
page: 23 - 38
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: 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_status: published
publisher: Springer
publist_id: '5932'
quality_controlled: '1'
scopus_import: 1
status: public
title: Quantitative monitor automata
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9837
year: '2016'
...
---
_id: '1344'
abstract:
- lang: eng
text: Despite being composed of immobile cells, plants reorient along directional
stimuli. The hormone auxin is redistributed in stimulated organs leading to differential
growth and bending. Auxin application triggers rapid cell wall acidification and
elongation of aerial organs of plants, but the molecular players mediating these
effects are still controversial. Here we use genetically-encoded pH and auxin
signaling sensors, pharmacological and genetic manipulations available for Arabidopsis
etiolated hypocotyls to clarify how auxin is perceived and the downstream growth
executed. We show that auxin-induced acidification occurs by local activation
of H+-ATPases, which in the context of gravity response is restricted to the lower
organ side. This auxin-stimulated acidification and growth require TIR1/AFB-Aux/IAA
nuclear auxin perception. In addition, auxin-induced gene transcription and specifically
SAUR proteins are crucial downstream mediators of this growth. Our study provides
strong experimental support for the acid growth theory and clarified the contribution
of the upstream auxin perception mechanisms.
acknowledgement: "The authors express their gratitude to Veronika Bierbaum, Robert
Hauschild for help with MATLAB,\r\nDaniel von Wangenheim for the gravitropism assay.
We are thankful to Bill Gray, Mark Estelle,\r\nMichael Prigge, Ottoline Leyser,
Claudia Oecking for sharing the seeds with us. We thank Katelyn\r\nSageman-Furnas
and the members of the Friml lab for critical reading of the manuscript. The\r\nresearch
leading to these results has received funding from the People Programme (Marie Curie\r\nActions)
of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant\r\nagreement
n° 291734. This work was also supported by the European Research Council (project\r\nERC-2011-StG-20101109-PSDP)."
article_number: e19048
author:
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Jeffrey
full_name: Leung, Jeffrey
last_name: Leung
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Fendrych M, Leung J, Friml J. TIR1 AFB Aux IAA auxin perception mediates rapid
cell wall acidification and growth of Arabidopsis hypocotyls. eLife. 2016;5.
doi:10.7554/eLife.19048
apa: Fendrych, M., Leung, J., & Friml, J. (2016). TIR1 AFB Aux IAA auxin perception
mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.19048
chicago: Fendrych, Matyas, Jeffrey Leung, and Jiří Friml. “TIR1 AFB Aux IAA Auxin
Perception Mediates Rapid Cell Wall Acidification and Growth of Arabidopsis Hypocotyls.”
ELife. eLife Sciences Publications, 2016. https://doi.org/10.7554/eLife.19048.
ieee: M. Fendrych, J. Leung, and J. Friml, “TIR1 AFB Aux IAA auxin perception mediates
rapid cell wall acidification and growth of Arabidopsis hypocotyls,” eLife,
vol. 5. eLife Sciences Publications, 2016.
ista: Fendrych M, Leung J, Friml J. 2016. TIR1 AFB Aux IAA auxin perception mediates
rapid cell wall acidification and growth of Arabidopsis hypocotyls. eLife. 5,
e19048.
mla: Fendrych, Matyas, et al. “TIR1 AFB Aux IAA Auxin Perception Mediates Rapid
Cell Wall Acidification and Growth of Arabidopsis Hypocotyls.” ELife, vol.
5, e19048, eLife Sciences Publications, 2016, doi:10.7554/eLife.19048.
short: M. Fendrych, J. Leung, J. Friml, ELife 5 (2016).
date_created: 2018-12-11T11:51:29Z
date_published: 2016-09-14T00:00:00Z
date_updated: 2021-01-12T06:50:01Z
day: '14'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.7554/eLife.19048
ec_funded: 1
file:
- access_level: open_access
checksum: 9209541fbba00f24daad21a5d568540d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:24Z
date_updated: 2020-07-14T12:44:45Z
file_id: '4748'
file_name: IST-2016-693-v1+1_e19048-download.pdf
file_size: 5666343
relation: main_file
file_date_updated: 2020-07-14T12:44:45Z
has_accepted_license: '1'
intvolume: ' 5'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: eLife
publication_status: published
publisher: eLife Sciences Publications
publist_id: '5908'
pubrep_id: '654'
quality_controlled: '1'
scopus_import: 1
status: public
title: TIR1 AFB Aux IAA auxin perception mediates rapid cell wall acidification and
growth of Arabidopsis hypocotyls
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: 5
year: '2016'
...
---
_id: '1343'
abstract:
- lang: eng
text: "The Fermi-Hubbard model is one of the key models of condensed matter physics,
which holds a\r\n\r\npotential for explaining the mystery of high-temperature
superconductivity. Recent progress in\r\n\r\nultracold atoms in optical lattices
has paved the way to studying the model’s phase diagram using\r\n\r\nthe tools
of quantum simulation, which emerged as a promising alternative to the numerical\r\n\r\ncalculations
plagued by the infamous sign problem. However, the temperatures achieved using\r\n\r\nelaborate
laser cooling protocols so far have been too high to show the appearance of\r\n\r\nantiferromagnetic (AF)
and superconducting quantum phases directly. In this work, we demonstrate\r\n\r\nthat
using the machinery of dissipative quantum state engineering, one can observe
the emergence of\r\n\r\nthe AF order in the Fermi-Hubbard model with fermions
in optical lattices. The core of the approach\r\n\r\nis to add incoherent laser
scattering in such a way that the AF state emerges as the dark state of\r\n\r\nthe
driven-dissipative dynamics. The proposed controlled dissipation channels described
in this work\r\n\r\nare straightforward to add to already existing experimental
setups."
acknowledgement: "We acknowledge stimulating discussions with Ken Brown, Tommaso Calarco,
Andrew Daley, Suzanne\r\nMcEndoo, Tobias Osborne, Cindy Regal, Luis Santos, Micha\r\nł\r\nTomza,
and Martin Zwierlein. The work was supported by the People Programme (Marie Curie
Actions) of the European Union's Seventh Framework Programme (FP7/2007-2013) under
REA grant agreement no. [291734], by the Volkswagen Foundation, and by DFG within
SFB 1227 (DQ-mat)."
article_number: '093042'
author:
- first_name: Jan
full_name: Kaczmarczyk, Jan
id: 46C405DE-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarczyk
orcid: 0000-0002-1629-3675
- first_name: Hendrik
full_name: Weimer, Hendrik
last_name: Weimer
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Kaczmarczyk J, Weimer H, Lemeshko M. Dissipative preparation of antiferromagnetic
order in the Fermi-Hubbard model. New Journal of Physics. 2016;18(9). doi:10.1088/1367-2630/18/9/093042
apa: Kaczmarczyk, J., Weimer, H., & Lemeshko, M. (2016). Dissipative preparation
of antiferromagnetic order in the Fermi-Hubbard model. New Journal of Physics.
IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/18/9/093042
chicago: Kaczmarczyk, Jan, Hendrik Weimer, and Mikhail Lemeshko. “Dissipative Preparation
of Antiferromagnetic Order in the Fermi-Hubbard Model.” New Journal of Physics.
IOP Publishing Ltd., 2016. https://doi.org/10.1088/1367-2630/18/9/093042.
ieee: J. Kaczmarczyk, H. Weimer, and M. Lemeshko, “Dissipative preparation of antiferromagnetic
order in the Fermi-Hubbard model,” New Journal of Physics, vol. 18, no.
9. IOP Publishing Ltd., 2016.
ista: Kaczmarczyk J, Weimer H, Lemeshko M. 2016. Dissipative preparation of antiferromagnetic
order in the Fermi-Hubbard model. New Journal of Physics. 18(9), 093042.
mla: Kaczmarczyk, Jan, et al. “Dissipative Preparation of Antiferromagnetic Order
in the Fermi-Hubbard Model.” New Journal of Physics, vol. 18, no. 9, 093042,
IOP Publishing Ltd., 2016, doi:10.1088/1367-2630/18/9/093042.
short: J. Kaczmarczyk, H. Weimer, M. Lemeshko, New Journal of Physics 18 (2016).
date_created: 2018-12-11T11:51:29Z
date_published: 2016-09-22T00:00:00Z
date_updated: 2021-01-12T06:50:01Z
day: '22'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1088/1367-2630/18/9/093042
ec_funded: 1
file:
- access_level: open_access
checksum: 2a43e235222755e31ffbd369882c61de
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:52Z
date_updated: 2020-07-14T12:44:45Z
file_id: '5309'
file_name: IST-2016-655-v1+1_njp_18_9_093042.pdf
file_size: 1076029
relation: main_file
file_date_updated: 2020-07-14T12:44:45Z
has_accepted_license: '1'
intvolume: ' 18'
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: New Journal of Physics
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5909'
pubrep_id: '655'
quality_controlled: '1'
scopus_import: 1
status: public
title: Dissipative preparation of antiferromagnetic order in the Fermi-Hubbard model
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: 18
year: '2016'
...
---
_id: '1340'
abstract:
- lang: eng
text: We study repeated games with absorbing states, a type of two-player, zero-sum
concurrent mean-payoff games with the prototypical example being the Big Match
of Gillete (1957). These games may not allow optimal strategies but they always
have ε-optimal strategies. In this paper we design ε-optimal strategies for Player
1 in these games that use only O(log log T) space. Furthermore, we construct strategies
for Player 1 that use space s(T), for an arbitrary small unbounded non-decreasing
function s, and which guarantee an ε-optimal value for Player 1 in the limit superior
sense. The previously known strategies use space Ω(log T) and it was known that
no strategy can use constant space if it is ε-optimal even in the limit superior
sense. We also give a complementary lower bound. Furthermore, we also show that
no Markov strategy, even extended with finite memory, can ensure value greater
than 0 in the Big Match, answering a question posed by Neyman [11].
alternative_title:
- LNCS
author:
- first_name: Kristoffer
full_name: Hansen, Kristoffer
last_name: Hansen
- first_name: Rasmus
full_name: Ibsen-Jensen, Rasmus
id: 3B699956-F248-11E8-B48F-1D18A9856A87
last_name: Ibsen-Jensen
orcid: 0000-0003-4783-0389
- first_name: Michal
full_name: Koucký, Michal
last_name: Koucký
citation:
ama: 'Hansen K, Ibsen-Jensen R, Koucký M. The big match in small space. In: Vol
9928. Springer; 2016:64-76. doi:10.1007/978-3-662-53354-3_6'
apa: 'Hansen, K., Ibsen-Jensen, R., & Koucký, M. (2016). The big match in small
space (Vol. 9928, pp. 64–76). Presented at the SAGT: Symposium on Algorithmic
Game Theory, Liverpool, United Kingdom: Springer. https://doi.org/10.1007/978-3-662-53354-3_6'
chicago: Hansen, Kristoffer, Rasmus Ibsen-Jensen, and Michal Koucký. “The Big Match
in Small Space,” 9928:64–76. Springer, 2016. https://doi.org/10.1007/978-3-662-53354-3_6.
ieee: 'K. Hansen, R. Ibsen-Jensen, and M. Koucký, “The big match in small space,”
presented at the SAGT: Symposium on Algorithmic Game Theory, Liverpool, United
Kingdom, 2016, vol. 9928, pp. 64–76.'
ista: 'Hansen K, Ibsen-Jensen R, Koucký M. 2016. The big match in small space. SAGT:
Symposium on Algorithmic Game Theory, LNCS, vol. 9928, 64–76.'
mla: Hansen, Kristoffer, et al. The Big Match in Small Space. Vol. 9928,
Springer, 2016, pp. 64–76, doi:10.1007/978-3-662-53354-3_6.
short: K. Hansen, R. Ibsen-Jensen, M. Koucký, in:, Springer, 2016, pp. 64–76.
conference:
end_date: 2016-09-21
location: Liverpool, United Kingdom
name: 'SAGT: Symposium on Algorithmic Game Theory'
start_date: 2016-09-19
date_created: 2018-12-11T11:51:28Z
date_published: 2016-09-01T00:00:00Z
date_updated: 2021-01-12T06:50:00Z
day: '01'
department:
- _id: KrCh
doi: 10.1007/978-3-662-53354-3_6
ec_funded: 1
intvolume: ' 9928'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1604.07634
month: '09'
oa: 1
oa_version: Preprint
page: 64 - 76
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication_status: published
publisher: Springer
publist_id: '5927'
quality_controlled: '1'
scopus_import: 1
status: public
title: The big match in small space
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9928
year: '2016'
...
---
_id: '1345'
abstract:
- lang: eng
text: The electrostatic charge at the inner surface of the plasma membrane is strongly
negative in higher organisms. A new study shows that phosphatidylinositol-4-phosphate
plays a critical role in establishing plasma membrane surface charge in Arabidopsis,
which regulates the correct localization of signalling components.
article_number: '16102'
author:
- first_name: Gergely
full_name: Molnar, Gergely
id: 34F1AF46-F248-11E8-B48F-1D18A9856A87
last_name: Molnar
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: 'Molnar G, Fendrych M, Friml J. Plasma membrane: Negative attraction. Nature
Plants. 2016;2. doi:10.1038/nplants.2016.102'
apa: 'Molnar, G., Fendrych, M., & Friml, J. (2016). Plasma membrane: Negative
attraction. Nature Plants. Nature Publishing Group. https://doi.org/10.1038/nplants.2016.102'
chicago: 'Molnar, Gergely, Matyas Fendrych, and Jiří Friml. “Plasma Membrane: Negative
Attraction.” Nature Plants. Nature Publishing Group, 2016. https://doi.org/10.1038/nplants.2016.102.'
ieee: 'G. Molnar, M. Fendrych, and J. Friml, “Plasma membrane: Negative attraction,”
Nature Plants, vol. 2. Nature Publishing Group, 2016.'
ista: 'Molnar G, Fendrych M, Friml J. 2016. Plasma membrane: Negative attraction.
Nature Plants. 2, 16102.'
mla: 'Molnar, Gergely, et al. “Plasma Membrane: Negative Attraction.” Nature
Plants, vol. 2, 16102, Nature Publishing Group, 2016, doi:10.1038/nplants.2016.102.'
short: G. Molnar, M. Fendrych, J. Friml, Nature Plants 2 (2016).
date_created: 2018-12-11T11:51:30Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:02Z
day: '01'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1038/nplants.2016.102
file:
- access_level: open_access
checksum: 9ba65f558563b287f875f48fa9f30fb2
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:36Z
date_updated: 2020-07-14T12:44:45Z
file_id: '4954'
file_name: IST-2018-1007-v1+1_Molnar_NatPlants_2016.pdf
file_size: 127781
relation: main_file
- access_level: open_access
checksum: 550d252be808d8ca2b43e83dddb4212f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:37Z
date_updated: 2020-07-14T12:44:45Z
file_id: '4955'
file_name: IST-2018-1007-v1+2_Molnar_NatPlants_2016_editor_statement.pdf
file_size: 430556
relation: main_file
file_date_updated: 2020-07-14T12:44:45Z
has_accepted_license: '1'
intvolume: ' 2'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Nature Plants
publication_status: published
publisher: Nature Publishing Group
publist_id: '5907'
pubrep_id: '1007'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Plasma membrane: Negative attraction'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2016'
...
---
_id: '1342'
abstract:
- lang: eng
text: A key aspect of bacterial survival is the ability to evolve while migrating
across spatially varying environmental challenges. Laboratory experiments, however,
often study evolution in well-mixed systems. Here, we introduce an experimental
device, the microbial evolution and growth arena (MEGA)-plate, in which bacteria
spread and evolved on a large antibiotic landscape (120 × 60 centimeters) that
allowed visual observation of mutation and selection in a migrating bacterial
front.While resistance increased consistently, multiple coexisting lineages diversified
both phenotypically and genotypically. Analyzing mutants at and behind the propagating
front,we found that evolution is not always led by the most resistant mutants;
highly resistant mutants may be trapped behindmore sensitive lineages.TheMEGA-plate
provides a versatile platformfor studying microbial adaption and directly visualizing
evolutionary dynamics.
author:
- first_name: Michael
full_name: Baym, Michael
last_name: Baym
- first_name: Tami
full_name: Lieberman, Tami
last_name: Lieberman
- first_name: Eric
full_name: Kelsic, Eric
last_name: Kelsic
- first_name: Remy P
full_name: Chait, Remy P
id: 3464AE84-F248-11E8-B48F-1D18A9856A87
last_name: Chait
orcid: 0000-0003-0876-3187
- first_name: Rotem
full_name: Gross, Rotem
last_name: Gross
- first_name: Idan
full_name: Yelin, Idan
last_name: Yelin
- first_name: Roy
full_name: Kishony, Roy
last_name: Kishony
citation:
ama: Baym M, Lieberman T, Kelsic E, et al. Spatiotemporal microbial evolution on
antibiotic landscapes. Science. 2016;353(6304):1147-1151. doi:10.1126/science.aag0822
apa: Baym, M., Lieberman, T., Kelsic, E., Chait, R. P., Gross, R., Yelin, I., &
Kishony, R. (2016). Spatiotemporal microbial evolution on antibiotic landscapes.
Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aag0822
chicago: Baym, Michael, Tami Lieberman, Eric Kelsic, Remy P Chait, Rotem Gross,
Idan Yelin, and Roy Kishony. “Spatiotemporal Microbial Evolution on Antibiotic
Landscapes.” Science. American Association for the Advancement of Science,
2016. https://doi.org/10.1126/science.aag0822.
ieee: M. Baym et al., “Spatiotemporal microbial evolution on antibiotic landscapes,”
Science, vol. 353, no. 6304. American Association for the Advancement of
Science, pp. 1147–1151, 2016.
ista: Baym M, Lieberman T, Kelsic E, Chait RP, Gross R, Yelin I, Kishony R. 2016.
Spatiotemporal microbial evolution on antibiotic landscapes. Science. 353(6304),
1147–1151.
mla: Baym, Michael, et al. “Spatiotemporal Microbial Evolution on Antibiotic Landscapes.”
Science, vol. 353, no. 6304, American Association for the Advancement of
Science, 2016, pp. 1147–51, doi:10.1126/science.aag0822.
short: M. Baym, T. Lieberman, E. Kelsic, R.P. Chait, R. Gross, I. Yelin, R. Kishony,
Science 353 (2016) 1147–1151.
date_created: 2018-12-11T11:51:29Z
date_published: 2016-09-09T00:00:00Z
date_updated: 2021-01-12T06:50:01Z
day: '09'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1126/science.aag0822
intvolume: ' 353'
issue: '6304'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5534434/
month: '09'
oa: 1
oa_version: Preprint
page: 1147 - 1151
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '5911'
quality_controlled: '1'
scopus_import: 1
status: public
title: Spatiotemporal microbial evolution on antibiotic landscapes
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 353
year: '2016'
...
---
_id: '1339'
abstract:
- lang: eng
text: "We present a microelectromechanical system, in which a silicon beam is attached
to a comb-drive\r\nactuator, which is used to tune the tension in the silicon
beam and thus its resonance frequency. By\r\nmeasuring the resonance frequencies
of the system, we show that the comb-drive actuator and the\r\nsilicon beam behave
as two strongly coupled resonators. Interestingly, the effective coupling rate\r\n(1.5
MHz) is tunable with the comb-drive actuator (10%) as well as with a side-gate
(10%)\r\nplaced close to the silicon beam. In contrast, the effective spring constant
of the system is insensitive\r\nto either of them and changes only by 60.5%. Finally,
we show that the comb-drive actuator\r\ncan be used to switch between different
coupling rates with a frequency of at least 10 kHz.\r\n"
acknowledgement: We acknowledge the support from the Helmholtz Nanoelectronic Facility
(HNF) and funding from the ERC (GA-Nr. 280140).
article_number: '143507'
author:
- first_name: Gerard
full_name: Verbiest, Gerard
last_name: Verbiest
- first_name: Duo
full_name: Xu, Duo
id: 3454D55E-F248-11E8-B48F-1D18A9856A87
last_name: Xu
- first_name: Matthias
full_name: Goldsche, Matthias
last_name: Goldsche
- first_name: Timofiy
full_name: Khodkov, Timofiy
last_name: Khodkov
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: Nils
full_name: Von Den Driesch, Nils
last_name: Von Den Driesch
- first_name: Dan
full_name: Buca, Dan
last_name: Buca
- first_name: Christoph
full_name: Stampfer, Christoph
last_name: Stampfer
citation:
ama: Verbiest G, Xu D, Goldsche M, et al. Tunable mechanical coupling between driven
microelectromechanical resonators. Applied Physics Letter. 2016;109. doi:10.1063/1.4964122
apa: Verbiest, G., Xu, D., Goldsche, M., Khodkov, T., Barzanjeh, S., Von Den Driesch,
N., … Stampfer, C. (2016). Tunable mechanical coupling between driven microelectromechanical
resonators. Applied Physics Letter. American Institute of Physics. https://doi.org/10.1063/1.4964122
chicago: Verbiest, Gerard, Duo Xu, Matthias Goldsche, Timofiy Khodkov, Shabir Barzanjeh,
Nils Von Den Driesch, Dan Buca, and Christoph Stampfer. “Tunable Mechanical Coupling
between Driven Microelectromechanical Resonators.” Applied Physics Letter.
American Institute of Physics, 2016. https://doi.org/10.1063/1.4964122.
ieee: G. Verbiest et al., “Tunable mechanical coupling between driven microelectromechanical
resonators,” Applied Physics Letter, vol. 109. American Institute of Physics,
2016.
ista: Verbiest G, Xu D, Goldsche M, Khodkov T, Barzanjeh S, Von Den Driesch N, Buca
D, Stampfer C. 2016. Tunable mechanical coupling between driven microelectromechanical
resonators. Applied Physics Letter. 109, 143507.
mla: Verbiest, Gerard, et al. “Tunable Mechanical Coupling between Driven Microelectromechanical
Resonators.” Applied Physics Letter, vol. 109, 143507, American Institute
of Physics, 2016, doi:10.1063/1.4964122.
short: G. Verbiest, D. Xu, M. Goldsche, T. Khodkov, S. Barzanjeh, N. Von Den Driesch,
D. Buca, C. Stampfer, Applied Physics Letter 109 (2016).
date_created: 2018-12-11T11:51:28Z
date_published: 2016-10-04T00:00:00Z
date_updated: 2023-02-21T10:35:06Z
day: '04'
department:
- _id: JoFi
doi: 10.1063/1.4964122
intvolume: ' 109'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.04406
month: '10'
oa: 1
oa_version: Preprint
publication: Applied Physics Letter
publication_status: published
publisher: American Institute of Physics
publist_id: '5928'
quality_controlled: '1'
scopus_import: 1
status: public
title: Tunable mechanical coupling between driven microelectromechanical resonators
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2016'
...
---
_id: '1349'
abstract:
- lang: eng
text: Crossing fitness valleys is one of the major obstacles to function optimization.
In this paper we investigate how the structure of the fitness valley, namely its
depth d and length ℓ, influence the runtime of different strategies for crossing
these valleys. We present a runtime comparison between the (1+1) EA and two non-elitist
nature-inspired algorithms, Strong Selection Weak Mutation (SSWM) and the Metropolis
algorithm. While the (1+1) EA has to jump across the valley to a point of higher
fitness because it does not accept decreasing moves, the non-elitist algorithms
may cross the valley by accepting worsening moves. We show that while the runtime
of the (1+1) EA algorithm depends critically on the length of the valley, the
runtimes of the non-elitist algorithms depend crucially only on the depth of the
valley. In particular, the expected runtime of both SSWM and Metropolis is polynomial
in ℓ and exponential in d while the (1+1) EA is efficient only for valleys of
small length. Moreover, we show that both SSWM and Metropolis can also efficiently
optimize a rugged function consisting of consecutive valleys.
author:
- first_name: Pietro
full_name: Oliveto, Pietro
last_name: Oliveto
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
- first_name: Jorge
full_name: Heredia, Jorge
last_name: Heredia
- first_name: Dirk
full_name: Sudholt, Dirk
last_name: Sudholt
- first_name: Barbora
full_name: Trubenova, Barbora
id: 42302D54-F248-11E8-B48F-1D18A9856A87
last_name: Trubenova
orcid: 0000-0002-6873-2967
citation:
ama: 'Oliveto P, Paixao T, Heredia J, Sudholt D, Trubenova B. When non-elitism outperforms
elitism for crossing fitness valleys. In: Proceedings of the Genetic and Evolutionary
Computation Conference 2016 . ACM; 2016:1163-1170. doi:10.1145/2908812.2908909'
apa: 'Oliveto, P., Paixao, T., Heredia, J., Sudholt, D., & Trubenova, B. (2016).
When non-elitism outperforms elitism for crossing fitness valleys. In Proceedings
of the Genetic and Evolutionary Computation Conference 2016 (pp. 1163–1170).
Denver, CO, USA: ACM. https://doi.org/10.1145/2908812.2908909'
chicago: Oliveto, Pietro, Tiago Paixao, Jorge Heredia, Dirk Sudholt, and Barbora
Trubenova. “When Non-Elitism Outperforms Elitism for Crossing Fitness Valleys.”
In Proceedings of the Genetic and Evolutionary Computation Conference 2016
, 1163–70. ACM, 2016. https://doi.org/10.1145/2908812.2908909.
ieee: P. Oliveto, T. Paixao, J. Heredia, D. Sudholt, and B. Trubenova, “When non-elitism
outperforms elitism for crossing fitness valleys,” in Proceedings of the Genetic
and Evolutionary Computation Conference 2016 , Denver, CO, USA, 2016, pp.
1163–1170.
ista: 'Oliveto P, Paixao T, Heredia J, Sudholt D, Trubenova B. 2016. When non-elitism
outperforms elitism for crossing fitness valleys. Proceedings of the Genetic and
Evolutionary Computation Conference 2016 . GECCO: Genetic and evolutionary computation
conference, 1163–1170.'
mla: Oliveto, Pietro, et al. “When Non-Elitism Outperforms Elitism for Crossing
Fitness Valleys.” Proceedings of the Genetic and Evolutionary Computation Conference
2016 , ACM, 2016, pp. 1163–70, doi:10.1145/2908812.2908909.
short: P. Oliveto, T. Paixao, J. Heredia, D. Sudholt, B. Trubenova, in:, Proceedings
of the Genetic and Evolutionary Computation Conference 2016 , ACM, 2016, pp. 1163–1170.
conference:
end_date: 2016-07-24
location: Denver, CO, USA
name: 'GECCO: Genetic and evolutionary computation conference'
start_date: 2016-07-20
date_created: 2018-12-11T11:51:31Z
date_published: 2016-07-20T00:00:00Z
date_updated: 2021-01-12T06:50:03Z
day: '20'
ddc:
- '576'
department:
- _id: NiBa
- _id: CaGu
doi: 10.1145/2908812.2908909
ec_funded: 1
file:
- access_level: open_access
checksum: a1896e39e4113f2711e46b435d5f3e69
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:27Z
date_updated: 2020-07-14T12:44:45Z
file_id: '5214'
file_name: IST-2016-650-v1+1_p1163-oliveto.pdf
file_size: 979026
relation: main_file
file_date_updated: 2020-07-14T12:44:45Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1163 - 1170
project:
- _id: 25B1EC9E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618091'
name: Speed of Adaptation in Population Genetics and Evolutionary Computation
publication: 'Proceedings of the Genetic and Evolutionary Computation Conference 2016 '
publication_status: published
publisher: ACM
publist_id: '5900'
pubrep_id: '650'
quality_controlled: '1'
scopus_import: 1
status: public
title: When non-elitism outperforms elitism for crossing fitness valleys
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1350'
abstract:
- lang: eng
text: "The hippocampal CA3 region plays a key role in learning and memory. Recurrent
CA3–CA3\r\nsynapses are thought to be the subcellular substrate of pattern completion.
However, the\r\nsynaptic mechanisms of this network computation remain enigmatic.
To investigate these mechanisms, we combined functional connectivity analysis
with network modeling.\r\nSimultaneous recording fromup to eight CA3 pyramidal
neurons revealed that connectivity was sparse, spatially uniform, and highly enriched
in disynaptic motifs (reciprocal, convergence,divergence, and chain motifs). Unitary
connections were composed of one or two synaptic contacts, suggesting efficient
use of postsynaptic space. Real-size modeling indicated that CA3 networks with
sparse connectivity, disynaptic motifs, and single-contact connections robustly
generated pattern completion.Thus, macro- and microconnectivity contribute to
efficient\r\nmemory storage and retrieval in hippocampal networks."
acknowledged_ssus:
- _id: ScienComp
author:
- first_name: José
full_name: Guzmán, José
id: 30CC5506-F248-11E8-B48F-1D18A9856A87
last_name: Guzmán
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
- first_name: Michael
full_name: Frotscher, Michael
last_name: Frotscher
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Guzmán J, Schlögl A, Frotscher M, Jonas PM. Synaptic mechanisms of pattern
completion in the hippocampal CA3 network. Science. 2016;353(6304):1117-1123.
doi:10.1126/science.aaf1836
apa: Guzmán, J., Schlögl, A., Frotscher, M., & Jonas, P. M. (2016). Synaptic
mechanisms of pattern completion in the hippocampal CA3 network. Science.
American Association for the Advancement of Science. https://doi.org/10.1126/science.aaf1836
chicago: Guzmán, José, Alois Schlögl, Michael Frotscher, and Peter M Jonas. “Synaptic
Mechanisms of Pattern Completion in the Hippocampal CA3 Network.” Science.
American Association for the Advancement of Science, 2016. https://doi.org/10.1126/science.aaf1836.
ieee: J. Guzmán, A. Schlögl, M. Frotscher, and P. M. Jonas, “Synaptic mechanisms
of pattern completion in the hippocampal CA3 network,” Science, vol. 353,
no. 6304. American Association for the Advancement of Science, pp. 1117–1123,
2016.
ista: Guzmán J, Schlögl A, Frotscher M, Jonas PM. 2016. Synaptic mechanisms of pattern
completion in the hippocampal CA3 network. Science. 353(6304), 1117–1123.
mla: Guzmán, José, et al. “Synaptic Mechanisms of Pattern Completion in the Hippocampal
CA3 Network.” Science, vol. 353, no. 6304, American Association for the
Advancement of Science, 2016, pp. 1117–23, doi:10.1126/science.aaf1836.
short: J. Guzmán, A. Schlögl, M. Frotscher, P.M. Jonas, Science 353 (2016) 1117–1123.
date_created: 2018-12-11T11:51:31Z
date_published: 2016-09-09T00:00:00Z
date_updated: 2021-01-12T06:50:04Z
day: '09'
ddc:
- '570'
department:
- _id: ScienComp
- _id: PeJo
doi: 10.1126/science.aaf1836
ec_funded: 1
file:
- access_level: open_access
checksum: 89caefa4e181424cbf0aecc835fcc5ec
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:27Z
date_updated: 2020-07-14T12:44:46Z
file_id: '4945'
file_name: IST-2017-823-v1+1_aaf1836_CombinedPDF_v2-1.pdf
file_size: 19408143
relation: main_file
file_date_updated: 2020-07-14T12:44:46Z
has_accepted_license: '1'
intvolume: ' 353'
issue: '6304'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Preprint
page: 1117 - 1123
project:
- _id: 25C0F108-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '268548'
name: Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons
- _id: 25C26B1E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P24909-B24
name: Mechanisms of transmitter release at GABAergic synapses
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '5899'
pubrep_id: '823'
quality_controlled: '1'
scopus_import: 1
status: public
title: Synaptic mechanisms of pattern completion in the hippocampal CA3 network
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 353
year: '2016'
...
---
_id: '1347'
abstract:
- lang: eng
text: 'During the past 70 years, the quantum theory of angular momentum has been
successfully applied to describing the properties of nuclei, atoms, and molecules,
and their interactions with each other as well as with external fields. Because
of the properties of quantum rotations, the angular-momentum algebra can be of
tremendous complexity even for a few interacting particles, such as valence electrons
of an atom, not to mention larger many-particle systems. In this work, we study
an example of the latter: A rotating quantum impurity coupled to a many-body bosonic
bath. In the regime of strong impurity-bath couplings, the problem involves the
addition of an infinite number of angular momenta, which renders it intractable
using currently available techniques. Here, we introduce a novel canonical transformation
that allows us to eliminate the complex angular-momentum algebra from such a class
of many-body problems. In addition, the transformation exposes the problem''s
constants of motion, and renders it solvable exactly in the limit of a slowly
rotating impurity. We exemplify the technique by showing that there exists a critical
rotational speed at which the impurity suddenly acquires one quantum of angular
momentum from the many-particle bath. Such an instability is accompanied by the
deformation of the phonon density in the frame rotating along with the impurity.'
acknowledgement: We are grateful to Eugene Demler, Jan Kaczmarczyk, Laleh Safari,
and Hendrik Weimer for insightful discussions. The work was supported by the NSF
through a grant for the Institute for Theoretical Atomic, Molecular, and Optical
Physics at Harvard University and Smithsonian Astrophysical Observatory.
article_number: '011012'
author:
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Schmidt R, Lemeshko M. Deformation of a quantum many-particle system by a rotating
impurity. Physical Review X. 2016;6(1). doi:10.1103/PhysRevX.6.011012
apa: Schmidt, R., & Lemeshko, M. (2016). Deformation of a quantum many-particle
system by a rotating impurity. Physical Review X. American Physical Society.
https://doi.org/10.1103/PhysRevX.6.011012
chicago: Schmidt, Richard, and Mikhail Lemeshko. “Deformation of a Quantum Many-Particle
System by a Rotating Impurity.” Physical Review X. American Physical Society,
2016. https://doi.org/10.1103/PhysRevX.6.011012.
ieee: R. Schmidt and M. Lemeshko, “Deformation of a quantum many-particle system
by a rotating impurity,” Physical Review X, vol. 6, no. 1. American Physical
Society, 2016.
ista: Schmidt R, Lemeshko M. 2016. Deformation of a quantum many-particle system
by a rotating impurity. Physical Review X. 6(1), 011012.
mla: Schmidt, Richard, and Mikhail Lemeshko. “Deformation of a Quantum Many-Particle
System by a Rotating Impurity.” Physical Review X, vol. 6, no. 1, 011012,
American Physical Society, 2016, doi:10.1103/PhysRevX.6.011012.
short: R. Schmidt, M. Lemeshko, Physical Review X 6 (2016).
date_created: 2018-12-11T11:51:30Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:03Z
day: '01'
ddc:
- '530'
department:
- _id: MiLe
doi: 10.1103/PhysRevX.6.011012
file:
- access_level: open_access
checksum: 6757a164d3c38905e05b2b5a188cb8ff
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:59Z
date_updated: 2020-07-14T12:44:45Z
file_id: '5183'
file_name: IST-2016-652-v1+1_PhysRevX.6.011012.pdf
file_size: 1165869
relation: main_file
file_date_updated: 2020-07-14T12:44:45Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Physical Review X
publication_status: published
publisher: American Physical Society
publist_id: '5902'
pubrep_id: '652'
quality_controlled: '1'
scopus_import: 1
status: public
title: Deformation of a quantum many-particle system by a rotating impurity
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: 6
year: '2016'
...
---
_id: '1348'
abstract:
- lang: eng
text: 'A drawing in the plane (ℝ2) of a graph G = (V,E) equipped with a function
γ : V → ℕ is x-bounded if (i) x(u) < x(v) whenever γ(u) < γ(v) and (ii)
γ(u) ≤ γ(w) ≤ γ(v), where uv ∈ E and γ(u) ≤ γ(v), whenever x(w) ∈ x(uv), where
x(.) denotes the projection to the xaxis.We prove a characterization of isotopy
classes of embeddings of connected graphs equipped with γ in the plane containing
an x-bounded embedding.Then we present an efficient algorithm, which relies on
our result, for testing the existence of an x-bounded embedding if the given graph
is a forest.This partially answers a question raised recently by Angelini et al.and
Chang et al., and proves that c-planarity testing of flat clustered graphs with
three clusters is tractable when the underlying abstract graph is a forest.'
alternative_title:
- LNCS
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
citation:
ama: 'Fulek R. Bounded embeddings of graphs in the plane. In: Vol 9843. Springer;
2016:31-42. doi:10.1007/978-3-319-44543-4_3'
apa: 'Fulek, R. (2016). Bounded embeddings of graphs in the plane (Vol. 9843, pp.
31–42). Presented at the IWOCA: International Workshop on Combinatorial Algorithms,
Helsinki, Finland: Springer. https://doi.org/10.1007/978-3-319-44543-4_3'
chicago: Fulek, Radoslav. “Bounded Embeddings of Graphs in the Plane,” 9843:31–42.
Springer, 2016. https://doi.org/10.1007/978-3-319-44543-4_3.
ieee: 'R. Fulek, “Bounded embeddings of graphs in the plane,” presented at the IWOCA:
International Workshop on Combinatorial Algorithms, Helsinki, Finland, 2016, vol.
9843, pp. 31–42.'
ista: 'Fulek R. 2016. Bounded embeddings of graphs in the plane. IWOCA: International
Workshop on Combinatorial Algorithms, LNCS, vol. 9843, 31–42.'
mla: Fulek, Radoslav. Bounded Embeddings of Graphs in the Plane. Vol. 9843,
Springer, 2016, pp. 31–42, doi:10.1007/978-3-319-44543-4_3.
short: R. Fulek, in:, Springer, 2016, pp. 31–42.
conference:
end_date: 2018-08-19
location: Helsinki, Finland
name: 'IWOCA: International Workshop on Combinatorial Algorithms'
start_date: 2016-08-17
date_created: 2018-12-11T11:51:31Z
date_published: 2016-08-09T00:00:00Z
date_updated: 2021-01-12T06:50:03Z
day: '09'
department:
- _id: UlWa
doi: 10.1007/978-3-319-44543-4_3
ec_funded: 1
intvolume: ' 9843'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1610.07144
month: '08'
oa: 1
oa_version: Preprint
page: 31 - 42
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: Springer
publist_id: '5901'
quality_controlled: '1'
scopus_import: 1
status: public
title: Bounded embeddings of graphs in the plane
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9843
year: '2016'
...
---
_id: '1355'
abstract:
- lang: eng
text: Radiation pressure has recently been used to effectively couple the quantum
motion of mechanical elements to the fields of optical or microwave light. Integration
of all three degrees of freedom—mechanical, optical and microwave—would enable
a quantum interconnect between microwave and optical quantum systems. We present
a platform based on silicon nitride nanomembranes for integrating superconducting
microwave circuits with planar acoustic and optical devices such as phononic and
photonic crystals. Using planar capacitors with vacuum gaps of 60 nm and spiral
inductor coils of micron pitch we realize microwave resonant circuits with large
electromechanical coupling to planar acoustic structures of nanoscale dimensions
and femtoFarad motional capacitance. Using this enhanced coupling, we demonstrate
microwave backaction cooling of the 4.48 MHz mechanical resonance of a nanobeam
to an occupancy as low as 0.32. These results indicate the viability of silicon
nitride nanomembranes as an all-in-one substrate for quantum electro-opto-mechanical
experiments.
acknowledgement: This work was supported by the DARPA MESO programme, the Institute
for Quantum Information and Matter, an NSF Physics Frontiers Center with support
of the Gordon and Betty Moore Foundation, and the Kavli Nanoscience Institute at
Caltech. A.P. was supported by a Marie Curie International Outgoing Fellowship within
the 7th European Community Framework Programme, NEMO (GA 298861). Certain commercial
equipment and software are identified in this documentation to describe the subject
adequately. Such identification does not imply recommendation or endorsement by
the NIST, nor does it imply that the equipment identified is necessarily the best
available for the purpose.
article_number: '12396'
author:
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
- first_name: Mahmoud
full_name: Kalaee, Mahmoud
last_name: Kalaee
- first_name: Alessandro
full_name: Pitanti, Alessandro
last_name: Pitanti
- first_name: Richard
full_name: Norte, Richard
last_name: Norte
- first_name: Lukas
full_name: Heinzle, Lukas
last_name: Heinzle
- first_name: Marcelo
full_name: Davanço, Marcelo
last_name: Davanço
- first_name: Kartik
full_name: Srinivasan, Kartik
last_name: Srinivasan
- first_name: Oskar
full_name: Painter, Oskar
last_name: Painter
citation:
ama: Fink JM, Kalaee M, Pitanti A, et al. Quantum electromechanics on silicon nitride
nanomembranes. Nature Communications. 2016;7. doi:10.1038/ncomms12396
apa: Fink, J. M., Kalaee, M., Pitanti, A., Norte, R., Heinzle, L., Davanço, M.,
… Painter, O. (2016). Quantum electromechanics on silicon nitride nanomembranes.
Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms12396
chicago: Fink, Johannes M, Mahmoud Kalaee, Alessandro Pitanti, Richard Norte, Lukas
Heinzle, Marcelo Davanço, Kartik Srinivasan, and Oskar Painter. “Quantum Electromechanics
on Silicon Nitride Nanomembranes.” Nature Communications. Nature Publishing
Group, 2016. https://doi.org/10.1038/ncomms12396.
ieee: J. M. Fink et al., “Quantum electromechanics on silicon nitride nanomembranes,”
Nature Communications, vol. 7. Nature Publishing Group, 2016.
ista: Fink JM, Kalaee M, Pitanti A, Norte R, Heinzle L, Davanço M, Srinivasan K,
Painter O. 2016. Quantum electromechanics on silicon nitride nanomembranes. Nature
Communications. 7, 12396.
mla: Fink, Johannes M., et al. “Quantum Electromechanics on Silicon Nitride Nanomembranes.”
Nature Communications, vol. 7, 12396, Nature Publishing Group, 2016, doi:10.1038/ncomms12396.
short: J.M. Fink, M. Kalaee, A. Pitanti, R. Norte, L. Heinzle, M. Davanço, K. Srinivasan,
O. Painter, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:33Z
date_published: 2016-08-03T00:00:00Z
date_updated: 2021-01-12T06:50:06Z
day: '03'
ddc:
- '530'
department:
- _id: JoFi
doi: 10.1038/ncomms12396
file:
- access_level: open_access
checksum: 25513bd59d5bda495efa8f5920e91b22
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:30Z
date_updated: 2020-07-14T12:44:46Z
file_id: '5014'
file_name: IST-2016-629-v1+1_ncomms12396.pdf
file_size: 2139802
relation: main_file
file_date_updated: 2020-07-14T12:44:46Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5891'
pubrep_id: '629'
quality_controlled: '1'
scopus_import: 1
status: public
title: Quantum electromechanics on silicon nitride nanomembranes
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: 7
year: '2016'
...
---
_id: '1359'
abstract:
- lang: eng
text: "The role of gene interactions in the evolutionary process has long\r\nbeen
controversial. Although some argue that they are not of\r\nimportance, because
most variation is additive, others claim that\r\ntheir effect in the long term
can be substantial. Here, we focus on\r\nthe long-term effects of genetic interactions
under directional\r\nselection assuming no mutation or dominance, and that epistasis
is\r\nsymmetrical overall. We ask by how much the mean of a complex\r\ntrait can
be increased by selection and analyze two extreme\r\nregimes, in which either
drift or selection dominate the dynamics\r\nof allele frequencies. In both scenarios,
epistatic interactions affect\r\nthe long-term response to selection by modulating
the additive\r\ngenetic variance. When drift dominates, we extend Robertson\r\n’\r\ns\r\n[Robertson
A (1960)\r\nProc R Soc Lond B Biol Sci\r\n153(951):234\r\n−\r\n249]\r\nargument
to show that, for any form of epistasis, the total response\r\nof a haploid population
is proportional to the initial total genotypic\r\nvariance. In contrast, the total
response of a diploid population is\r\nincreased by epistasis, for a given initial
genotypic variance. When\r\nselection dominates, we show that the total selection
response can\r\nonly be increased by epistasis when s\r\nome initially deleterious
alleles\r\nbecome favored as the genetic background changes. We find a sim-\r\nple
approximation for this effect and show that, in this regime, it is\r\nthe structure
of the genotype - phenotype map that matters and not\r\nthe variance components
of the population."
article_processing_charge: No
article_type: original
author:
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Paixao T, Barton NH. The effect of gene interactions on the long-term response
to selection. PNAS. 2016;113(16):4422-4427. doi:10.1073/pnas.1518830113
apa: Paixao, T., & Barton, N. H. (2016). The effect of gene interactions on
the long-term response to selection. PNAS. National Academy of Sciences.
https://doi.org/10.1073/pnas.1518830113
chicago: Paixao, Tiago, and Nicholas H Barton. “The Effect of Gene Interactions
on the Long-Term Response to Selection.” PNAS. National Academy of Sciences,
2016. https://doi.org/10.1073/pnas.1518830113.
ieee: T. Paixao and N. H. Barton, “The effect of gene interactions on the long-term
response to selection,” PNAS, vol. 113, no. 16. National Academy of Sciences,
pp. 4422–4427, 2016.
ista: Paixao T, Barton NH. 2016. The effect of gene interactions on the long-term
response to selection. PNAS. 113(16), 4422–4427.
mla: Paixao, Tiago, and Nicholas H. Barton. “The Effect of Gene Interactions on
the Long-Term Response to Selection.” PNAS, vol. 113, no. 16, National
Academy of Sciences, 2016, pp. 4422–27, doi:10.1073/pnas.1518830113.
short: T. Paixao, N.H. Barton, PNAS 113 (2016) 4422–4427.
date_created: 2018-12-11T11:51:34Z
date_published: 2016-04-19T00:00:00Z
date_updated: 2021-01-12T06:50:08Z
day: '19'
department:
- _id: NiBa
- _id: CaGu
doi: 10.1073/pnas.1518830113
ec_funded: 1
external_id:
pmid:
- '27044080'
intvolume: ' 113'
issue: '16'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4843425/
month: '04'
oa: 1
oa_version: Published Version
page: 4422 - 4427
pmid: 1
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
- _id: 25B1EC9E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618091'
name: Speed of Adaptation in Population Genetics and Evolutionary Computation
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '5886'
quality_controlled: '1'
scopus_import: 1
status: public
title: The effect of gene interactions on the long-term response to selection
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 113
year: '2016'
...
---
_id: '1352'
abstract:
- lang: eng
text: We study the interplay of nematic and superconducting order in the two-dimensional
Hubbard model and show that they can coexist, especially when superconductivity
is not the energetically dominant phase. Due to a breaking of the C4 symmetry,
the coexisting phase inherently contains admixture of the s-wave pairing components.
As a result, the superconducting gap exhibits nonstandard features including changed
nodal directions. Our results also show that in the optimally doped regime the
pure superconducting phase is typically unstable towards developing nematicity
(breaking of the C4 symmetry). This has implications for the cuprate high-Tc superconductors,
for which in this regime the so-called intertwined orders have recently been observed.
Namely, the coexisting phase may be viewed as a precursor to such more involved
patterns of symmetry breaking.
acknowledgement: The authors are grateful to Florian Gebhard and Mikhail Lemeshko
for discussions and critical reading of the manuscript. The work was supported by
the Ministry of Science and Higher Education in Poland through the Iuventus Plus
Grant No. IP2012 017172, as well as by the People Programme (Marie Curie Actions)
of the European Union's Seventh Framework Programme (FP7/2007-2013) under REA Grant
Agreement No. 291734. J.K. acknowledges hospitality of the Leibniz Universität in
Hannover where a large part of the work was performed.
article_number: '085152'
author:
- first_name: Jan
full_name: Kaczmarczyk, Jan
id: 46C405DE-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarczyk
orcid: 0000-0002-1629-3675
- first_name: Tobias
full_name: Schickling, Tobias
last_name: Schickling
- first_name: Jörg
full_name: Bünemann, Jörg
last_name: Bünemann
citation:
ama: Kaczmarczyk J, Schickling T, Bünemann J. Coexistence of nematic order and superconductivity
in the Hubbard model. Physical Review B - Condensed Matter and Materials Physics.
2016;94(8). doi:10.1103/PhysRevB.94.085152
apa: Kaczmarczyk, J., Schickling, T., & Bünemann, J. (2016). Coexistence of
nematic order and superconductivity in the Hubbard model. Physical Review B
- Condensed Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.94.085152
chicago: Kaczmarczyk, Jan, Tobias Schickling, and Jörg Bünemann. “Coexistence of
Nematic Order and Superconductivity in the Hubbard Model.” Physical Review
B - Condensed Matter and Materials Physics. American Physical Society, 2016.
https://doi.org/10.1103/PhysRevB.94.085152.
ieee: J. Kaczmarczyk, T. Schickling, and J. Bünemann, “Coexistence of nematic order
and superconductivity in the Hubbard model,” Physical Review B - Condensed
Matter and Materials Physics, vol. 94, no. 8. American Physical Society, 2016.
ista: Kaczmarczyk J, Schickling T, Bünemann J. 2016. Coexistence of nematic order
and superconductivity in the Hubbard model. Physical Review B - Condensed Matter
and Materials Physics. 94(8), 085152.
mla: Kaczmarczyk, Jan, et al. “Coexistence of Nematic Order and Superconductivity
in the Hubbard Model.” Physical Review B - Condensed Matter and Materials Physics,
vol. 94, no. 8, 085152, American Physical Society, 2016, doi:10.1103/PhysRevB.94.085152.
short: J. Kaczmarczyk, T. Schickling, J. Bünemann, Physical Review B - Condensed
Matter and Materials Physics 94 (2016).
date_created: 2018-12-11T11:51:32Z
date_published: 2016-08-30T00:00:00Z
date_updated: 2021-01-12T06:50:05Z
day: '30'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.94.085152
ec_funded: 1
intvolume: ' 94'
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1512.06688
month: '08'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '5897'
quality_controlled: '1'
scopus_import: 1
status: public
title: Coexistence of nematic order and superconductivity in the Hubbard model
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1354'
abstract:
- lang: eng
text: Fabrication processes involving anhydrous hydrofluoric vapor etching are developed
to create high-Q aluminum superconducting microwave resonators on free-standing
silicon membranes formed from a silicon-on-insulator wafer. Using this fabrication
process, a high-impedance 8.9-GHz coil resonator is coupled capacitively with
a large participation ratio to a 9.7-MHz micromechanical resonator. Two-tone microwave
spectroscopy and radiation pressure backaction are used to characterize the coupled
system in a dilution refrigerator down to temperatures of Tf=11 mK, yielding
a measured electromechanical vacuum coupling rate of g0/2π=24.6 Hz and a mechanical
resonator Q factor of Qm=1.7×107. Microwave backaction cooling of the mechanical
resonator is also studied, with a minimum phonon occupancy of nm≈16 phonons being
realized at an elevated fridge temperature of Tf=211 mK.
article_number: '014013'
author:
- first_name: Paul
full_name: Dieterle, Paul
last_name: Dieterle
- first_name: Mahmoud
full_name: Kalaee, Mahmoud
last_name: Kalaee
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
- first_name: Oskar
full_name: Painter, Oskar
last_name: Painter
citation:
ama: Dieterle P, Kalaee M, Fink JM, Painter O. Superconducting cavity electromechanics
on a silicon-on-insulator platform. Physical Review Applied. 2016;6(1).
doi:10.1103/PhysRevApplied.6.014013
apa: Dieterle, P., Kalaee, M., Fink, J. M., & Painter, O. (2016). Superconducting
cavity electromechanics on a silicon-on-insulator platform. Physical Review
Applied. American Physical Society. https://doi.org/10.1103/PhysRevApplied.6.014013
chicago: Dieterle, Paul, Mahmoud Kalaee, Johannes M Fink, and Oskar Painter. “Superconducting
Cavity Electromechanics on a Silicon-on-Insulator Platform.” Physical Review
Applied. American Physical Society, 2016. https://doi.org/10.1103/PhysRevApplied.6.014013.
ieee: P. Dieterle, M. Kalaee, J. M. Fink, and O. Painter, “Superconducting cavity
electromechanics on a silicon-on-insulator platform,” Physical Review Applied,
vol. 6, no. 1. American Physical Society, 2016.
ista: Dieterle P, Kalaee M, Fink JM, Painter O. 2016. Superconducting cavity electromechanics
on a silicon-on-insulator platform. Physical Review Applied. 6(1), 014013.
mla: Dieterle, Paul, et al. “Superconducting Cavity Electromechanics on a Silicon-on-Insulator
Platform.” Physical Review Applied, vol. 6, no. 1, 014013, American Physical
Society, 2016, doi:10.1103/PhysRevApplied.6.014013.
short: P. Dieterle, M. Kalaee, J.M. Fink, O. Painter, Physical Review Applied 6
(2016).
date_created: 2018-12-11T11:51:32Z
date_published: 2016-07-22T00:00:00Z
date_updated: 2021-01-12T06:50:06Z
day: '22'
department:
- _id: JoFi
doi: 10.1103/PhysRevApplied.6.014013
intvolume: ' 6'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1601.04019
month: '07'
oa: 1
oa_version: Preprint
publication: Physical Review Applied
publication_status: published
publisher: American Physical Society
publist_id: '5892'
quality_controlled: '1'
scopus_import: 1
status: public
title: Superconducting cavity electromechanics on a silicon-on-insulator platform
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2016'
...
---
_id: '1356'
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Barton NH. Sewall Wright on evolution in Mendelian populations and the “Shifting
Balance.” Genetics. 2016;202(1):3-4. doi:10.1534/genetics.115.184796
apa: Barton, N. H. (2016). Sewall Wright on evolution in Mendelian populations and
the “Shifting Balance.” Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.115.184796
chicago: Barton, Nicholas H. “Sewall Wright on Evolution in Mendelian Populations
and the ‘Shifting Balance.’” Genetics. Genetics Society of America, 2016.
https://doi.org/10.1534/genetics.115.184796.
ieee: N. H. Barton, “Sewall Wright on evolution in Mendelian populations and the
‘Shifting Balance,’” Genetics, vol. 202, no. 1. Genetics Society of America,
pp. 3–4, 2016.
ista: Barton NH. 2016. Sewall Wright on evolution in Mendelian populations and the
“Shifting Balance”. Genetics. 202(1), 3–4.
mla: Barton, Nicholas H. “Sewall Wright on Evolution in Mendelian Populations and
the ‘Shifting Balance.’” Genetics, vol. 202, no. 1, Genetics Society of
America, 2016, pp. 3–4, doi:10.1534/genetics.115.184796.
short: N.H. Barton, Genetics 202 (2016) 3–4.
date_created: 2018-12-11T11:51:33Z
date_published: 2016-01-05T00:00:00Z
date_updated: 2021-01-12T06:50:07Z
day: '05'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1534/genetics.115.184796
file:
- access_level: open_access
checksum: 3562b89c821a4be84edf2b6ebd870cf5
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:26Z
date_updated: 2020-07-14T12:44:46Z
file_id: '4687'
file_name: IST-2017-769-v1+1_SewallWright1931.pdf
file_size: 112674
relation: main_file
file_date_updated: 2020-07-14T12:44:46Z
has_accepted_license: '1'
intvolume: ' 202'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Submitted Version
page: 3 - 4
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '5889'
pubrep_id: '769'
quality_controlled: '1'
scopus_import: 1
status: public
title: Sewall Wright on evolution in Mendelian populations and the “Shifting Balance”
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 202
year: '2016'
...
---
_id: '1357'
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Barton NH. Richard Hudson and Norman Kaplan on the coalescent process. Genetics.
2016;202(3):865-866. doi:10.1534/genetics.116.187542
apa: Barton, N. H. (2016). Richard Hudson and Norman Kaplan on the coalescent process.
Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.116.187542
chicago: Barton, Nicholas H. “Richard Hudson and Norman Kaplan on the Coalescent
Process.” Genetics. Genetics Society of America, 2016. https://doi.org/10.1534/genetics.116.187542.
ieee: N. H. Barton, “Richard Hudson and Norman Kaplan on the coalescent process,”
Genetics, vol. 202, no. 3. Genetics Society of America, pp. 865–866, 2016.
ista: Barton NH. 2016. Richard Hudson and Norman Kaplan on the coalescent process.
Genetics. 202(3), 865–866.
mla: Barton, Nicholas H. “Richard Hudson and Norman Kaplan on the Coalescent Process.”
Genetics, vol. 202, no. 3, Genetics Society of America, 2016, pp. 865–66,
doi:10.1534/genetics.116.187542.
short: N.H. Barton, Genetics 202 (2016) 865–866.
date_created: 2018-12-11T11:51:33Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2021-01-12T06:50:07Z
day: '01'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1534/genetics.116.187542
file:
- access_level: open_access
checksum: b2174bab2de1d1142900062a150f35c9
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:09Z
date_updated: 2020-07-14T12:44:46Z
file_id: '5127'
file_name: IST-2017-768-v1+1_Hudson-Kaplan-1988.pdf
file_size: 130779
relation: main_file
file_date_updated: 2020-07-14T12:44:46Z
has_accepted_license: '1'
intvolume: ' 202'
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Submitted Version
page: 865 - 866
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '5888'
pubrep_id: '768'
quality_controlled: '1'
scopus_import: 1
status: public
title: Richard Hudson and Norman Kaplan on the coalescent process
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 202
year: '2016'
...
---
_id: '1353'
abstract:
- lang: eng
text: We characterize absorption in finite idempotent algebras by means of Jónsson
absorption and cube term blockers. As an application we show that it is decidable
whether a given subset is an absorbing subuniverse of an algebra given by the
tables of its basic operations.
acknowledgement: 'Libor Barto and Alexandr Kazda were supported by the the Grant Agency
of the Czech Republic, grant GACR 13-01832S. '
author:
- first_name: Libor
full_name: Barto, Libor
last_name: Barto
- first_name: Alexandr
full_name: Kazda, Alexandr
id: 3B32BAA8-F248-11E8-B48F-1D18A9856A87
last_name: Kazda
citation:
ama: Barto L, Kazda A. Deciding absorption. International Journal of Algebra
and Computation. 2016;26(5):1033-1060. doi:10.1142/S0218196716500430
apa: Barto, L., & Kazda, A. (2016). Deciding absorption. International Journal
of Algebra and Computation. World Scientific Publishing. https://doi.org/10.1142/S0218196716500430
chicago: Barto, Libor, and Alexandr Kazda. “Deciding Absorption.” International
Journal of Algebra and Computation. World Scientific Publishing, 2016. https://doi.org/10.1142/S0218196716500430.
ieee: L. Barto and A. Kazda, “Deciding absorption,” International Journal of
Algebra and Computation, vol. 26, no. 5. World Scientific Publishing, pp.
1033–1060, 2016.
ista: Barto L, Kazda A. 2016. Deciding absorption. International Journal of Algebra
and Computation. 26(5), 1033–1060.
mla: Barto, Libor, and Alexandr Kazda. “Deciding Absorption.” International Journal
of Algebra and Computation, vol. 26, no. 5, World Scientific Publishing, 2016,
pp. 1033–60, doi:10.1142/S0218196716500430.
short: L. Barto, A. Kazda, International Journal of Algebra and Computation 26 (2016)
1033–1060.
date_created: 2018-12-11T11:51:32Z
date_published: 2016-07-20T00:00:00Z
date_updated: 2021-01-12T06:50:06Z
day: '20'
department:
- _id: VlKo
doi: 10.1142/S0218196716500430
intvolume: ' 26'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1512.07009
month: '07'
oa: 1
oa_version: Preprint
page: 1033 - 1060
publication: International Journal of Algebra and Computation
publication_status: published
publisher: World Scientific Publishing
publist_id: '5893'
quality_controlled: '1'
scopus_import: 1
status: public
title: Deciding absorption
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2016'
...
---
_id: '1363'
abstract:
- lang: eng
text: When aiming to seamlessly integrate a fluid simulation into a larger scenario
(like an open ocean), careful attention must be paid to boundary conditions. In
particular, one must implement special "non-reflecting" boundary conditions,
which dissipate out-going waves as they exit the simulation. Unfortunately, the
state of the art in non-reflecting boundary conditions (perfectly-matched layers,
or PMLs) only permits trivially simple inflow/outflow conditions, so there is
no reliable way to integrate a fluid simulation into a more complicated environment
like a stormy ocean or a turbulent river. This paper introduces the first method
for combining nonreflecting boundary conditions based on PMLs with inflow/outflow
boundary conditions that vary arbitrarily throughout space and time. Our algorithm
is a generalization of stateof- the-art mean-flow boundary conditions in the computational
fluid dynamics literature, and it allows for seamless integration of a fluid simulation
into much more complicated environments. Our method also opens the door for previously-unseen
postprocess effects like retroactively changing the location of solid obstacles,
and locally increasing the visual detail of a pre-existing simulation.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: 'We thank the IST Austria Visual Computing group for helpful feedback
throughout the project. '
alternative_title:
- ACM Transactions on Graphics
article_number: '96'
author:
- first_name: Morten
full_name: Bojsen-Hansen, Morten
id: 439F0C8C-F248-11E8-B48F-1D18A9856A87
last_name: Bojsen-Hansen
orcid: 0000-0002-4417-3224
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
citation:
ama: 'Bojsen-Hansen M, Wojtan C. Generalized non-reflecting boundaries for fluid
re-simulation. In: Vol 35. ACM; 2016. doi:10.1145/2897824.2925963'
apa: 'Bojsen-Hansen, M., & Wojtan, C. (2016). Generalized non-reflecting boundaries
for fluid re-simulation (Vol. 35). Presented at the ACM SIGGRAPH, Anaheim, CA,
USA: ACM. https://doi.org/10.1145/2897824.2925963'
chicago: Bojsen-Hansen, Morten, and Chris Wojtan. “Generalized Non-Reflecting Boundaries
for Fluid Re-Simulation,” Vol. 35. ACM, 2016. https://doi.org/10.1145/2897824.2925963.
ieee: M. Bojsen-Hansen and C. Wojtan, “Generalized non-reflecting boundaries for
fluid re-simulation,” presented at the ACM SIGGRAPH, Anaheim, CA, USA, 2016, vol.
35, no. 4.
ista: Bojsen-Hansen M, Wojtan C. 2016. Generalized non-reflecting boundaries for
fluid re-simulation. ACM SIGGRAPH, ACM Transactions on Graphics, vol. 35, 96.
mla: Bojsen-Hansen, Morten, and Chris Wojtan. Generalized Non-Reflecting Boundaries
for Fluid Re-Simulation. Vol. 35, no. 4, 96, ACM, 2016, doi:10.1145/2897824.2925963.
short: M. Bojsen-Hansen, C. Wojtan, in:, ACM, 2016.
conference:
end_date: 2016-07-28
location: Anaheim, CA, USA
name: ACM SIGGRAPH
start_date: 2016-07-24
date_created: 2018-12-11T11:51:35Z
date_published: 2016-07-11T00:00:00Z
date_updated: 2023-02-21T10:36:12Z
day: '11'
ddc:
- '000'
department:
- _id: ChWo
doi: 10.1145/2897824.2925963
ec_funded: 1
file:
- access_level: open_access
checksum: 140b5532f0a2a006a0149cab7c73c17c
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:00Z
date_updated: 2020-07-14T12:44:47Z
file_id: '4981'
file_name: IST-2016-631-v1+2_a96-bojsen-hansen.pdf
file_size: 12422760
relation: main_file
file_date_updated: 2020-07-14T12:44:47Z
has_accepted_license: '1'
intvolume: ' 35'
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publication_status: published
publisher: ACM
publist_id: '5879'
pubrep_id: '631'
quality_controlled: '1'
status: public
title: Generalized non-reflecting boundaries for fluid re-simulation
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: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1364'
abstract:
- lang: eng
text: We present a computational method for designing wire sculptures consisting
of interlocking wires. Our method allows the computation of aesthetically pleasing
structures that are structurally stable, efficiently fabricatable with a 2D wire
bending machine, and assemblable without the need of additional connectors. Starting
from a set of planar contours provided by the user, our method automatically tests
for the feasibility of a design, determines a discrete ordering of wires at intersection
points, and optimizes for the rest shape of the individual wires to maximize structural
stability under frictional contact. In addition to their application to art, wire
sculptures present an extremely efficient and fast alternative for low-fidelity
rapid prototyping because manufacturing time and required material linearly scales
with the physical size of objects. We demonstrate the effectiveness of our approach
on a varied set of examples, all of which we fabricated.
acknowledgement: This project has received funding from the European Union’s Horizon
2020 research and innovation programme under grant agreement No 645599.
alternative_title:
- ACM Transactions on Graphics
article_number: '86'
author:
- first_name: Eder
full_name: Miguel Villalba, Eder
id: 3FB91342-F248-11E8-B48F-1D18A9856A87
last_name: Miguel Villalba
- first_name: Mathias
full_name: Lepoutre, Mathias
last_name: Lepoutre
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
citation:
ama: 'Miguel Villalba E, Lepoutre M, Bickel B. Computational design of stable planar-rod
structures. In: Vol 35. ACM; 2016. doi:10.1145/2897824.2925978'
apa: 'Miguel Villalba, E., Lepoutre, M., & Bickel, B. (2016). Computational
design of stable planar-rod structures (Vol. 35). Presented at the ACM SIGGRAPH,
Anaheim, CA, USA: ACM. https://doi.org/10.1145/2897824.2925978'
chicago: Miguel Villalba, Eder, Mathias Lepoutre, and Bernd Bickel. “Computational
Design of Stable Planar-Rod Structures,” Vol. 35. ACM, 2016. https://doi.org/10.1145/2897824.2925978.
ieee: E. Miguel Villalba, M. Lepoutre, and B. Bickel, “Computational design of stable
planar-rod structures,” presented at the ACM SIGGRAPH, Anaheim, CA, USA, 2016,
vol. 35, no. 4.
ista: Miguel Villalba E, Lepoutre M, Bickel B. 2016. Computational design of stable
planar-rod structures. ACM SIGGRAPH, ACM Transactions on Graphics, vol. 35, 86.
mla: Miguel Villalba, Eder, et al. Computational Design of Stable Planar-Rod
Structures. Vol. 35, no. 4, 86, ACM, 2016, doi:10.1145/2897824.2925978.
short: E. Miguel Villalba, M. Lepoutre, B. Bickel, in:, ACM, 2016.
conference:
end_date: 2016-07-28
location: Anaheim, CA, USA
name: ACM SIGGRAPH
start_date: 2016-07-24
date_created: 2018-12-11T11:51:36Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:10Z
day: '01'
ddc:
- '006'
department:
- _id: BeBi
doi: 10.1145/2897824.2925978
ec_funded: 1
file:
- access_level: open_access
checksum: d00c2664a43d945df8876ea0193734e3
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:01Z
date_updated: 2020-07-14T12:44:47Z
file_id: '4853'
file_name: IST-2017-763-v1+1_wirebending.pdf
file_size: 44766392
relation: main_file
file_date_updated: 2020-07-14T12:44:47Z
has_accepted_license: '1'
intvolume: ' 35'
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 25082902-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '645599'
name: Soft-bodied intelligence for Manipulation
publication_status: published
publisher: ACM
publist_id: '5878'
pubrep_id: '763'
quality_controlled: '1'
scopus_import: 1
status: public
title: Computational design of stable planar-rod structures
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1361'
abstract:
- lang: eng
text: We propose a novel surface-only technique for simulating incompressible, inviscid
and uniform-density liquids with surface tension in three dimensions. The liquid
surface is captured by a triangle mesh on which a Lagrangian velocity field is
stored. Because advection of the velocity field may violate the incompressibility
condition, we devise an orthogonal projection technique to remove the divergence
while requiring the evaluation of only two boundary integrals. The forces of surface
tension, gravity, and solid contact are all treated by a boundary element solve,
allowing us to perform detailed simulations of a wide range of liquid phenomena,
including waterbells, droplet and jet collisions, fluid chains, and crown splashes.
alternative_title:
- ACM Transactions on Graphics
article_number: a78
author:
- first_name: Fang
full_name: Da, Fang
last_name: Da
- first_name: David
full_name: Hahn, David
id: 357A6A66-F248-11E8-B48F-1D18A9856A87
last_name: Hahn
- first_name: Christopher
full_name: Batty, Christopher
last_name: Batty
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
- first_name: Eitan
full_name: Grinspun, Eitan
last_name: Grinspun
citation:
ama: 'Da F, Hahn D, Batty C, Wojtan C, Grinspun E. Surface only liquids. In: Vol
35. ACM; 2016. doi:10.1145/2897824.2925899'
apa: 'Da, F., Hahn, D., Batty, C., Wojtan, C., & Grinspun, E. (2016). Surface
only liquids (Vol. 35). Presented at the ACM SIGGRAPH, Anaheim, CA, USA: ACM.
https://doi.org/10.1145/2897824.2925899'
chicago: Da, Fang, David Hahn, Christopher Batty, Chris Wojtan, and Eitan Grinspun.
“Surface Only Liquids,” Vol. 35. ACM, 2016. https://doi.org/10.1145/2897824.2925899.
ieee: F. Da, D. Hahn, C. Batty, C. Wojtan, and E. Grinspun, “Surface only liquids,”
presented at the ACM SIGGRAPH, Anaheim, CA, USA, 2016, vol. 35, no. 4.
ista: Da F, Hahn D, Batty C, Wojtan C, Grinspun E. 2016. Surface only liquids. ACM
SIGGRAPH, ACM Transactions on Graphics, vol. 35, a78.
mla: Da, Fang, et al. Surface Only Liquids. Vol. 35, no. 4, a78, ACM, 2016,
doi:10.1145/2897824.2925899.
short: F. Da, D. Hahn, C. Batty, C. Wojtan, E. Grinspun, in:, ACM, 2016.
conference:
end_date: 2016-07-28
location: Anaheim, CA, USA
name: ACM SIGGRAPH
start_date: 2016-07-24
date_created: 2018-12-11T11:51:35Z
date_published: 2016-07-11T00:00:00Z
date_updated: 2023-02-21T10:36:07Z
day: '11'
ddc:
- '000'
department:
- _id: ChWo
doi: 10.1145/2897824.2925899
ec_funded: 1
file:
- access_level: open_access
checksum: 6d662893bd447d4f575b4961a2247811
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:01Z
date_updated: 2020-07-14T12:44:46Z
file_id: '4660'
file_name: IST-2016-637-v1+1_2016_Da_SOL.pdf
file_size: 10561865
relation: main_file
file_date_updated: 2020-07-14T12:44:46Z
has_accepted_license: '1'
intvolume: ' 35'
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publication_status: published
publisher: ACM
publist_id: '5881'
pubrep_id: '637'
quality_controlled: '1'
scopus_import: 1
status: public
title: Surface only liquids
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1365'
abstract:
- lang: eng
text: A memory-hard function (MHF) f is equipped with a space cost σ and time cost
τ parameter such that repeatedly computing fσ,τ on an application specific integrated
circuit (ASIC) is not economically advantageous relative to a general purpose
computer. Technically we would like that any (generalized) circuit for evaluating
an iMHF fσ,τ has area × time (AT) complexity at Θ(σ2 ∗ τ). A data-independent
MHF (iMHF) has the added property that it can be computed with almost optimal
memory and time complexity by an algorithm which accesses memory in a pattern
independent of the input value. Such functions can be specified by fixing a directed
acyclic graph (DAG) G on n = Θ(σ ∗ τ) nodes representing its computation graph.
In this work we develop new tools for analyzing iMHFs. First we define and motivate
a new complexity measure capturing the amount of energy (i.e. electricity) required
to compute a function. We argue that, in practice, this measure is at least as
important as the more traditional AT-complexity. Next we describe an algorithm
A for repeatedly evaluating an iMHF based on an arbitrary DAG G. We upperbound
both its energy and AT complexities per instance evaluated in terms of a certain
combinatorial property of G. Next we instantiate our attack for several general
classes of DAGs which include those underlying many of the most important iMHF
candidates in the literature. In particular, we obtain the following results which
hold for all choices of parameters σ and τ (and thread-count) such that n = σ
∗ τ. -The Catena-Dragonfly function of [FLW13] has AT and energy complexities
O(n1.67). -The Catena-Butterfly function of [FLW13] has complexities is O(n1.67).
-The Double-Buffer and the Linear functions of [CGBS16] both have complexities
in O(n1.67). -The Argon2i function of [BDK15] (winner of the Password Hashing
Competition [PHC]) has complexities O(n7/4 log(n)). -The Single-Buffer function
of [CGBS16] has complexities O(n7/4 log(n)). -Any iMHF can be computed by an algorithm
with complexities O(n2/ log1 −ε(n)) for all ε > 0. In particular when τ = 1
this shows that the goal of constructing an iMHF with AT-complexity Θ(σ2 ∗ τ )
is unachievable. Along the way we prove a lemma upper-bounding the depth-robustness
of any DAG which may prove to be of independent interest.
alternative_title:
- LNCS
author:
- first_name: Joel F
full_name: Alwen, Joel F
id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87
last_name: Alwen
- first_name: Jeremiah
full_name: Blocki, Jeremiah
last_name: Blocki
citation:
ama: 'Alwen JF, Blocki J. Efficiently computing data-independent memory-hard functions.
In: Vol 9815. Springer; 2016:241-271. doi:10.1007/978-3-662-53008-5_9'
apa: 'Alwen, J. F., & Blocki, J. (2016). Efficiently computing data-independent
memory-hard functions (Vol. 9815, pp. 241–271). Presented at the CRYPTO: International
Cryptology Conference, Santa Barbara, CA, USA: Springer. https://doi.org/10.1007/978-3-662-53008-5_9'
chicago: Alwen, Joel F, and Jeremiah Blocki. “Efficiently Computing Data-Independent
Memory-Hard Functions,” 9815:241–71. Springer, 2016. https://doi.org/10.1007/978-3-662-53008-5_9.
ieee: 'J. F. Alwen and J. Blocki, “Efficiently computing data-independent memory-hard
functions,” presented at the CRYPTO: International Cryptology Conference, Santa
Barbara, CA, USA, 2016, vol. 9815, pp. 241–271.'
ista: 'Alwen JF, Blocki J. 2016. Efficiently computing data-independent memory-hard
functions. CRYPTO: International Cryptology Conference, LNCS, vol. 9815, 241–271.'
mla: Alwen, Joel F., and Jeremiah Blocki. Efficiently Computing Data-Independent
Memory-Hard Functions. Vol. 9815, Springer, 2016, pp. 241–71, doi:10.1007/978-3-662-53008-5_9.
short: J.F. Alwen, J. Blocki, in:, Springer, 2016, pp. 241–271.
conference:
end_date: 2016-08-18
location: Santa Barbara, CA, USA
name: 'CRYPTO: International Cryptology Conference'
start_date: 2016-08-14
date_created: 2018-12-11T11:51:36Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2021-01-12T06:50:11Z
day: '01'
department:
- _id: KrPi
doi: 10.1007/978-3-662-53008-5_9
intvolume: ' 9815'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://eprint.iacr.org/2016/115
month: '08'
oa: 1
oa_version: Preprint
page: 241 - 271
publication_status: published
publisher: Springer
publist_id: '5876'
quality_controlled: '1'
scopus_import: 1
status: public
title: Efficiently computing data-independent memory-hard functions
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9815
year: '2016'
...
---
_id: '1366'
abstract:
- lang: eng
text: 'We study the problem of devising provably secure PRNGs with input based on
the sponge paradigm. Such constructions are very appealing, as efficient software/hardware
implementations of SHA-3 can easily be translated into a PRNG in a nearly black-box
way. The only existing sponge-based construction, proposed by Bertoni et al. (CHES
2010), fails to achieve the security notion of robustness recently considered
by Dodis et al. (CCS 2013), for two reasons: (1) The construction is deterministic,
and thus there are high-entropy input distributions on which the construction
fails to extract random bits, and (2) The construction is not forward secure,
and presented solutions aiming at restoring forward security have not been rigorously
analyzed. We propose a seeded variant of Bertoni et al.’s PRNG with input which
we prove secure in the sense of robustness, delivering in particular concrete
security bounds. On the way, we make what we believe to be an important conceptual
contribution, developing a variant of the security framework of Dodis et al. tailored
at the ideal permutation model that captures PRNG security in settings where the
weakly random inputs are provided from a large class of possible adversarial samplers
which are also allowed to query the random permutation. As a further application
of our techniques, we also present an efficient sponge-based key-derivation function
(which can be instantiated from SHA-3 in a black-box fashion), which we also prove
secure when fed with samples from permutation-dependent distributions.'
alternative_title:
- LNCS
author:
- first_name: Peter
full_name: Gazi, Peter
id: 3E0BFE38-F248-11E8-B48F-1D18A9856A87
last_name: Gazi
- first_name: Stefano
full_name: Tessaro, Stefano
last_name: Tessaro
citation:
ama: 'Gazi P, Tessaro S. Provably robust sponge-based PRNGs and KDFs. In: Vol 9665.
Springer; 2016:87-116. doi:10.1007/978-3-662-49890-3_4'
apa: 'Gazi, P., & Tessaro, S. (2016). Provably robust sponge-based PRNGs and
KDFs (Vol. 9665, pp. 87–116). Presented at the EUROCRYPT: Theory and Applications
of Cryptographic Techniques, Vienna, Austria: Springer. https://doi.org/10.1007/978-3-662-49890-3_4'
chicago: Gazi, Peter, and Stefano Tessaro. “Provably Robust Sponge-Based PRNGs and
KDFs,” 9665:87–116. Springer, 2016. https://doi.org/10.1007/978-3-662-49890-3_4.
ieee: 'P. Gazi and S. Tessaro, “Provably robust sponge-based PRNGs and KDFs,” presented
at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Vienna,
Austria, 2016, vol. 9665, pp. 87–116.'
ista: 'Gazi P, Tessaro S. 2016. Provably robust sponge-based PRNGs and KDFs. EUROCRYPT:
Theory and Applications of Cryptographic Techniques, LNCS, vol. 9665, 87–116.'
mla: Gazi, Peter, and Stefano Tessaro. Provably Robust Sponge-Based PRNGs and
KDFs. Vol. 9665, Springer, 2016, pp. 87–116, doi:10.1007/978-3-662-49890-3_4.
short: P. Gazi, S. Tessaro, in:, Springer, 2016, pp. 87–116.
conference:
end_date: 2016-05-12
location: Vienna, Austria
name: 'EUROCRYPT: Theory and Applications of Cryptographic Techniques'
start_date: 2016-05-08
date_created: 2018-12-11T11:51:36Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2021-01-12T06:50:11Z
day: '01'
department:
- _id: KrPi
doi: 10.1007/978-3-662-49890-3_4
ec_funded: 1
intvolume: ' 9665'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2016/169/20160219:201940
month: '05'
oa: 1
oa_version: Preprint
page: 87 - 116
project:
- _id: 258C570E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '259668'
name: Provable Security for Physical Cryptography
publication_status: published
publisher: Springer
publist_id: '5872'
quality_controlled: '1'
scopus_import: 1
status: public
title: Provably robust sponge-based PRNGs and KDFs
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9665
year: '2016'
...
---
_id: '1360'
abstract:
- lang: eng
text: 'We apply the technique of Károly Bezdek and Daniel Bezdek to study billiard
trajectories in convex bodies, when the length is measured with a (possibly asymmetric)
norm. We prove a lower bound for the length of the shortest closed billiard trajectory,
related to the non-symmetric Mahler problem. With this technique we are able to
give short and elementary proofs to some known results. '
acknowledgement: The first and third authors were supported by the Dynasty Foundation.
The first, second and third authors were supported by the Russian Foundation for
Basic Re- search grant 15-31-20403 (mol a ved).
article_processing_charge: No
author:
- first_name: Arseniy
full_name: Akopyan, Arseniy
id: 430D2C90-F248-11E8-B48F-1D18A9856A87
last_name: Akopyan
orcid: 0000-0002-2548-617X
- first_name: Alexey
full_name: Balitskiy, Alexey
last_name: Balitskiy
- first_name: Roman
full_name: Karasev, Roman
last_name: Karasev
- first_name: Anastasia
full_name: Sharipova, Anastasia
last_name: Sharipova
citation:
ama: Akopyan A, Balitskiy A, Karasev R, Sharipova A. Elementary approach to closed
billiard trajectories in asymmetric normed spaces. Proceedings of the American
Mathematical Society. 2016;144(10):4501-4513. doi:10.1090/proc/13062
apa: Akopyan, A., Balitskiy, A., Karasev, R., & Sharipova, A. (2016). Elementary
approach to closed billiard trajectories in asymmetric normed spaces. Proceedings
of the American Mathematical Society. American Mathematical Society. https://doi.org/10.1090/proc/13062
chicago: Akopyan, Arseniy, Alexey Balitskiy, Roman Karasev, and Anastasia Sharipova.
“Elementary Approach to Closed Billiard Trajectories in Asymmetric Normed Spaces.”
Proceedings of the American Mathematical Society. American Mathematical
Society, 2016. https://doi.org/10.1090/proc/13062.
ieee: A. Akopyan, A. Balitskiy, R. Karasev, and A. Sharipova, “Elementary approach
to closed billiard trajectories in asymmetric normed spaces,” Proceedings of
the American Mathematical Society, vol. 144, no. 10. American Mathematical
Society, pp. 4501–4513, 2016.
ista: Akopyan A, Balitskiy A, Karasev R, Sharipova A. 2016. Elementary approach
to closed billiard trajectories in asymmetric normed spaces. Proceedings of the
American Mathematical Society. 144(10), 4501–4513.
mla: Akopyan, Arseniy, et al. “Elementary Approach to Closed Billiard Trajectories
in Asymmetric Normed Spaces.” Proceedings of the American Mathematical Society,
vol. 144, no. 10, American Mathematical Society, 2016, pp. 4501–13, doi:10.1090/proc/13062.
short: A. Akopyan, A. Balitskiy, R. Karasev, A. Sharipova, Proceedings of the American
Mathematical Society 144 (2016) 4501–4513.
date_created: 2018-12-11T11:51:34Z
date_published: 2016-10-01T00:00:00Z
date_updated: 2021-01-12T06:50:09Z
day: '01'
department:
- _id: HeEd
doi: 10.1090/proc/13062
ec_funded: 1
intvolume: ' 144'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1401.0442
month: '10'
oa: 1
oa_version: Preprint
page: 4501 - 4513
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Proceedings of the American Mathematical Society
publication_status: published
publisher: American Mathematical Society
publist_id: '5885'
quality_controlled: '1'
scopus_import: 1
status: public
title: Elementary approach to closed billiard trajectories in asymmetric normed spaces
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 144
year: '2016'
...
---
_id: '1372'
abstract:
- lang: eng
text: Redirection of intercellular auxin fluxes via relocalization of the PIN-FORMED
3 (PIN3) and PIN7 auxin efflux carriers has been suggested to be necessary for
the root gravitropic response. Cytokinins have also been proposed to play a role
in controlling root gravitropism, but conclusive evidence is lacking. We present
a detailed study of the dynamics of root bending early after gravistimulation,
which revealed a delayed gravitropic response in transgenic lines with depleted
endogenous cytokinins (Pro35S:AtCKX) and cytokinin signaling mutants. Pro35S:AtCKX
lines, as well as a cytokinin receptor mutant ahk3, showed aberrations in the
auxin response distribution in columella cells consistent with defects in the
auxin transport machinery. Using in vivo real-time imaging of PIN3-GFP and PIN7-GFP
in AtCKX3 overexpression and ahk3 backgrounds, we observed wild-type-like relocalization
of PIN proteins in the columella early after gravistimulation, with gravity-induced
relocalization of PIN7 faster than that of PIN3. Nonetheless, the cellular distribution
of PIN3 and PIN7 and expression of PIN7 and the auxin influx carrier AUX1 was
affected in AtCKX overexpression lines. Based on the retained cytokinin sensitivity
in pin3 pin4 pin7 mutant, we propose the AUX1-mediated auxin transport rather
than columella-located PIN proteins as a target of endogenous cytokinins in the
control of root gravitropism.
acknowledgement: 'Funded by Ministry of Education, Youth and Sports Czech Republic.
Grant Numbers: CEITEC 2020, LQ1601, LO1204, LH14104 and The European Research Council.
Grant Number: ERC-2011-StG-20101109-PSDP and The Czech Science Foundation. Grant
Numbers: GAP501/11/1150, GA13-40637S, GP14-30004P'
author:
- first_name: Markéta
full_name: Pernisová, Markéta
last_name: Pernisová
- first_name: Tomas
full_name: Prat, Tomas
id: 3DA3BFEE-F248-11E8-B48F-1D18A9856A87
last_name: Prat
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Danka
full_name: Haruštiaková, Danka
last_name: Haruštiaková
- first_name: Martina
full_name: Matonohova, Martina
last_name: Matonohova
- first_name: Lukáš
full_name: Spíchal, Lukáš
last_name: Spíchal
- first_name: Tomasz
full_name: Nodzyński, Tomasz
last_name: Nodzyński
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Jan
full_name: Hejátko, Jan
last_name: Hejátko
citation:
ama: Pernisová M, Prat T, Grones P, et al. Cytokinins influence root gravitropism
via differential regulation of auxin transporter expression and localization in
Arabidopsis. New Phytologist. 2016;212(2):497-509. doi:10.1111/nph.14049
apa: Pernisová, M., Prat, T., Grones, P., Haruštiaková, D., Matonohova, M., Spíchal,
L., … Hejátko, J. (2016). Cytokinins influence root gravitropism via differential
regulation of auxin transporter expression and localization in Arabidopsis. New
Phytologist. Wiley-Blackwell. https://doi.org/10.1111/nph.14049
chicago: Pernisová, Markéta, Tomas Prat, Peter Grones, Danka Haruštiaková, Martina
Matonohova, Lukáš Spíchal, Tomasz Nodzyński, Jiří Friml, and Jan Hejátko. “Cytokinins
Influence Root Gravitropism via Differential Regulation of Auxin Transporter Expression
and Localization in Arabidopsis.” New Phytologist. Wiley-Blackwell, 2016.
https://doi.org/10.1111/nph.14049.
ieee: M. Pernisová et al., “Cytokinins influence root gravitropism via differential
regulation of auxin transporter expression and localization in Arabidopsis,” New
Phytologist, vol. 212, no. 2. Wiley-Blackwell, pp. 497–509, 2016.
ista: Pernisová M, Prat T, Grones P, Haruštiaková D, Matonohova M, Spíchal L, Nodzyński
T, Friml J, Hejátko J. 2016. Cytokinins influence root gravitropism via differential
regulation of auxin transporter expression and localization in Arabidopsis. New
Phytologist. 212(2), 497–509.
mla: Pernisová, Markéta, et al. “Cytokinins Influence Root Gravitropism via Differential
Regulation of Auxin Transporter Expression and Localization in Arabidopsis.” New
Phytologist, vol. 212, no. 2, Wiley-Blackwell, 2016, pp. 497–509, doi:10.1111/nph.14049.
short: M. Pernisová, T. Prat, P. Grones, D. Haruštiaková, M. Matonohova, L. Spíchal,
T. Nodzyński, J. Friml, J. Hejátko, New Phytologist 212 (2016) 497–509.
date_created: 2018-12-11T11:51:38Z
date_published: 2016-10-01T00:00:00Z
date_updated: 2021-01-12T06:50:13Z
day: '01'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1111/nph.14049
file:
- access_level: open_access
checksum: 27fd841ceaf0403559d7048ef51500f9
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:53Z
date_updated: 2020-07-14T12:44:47Z
file_id: '5108'
file_name: IST-2018-1006-v1+1_Pernisova_NewPhytol_2016_peer_review.pdf
file_size: 972763
relation: main_file
file_date_updated: 2020-07-14T12:44:47Z
has_accepted_license: '1'
intvolume: ' 212'
issue: '2'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 497 - 509
publication: New Phytologist
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5839'
pubrep_id: '1006'
quality_controlled: '1'
scopus_import: 1
status: public
title: Cytokinins influence root gravitropism via differential regulation of auxin
transporter expression and localization in Arabidopsis
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 212
year: '2016'
...
---
_id: '1369'
abstract:
- lang: eng
text: 'We introduce a new loss function for the weakly-supervised training of semantic
image segmentation models based on three guiding principles: to seed with weak
localization cues, to expand objects based on the information about which classes
can occur in an image, and to constrain the segmentations to coincide with object
boundaries. We show experimentally that training a deep convolutional neural network
using the proposed loss function leads to substantially better segmentations than
previous state-of-the-art methods on the challenging PASCAL VOC 2012 dataset.
We furthermore give insight into the working mechanism of our method by a detailed
experimental study that illustrates how the segmentation quality is affected by
each term of the proposed loss function as well as their combinations.'
alternative_title:
- LNCS
author:
- first_name: Alexander
full_name: Kolesnikov, Alexander
id: 2D157DB6-F248-11E8-B48F-1D18A9856A87
last_name: Kolesnikov
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Kolesnikov A, Lampert C. Seed, expand and constrain: Three principles for
weakly-supervised image segmentation. In: Vol 9908. Springer; 2016:695-711. doi:10.1007/978-3-319-46493-0_42'
apa: 'Kolesnikov, A., & Lampert, C. (2016). Seed, expand and constrain: Three
principles for weakly-supervised image segmentation (Vol. 9908, pp. 695–711).
Presented at the ECCV: European Conference on Computer Vision, Amsterdam, The
Netherlands: Springer. https://doi.org/10.1007/978-3-319-46493-0_42'
chicago: 'Kolesnikov, Alexander, and Christoph Lampert. “Seed, Expand and Constrain:
Three Principles for Weakly-Supervised Image Segmentation,” 9908:695–711. Springer,
2016. https://doi.org/10.1007/978-3-319-46493-0_42.'
ieee: 'A. Kolesnikov and C. Lampert, “Seed, expand and constrain: Three principles
for weakly-supervised image segmentation,” presented at the ECCV: European Conference
on Computer Vision, Amsterdam, The Netherlands, 2016, vol. 9908, pp. 695–711.'
ista: 'Kolesnikov A, Lampert C. 2016. Seed, expand and constrain: Three principles
for weakly-supervised image segmentation. ECCV: European Conference on Computer
Vision, LNCS, vol. 9908, 695–711.'
mla: 'Kolesnikov, Alexander, and Christoph Lampert. Seed, Expand and Constrain:
Three Principles for Weakly-Supervised Image Segmentation. Vol. 9908, Springer,
2016, pp. 695–711, doi:10.1007/978-3-319-46493-0_42.'
short: A. Kolesnikov, C. Lampert, in:, Springer, 2016, pp. 695–711.
conference:
end_date: 2016-10-14
location: Amsterdam, The Netherlands
name: 'ECCV: European Conference on Computer Vision'
start_date: 2016-10-11
date_created: 2018-12-11T11:51:37Z
date_published: 2016-09-15T00:00:00Z
date_updated: 2021-01-12T06:50:12Z
day: '15'
department:
- _id: ChLa
doi: 10.1007/978-3-319-46493-0_42
ec_funded: 1
intvolume: ' 9908'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1603.06098
month: '09'
oa: 1
oa_version: Preprint
page: 695 - 711
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '308036'
name: Lifelong Learning of Visual Scene Understanding
publication_status: published
publisher: Springer
publist_id: '5842'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Seed, expand and constrain: Three principles for weakly-supervised image segmentation'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9908
year: '2016'
...
---
_id: '1368'
abstract:
- lang: eng
text: Superconductivity in heavy-fermion systems has an unconventional nature and
is considered to originate from the universal features of the electronic structure.
Here, the Anderson lattice model is studied by means of the full variational Gutzwiller
wave function incorporating nonlocal effects of the on-site interaction. We show
that the d-wave superconducting ground state can be driven solely by interelectronic
correlations. The proposed microscopic mechanism leads to a multigap superconductivity
with the dominant contribution due to f electrons and in the dx2−y2-wave channel.
Our results rationalize several important observations for CeCoIn5.
acknowledgement: "The work has been supported by the National Science Center
\ (NCN) under the Grant MAESTRO, No.\r\nDEC-2012/04/A/ST3/00342. "
article_number: '024517'
author:
- first_name: Marcin
full_name: Wysokiński, Marcin
last_name: Wysokiński
- first_name: Jan
full_name: Kaczmarczyk, Jan
id: 46C405DE-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarczyk
orcid: 0000-0002-1629-3675
- first_name: Jozef
full_name: Spałek, Jozef
last_name: Spałek
citation:
ama: 'Wysokiński M, Kaczmarczyk J, Spałek J. Correlation driven d wave superconductivity
in Anderson lattice model: Two gaps. Physical Review B - Condensed Matter and
Materials Physics. 2016;94(2). doi:10.1103/PhysRevB.94.024517'
apa: 'Wysokiński, M., Kaczmarczyk, J., & Spałek, J. (2016). Correlation driven
d wave superconductivity in Anderson lattice model: Two gaps. Physical Review
B - Condensed Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.94.024517'
chicago: 'Wysokiński, Marcin, Jan Kaczmarczyk, and Jozef Spałek. “Correlation Driven
d Wave Superconductivity in Anderson Lattice Model: Two Gaps.” Physical Review
B - Condensed Matter and Materials Physics. American Physical Society, 2016.
https://doi.org/10.1103/PhysRevB.94.024517.'
ieee: 'M. Wysokiński, J. Kaczmarczyk, and J. Spałek, “Correlation driven d wave
superconductivity in Anderson lattice model: Two gaps,” Physical Review B -
Condensed Matter and Materials Physics, vol. 94, no. 2. American Physical
Society, 2016.'
ista: 'Wysokiński M, Kaczmarczyk J, Spałek J. 2016. Correlation driven d wave superconductivity
in Anderson lattice model: Two gaps. Physical Review B - Condensed Matter and
Materials Physics. 94(2), 024517.'
mla: 'Wysokiński, Marcin, et al. “Correlation Driven d Wave Superconductivity in
Anderson Lattice Model: Two Gaps.” Physical Review B - Condensed Matter and
Materials Physics, vol. 94, no. 2, 024517, American Physical Society, 2016,
doi:10.1103/PhysRevB.94.024517.'
short: M. Wysokiński, J. Kaczmarczyk, J. Spałek, Physical Review B - Condensed Matter
and Materials Physics 94 (2016).
date_created: 2018-12-11T11:51:37Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:12Z
day: '01'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.94.024517
ec_funded: 1
intvolume: ' 94'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1510.00224
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '5844'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Correlation driven d wave superconductivity in Anderson lattice model: Two
gaps'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1371'
abstract:
- lang: eng
text: Living cells can maintain their internal states, react to changing environments,
grow, differentiate, divide, etc. All these processes are tightly controlled by
what can be called a regulatory program. The logic of the underlying control can
sometimes be guessed at by examining the network of influences amongst genetic
components. Some associated gene regulatory networks have been studied in prokaryotes
and eukaryotes, unveiling various structural features ranging from broad distributions
of out-degrees to recurrent "motifs", that is small subgraphs having
a specific pattern of interactions. To understand what factors may be driving
such structuring, a number of groups have introduced frameworks to model the dynamics
of gene regulatory networks. In that context, we review here such in silico approaches
and show how selection for phenotypes, i.e., network function, can shape network
structure.
acknowledgement: 'MZ has been supported by Polish National Science Centre Grant No.
DEC-2012/07/N/NZ2/00107 and by Foundation of Polish Science award START. '
author:
- first_name: Olivier
full_name: Martin, Olivier
last_name: Martin
- first_name: André
full_name: Krzywicki, André
last_name: Krzywicki
- first_name: Marcin P
full_name: Zagórski, Marcin P
id: 343DA0DC-F248-11E8-B48F-1D18A9856A87
last_name: Zagórski
orcid: 0000-0001-7896-7762
citation:
ama: 'Martin O, Krzywicki A, Zagórski MP. Drivers of structural features in gene
regulatory networks: From biophysical constraints to biological function. Physics
of Life Reviews. 2016;17:124-158. doi:10.1016/j.plrev.2016.06.002'
apa: 'Martin, O., Krzywicki, A., & Zagórski, M. P. (2016). Drivers of structural
features in gene regulatory networks: From biophysical constraints to biological
function. Physics of Life Reviews. Elsevier. https://doi.org/10.1016/j.plrev.2016.06.002'
chicago: 'Martin, Olivier, André Krzywicki, and Marcin P Zagórski. “Drivers of Structural
Features in Gene Regulatory Networks: From Biophysical Constraints to Biological
Function.” Physics of Life Reviews. Elsevier, 2016. https://doi.org/10.1016/j.plrev.2016.06.002.'
ieee: 'O. Martin, A. Krzywicki, and M. P. Zagórski, “Drivers of structural features
in gene regulatory networks: From biophysical constraints to biological function,”
Physics of Life Reviews, vol. 17. Elsevier, pp. 124–158, 2016.'
ista: 'Martin O, Krzywicki A, Zagórski MP. 2016. Drivers of structural features
in gene regulatory networks: From biophysical constraints to biological function.
Physics of Life Reviews. 17, 124–158.'
mla: 'Martin, Olivier, et al. “Drivers of Structural Features in Gene Regulatory
Networks: From Biophysical Constraints to Biological Function.” Physics of
Life Reviews, vol. 17, Elsevier, 2016, pp. 124–58, doi:10.1016/j.plrev.2016.06.002.'
short: O. Martin, A. Krzywicki, M.P. Zagórski, Physics of Life Reviews 17 (2016)
124–158.
date_created: 2018-12-11T11:51:38Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:13Z
day: '01'
department:
- _id: AnKi
doi: 10.1016/j.plrev.2016.06.002
ec_funded: 1
intvolume: ' 17'
language:
- iso: eng
month: '07'
oa_version: None
page: 124 - 158
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physics of Life Reviews
publication_status: published
publisher: Elsevier
publist_id: '5840'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Drivers of structural features in gene regulatory networks: From biophysical
constraints to biological function'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2016'
...
---
_id: '1370'
abstract:
- lang: eng
text: 'We study coherent phonon oscillations and tunneling between two coupled nonlinear
nanomechanical resonators. We show that the coupling between two nanomechanical
resonators creates an effective phonon Josephson junction, which exhibits two
different dynamical behaviors: Josephson oscillation (phonon-Rabi oscillation)
and macroscopic self-trapping (phonon blockade). Self-trapping originates from
mechanical nonlinearities, meaning that when the nonlinearity exceeds its critical
value, the energy exchange between the two resonators is suppressed, and phonon
Josephson oscillations between them are completely blocked. An effective classical
Hamiltonian for the phonon Josephson junction is derived and its mean-field dynamics
is studied in phase space. Finally, we study the phonon-phonon coherence quantified
by the mean fringe visibility, and show that the interaction between the two resonators
may lead to the loss of coherence in the phononic junction.'
acknowledgement: 'The work of S.B. has been supported by the European Commission (Belgium)
via the SCALEQIT program and by the Alexander von Humboldt Foundation. '
article_number: '033846'
author:
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: David
full_name: Vitali, David
last_name: Vitali
citation:
ama: Barzanjeh S, Vitali D. Phonon Josephson junction with nanomechanical resonators.
Physical Review A - Atomic, Molecular, and Optical Physics. 2016;93(3).
doi:10.1103/PhysRevA.93.033846
apa: Barzanjeh, S., & Vitali, D. (2016). Phonon Josephson junction with nanomechanical
resonators. Physical Review A - Atomic, Molecular, and Optical Physics.
American Physical Society. https://doi.org/10.1103/PhysRevA.93.033846
chicago: Barzanjeh, Shabir, and David Vitali. “Phonon Josephson Junction with Nanomechanical
Resonators.” Physical Review A - Atomic, Molecular, and Optical Physics.
American Physical Society, 2016. https://doi.org/10.1103/PhysRevA.93.033846.
ieee: S. Barzanjeh and D. Vitali, “Phonon Josephson junction with nanomechanical
resonators,” Physical Review A - Atomic, Molecular, and Optical Physics,
vol. 93, no. 3. American Physical Society, 2016.
ista: Barzanjeh S, Vitali D. 2016. Phonon Josephson junction with nanomechanical
resonators. Physical Review A - Atomic, Molecular, and Optical Physics. 93(3),
033846.
mla: Barzanjeh, Shabir, and David Vitali. “Phonon Josephson Junction with Nanomechanical
Resonators.” Physical Review A - Atomic, Molecular, and Optical Physics,
vol. 93, no. 3, 033846, American Physical Society, 2016, doi:10.1103/PhysRevA.93.033846.
short: S. Barzanjeh, D. Vitali, Physical Review A - Atomic, Molecular, and Optical
Physics 93 (2016).
date_created: 2018-12-11T11:51:38Z
date_published: 2016-03-28T00:00:00Z
date_updated: 2023-02-21T10:36:32Z
day: '28'
department:
- _id: JoFi
doi: 10.1103/PhysRevA.93.033846
intvolume: ' 93'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1601.01818
month: '03'
oa: 1
oa_version: Preprint
publication: Physical Review A - Atomic, Molecular, and Optical Physics
publication_status: published
publisher: American Physical Society
publist_id: '5841'
quality_controlled: '1'
scopus_import: 1
status: public
title: Phonon Josephson junction with nanomechanical resonators
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1373'
article_processing_charge: No
author:
- first_name: Olivier
full_name: Martin, Olivier
last_name: Martin
- first_name: Marcin P
full_name: Zagórski, Marcin P
id: 343DA0DC-F248-11E8-B48F-1D18A9856A87
last_name: Zagórski
orcid: 0000-0001-7896-7762
citation:
ama: 'Martin O, Zagórski MP. Network architectures and operating principles. Reply
to comments on "Drivers of structural features in gene regulatory networks:
From biophysical constraints to biological function" Physics of Life
Reviews. 2016;17:168-171. doi:10.1016/j.plrev.2016.06.006'
apa: 'Martin, O., & Zagórski, M. P. (2016). Network architectures and operating
principles. Reply to comments on "Drivers of structural features in gene
regulatory networks: From biophysical constraints to biological function"
Physics of Life Reviews. Elsevier. https://doi.org/10.1016/j.plrev.2016.06.006'
chicago: 'Martin, Olivier, and Marcin P Zagórski. “Network Architectures and Operating
Principles. Reply to Comments on "Drivers of Structural Features in Gene
Regulatory Networks: From Biophysical Constraints to Biological Function"”
Physics of Life Reviews. Elsevier, 2016. https://doi.org/10.1016/j.plrev.2016.06.006.'
ieee: 'O. Martin and M. P. Zagórski, “Network architectures and operating principles.
Reply to comments on "Drivers of structural features in gene regulatory
networks: From biophysical constraints to biological function",” Physics
of Life Reviews, vol. 17. Elsevier, pp. 168–171, 2016.'
ista: 'Martin O, Zagórski MP. 2016. Network architectures and operating principles.
Reply to comments on "Drivers of structural features in gene regulatory
networks: From biophysical constraints to biological function" Physics
of Life Reviews. 17, 168–171.'
mla: 'Martin, Olivier, and Marcin P. Zagórski. “Network Architectures and Operating
Principles. Reply to Comments on "Drivers of Structural Features in Gene
Regulatory Networks: From Biophysical Constraints to Biological Function"”
Physics of Life Reviews, vol. 17, Elsevier, 2016, pp. 168–71, doi:10.1016/j.plrev.2016.06.006.'
short: O. Martin, M.P. Zagórski, Physics of Life Reviews 17 (2016) 168–171.
date_created: 2018-12-11T11:51:39Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2022-08-26T09:39:27Z
day: '01'
department:
- _id: AnKi
doi: 10.1016/j.plrev.2016.06.006
intvolume: ' 17'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://hal.archives-ouvertes.fr/hal-01531698
month: '07'
oa: 1
oa_version: Preprint
page: 168 - 171
publication: Physics of Life Reviews
publication_status: published
publisher: Elsevier
publist_id: '5838'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Network architectures and operating principles. Reply to comments on "Drivers
of structural features in gene regulatory networks: From biophysical constraints
to biological function"'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2016'
...
---
_id: '1377'
abstract:
- lang: eng
text: We consider the problem of minimizing the continuous valued total variation
subject to different unary terms on trees and propose fast direct algorithms based
on dynamic programming to solve these problems. We treat both the convex and the
nonconvex case and derive worst-case complexities that are equal to or better
than existing methods. We show applications to total variation based two dimensional
image processing and computer vision problems based on a Lagrangian decomposition
approach. The resulting algorithms are very effcient, offer a high degree of parallelism,
and come along with memory requirements which are only in the order of the number
of image pixels.
author:
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Thomas
full_name: Pock, Thomas
last_name: Pock
- first_name: Michal
full_name: Rolinek, Michal
id: 3CB3BC06-F248-11E8-B48F-1D18A9856A87
last_name: Rolinek
citation:
ama: Kolmogorov V, Pock T, Rolinek M. Total variation on a tree. SIAM Journal
on Imaging Sciences. 2016;9(2):605-636. doi:10.1137/15M1010257
apa: Kolmogorov, V., Pock, T., & Rolinek, M. (2016). Total variation on a tree.
SIAM Journal on Imaging Sciences. Society for Industrial and Applied Mathematics
. https://doi.org/10.1137/15M1010257
chicago: Kolmogorov, Vladimir, Thomas Pock, and Michal Rolinek. “Total Variation
on a Tree.” SIAM Journal on Imaging Sciences. Society for Industrial and
Applied Mathematics , 2016. https://doi.org/10.1137/15M1010257.
ieee: V. Kolmogorov, T. Pock, and M. Rolinek, “Total variation on a tree,” SIAM
Journal on Imaging Sciences, vol. 9, no. 2. Society for Industrial and Applied
Mathematics , pp. 605–636, 2016.
ista: Kolmogorov V, Pock T, Rolinek M. 2016. Total variation on a tree. SIAM Journal
on Imaging Sciences. 9(2), 605–636.
mla: Kolmogorov, Vladimir, et al. “Total Variation on a Tree.” SIAM Journal on
Imaging Sciences, vol. 9, no. 2, Society for Industrial and Applied Mathematics
, 2016, pp. 605–36, doi:10.1137/15M1010257.
short: V. Kolmogorov, T. Pock, M. Rolinek, SIAM Journal on Imaging Sciences 9 (2016)
605–636.
date_created: 2018-12-11T11:51:40Z
date_published: 2016-05-03T00:00:00Z
date_updated: 2021-01-12T06:50:15Z
day: '03'
department:
- _id: VlKo
doi: 10.1137/15M1010257
ec_funded: 1
intvolume: ' 9'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1502.07770
month: '05'
oa: 1
oa_version: Preprint
page: 605 - 636
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
publication: SIAM Journal on Imaging Sciences
publication_status: published
publisher: 'Society for Industrial and Applied Mathematics '
publist_id: '5834'
quality_controlled: '1'
scopus_import: 1
status: public
title: Total variation on a tree
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2016'
...
---
_id: '1381'
abstract:
- lang: eng
text: 'Motivated by Tverberg-type problems in topological combinatorics and by classical
results about embeddings (maps without double points), we study the question whether
a finite simplicial complex K can be mapped into double-struck Rd without higher-multiplicity
intersections. We focus on conditions for the existence of almost r-embeddings,
i.e., maps f : K → double-struck Rd such that f(σ1) ∩ ⋯ ∩ f(σr) = ∅ whenever σ1,
..., σr are pairwise disjoint simplices of K. Generalizing the classical Haefliger-Weber
embeddability criterion, we show that a well-known necessary deleted product condition
for the existence of almost r-embeddings is sufficient in a suitable r-metastable
range of dimensions: If rd ≥ (r + 1) dim K + 3, then there exists an almost r-embedding
K → double-struck Rd if and only if there exists an equivariant map (K)Δ r → Sr
Sd(r-1)-1, where (K)Δ r is the deleted r-fold product of K, the target Sd(r-1)-1
is the sphere of dimension d(r - 1) - 1, and Sr is the symmetric group. This significantly
extends one of the main results of our previous paper (which treated the special
case where d = rk and dim K = (r - 1)k for some k ≥ 3), and settles an open question
raised there.'
alternative_title:
- LIPIcs
author:
- first_name: Isaac
full_name: Mabillard, Isaac
id: 32BF9DAA-F248-11E8-B48F-1D18A9856A87
last_name: Mabillard
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Mabillard I, Wagner U. Eliminating higher-multiplicity intersections, II.
The deleted product criterion in the r-metastable range. In: Vol 51. Schloss Dagstuhl-
Leibniz-Zentrum fur Informatik GmbH; 2016:51.1-51.12. doi:10.4230/LIPIcs.SoCG.2016.51'
apa: 'Mabillard, I., & Wagner, U. (2016). Eliminating higher-multiplicity intersections,
II. The deleted product criterion in the r-metastable range (Vol. 51, p. 51.1-51.12).
Presented at the SoCG: Symposium on Computational Geometry, Medford, MA, USA:
Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH. https://doi.org/10.4230/LIPIcs.SoCG.2016.51'
chicago: Mabillard, Isaac, and Uli Wagner. “Eliminating Higher-Multiplicity Intersections,
II. The Deleted Product Criterion in the r-Metastable Range,” 51:51.1-51.12. Schloss
Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, 2016. https://doi.org/10.4230/LIPIcs.SoCG.2016.51.
ieee: 'I. Mabillard and U. Wagner, “Eliminating higher-multiplicity intersections,
II. The deleted product criterion in the r-metastable range,” presented at the
SoCG: Symposium on Computational Geometry, Medford, MA, USA, 2016, vol. 51, p.
51.1-51.12.'
ista: 'Mabillard I, Wagner U. 2016. Eliminating higher-multiplicity intersections,
II. The deleted product criterion in the r-metastable range. SoCG: Symposium on
Computational Geometry, LIPIcs, vol. 51, 51.1-51.12.'
mla: Mabillard, Isaac, and Uli Wagner. Eliminating Higher-Multiplicity Intersections,
II. The Deleted Product Criterion in the r-Metastable Range. Vol. 51, Schloss
Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, 2016, p. 51.1-51.12, doi:10.4230/LIPIcs.SoCG.2016.51.
short: I. Mabillard, U. Wagner, in:, Schloss Dagstuhl- Leibniz-Zentrum fur Informatik
GmbH, 2016, p. 51.1-51.12.
conference:
end_date: 2016-06-17
location: Medford, MA, USA
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2016-06-14
date_created: 2018-12-11T11:51:41Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2021-01-12T06:50:17Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2016.51
file:
- access_level: open_access
checksum: 92c0c3735fe908f8ded6e484005cb3b1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:06Z
date_updated: 2020-07-14T12:44:47Z
file_id: '4791'
file_name: IST-2016-621-v1+1_LIPIcs-SoCG-2016-51.pdf
file_size: 622969
relation: main_file
file_date_updated: 2020-07-14T12:44:47Z
has_accepted_license: '1'
intvolume: ' 51'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 51.1 - 51.12
project:
- _id: 25FA3206-B435-11E9-9278-68D0E5697425
grant_number: PP00P2_138948
name: 'Embeddings in Higher Dimensions: Algorithms and Combinatorics'
publication_status: published
publisher: Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH
publist_id: '5830'
pubrep_id: '621'
quality_controlled: '1'
scopus_import: 1
status: public
title: Eliminating higher-multiplicity intersections, II. The deleted product criterion
in the r-metastable 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: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 51
year: '2016'
...
---
_id: '1380'
abstract:
- lang: eng
text: We consider higher-dimensional versions of Kannan and Lipton's Orbit Problem
- determining whether a target vector space V may be reached from a starting point
x under repeated applications of a linear transformation A. Answering two questions
posed by Kannan and Lipton in the 1980s, we show that when V has dimension one,
this problem is solvable in polynomial time, and when V has dimension two or three,
the problem is in NPRP.
article_number: '23'
author:
- first_name: Ventsislav K
full_name: Chonev, Ventsislav K
id: 36CBE2E6-F248-11E8-B48F-1D18A9856A87
last_name: Chonev
- first_name: Joël
full_name: Ouaknine, Joël
last_name: Ouaknine
- first_name: James
full_name: Worrell, James
last_name: Worrell
citation:
ama: Chonev VK, Ouaknine J, Worrell J. On the complexity of the orbit problem. Journal
of the ACM. 2016;63(3). doi:10.1145/2857050
apa: Chonev, V. K., Ouaknine, J., & Worrell, J. (2016). On the complexity of
the orbit problem. Journal of the ACM. ACM. https://doi.org/10.1145/2857050
chicago: Chonev, Ventsislav K, Joël Ouaknine, and James Worrell. “On the Complexity
of the Orbit Problem.” Journal of the ACM. ACM, 2016. https://doi.org/10.1145/2857050.
ieee: V. K. Chonev, J. Ouaknine, and J. Worrell, “On the complexity of the orbit
problem,” Journal of the ACM, vol. 63, no. 3. ACM, 2016.
ista: Chonev VK, Ouaknine J, Worrell J. 2016. On the complexity of the orbit problem.
Journal of the ACM. 63(3), 23.
mla: Chonev, Ventsislav K., et al. “On the Complexity of the Orbit Problem.” Journal
of the ACM, vol. 63, no. 3, 23, ACM, 2016, doi:10.1145/2857050.
short: V.K. Chonev, J. Ouaknine, J. Worrell, Journal of the ACM 63 (2016).
date_created: 2018-12-11T11:51:41Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2021-01-12T06:50:17Z
day: '01'
department:
- _id: KrCh
doi: 10.1145/2857050
intvolume: ' 63'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1303.2981
month: '06'
oa: 1
oa_version: Preprint
publication: Journal of the ACM
publication_status: published
publisher: ACM
publist_id: '5831'
quality_controlled: '1'
scopus_import: 1
status: public
title: On the complexity of the orbit problem
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 63
year: '2016'
...
---
_id: '1389'
abstract:
- lang: eng
text: "The continuous evolution of a wide variety of systems, including continous-time
Markov chains and linear hybrid automata, can be\r\ndescribed in terms of linear
differential equations. In this paper we study the decision problem of whether
the solution x(t) of a system of linear differential equations dx/dt = Ax reaches
a target halfspace infinitely often. This recurrent reachability problem can\r\nequivalently
be formulated as the following Infinite Zeros Problem: does a real-valued function
f:R≥0 --> R satisfying a given linear\r\ndifferential equation have infinitely
many zeros? Our main decidability result is that if the differential equation
has order at most 7, then the Infinite Zeros Problem is decidable. On the other
hand, we show that a decision procedure for the Infinite Zeros Problem at order
9 (and above) would entail a major breakthrough in Diophantine Approximation,
specifically an algorithm for computing the Lagrange constants of arbitrary real
algebraic numbers to arbitrary precision."
author:
- first_name: Ventsislav K
full_name: Chonev, Ventsislav K
id: 36CBE2E6-F248-11E8-B48F-1D18A9856A87
last_name: Chonev
- first_name: Joël
full_name: Ouaknine, Joël
last_name: Ouaknine
- first_name: James
full_name: Worrell, James
last_name: Worrell
citation:
ama: 'Chonev VK, Ouaknine J, Worrell J. On recurrent reachability for continuous
linear dynamical systems. In: LICS ’16. IEEE; 2016:515-524. doi:10.1145/2933575.2934548'
apa: 'Chonev, V. K., Ouaknine, J., & Worrell, J. (2016). On recurrent reachability
for continuous linear dynamical systems. In LICS ’16 (pp. 515–524). New
York, NY, USA: IEEE. https://doi.org/10.1145/2933575.2934548'
chicago: Chonev, Ventsislav K, Joël Ouaknine, and James Worrell. “On Recurrent Reachability
for Continuous Linear Dynamical Systems.” In LICS ’16, 515–24. IEEE, 2016.
https://doi.org/10.1145/2933575.2934548.
ieee: V. K. Chonev, J. Ouaknine, and J. Worrell, “On recurrent reachability for
continuous linear dynamical systems,” in LICS ’16, New York, NY, USA, 2016,
pp. 515–524.
ista: 'Chonev VK, Ouaknine J, Worrell J. 2016. On recurrent reachability for continuous
linear dynamical systems. LICS ’16. LICS: Logic in Computer Science, 515–524.'
mla: Chonev, Ventsislav K., et al. “On Recurrent Reachability for Continuous Linear
Dynamical Systems.” LICS ’16, IEEE, 2016, pp. 515–24, doi:10.1145/2933575.2934548.
short: V.K. Chonev, J. Ouaknine, J. Worrell, in:, LICS ’16, IEEE, 2016, pp. 515–524.
conference:
end_date: 2018-07-08
location: New York, NY, USA
name: 'LICS: Logic in Computer Science'
start_date: 2018-07-05
date_created: 2018-12-11T11:51:44Z
date_published: 2016-07-05T00:00:00Z
date_updated: 2021-01-12T06:50:20Z
day: '05'
department:
- _id: KrCh
doi: 10.1145/2933575.2934548
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1507.03632
month: '07'
oa: 1
oa_version: Preprint
page: 515 - 524
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
publication: LICS '16
publication_status: published
publisher: IEEE
publist_id: '5820'
quality_controlled: '1'
scopus_import: 1
status: public
title: On recurrent reachability for continuous linear dynamical systems
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1390'
abstract:
- lang: eng
text: "The goal of automatic program repair is to identify a set of syntactic changes
that can turn a program that is incorrect with respect\r\nto a given specification
into a correct one. Existing program repair techniques typically aim to find any
program that meets the given specification. Such “best-effort” strategies can
end up generating a program that is quite different from the original one. Novel
techniques have been proposed to compute syntactically minimal program fixes,
but the smallest syntactic fix to a program can still significantly alter the
original program’s behaviour. We propose a new approach to program repair based
on program distances, which can quantify changes not only to the program syntax
but also to the program semantics. We call this the quantitative program repair
problem where the “optimal” repair is derived using multiple distances. We implement
a solution to the quantitative repair\r\nproblem in a prototype tool called Qlose\r\n(Quantitatively
close), using the program synthesizer Sketch. We evaluate the effectiveness of
different distances in obtaining desirable repairs by evaluating\r\nQlose on programs
taken from educational tools such as CodeHunt and edX."
alternative_title:
- LNCS
author:
- first_name: Loris
full_name: D'Antoni, Loris
last_name: D'Antoni
- first_name: Roopsha
full_name: Samanta, Roopsha
id: 3D2AAC08-F248-11E8-B48F-1D18A9856A87
last_name: Samanta
- first_name: Rishabh
full_name: Singh, Rishabh
last_name: Singh
citation:
ama: 'D’Antoni L, Samanta R, Singh R. QLOSE: Program repair with quantitative objectives.
In: Vol 9780. Springer; 2016:383-401. doi:10.1007/978-3-319-41540-6_21'
apa: 'D’Antoni, L., Samanta, R., & Singh, R. (2016). QLOSE: Program repair with
quantitative objectives (Vol. 9780, pp. 383–401). Presented at the CAV: Computer
Aided Verification, Toronto, Canada: Springer. https://doi.org/10.1007/978-3-319-41540-6_21'
chicago: 'D’Antoni, Loris, Roopsha Samanta, and Rishabh Singh. “QLOSE: Program Repair
with Quantitative Objectives,” 9780:383–401. Springer, 2016. https://doi.org/10.1007/978-3-319-41540-6_21.'
ieee: 'L. D’Antoni, R. Samanta, and R. Singh, “QLOSE: Program repair with quantitative
objectives,” presented at the CAV: Computer Aided Verification, Toronto, Canada,
2016, vol. 9780, pp. 383–401.'
ista: 'D’Antoni L, Samanta R, Singh R. 2016. QLOSE: Program repair with quantitative
objectives. CAV: Computer Aided Verification, LNCS, vol. 9780, 383–401.'
mla: 'D’Antoni, Loris, et al. QLOSE: Program Repair with Quantitative Objectives.
Vol. 9780, Springer, 2016, pp. 383–401, doi:10.1007/978-3-319-41540-6_21.'
short: L. D’Antoni, R. Samanta, R. Singh, in:, Springer, 2016, pp. 383–401.
conference:
end_date: 2016-07-23
location: Toronto, Canada
name: 'CAV: Computer Aided Verification'
start_date: 2016-07-17
date_created: 2018-12-11T11:51:45Z
date_published: 2016-07-13T00:00:00Z
date_updated: 2021-01-12T06:50:21Z
day: '13'
department:
- _id: ToHe
doi: 10.1007/978-3-319-41540-6_21
ec_funded: 1
intvolume: ' 9780'
language:
- iso: eng
month: '07'
oa_version: None
page: 383 - 401
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _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
publication_status: published
publisher: Springer
publist_id: '5819'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'QLOSE: Program repair with quantitative objectives'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9780
year: '2016'
...
---
_id: '1394'
abstract:
- lang: eng
text: "The solution space of genome-scale models of cellular metabolism provides
a map between physically\r\nviable flux configurations and cellular metabolic
phenotypes described, at the most basic level, by the\r\ncorresponding growth
rates. By sampling the solution space of E. coliʼs metabolic network, we show\r\nthat
empirical growth rate distributions recently obtained in experiments at single-cell
resolution can\r\nbe explained in terms of a trade-off between the higher fitness
of fast-growing phenotypes and the\r\nhigher entropy of slow-growing ones. Based
on this, we propose a minimal model for the evolution of\r\na large bacterial
population that captures this trade-off. The scaling relationships observed in\r\nexperiments
encode, in such frameworks, for the same distance from the maximum achievable
growth\r\nrate, the same degree of growth rate maximization, and/or the same rate
of phenotypic change. Being\r\ngrounded on genome-scale metabolic network reconstructions,
these results allow for multiple\r\nimplications and extensions in spite of the
underlying conceptual simplicity."
acknowledgement: "The research leading to these results has received funding from
the from the Marie\r\nCurie Action ITN NETADIS, grant agreement no. 290038."
article_number: '036005'
author:
- first_name: Daniele
full_name: De Martino, Daniele
id: 3FF5848A-F248-11E8-B48F-1D18A9856A87
last_name: De Martino
orcid: 0000-0002-5214-4706
- first_name: Fabrizio
full_name: Capuani, Fabrizio
last_name: Capuani
- first_name: Andrea
full_name: De Martino, Andrea
last_name: De Martino
citation:
ama: 'De Martino D, Capuani F, De Martino A. Growth against entropy in bacterial
metabolism: the phenotypic trade-off behind empirical growth rate distributions
in E. coli. Physical Biology. 2016;13(3). doi:10.1088/1478-3975/13/3/036005'
apa: 'De Martino, D., Capuani, F., & De Martino, A. (2016). Growth against entropy
in bacterial metabolism: the phenotypic trade-off behind empirical growth rate
distributions in E. coli. Physical Biology. IOP Publishing Ltd. https://doi.org/10.1088/1478-3975/13/3/036005'
chicago: 'De Martino, Daniele, Fabrizio Capuani, and Andrea De Martino. “Growth
against Entropy in Bacterial Metabolism: The Phenotypic Trade-off behind Empirical
Growth Rate Distributions in E. Coli.” Physical Biology. IOP Publishing
Ltd., 2016. https://doi.org/10.1088/1478-3975/13/3/036005.'
ieee: 'D. De Martino, F. Capuani, and A. De Martino, “Growth against entropy in
bacterial metabolism: the phenotypic trade-off behind empirical growth rate distributions
in E. coli,” Physical Biology, vol. 13, no. 3. IOP Publishing Ltd., 2016.'
ista: 'De Martino D, Capuani F, De Martino A. 2016. Growth against entropy in bacterial
metabolism: the phenotypic trade-off behind empirical growth rate distributions
in E. coli. Physical Biology. 13(3), 036005.'
mla: 'De Martino, Daniele, et al. “Growth against Entropy in Bacterial Metabolism:
The Phenotypic Trade-off behind Empirical Growth Rate Distributions in E. Coli.”
Physical Biology, vol. 13, no. 3, 036005, IOP Publishing Ltd., 2016, doi:10.1088/1478-3975/13/3/036005.'
short: D. De Martino, F. Capuani, A. De Martino, Physical Biology 13 (2016).
date_created: 2018-12-11T11:51:46Z
date_published: 2016-05-27T00:00:00Z
date_updated: 2021-01-12T06:50:23Z
day: '27'
department:
- _id: GaTk
doi: 10.1088/1478-3975/13/3/036005
ec_funded: 1
intvolume: ' 13'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1601.03243
month: '05'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Biology
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5815'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Growth against entropy in bacterial metabolism: the phenotypic trade-off behind
empirical growth rate distributions in E. coli'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2016'
...
---
_id: '1412'
abstract:
- lang: eng
text: Combining high-resolution level set surface tracking with lower resolution
physics is an inexpensive method for achieving highly detailed liquid animations.
Unfortunately, the inherent resolution mismatch introduces several types of disturbing
visual artifacts. We identify the primary sources of these artifacts and present
simple, efficient, and practical solutions to address them. First, we propose
an unconditionally stable filtering method that selectively removes sub-grid surface
artifacts not seen by the fluid physics, while preserving fine detail in dynamic
splashing regions. It provides comparable results to recent error-correction techniques
at lower cost, without substepping, and with better scaling behavior. Second,
we show how a modified narrow-band scheme can ensure accurate free surface boundary
conditions in the presence of large resolution mismatches. Our scheme preserves
the efficiency of the narrow-band methodology, while eliminating objectionable
stairstep artifacts observed in prior work. Third, we demonstrate that the use
of linear interpolation of velocity during advection of the high-resolution level
set surface is responsible for visible grid-aligned kinks; we therefore advocate
higher-order velocity interpolation, and show that it dramatically reduces this
artifact. While these three contributions are orthogonal, our results demonstrate
that taken together they efficiently address the dominant sources of visual artifacts
arising with high-resolution embedded liquid surfaces; the proposed approach offers
improved visual quality, a straightforward implementation, and substantially greater
scalability than competing methods.
acknowledgement: 'This research was supported by NSERC (RGPIN-04360-2014) and IST
Austria. '
author:
- first_name: Ryan
full_name: Goldade, Ryan
last_name: Goldade
- first_name: Christopher
full_name: Batty, Christopher
last_name: Batty
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
citation:
ama: Goldade R, Batty C, Wojtan C. A practical method for high-resolution embedded
liquid surfaces. Computer Graphics Forum. 2016;35(2):233-242. doi:10.1111/cgf.12826
apa: Goldade, R., Batty, C., & Wojtan, C. (2016). A practical method for high-resolution
embedded liquid surfaces. Computer Graphics Forum. Wiley-Blackwell. https://doi.org/10.1111/cgf.12826
chicago: Goldade, Ryan, Christopher Batty, and Chris Wojtan. “A Practical Method
for High-Resolution Embedded Liquid Surfaces.” Computer Graphics Forum.
Wiley-Blackwell, 2016. https://doi.org/10.1111/cgf.12826.
ieee: R. Goldade, C. Batty, and C. Wojtan, “A practical method for high-resolution
embedded liquid surfaces,” Computer Graphics Forum, vol. 35, no. 2. Wiley-Blackwell,
pp. 233–242, 2016.
ista: Goldade R, Batty C, Wojtan C. 2016. A practical method for high-resolution
embedded liquid surfaces. Computer Graphics Forum. 35(2), 233–242.
mla: Goldade, Ryan, et al. “A Practical Method for High-Resolution Embedded Liquid
Surfaces.” Computer Graphics Forum, vol. 35, no. 2, Wiley-Blackwell, 2016,
pp. 233–42, doi:10.1111/cgf.12826.
short: R. Goldade, C. Batty, C. Wojtan, Computer Graphics Forum 35 (2016) 233–242.
date_created: 2018-12-11T11:51:52Z
date_published: 2016-05-27T00:00:00Z
date_updated: 2023-02-21T10:38:30Z
day: '27'
ddc:
- '000'
department:
- _id: ChWo
doi: 10.1111/cgf.12826
ec_funded: 1
file:
- access_level: open_access
checksum: 8e61387ee2e3bd0e776fbe301629bfd9
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:18Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5000'
file_name: IST-2016-612-v1+2_Wojtan_APracticalMethod_PostPrint_2016.pdf
file_size: 15873858
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 35'
issue: '2'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
page: 233 - 242
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publication: Computer Graphics Forum
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5795'
pubrep_id: '612'
quality_controlled: '1'
scopus_import: 1
status: public
title: A practical method for high-resolution embedded liquid surfaces
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1410'
abstract:
- lang: eng
text: The pollen grains arise after meiosis of pollen mother cells within the anthers.
A series of complex structural changes follows, generating mature pollen grains
capable of performing the double fertilization of the female megasporophyte. Several
signaling molecules, including hormones and lipids, have been involved in the
regulation and appropriate control of pollen development. Phosphatidylinositol
4-phophate 5-kinases (PIP5K), which catalyze the biosynthesis of the phosphoinositide
PtdIns(4,5)P2, are important for tip polar growth of root hairs and pollen tubes,
embryo development, vegetative plant growth, and responses to the environment.
Here, we report a role of PIP5Ks during microgametogenesis. PIP5K1 and PIP5K2
are expressed during early stages of pollen development and their transcriptional
activity respond to auxin in pollen grains. Early male gametophytic lethality
to certain grade was observed in both pip5k1-/- and pip5k2-/- single mutants.
The number of pip5k mutant alleles is directly related to the frequency of aborted
pollen grains suggesting the two genes are involved in the same function. Indeed
PIP5K1 and PIP5K2 are functionally redundant since homozygous double mutants did
not render viable pollen grains. The loss of function of PIP5K1 and PIP5K2results
in defects in vacuole morphology in pollen at the later stages and epidermal root
cells. Our results show that PIP5K1, PIP5K2 and phosphoinositide signaling are
important cues for early developmental stages and vacuole formation during microgametogenesis.
acknowledgement: the Odysseus Program of the Research Foundation-Flanders [G091608]
to JF.
author:
- first_name: José
full_name: Ugalde, José
last_name: Ugalde
- first_name: Cecilia
full_name: Rodríguez Furlán, Cecilia
last_name: Rodríguez Furlán
- first_name: Riet
full_name: De Rycke, Riet
last_name: De Rycke
- first_name: Lorena
full_name: Norambuena, Lorena
last_name: Norambuena
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Gabriel
full_name: León, Gabriel
last_name: León
- first_name: Ricardo
full_name: Tejos, Ricardo
last_name: Tejos
citation:
ama: Ugalde J, Rodríguez Furlán C, De Rycke R, et al. Phosphatidylinositol 4-phosphate
5-kinases 1 and 2 are involved in the regulation of vacuole morphology during
Arabidopsis thaliana pollen development. Plant Science. 2016;250:10-19.
doi:10.1016/j.plantsci.2016.05.014
apa: Ugalde, J., Rodríguez Furlán, C., De Rycke, R., Norambuena, L., Friml, J.,
León, G., & Tejos, R. (2016). Phosphatidylinositol 4-phosphate 5-kinases 1
and 2 are involved in the regulation of vacuole morphology during Arabidopsis
thaliana pollen development. Plant Science. Elsevier. https://doi.org/10.1016/j.plantsci.2016.05.014
chicago: Ugalde, José, Cecilia Rodríguez Furlán, Riet De Rycke, Lorena Norambuena,
Jiří Friml, Gabriel León, and Ricardo Tejos. “Phosphatidylinositol 4-Phosphate
5-Kinases 1 and 2 Are Involved in the Regulation of Vacuole Morphology during
Arabidopsis Thaliana Pollen Development.” Plant Science. Elsevier, 2016.
https://doi.org/10.1016/j.plantsci.2016.05.014.
ieee: J. Ugalde et al., “Phosphatidylinositol 4-phosphate 5-kinases 1 and
2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana
pollen development,” Plant Science, vol. 250. Elsevier, pp. 10–19, 2016.
ista: Ugalde J, Rodríguez Furlán C, De Rycke R, Norambuena L, Friml J, León G, Tejos
R. 2016. Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the
regulation of vacuole morphology during Arabidopsis thaliana pollen development.
Plant Science. 250, 10–19.
mla: Ugalde, José, et al. “Phosphatidylinositol 4-Phosphate 5-Kinases 1 and 2 Are
Involved in the Regulation of Vacuole Morphology during Arabidopsis Thaliana Pollen
Development.” Plant Science, vol. 250, Elsevier, 2016, pp. 10–19, doi:10.1016/j.plantsci.2016.05.014.
short: J. Ugalde, C. Rodríguez Furlán, R. De Rycke, L. Norambuena, J. Friml, G.
León, R. Tejos, Plant Science 250 (2016) 10–19.
date_created: 2018-12-11T11:51:51Z
date_published: 2016-09-01T00:00:00Z
date_updated: 2021-01-12T06:50:33Z
day: '01'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1016/j.plantsci.2016.05.014
external_id:
pmid:
- '27457979'
file:
- access_level: open_access
checksum: ca08de036e6ddc81e6f760e0ccdebd3f
content_type: application/pdf
creator: dernst
date_created: 2019-04-17T07:41:57Z
date_updated: 2020-07-14T12:44:53Z
file_id: '6331'
file_name: 2016_PlantScience_Ugalde.pdf
file_size: 4338545
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 250'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 10 - 19
pmid: 1
publication: Plant Science
publication_status: published
publisher: Elsevier
publist_id: '5797'
pubrep_id: '1005'
quality_controlled: '1'
scopus_import: 1
status: public
title: Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation
of vacuole morphology during Arabidopsis thaliana pollen development
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 250
year: '2016'
...
---
_id: '1409'
author:
- first_name: Richard
full_name: Abbott, Richard
last_name: Abbott
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Jeffrey
full_name: Good, Jeffrey
last_name: Good
citation:
ama: Abbott R, Barton NH, Good J. Genomics of hybridization and its evolutionary
consequences. Molecular Ecology. 2016;25(11):2325-2332. doi:10.1111/mec.13685
apa: Abbott, R., Barton, N. H., & Good, J. (2016). Genomics of hybridization
and its evolutionary consequences. Molecular Ecology. Wiley-Blackwell.
https://doi.org/10.1111/mec.13685
chicago: Abbott, Richard, Nicholas H Barton, and Jeffrey Good. “Genomics of Hybridization
and Its Evolutionary Consequences.” Molecular Ecology. Wiley-Blackwell,
2016. https://doi.org/10.1111/mec.13685.
ieee: R. Abbott, N. H. Barton, and J. Good, “Genomics of hybridization and its evolutionary
consequences,” Molecular Ecology, vol. 25, no. 11. Wiley-Blackwell, pp.
2325–2332, 2016.
ista: Abbott R, Barton NH, Good J. 2016. Genomics of hybridization and its evolutionary
consequences. Molecular Ecology. 25(11), 2325–2332.
mla: Abbott, Richard, et al. “Genomics of Hybridization and Its Evolutionary Consequences.”
Molecular Ecology, vol. 25, no. 11, Wiley-Blackwell, 2016, pp. 2325–32,
doi:10.1111/mec.13685.
short: R. Abbott, N.H. Barton, J. Good, Molecular Ecology 25 (2016) 2325–2332.
date_created: 2018-12-11T11:51:51Z
date_published: 2016-06-08T00:00:00Z
date_updated: 2021-01-12T06:50:33Z
day: '08'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1111/mec.13685
file:
- access_level: open_access
checksum: ede7d0b8a471754f71f17e2b20f3135b
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:12Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4797'
file_name: IST-2017-772-v1+1_AbbotEtAl2016-3.pdf
file_size: 226137
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 25'
issue: '11'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 2325 - 2332
publication: Molecular Ecology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5798'
pubrep_id: '772'
quality_controlled: '1'
scopus_import: 1
status: public
title: Genomics of hybridization and its evolutionary consequences
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2016'
...
---
_id: '1413'
abstract:
- lang: eng
text: This paper generalizes the well-known Diffusion Curves Images (DCI), which
are composed of a set of Bezier curves with colors specified on either side. These
colors are diffused as Laplace functions over the image domain, which results
in smooth color gradients interrupted by the Bezier curves. Our new formulation
allows for more color control away from the boundary, providing a similar expressive
power as recent Bilaplace image models without introducing associated issues and
computational costs. The new model is based on a special Laplace function blending
and a new edge blur formulation. We demonstrate that given some user-defined boundary
curves over an input raster image, fitting colors and edge blur from the image
to the new model and subsequent editing and animation is equally convenient as
with DCIs. Numerous examples and comparisons to DCIs are presented.
author:
- first_name: Stefan
full_name: Jeschke, Stefan
id: 44D6411A-F248-11E8-B48F-1D18A9856A87
last_name: Jeschke
citation:
ama: 'Jeschke S. Generalized diffusion curves: An improved vector representation
for smooth-shaded images. Computer Graphics Forum. 2016;35(2):71-79. doi:10.1111/cgf.12812'
apa: 'Jeschke, S. (2016). Generalized diffusion curves: An improved vector representation
for smooth-shaded images. Computer Graphics Forum. Wiley-Blackwell. https://doi.org/10.1111/cgf.12812'
chicago: 'Jeschke, Stefan. “Generalized Diffusion Curves: An Improved Vector Representation
for Smooth-Shaded Images.” Computer Graphics Forum. Wiley-Blackwell, 2016.
https://doi.org/10.1111/cgf.12812.'
ieee: 'S. Jeschke, “Generalized diffusion curves: An improved vector representation
for smooth-shaded images,” Computer Graphics Forum, vol. 35, no. 2. Wiley-Blackwell,
pp. 71–79, 2016.'
ista: 'Jeschke S. 2016. Generalized diffusion curves: An improved vector representation
for smooth-shaded images. Computer Graphics Forum. 35(2), 71–79.'
mla: 'Jeschke, Stefan. “Generalized Diffusion Curves: An Improved Vector Representation
for Smooth-Shaded Images.” Computer Graphics Forum, vol. 35, no. 2, Wiley-Blackwell,
2016, pp. 71–79, doi:10.1111/cgf.12812.'
short: S. Jeschke, Computer Graphics Forum 35 (2016) 71–79.
date_created: 2018-12-11T11:51:53Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2021-01-12T06:50:34Z
day: '01'
department:
- _id: ChWo
doi: 10.1111/cgf.12812
intvolume: ' 35'
issue: '2'
language:
- iso: eng
month: '05'
oa_version: None
page: 71 - 79
project:
- _id: 25357BD2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 24352-N23
name: 'Deep Pictures: Creating Visual and Haptic Vector Images'
publication: Computer Graphics Forum
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5794'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Generalized diffusion curves: An improved vector representation for smooth-shaded
images'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1414'
abstract:
- lang: eng
text: In this paper, we present a method to model hyperelasticity that is well suited
for representing the nonlinearity of real-world objects, as well as for estimating
it from deformation examples. Previous approaches suffer several limitations,
such as lack of integrability of elastic forces, failure to enforce energy convexity,
lack of robustness of parameter estimation, or difficulty to model cross-modal
effects. Our method avoids these problems by relying on a general energy-based
definition of elastic properties. The accuracy of the resulting elastic model
is maximized by defining an additive model of separable energy terms, which allow
progressive parameter estimation. In addition, our method supports efficient modeling
of extreme nonlinearities thanks to energy-limiting constraints. We combine our
energy-based model with an optimization method to estimate model parameters from
force-deformation examples, and we show successful modeling of diverse deformable
objects, including cloth, human finger skin, and internal human anatomy in a medical
imaging application.
acknowledgement: This work was funded in part by grants from the Spanish Ministry
of Economy (TIN2012-35840), the European Research Council (ERC Starting Grant no.
280135 Animetrics), and the EU FP7 (project no. 601165 WEARHAP).
author:
- first_name: Eder
full_name: Miguel Villalba, Eder
id: 3FB91342-F248-11E8-B48F-1D18A9856A87
last_name: Miguel Villalba
- first_name: David
full_name: Miraut, David
last_name: Miraut
- first_name: Miguel
full_name: Otaduy, Miguel
last_name: Otaduy
citation:
ama: Miguel Villalba E, Miraut D, Otaduy M. Modeling and estimation of energy-based
hyperelastic objects. Computer Graphics Forum. 2016;35(2):385-396. doi:10.1111/cgf.12840
apa: Miguel Villalba, E., Miraut, D., & Otaduy, M. (2016). Modeling and estimation
of energy-based hyperelastic objects. Computer Graphics Forum. Wiley-Blackwell.
https://doi.org/10.1111/cgf.12840
chicago: Miguel Villalba, Eder, David Miraut, and Miguel Otaduy. “Modeling and Estimation
of Energy-Based Hyperelastic Objects.” Computer Graphics Forum. Wiley-Blackwell,
2016. https://doi.org/10.1111/cgf.12840.
ieee: E. Miguel Villalba, D. Miraut, and M. Otaduy, “Modeling and estimation of
energy-based hyperelastic objects,” Computer Graphics Forum, vol. 35, no.
2. Wiley-Blackwell, pp. 385–396, 2016.
ista: Miguel Villalba E, Miraut D, Otaduy M. 2016. Modeling and estimation of energy-based
hyperelastic objects. Computer Graphics Forum. 35(2), 385–396.
mla: Miguel Villalba, Eder, et al. “Modeling and Estimation of Energy-Based Hyperelastic
Objects.” Computer Graphics Forum, vol. 35, no. 2, Wiley-Blackwell, 2016,
pp. 385–96, doi:10.1111/cgf.12840.
short: E. Miguel Villalba, D. Miraut, M. Otaduy, Computer Graphics Forum 35 (2016)
385–396.
date_created: 2018-12-11T11:51:53Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2021-01-12T06:50:35Z
day: '01'
department:
- _id: BeBi
doi: 10.1111/cgf.12840
intvolume: ' 35'
issue: '2'
language:
- iso: eng
month: '05'
oa_version: None
page: 385 - 396
publication: Computer Graphics Forum
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5792'
quality_controlled: '1'
scopus_import: 1
status: public
title: Modeling and estimation of energy-based hyperelastic objects
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1417'
abstract:
- lang: eng
text: Plant development mediated by the phytohormone auxin depends on tightly controlled
cellular auxin levels at its target tissue that are largely established by intercellular
and intracellular auxin transport mediated by PIN auxin transporters. Among the
eight members of the Arabidopsis PIN family, PIN6 is the least characterized candidate.
In this study we generated functional, fluorescent protein-tagged PIN6 proteins
and performed comprehensive analysis of their subcellular localization and also
performed a detailed functional characterization of PIN6 and its developmental
roles. The localization study of PIN6 revealed a dual localization at the plasma
membrane (PM) and endoplasmic reticulum (ER). Transport and metabolic profiling
assays in cultured cells and Arabidopsis strongly suggest that PIN6 mediates both
auxin transport across the PM and intracellular auxin homeostasis, including the
regulation of free auxin and auxin conjugates levels. As evidenced by the loss-
and gain-of-function analysis, the complex function of PIN6 in auxin transport
and homeostasis is required for auxin distribution during lateral and adventitious
root organogenesis and for progression of these developmental processes. These
results illustrate a unique position of PIN6 within the family of PIN auxin transporters
and further add complexity to the developmentally crucial process of auxin transport.
acknowledgement: This work was supported by the European Research Council (project
ERC-2011-StG-20101109-PSDP, project CEITEC (CZ.1.05/1.1.00/02.0068) and the Czech
Science Foundation GACR (project no. 13-4063 7S to J.F.)
author:
- first_name: Sibu
full_name: Simon, Sibu
id: 4542EF9A-F248-11E8-B48F-1D18A9856A87
last_name: Simon
orcid: 0000-0002-1998-6741
- first_name: Petr
full_name: Skůpa, Petr
last_name: Skůpa
- first_name: Tom
full_name: Viaene, Tom
last_name: Viaene
- first_name: Marta
full_name: Zwiewka, Marta
last_name: Zwiewka
- first_name: Ricardo
full_name: Tejos, Ricardo
last_name: Tejos
- first_name: Petr
full_name: Klíma, Petr
last_name: Klíma
- first_name: Mária
full_name: Čarná, Mária
last_name: Čarná
- first_name: Jakub
full_name: Rolčík, Jakub
last_name: Rolčík
- first_name: Riet
full_name: De Rycke, Riet
last_name: De Rycke
- first_name: Ignacio
full_name: Moreno, Ignacio
last_name: Moreno
- first_name: Petre
full_name: Dobrev, Petre
last_name: Dobrev
- first_name: Ariel
full_name: Orellana, Ariel
last_name: Orellana
- first_name: Eva
full_name: Zažímalová, Eva
last_name: Zažímalová
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Simon S, Skůpa P, Viaene T, et al. PIN6 auxin transporter at endoplasmic reticulum
and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis.
New Phytologist. 2016;211(1):65-74. doi:10.1111/nph.14019
apa: Simon, S., Skůpa, P., Viaene, T., Zwiewka, M., Tejos, R., Klíma, P., … Friml,
J. (2016). PIN6 auxin transporter at endoplasmic reticulum and plasma membrane
mediates auxin homeostasis and organogenesis in Arabidopsis. New Phytologist.
Wiley-Blackwell. https://doi.org/10.1111/nph.14019
chicago: Simon, Sibu, Petr Skůpa, Tom Viaene, Marta Zwiewka, Ricardo Tejos, Petr
Klíma, Mária Čarná, et al. “PIN6 Auxin Transporter at Endoplasmic Reticulum and
Plasma Membrane Mediates Auxin Homeostasis and Organogenesis in Arabidopsis.”
New Phytologist. Wiley-Blackwell, 2016. https://doi.org/10.1111/nph.14019.
ieee: S. Simon et al., “PIN6 auxin transporter at endoplasmic reticulum and
plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis,”
New Phytologist, vol. 211, no. 1. Wiley-Blackwell, pp. 65–74, 2016.
ista: Simon S, Skůpa P, Viaene T, Zwiewka M, Tejos R, Klíma P, Čarná M, Rolčík J,
De Rycke R, Moreno I, Dobrev P, Orellana A, Zažímalová E, Friml J. 2016. PIN6
auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin
homeostasis and organogenesis in Arabidopsis. New Phytologist. 211(1), 65–74.
mla: Simon, Sibu, et al. “PIN6 Auxin Transporter at Endoplasmic Reticulum and Plasma
Membrane Mediates Auxin Homeostasis and Organogenesis in Arabidopsis.” New
Phytologist, vol. 211, no. 1, Wiley-Blackwell, 2016, pp. 65–74, doi:10.1111/nph.14019.
short: S. Simon, P. Skůpa, T. Viaene, M. Zwiewka, R. Tejos, P. Klíma, M. Čarná,
J. Rolčík, R. De Rycke, I. Moreno, P. Dobrev, A. Orellana, E. Zažímalová, J. Friml,
New Phytologist 211 (2016) 65–74.
date_created: 2018-12-11T11:51:54Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:36Z
day: '01'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1111/nph.14019
file:
- access_level: open_access
checksum: 23522ced3508ffe7a4f247c4230e6493
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:32Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5016'
file_name: IST-2018-1004-v1+1_Simon_NewPhytol_2016_proof.pdf
file_size: 3828383
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 211'
issue: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 65 - 74
publication: New Phytologist
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5790'
pubrep_id: '1004'
quality_controlled: '1'
scopus_import: 1
status: public
title: PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates
auxin homeostasis and organogenesis in Arabidopsis
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 211
year: '2016'
...
---
_id: '1415'
abstract:
- lang: eng
text: The Fluid Implicit Particle method (FLIP) for liquid simulations uses particles
to reduce numerical dissipation and provide important visual cues for events like
complex splashes and small-scale features near the liquid surface. Unfortunately,
FLIP simulations can be computationally expensive, because they require a dense
sampling of particles to fill the entire liquid volume. Furthermore, the vast
majority of these FLIP particles contribute nothing to the fluid's visual appearance,
especially for larger volumes of liquid. We present a method that only uses FLIP
particles within a narrow band of the liquid surface, while efficiently representing
the remaining inner volume on a regular grid. We show that a naïve realization
of this idea introduces unstable and uncontrollable energy fluctuations, and we
propose a novel coupling scheme between FLIP particles and regular grid which
overcomes this problem. Our method drastically reduces the particle count and
simulation times while yielding results that are nearly indistinguishable from
regular FLIP simulations. Our approach is easy to integrate into any existing
FLIP implementation.
author:
- first_name: Florian
full_name: Ferstl, Florian
last_name: Ferstl
- first_name: Ryoichi
full_name: Ando, Ryoichi
last_name: Ando
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
- first_name: Rüdiger
full_name: Westermann, Rüdiger
last_name: Westermann
- first_name: Nils
full_name: Thuerey, Nils
last_name: Thuerey
citation:
ama: Ferstl F, Ando R, Wojtan C, Westermann R, Thuerey N. Narrow band FLIP for liquid
simulations. Computer Graphics Forum. 2016;35(2):225-232. doi:10.1111/cgf.12825
apa: Ferstl, F., Ando, R., Wojtan, C., Westermann, R., & Thuerey, N. (2016).
Narrow band FLIP for liquid simulations. Computer Graphics Forum. Wiley-Blackwell.
https://doi.org/10.1111/cgf.12825
chicago: Ferstl, Florian, Ryoichi Ando, Chris Wojtan, Rüdiger Westermann, and Nils
Thuerey. “Narrow Band FLIP for Liquid Simulations.” Computer Graphics Forum.
Wiley-Blackwell, 2016. https://doi.org/10.1111/cgf.12825.
ieee: F. Ferstl, R. Ando, C. Wojtan, R. Westermann, and N. Thuerey, “Narrow band
FLIP for liquid simulations,” Computer Graphics Forum, vol. 35, no. 2.
Wiley-Blackwell, pp. 225–232, 2016.
ista: Ferstl F, Ando R, Wojtan C, Westermann R, Thuerey N. 2016. Narrow band FLIP
for liquid simulations. Computer Graphics Forum. 35(2), 225–232.
mla: Ferstl, Florian, et al. “Narrow Band FLIP for Liquid Simulations.” Computer
Graphics Forum, vol. 35, no. 2, Wiley-Blackwell, 2016, pp. 225–32, doi:10.1111/cgf.12825.
short: F. Ferstl, R. Ando, C. Wojtan, R. Westermann, N. Thuerey, Computer Graphics
Forum 35 (2016) 225–232.
date_created: 2018-12-11T11:51:53Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2023-02-21T10:38:38Z
day: '01'
ddc:
- '000'
department:
- _id: ChWo
doi: 10.1111/cgf.12825
file:
- access_level: open_access
checksum: 984afbe510ed48019025dff1dcc7baad
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:22Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4940'
file_name: IST-2016-611-v1+3_CW_nbflip_postprint_2016.pdf
file_size: 5938324
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 35'
issue: '2'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
page: 225 - 232
publication: Computer Graphics Forum
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5793'
pubrep_id: '611'
quality_controlled: '1'
scopus_import: 1
status: public
title: Narrow band FLIP for liquid simulations
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2016'
...
---
_id: '1416'
abstract:
- lang: eng
text: Anisotropic dipole-dipole interactions between ultracold dipolar fermions
break the symmetry of the Fermi surface and thereby deform it. Here we demonstrate
that such a Fermi surface deformation induces a topological phase transition -
the so-called Lifshitz transition - in the regime accessible to present-day experiments.
We describe the impact of the Lifshitz transition on observable quantities such
as the Fermi surface topology, the density-density correlation function, and the
excitation spectrum of the system. The Lifshitz transition in ultracold atoms
can be controlled by tuning the dipole orientation and, in contrast to the transition
studied in crystalline solids, is completely interaction driven.
article_number: '195145'
author:
- first_name: Erik
full_name: Van Loon, Erik
last_name: Van Loon
- first_name: Mikhail
full_name: Katsnelson, Mikhail
last_name: Katsnelson
- first_name: Lauriane
full_name: Chomaz, Lauriane
last_name: Chomaz
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Van Loon E, Katsnelson M, Chomaz L, Lemeshko M. Interaction-driven Lifshitz
transition with dipolar fermions in optical lattices. Physical Review B - Condensed
Matter and Materials Physics. 2016;93(19). doi:10.1103/PhysRevB.93.195145
apa: Van Loon, E., Katsnelson, M., Chomaz, L., & Lemeshko, M. (2016). Interaction-driven
Lifshitz transition with dipolar fermions in optical lattices. Physical Review
B - Condensed Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.93.195145
chicago: Van Loon, Erik, Mikhail Katsnelson, Lauriane Chomaz, and Mikhail Lemeshko.
“Interaction-Driven Lifshitz Transition with Dipolar Fermions in Optical Lattices.”
Physical Review B - Condensed Matter and Materials Physics. American Physical
Society, 2016. https://doi.org/10.1103/PhysRevB.93.195145.
ieee: E. Van Loon, M. Katsnelson, L. Chomaz, and M. Lemeshko, “Interaction-driven
Lifshitz transition with dipolar fermions in optical lattices,” Physical Review
B - Condensed Matter and Materials Physics, vol. 93, no. 19. American Physical
Society, 2016.
ista: Van Loon E, Katsnelson M, Chomaz L, Lemeshko M. 2016. Interaction-driven Lifshitz
transition with dipolar fermions in optical lattices. Physical Review B - Condensed
Matter and Materials Physics. 93(19), 195145.
mla: Van Loon, Erik, et al. “Interaction-Driven Lifshitz Transition with Dipolar
Fermions in Optical Lattices.” Physical Review B - Condensed Matter and Materials
Physics, vol. 93, no. 19, 195145, American Physical Society, 2016, doi:10.1103/PhysRevB.93.195145.
short: E. Van Loon, M. Katsnelson, L. Chomaz, M. Lemeshko, Physical Review B - Condensed
Matter and Materials Physics 93 (2016).
date_created: 2018-12-11T11:51:54Z
date_published: 2016-05-15T00:00:00Z
date_updated: 2021-01-12T06:50:36Z
day: '15'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.93.195145
intvolume: ' 93'
issue: '19'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1603.09358
month: '05'
oa: 1
oa_version: Preprint
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '5791'
quality_controlled: '1'
scopus_import: 1
status: public
title: Interaction-driven Lifshitz transition with dipolar fermions in optical lattices
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1419'
abstract:
- lang: eng
text: We study the superconducting phase of the Hubbard model using the Gutzwiller
variational wave function (GWF) and the recently proposed diagrammatic expansion
technique (DE-GWF). The DE-GWF method works on the level of the full GWF and in
the thermodynamic limit. Here, we consider a finite-size system to study the accuracy
of the results as a function of the system size (which is practically unrestricted).
We show that the finite-size scaling used, e.g. in the variational Monte Carlo
method can lead to significant, uncontrolled errors. The presented research is
the first step towards applying the DE-GWF method in studies of inhomogeneous
situations, including systems with impurities, defects, inhomogeneous phases,
or disorder.
article_number: '175701'
author:
- first_name: Andrzej
full_name: Tomski, Andrzej
last_name: Tomski
- first_name: Jan
full_name: Kaczmarczyk, Jan
id: 46C405DE-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarczyk
orcid: 0000-0002-1629-3675
citation:
ama: 'Tomski A, Kaczmarczyk J. Gutzwiller wave function for finite systems: Superconductivity
in the Hubbard model. Journal of Physics: Condensed Matter. 2016;28(17).
doi:10.1088/0953-8984/28/17/175701'
apa: 'Tomski, A., & Kaczmarczyk, J. (2016). Gutzwiller wave function for finite
systems: Superconductivity in the Hubbard model. Journal of Physics: Condensed
Matter. IOP Publishing Ltd. https://doi.org/10.1088/0953-8984/28/17/175701'
chicago: 'Tomski, Andrzej, and Jan Kaczmarczyk. “Gutzwiller Wave Function for Finite
Systems: Superconductivity in the Hubbard Model.” Journal of Physics: Condensed
Matter. IOP Publishing Ltd., 2016. https://doi.org/10.1088/0953-8984/28/17/175701.'
ieee: 'A. Tomski and J. Kaczmarczyk, “Gutzwiller wave function for finite systems:
Superconductivity in the Hubbard model,” Journal of Physics: Condensed Matter,
vol. 28, no. 17. IOP Publishing Ltd., 2016.'
ista: 'Tomski A, Kaczmarczyk J. 2016. Gutzwiller wave function for finite systems:
Superconductivity in the Hubbard model. Journal of Physics: Condensed Matter.
28(17), 175701.'
mla: 'Tomski, Andrzej, and Jan Kaczmarczyk. “Gutzwiller Wave Function for Finite
Systems: Superconductivity in the Hubbard Model.” Journal of Physics: Condensed
Matter, vol. 28, no. 17, 175701, IOP Publishing Ltd., 2016, doi:10.1088/0953-8984/28/17/175701.'
short: 'A. Tomski, J. Kaczmarczyk, Journal of Physics: Condensed Matter 28 (2016).'
date_created: 2018-12-11T11:51:55Z
date_published: 2016-03-29T00:00:00Z
date_updated: 2021-01-12T06:50:36Z
day: '29'
department:
- _id: MiLe
doi: 10.1088/0953-8984/28/17/175701
ec_funded: 1
intvolume: ' 28'
issue: '17'
language:
- iso: eng
month: '03'
oa_version: None
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: 'Journal of Physics: Condensed Matter'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5788'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Gutzwiller wave function for finite systems: Superconductivity in the Hubbard
model'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 28
year: '2016'
...
---
_id: '1427'
abstract:
- lang: eng
text: Changes in gene expression are an important mode of evolution; however, the
proximate mechanism of these changes is poorly understood. In particular, little
is known about the effects of mutations within cis binding sites for transcription
factors, or the nature of epistatic interactions between these mutations. Here,
we tested the effects of single and double mutants in two cis binding sites involved
in the transcriptional regulation of the Escherichia coli araBAD operon, a component
of arabinose metabolism, using a synthetic system. This system decouples transcriptional
control from any posttranslational effects on fitness, allowing a precise estimate
of the effect of single and double mutations, and hence epistasis, on gene expression.
We found that epistatic interactions between mutations in the araBAD cis-regulatory
element are common, and that the predominant form of epistasis is negative. The
magnitude of the interactions depended on whether the mutations are located in
the same or in different operator sites. Importantly, these epistatic interactions
were dependent on the presence of arabinose, a native inducer of the araBAD operon
in vivo, with some interactions changing in sign (e.g., from negative to positive)
in its presence. This study thus reveals that mutations in even relatively simple
cis-regulatory elements interact in complex ways such that selection on the level
of gene expression in one environment might perturb regulation in the other environment
in an unpredictable and uncorrelated manner.
author:
- first_name: Mato
full_name: Lagator, Mato
id: 345D25EC-F248-11E8-B48F-1D18A9856A87
last_name: Lagator
- first_name: Claudia
full_name: Igler, Claudia
id: 46613666-F248-11E8-B48F-1D18A9856A87
last_name: Igler
- first_name: Anaisa
full_name: Moreno, Anaisa
last_name: Moreno
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Lagator M, Igler C, Moreno A, Guet CC, Bollback JP. Epistatic interactions
in the arabinose cis-regulatory element. Molecular Biology and Evolution.
2016;33(3):761-769. doi:10.1093/molbev/msv269
apa: Lagator, M., Igler, C., Moreno, A., Guet, C. C., & Bollback, J. P. (2016).
Epistatic interactions in the arabinose cis-regulatory element. Molecular Biology
and Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msv269
chicago: Lagator, Mato, Claudia Igler, Anaisa Moreno, Calin C Guet, and Jonathan
P Bollback. “Epistatic Interactions in the Arabinose Cis-Regulatory Element.”
Molecular Biology and Evolution. Oxford University Press, 2016. https://doi.org/10.1093/molbev/msv269.
ieee: M. Lagator, C. Igler, A. Moreno, C. C. Guet, and J. P. Bollback, “Epistatic
interactions in the arabinose cis-regulatory element,” Molecular Biology and
Evolution, vol. 33, no. 3. Oxford University Press, pp. 761–769, 2016.
ista: Lagator M, Igler C, Moreno A, Guet CC, Bollback JP. 2016. Epistatic interactions
in the arabinose cis-regulatory element. Molecular Biology and Evolution. 33(3),
761–769.
mla: Lagator, Mato, et al. “Epistatic Interactions in the Arabinose Cis-Regulatory
Element.” Molecular Biology and Evolution, vol. 33, no. 3, Oxford University
Press, 2016, pp. 761–69, doi:10.1093/molbev/msv269.
short: M. Lagator, C. Igler, A. Moreno, C.C. Guet, J.P. Bollback, Molecular Biology
and Evolution 33 (2016) 761–769.
date_created: 2018-12-11T11:51:57Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2021-01-12T06:50:39Z
day: '01'
ddc:
- '570'
- '576'
department:
- _id: CaGu
- _id: JoBo
doi: 10.1093/molbev/msv269
ec_funded: 1
file:
- access_level: open_access
checksum: 1f456ce1d2aa2f67176a1709f9702ecf
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:27Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4751'
file_name: IST-2016-588-v1+1_Mol_Biol_Evol-2016-Lagator-761-9.pdf
file_size: 648115
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 33'
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 761 - 769
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Molecular Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '5772'
pubrep_id: '588'
quality_controlled: '1'
scopus_import: 1
status: public
title: Epistatic interactions in the arabinose cis-regulatory element
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: 33
year: '2016'
...
---
_id: '1428'
abstract:
- lang: eng
text: We report on a mathematically rigorous analysis of the superfluid properties
of a Bose- Einstein condensate in the many-body ground state of a one-dimensional
model of interacting bosons in a random potential.
article_number: '012016'
author:
- first_name: Martin
full_name: Könenberg, Martin
last_name: Könenberg
- first_name: Thomas
full_name: Moser, Thomas
id: 2B5FC9A4-F248-11E8-B48F-1D18A9856A87
last_name: Moser
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Jakob
full_name: Yngvason, Jakob
last_name: Yngvason
citation:
ama: 'Könenberg M, Moser T, Seiringer R, Yngvason J. Superfluidity and BEC in a
Model of Interacting Bosons in a Random Potential. In: Journal of Physics:
Conference Series. Vol 691. IOP Publishing Ltd.; 2016. doi:10.1088/1742-6596/691/1/012016'
apa: 'Könenberg, M., Moser, T., Seiringer, R., & Yngvason, J. (2016). Superfluidity
and BEC in a Model of Interacting Bosons in a Random Potential. In Journal
of Physics: Conference Series (Vol. 691). Shanghai, China: IOP Publishing
Ltd. https://doi.org/10.1088/1742-6596/691/1/012016'
chicago: 'Könenberg, Martin, Thomas Moser, Robert Seiringer, and Jakob Yngvason.
“Superfluidity and BEC in a Model of Interacting Bosons in a Random Potential.”
In Journal of Physics: Conference Series, Vol. 691. IOP Publishing Ltd.,
2016. https://doi.org/10.1088/1742-6596/691/1/012016.'
ieee: 'M. Könenberg, T. Moser, R. Seiringer, and J. Yngvason, “Superfluidity and
BEC in a Model of Interacting Bosons in a Random Potential,” in Journal of
Physics: Conference Series, Shanghai, China, 2016, vol. 691, no. 1.'
ista: 'Könenberg M, Moser T, Seiringer R, Yngvason J. 2016. Superfluidity and BEC
in a Model of Interacting Bosons in a Random Potential. Journal of Physics: Conference
Series. 24th International Laser Physics Workshop (LPHYS’15) vol. 691, 012016.'
mla: 'Könenberg, Martin, et al. “Superfluidity and BEC in a Model of Interacting
Bosons in a Random Potential.” Journal of Physics: Conference Series, vol.
691, no. 1, 012016, IOP Publishing Ltd., 2016, doi:10.1088/1742-6596/691/1/012016.'
short: 'M. Könenberg, T. Moser, R. Seiringer, J. Yngvason, in:, Journal of Physics:
Conference Series, IOP Publishing Ltd., 2016.'
conference:
end_date: 2015-08-25
location: Shanghai, China
name: 24th International Laser Physics Workshop (LPHYS'15)
start_date: 2015-08-21
date_created: 2018-12-11T11:51:58Z
date_published: 2016-03-07T00:00:00Z
date_updated: 2021-01-12T06:50:40Z
day: '07'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1088/1742-6596/691/1/012016
file:
- access_level: open_access
checksum: 109db801749072c3f6c8f1a1848700fa
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:55Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4847'
file_name: IST-2016-585-v1+1_JPCS_691_1_012016.pdf
file_size: 1434688
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 691'
issue: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
publication: 'Journal of Physics: Conference Series'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5770'
pubrep_id: '585'
quality_controlled: '1'
scopus_import: 1
status: public
title: Superfluidity and BEC in a Model of Interacting Bosons in a Random Potential
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 691
year: '2016'
...
---
_id: '1426'
abstract:
- lang: eng
text: 'Brood parasites exploit their host in order to increase their own fitness.
Typically, this results in an arms race between parasite trickery and host defence.
Thus, it is puzzling to observe hosts that accept parasitism without any resistance.
The ‘mafia’ hypothesis suggests that these hosts accept parasitism to avoid retaliation.
Retaliation has been shown to evolve when the hosts condition their response to
mafia parasites, who use depredation as a targeted response to rejection. However,
it is unclear if acceptance would also emerge when ‘farming’ parasites are present
in the population. Farming parasites use depredation to synchronize the timing
with the host, destroying mature clutches to force the host to re-nest. Herein,
we develop an evolutionary model to analyse the interaction between depredatory
parasites and their hosts. We show that coevolutionary cycles between farmers
and mafia can still induce host acceptance of brood parasites. However, this equilibrium
is unstable and in the long-run the dynamics of this host–parasite interaction
exhibits strong oscillations: when farmers are the majority, accepters conditional
to mafia (the host will reject first and only accept after retaliation by the
parasite) have a higher fitness than unconditional accepters (the host always
accepts parasitism). This leads to an increase in mafia parasites’ fitness and
in turn induce an optimal environment for accepter hosts.'
acknowledgement: C.H. gratefully acknowledges funding by the Schrödinger scholarship
of the Austrian Science Fund (FWF) J3475.
article_number: '160036'
author:
- first_name: Maria
full_name: Chakra, Maria
last_name: Chakra
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Arne
full_name: Traulsen, Arne
last_name: Traulsen
citation:
ama: Chakra M, Hilbe C, Traulsen A. Coevolutionary interactions between farmers
and mafia induce host acceptance of avian brood parasites. Royal Society Open
Science. 2016;3(5). doi:10.1098/rsos.160036
apa: Chakra, M., Hilbe, C., & Traulsen, A. (2016). Coevolutionary interactions
between farmers and mafia induce host acceptance of avian brood parasites. Royal
Society Open Science. Royal Society, The. https://doi.org/10.1098/rsos.160036
chicago: Chakra, Maria, Christian Hilbe, and Arne Traulsen. “Coevolutionary Interactions
between Farmers and Mafia Induce Host Acceptance of Avian Brood Parasites.” Royal
Society Open Science. Royal Society, The, 2016. https://doi.org/10.1098/rsos.160036.
ieee: M. Chakra, C. Hilbe, and A. Traulsen, “Coevolutionary interactions between
farmers and mafia induce host acceptance of avian brood parasites,” Royal Society
Open Science, vol. 3, no. 5. Royal Society, The, 2016.
ista: Chakra M, Hilbe C, Traulsen A. 2016. Coevolutionary interactions between farmers
and mafia induce host acceptance of avian brood parasites. Royal Society Open
Science. 3(5), 160036.
mla: Chakra, Maria, et al. “Coevolutionary Interactions between Farmers and Mafia
Induce Host Acceptance of Avian Brood Parasites.” Royal Society Open Science,
vol. 3, no. 5, 160036, Royal Society, The, 2016, doi:10.1098/rsos.160036.
short: M. Chakra, C. Hilbe, A. Traulsen, Royal Society Open Science 3 (2016).
date_created: 2018-12-11T11:51:57Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2021-01-12T06:50:39Z
day: '01'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1098/rsos.160036
file:
- access_level: open_access
checksum: bf84211b31fe87451e738ba301d729c3
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:49Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5104'
file_name: IST-2016-589-v1+1_160036.full.pdf
file_size: 937002
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '5'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Royal Society Open Science
publication_status: published
publisher: Royal Society, The
publist_id: '5776'
pubrep_id: '589'
quality_controlled: '1'
scopus_import: 1
status: public
title: Coevolutionary interactions between farmers and mafia induce host acceptance
of avian brood parasites
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: 3
year: '2016'
...
---
_id: '1423'
abstract:
- lang: eng
text: 'Direct reciprocity is a mechanism for the evolution of cooperation based
on repeated interactions. When individuals meet repeatedly, they can use conditional
strategies to enforce cooperative outcomes that would not be feasible in one-shot
social dilemmas. Direct reciprocity requires that individuals keep track of their
past interactions and find the right response. However, there are natural bounds
on strategic complexity: Humans find it difficult to remember past interactions
accurately, especially over long timespans. Given these limitations, it is natural
to ask how complex strategies need to be for cooperation to evolve. Here, we study
stochastic evolutionary game dynamics in finite populations to systematically
compare the evolutionary performance of reactive strategies, which only respond
to the co-player''s previous move, and memory-one strategies, which take into
account the own and the co-player''s previous move. In both cases, we compare
deterministic strategy and stochastic strategy spaces. For reactive strategies
and small costs, we find that stochasticity benefits cooperation, because it allows
for generous-tit-for-tat. For memory one strategies and small costs, we find that
stochasticity does not increase the propensity for cooperation, because the deterministic
rule of win-stay, lose-shift works best. For memory one strategies and large costs,
however, stochasticity can augment cooperation.'
acknowledgement: C.H. acknowledges generous funding from the Schrödinger scholarship
of the Austrian Science Fund (FWF), J3475.
article_number: '25676'
author:
- first_name: Seung
full_name: Baek, Seung
last_name: Baek
- first_name: Hyeongchai
full_name: Jeong, Hyeongchai
last_name: Jeong
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Baek S, Jeong H, Hilbe C, Nowak M. Comparing reactive and memory-one strategies
of direct reciprocity. Scientific Reports. 2016;6. doi:10.1038/srep25676
apa: Baek, S., Jeong, H., Hilbe, C., & Nowak, M. (2016). Comparing reactive
and memory-one strategies of direct reciprocity. Scientific Reports. Nature
Publishing Group. https://doi.org/10.1038/srep25676
chicago: Baek, Seung, Hyeongchai Jeong, Christian Hilbe, and Martin Nowak. “Comparing
Reactive and Memory-One Strategies of Direct Reciprocity.” Scientific Reports.
Nature Publishing Group, 2016. https://doi.org/10.1038/srep25676.
ieee: S. Baek, H. Jeong, C. Hilbe, and M. Nowak, “Comparing reactive and memory-one
strategies of direct reciprocity,” Scientific Reports, vol. 6. Nature Publishing
Group, 2016.
ista: Baek S, Jeong H, Hilbe C, Nowak M. 2016. Comparing reactive and memory-one
strategies of direct reciprocity. Scientific Reports. 6, 25676.
mla: Baek, Seung, et al. “Comparing Reactive and Memory-One Strategies of Direct
Reciprocity.” Scientific Reports, vol. 6, 25676, Nature Publishing Group,
2016, doi:10.1038/srep25676.
short: S. Baek, H. Jeong, C. Hilbe, M. Nowak, Scientific Reports 6 (2016).
date_created: 2018-12-11T11:51:56Z
date_published: 2016-05-10T00:00:00Z
date_updated: 2021-01-12T06:50:38Z
day: '10'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1038/srep25676
file:
- access_level: open_access
checksum: ee17c482370d2e1b3add393710d3c696
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:08Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5327'
file_name: IST-2016-590-v1+1_srep25676.pdf
file_size: 1349915
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 6'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_status: published
publisher: Nature Publishing Group
publist_id: '5784'
pubrep_id: '590'
quality_controlled: '1'
scopus_import: 1
status: public
title: Comparing reactive and memory-one strategies of direct reciprocity
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: 6
year: '2016'
...
---
_id: '1422'
abstract:
- lang: eng
text: We study the time-dependent Bogoliubov–de-Gennes equations for generic translation-invariant
fermionic many-body systems. For initial states that are close to thermal equilibrium
states at temperatures near the critical temperature, we show that the magnitude
of the order parameter stays approximately constant in time and, in particular,
does not follow a time-dependent Ginzburg–Landau equation, which is often employed
as a phenomenological description and predicts a decay of the order parameter
in time. The full non-linear structure of the equations is necessary to understand
this behavior.
acknowledgement: 'Open access funding provided by Institute of Science and Technology
(IST Austria). '
article_processing_charge: Yes (via OA deal)
author:
- first_name: Rupert
full_name: Frank, Rupert
last_name: Frank
- first_name: Christian
full_name: Hainzl, Christian
last_name: Hainzl
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Frank R, Hainzl C, Schlein B, Seiringer R. Incompatibility of time-dependent
Bogoliubov–de-Gennes and Ginzburg–Landau equations. Letters in Mathematical
Physics. 2016;106(7):913-923. doi:10.1007/s11005-016-0847-5
apa: Frank, R., Hainzl, C., Schlein, B., & Seiringer, R. (2016). Incompatibility
of time-dependent Bogoliubov–de-Gennes and Ginzburg–Landau equations. Letters
in Mathematical Physics. Springer. https://doi.org/10.1007/s11005-016-0847-5
chicago: Frank, Rupert, Christian Hainzl, Benjamin Schlein, and Robert Seiringer.
“Incompatibility of Time-Dependent Bogoliubov–de-Gennes and Ginzburg–Landau Equations.”
Letters in Mathematical Physics. Springer, 2016. https://doi.org/10.1007/s11005-016-0847-5.
ieee: R. Frank, C. Hainzl, B. Schlein, and R. Seiringer, “Incompatibility of time-dependent
Bogoliubov–de-Gennes and Ginzburg–Landau equations,” Letters in Mathematical
Physics, vol. 106, no. 7. Springer, pp. 913–923, 2016.
ista: Frank R, Hainzl C, Schlein B, Seiringer R. 2016. Incompatibility of time-dependent
Bogoliubov–de-Gennes and Ginzburg–Landau equations. Letters in Mathematical Physics.
106(7), 913–923.
mla: Frank, Rupert, et al. “Incompatibility of Time-Dependent Bogoliubov–de-Gennes
and Ginzburg–Landau Equations.” Letters in Mathematical Physics, vol. 106,
no. 7, Springer, 2016, pp. 913–23, doi:10.1007/s11005-016-0847-5.
short: R. Frank, C. Hainzl, B. Schlein, R. Seiringer, Letters in Mathematical Physics
106 (2016) 913–923.
date_created: 2018-12-11T11:51:56Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:38Z
day: '01'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1007/s11005-016-0847-5
file:
- access_level: open_access
checksum: fb404923d8ca9a1faeb949561f26cbea
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:57Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5181'
file_name: IST-2016-591-v1+1_s11005-016-0847-5.pdf
file_size: 458968
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 106'
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 913 - 923
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Letters in Mathematical Physics
publication_status: published
publisher: Springer
publist_id: '5785'
pubrep_id: '591'
quality_controlled: '1'
scopus_import: 1
status: public
title: Incompatibility of time-dependent Bogoliubov–de-Gennes and Ginzburg–Landau
equations
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: 106
year: '2016'
...
---
_id: '1421'
abstract:
- lang: eng
text: 'Hybridization methods enable the analysis of hybrid automata with complex,
nonlinear dynamics through a sound abstraction process. Complex dynamics are converted
to simpler ones with added noise, and then analysis is done using a reachability
method for the simpler dynamics. Several such recent approaches advocate that
only "dynamic" hybridization techniquesi.e., those where the dynamics
are abstracted on-The-fly during a reachability computation are effective. In
this paper, we demonstrate this is not the case, and create static hybridization
methods that are more scalable than earlier approaches. The main insight in our
approach is that quick, numeric simulations can be used to guide the process,
eliminating the need for an exponential number of hybridization domains. Transitions
between domains are generally timetriggered, avoiding accumulated error from geometric
intersections. We enhance our static technique by combining time-Triggered transitions
with occasional space-Triggered transitions, and demonstrate the benefits of the
combined approach in what we call mixed-Triggered hybridization. Finally, error
modes are inserted to confirm that the reachable states stay within the hybridized
regions. The developed techniques can scale to higher dimensions than previous
static approaches, while enabling the parallelization of the main performance
bottleneck for many dynamic hybridization approaches: The nonlinear optimization
required for sound dynamics abstraction. We implement our method as a model transformation
pass in the HYST tool, and perform reachability analysis and evaluation using
an unmodified version of SpaceEx on nonlinear models with up to six dimensions.'
author:
- first_name: Stanley
full_name: Bak, Stanley
last_name: Bak
- first_name: Sergiy
full_name: Bogomolov, Sergiy
id: 369D9A44-F248-11E8-B48F-1D18A9856A87
last_name: Bogomolov
orcid: 0000-0002-0686-0365
- 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: Taylor
full_name: Johnson, Taylor
last_name: Johnson
- first_name: Pradyot
full_name: Prakash, Pradyot
last_name: Prakash
citation:
ama: 'Bak S, Bogomolov S, Henzinger TA, Johnson T, Prakash P. Scalable static hybridization
methods for analysis of nonlinear systems. In: Springer; 2016:155-164. doi:10.1145/2883817.2883837'
apa: 'Bak, S., Bogomolov, S., Henzinger, T. A., Johnson, T., & Prakash, P. (2016).
Scalable static hybridization methods for analysis of nonlinear systems (pp. 155–164).
Presented at the HSCC 2016: International Conference on Hybrid Systems: Computation
and Control, Vienna, Austria: Springer. https://doi.org/10.1145/2883817.2883837'
chicago: Bak, Stanley, Sergiy Bogomolov, Thomas A Henzinger, Taylor Johnson, and
Pradyot Prakash. “Scalable Static Hybridization Methods for Analysis of Nonlinear
Systems,” 155–64. Springer, 2016. https://doi.org/10.1145/2883817.2883837.
ieee: 'S. Bak, S. Bogomolov, T. A. Henzinger, T. Johnson, and P. Prakash, “Scalable
static hybridization methods for analysis of nonlinear systems,” presented at
the HSCC 2016: International Conference on Hybrid Systems: Computation and Control,
Vienna, Austria, 2016, pp. 155–164.'
ista: 'Bak S, Bogomolov S, Henzinger TA, Johnson T, Prakash P. 2016. Scalable static
hybridization methods for analysis of nonlinear systems. HSCC 2016: International
Conference on Hybrid Systems: Computation and Control, 155–164.'
mla: Bak, Stanley, et al. Scalable Static Hybridization Methods for Analysis
of Nonlinear Systems. Springer, 2016, pp. 155–64, doi:10.1145/2883817.2883837.
short: S. Bak, S. Bogomolov, T.A. Henzinger, T. Johnson, P. Prakash, in:, Springer,
2016, pp. 155–164.
conference:
end_date: 2016-04-14
location: Vienna, Austria
name: 'HSCC 2016: International Conference on Hybrid Systems: Computation and Control'
start_date: 2016-04-12
date_created: 2018-12-11T11:51:55Z
date_published: 2016-04-11T00:00:00Z
date_updated: 2021-01-12T06:50:37Z
day: '11'
department:
- _id: ToHe
doi: 10.1145/2883817.2883837
ec_funded: 1
language:
- iso: eng
month: '04'
oa_version: None
page: 155 - 164
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication_status: published
publisher: Springer
publist_id: '5786'
quality_controlled: '1'
scopus_import: 1
status: public
title: Scalable static hybridization methods for analysis of nonlinear systems
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1420'
abstract:
- lang: eng
text: 'Selection, mutation, and random drift affect the dynamics of allele frequencies
and consequently of quantitative traits. While the macroscopic dynamics of quantitative
traits can be measured, the underlying allele frequencies are typically unobserved.
Can we understand how the macroscopic observables evolve without following these
microscopic processes? This problem has been studied previously by analogy with
statistical mechanics: the allele frequency distribution at each time point is
approximated by the stationary form, which maximizes entropy. We explore the limitations
of this method when mutation is small (4Nμ < 1) so that populations are typically
close to fixation, and we extend the theory in this regime to account for changes
in mutation strength. We consider a single diallelic locus either under directional
selection or with overdominance and then generalize to multiple unlinked biallelic
loci with unequal effects. We find that the maximum-entropy approximation is remarkably
accurate, even when mutation and selection change rapidly. '
article_processing_charge: No
author:
- first_name: Katarína
full_name: Bod'ová, Katarína
id: 2BA24EA0-F248-11E8-B48F-1D18A9856A87
last_name: Bod'ová
orcid: 0000-0002-7214-0171
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Bodova K, Tkačik G, Barton NH. A general approximation for the dynamics of
quantitative traits. Genetics. 2016;202(4):1523-1548. doi:10.1534/genetics.115.184127
apa: Bodova, K., Tkačik, G., & Barton, N. H. (2016). A general approximation
for the dynamics of quantitative traits. Genetics. Genetics Society of
America. https://doi.org/10.1534/genetics.115.184127
chicago: Bodova, Katarina, Gašper Tkačik, and Nicholas H Barton. “A General Approximation
for the Dynamics of Quantitative Traits.” Genetics. Genetics Society of
America, 2016. https://doi.org/10.1534/genetics.115.184127.
ieee: K. Bodova, G. Tkačik, and N. H. Barton, “A general approximation for the dynamics
of quantitative traits,” Genetics, vol. 202, no. 4. Genetics Society of
America, pp. 1523–1548, 2016.
ista: Bodova K, Tkačik G, Barton NH. 2016. A general approximation for the dynamics
of quantitative traits. Genetics. 202(4), 1523–1548.
mla: Bodova, Katarina, et al. “A General Approximation for the Dynamics of Quantitative
Traits.” Genetics, vol. 202, no. 4, Genetics Society of America, 2016,
pp. 1523–48, doi:10.1534/genetics.115.184127.
short: K. Bodova, G. Tkačik, N.H. Barton, Genetics 202 (2016) 1523–1548.
date_created: 2018-12-11T11:51:55Z
date_published: 2016-04-06T00:00:00Z
date_updated: 2022-08-01T10:49:55Z
day: '06'
department:
- _id: GaTk
- _id: NiBa
doi: 10.1534/genetics.115.184127
ec_funded: 1
external_id:
arxiv:
- '1510.08344'
intvolume: ' 202'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1510.08344
month: '04'
oa: 1
oa_version: Preprint
page: 1523 - 1548
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
- _id: 255008E4-B435-11E9-9278-68D0E5697425
grant_number: RGP0065/2012
name: Information processing and computation in fish groups
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '5787'
quality_controlled: '1'
scopus_import: '1'
status: public
title: A general approximation for the dynamics of quantitative traits
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 202
year: '2016'
...
---
_id: '1429'
abstract:
- lang: eng
text: Solitons are localized waves formed by a balance of focusing and defocusing
effects. These nonlinear waves exist in diverse forms of matter yet exhibit similar
properties including stability, periodic recurrence and particle-like trajectories.
One important property is soliton fission, a process by which an energetic higher-order
soliton breaks apart due to dispersive or nonlinear perturbations. Here we demonstrate
through both experiment and theory that nonlinear photocarrier generation can
induce soliton fission. Using near-field measurements, we directly observe the
nonlinear spatial and temporal evolution of optical pulses in situ in a nanophotonic
semiconductor waveguide. We develop an analytic formalism describing the free-carrier
dispersion (FCD) perturbation and show the experiment exceeds the minimum threshold
by an order of magnitude. We confirm these observations with a numerical nonlinear
Schrödinger equation model. These results provide a fundamental explanation and
physical scaling of optical pulse evolution in free-carrier media and could enable
improved supercontinuum sources in gas based and integrated semiconductor waveguides.
acknowledgement: This research was supported by the Australian Research Council (ARC)
Center of Excellence CUDOS (CE110001018), ARC Laureate Fellowship (FL120100029),
ARC Discovery Early Career Researcher Award (DECRA DE120102069), the Netherlands
Foundation for Fundamental Research on Matter (FOM) and the Netherlands Organization
for Scientific Research (NWO). L.K. acknowledges funding from ERC Advanced Investigator
Grant (no. 240438-CONSTANS). A.D.R, S.C., and G.L. acknowledge financial support
from the ERC-Pharos programme lead by A. P. Mosk.
article_number: 11332 (2016)
author:
- first_name: Chad
full_name: Husko, Chad
last_name: Husko
- first_name: Matthias
full_name: Wulf, Matthias
id: 45598606-F248-11E8-B48F-1D18A9856A87
last_name: Wulf
orcid: 0000-0001-6613-1378
- first_name: Simon
full_name: Lefrançois, Simon
last_name: Lefrançois
- first_name: Sylvain
full_name: Combrié, Sylvain
last_name: Combrié
- first_name: Gaëlle
full_name: Lehoucq, Gaëlle
last_name: Lehoucq
- first_name: Alfredo
full_name: De Rossi, Alfredo
last_name: De Rossi
- first_name: Benjamin
full_name: Eggleton, Benjamin
last_name: Eggleton
- first_name: Laurens
full_name: Kuipers, Laurens
last_name: Kuipers
citation:
ama: Husko C, Wulf M, Lefrançois S, et al. Free-carrier-induced soliton fission
unveiled by in situ measurements in nanophotonic waveguides. Nature Communications.
2016;7. doi:10.1038/ncomms11332
apa: Husko, C., Wulf, M., Lefrançois, S., Combrié, S., Lehoucq, G., De Rossi, A.,
… Kuipers, L. (2016). Free-carrier-induced soliton fission unveiled by in situ
measurements in nanophotonic waveguides. Nature Communications. Nature
Publishing Group. https://doi.org/10.1038/ncomms11332
chicago: Husko, Chad, Matthias Wulf, Simon Lefrançois, Sylvain Combrié, Gaëlle Lehoucq,
Alfredo De Rossi, Benjamin Eggleton, and Laurens Kuipers. “Free-Carrier-Induced
Soliton Fission Unveiled by in Situ Measurements in Nanophotonic Waveguides.”
Nature Communications. Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms11332.
ieee: C. Husko et al., “Free-carrier-induced soliton fission unveiled by
in situ measurements in nanophotonic waveguides,” Nature Communications,
vol. 7. Nature Publishing Group, 2016.
ista: Husko C, Wulf M, Lefrançois S, Combrié S, Lehoucq G, De Rossi A, Eggleton
B, Kuipers L. 2016. Free-carrier-induced soliton fission unveiled by in situ measurements
in nanophotonic waveguides. Nature Communications. 7, 11332 (2016).
mla: Husko, Chad, et al. “Free-Carrier-Induced Soliton Fission Unveiled by in Situ
Measurements in Nanophotonic Waveguides.” Nature Communications, vol. 7,
11332 (2016), Nature Publishing Group, 2016, doi:10.1038/ncomms11332.
short: C. Husko, M. Wulf, S. Lefrançois, S. Combrié, G. Lehoucq, A. De Rossi, B.
Eggleton, L. Kuipers, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:58Z
date_published: 2016-04-15T00:00:00Z
date_updated: 2021-01-12T06:50:40Z
day: '15'
ddc:
- '530'
department:
- _id: JoFi
doi: 10.1038/ncomms11332
file:
- access_level: open_access
checksum: 6484fa81a2e52e4fdd7935e1ae6091d4
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:53Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5177'
file_name: IST-2016-583-v1+1_ncomms11332.pdf
file_size: 965176
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5769'
pubrep_id: '583'
quality_controlled: '1'
scopus_import: 1
status: public
title: Free-carrier-induced soliton fission unveiled by in situ measurements in nanophotonic
waveguides
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: 7
year: '2016'
...
---
_id: '1431'
abstract:
- lang: eng
text: The rare socially parasitic butterfly Maculinea alcon occurs in two forms,
which are characteristic of hygric or xeric habitats and which exploit different
host plants and host ants. The status of these two forms has been the subject
of considerable controversy. Populations of the two forms are usually spatially
distinct, but at Răscruci in Romania both forms occur on the same site (syntopically).
We examined the genetic differentiation between the two forms using eight microsatellite
markers, and compared with a nearby hygric site, Şardu. Our results showed that
while the two forms are strongly differentiated at Răscruci, it is the xeric form
there that is most similar to the hygric form at Şardu, and Bayesian clustering
algorithms suggest that these two populations have exchanged genes relatively
recently. We found strong evidence for population substructuring, caused by high
within host ant nest relatedness, indicating very limited dispersal of most ovipositing
females, but not association with particular host ant species. Our results are
consistent with the results of larger scale phylogeographic studies that suggest
that the two forms represent local ecotypes specialising on different host plants,
each with a distinct flowering phenology, providing a temporal rather than spatial
barrier to gene flow.
article_number: '1865'
author:
- first_name: András
full_name: Tartally, András
last_name: Tartally
- first_name: Andreas
full_name: Kelager, Andreas
last_name: Kelager
- first_name: Matthias
full_name: Fürst, Matthias
id: 393B1196-F248-11E8-B48F-1D18A9856A87
last_name: Fürst
orcid: 0000-0002-3712-925X
- first_name: David
full_name: Nash, David
last_name: Nash
citation:
ama: Tartally A, Kelager A, Fürst M, Nash D. Host plant use drives genetic differentiation
in syntopic populations of Maculinea alcon. PeerJ. 2016;2016(3). doi:10.7717/peerj.1865
apa: Tartally, A., Kelager, A., Fürst, M., & Nash, D. (2016). Host plant use
drives genetic differentiation in syntopic populations of Maculinea alcon. PeerJ.
PeerJ. https://doi.org/10.7717/peerj.1865
chicago: Tartally, András, Andreas Kelager, Matthias Fürst, and David Nash. “Host
Plant Use Drives Genetic Differentiation in Syntopic Populations of Maculinea
Alcon.” PeerJ. PeerJ, 2016. https://doi.org/10.7717/peerj.1865.
ieee: A. Tartally, A. Kelager, M. Fürst, and D. Nash, “Host plant use drives genetic
differentiation in syntopic populations of Maculinea alcon,” PeerJ, vol.
2016, no. 3. PeerJ, 2016.
ista: Tartally A, Kelager A, Fürst M, Nash D. 2016. Host plant use drives genetic
differentiation in syntopic populations of Maculinea alcon. PeerJ. 2016(3), 1865.
mla: Tartally, András, et al. “Host Plant Use Drives Genetic Differentiation in
Syntopic Populations of Maculinea Alcon.” PeerJ, vol. 2016, no. 3, 1865,
PeerJ, 2016, doi:10.7717/peerj.1865.
short: A. Tartally, A. Kelager, M. Fürst, D. Nash, PeerJ 2016 (2016).
date_created: 2018-12-11T11:51:59Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:41Z
day: '01'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.7717/peerj.1865
file:
- access_level: open_access
checksum: c27d898598a1e3d7f629607a309254e1
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creator: system
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date_updated: 2020-07-14T12:44:53Z
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intvolume: ' 2016'
issue: '3'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: PeerJ
publication_status: published
publisher: PeerJ
publist_id: '5767'
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quality_controlled: '1'
scopus_import: 1
status: public
title: Host plant use drives genetic differentiation in syntopic populations of Maculinea
alcon
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: 2016
year: '2016'
...
---
_id: '1434'
abstract:
- lang: eng
text: We prove that the system of subordination equations, defining the free additive
convolution of two probability measures, is stable away from the edges of the
support and blow-up singularities by showing that the recent smoothness condition
of Kargin is always satisfied. As an application, we consider the local spectral
statistics of the random matrix ensemble A+UBU⁎A+UBU⁎, where U is a Haar distributed
random unitary or orthogonal matrix, and A and B are deterministic matrices.
In the bulk regime, we prove that the empirical spectral distribution of A+UBU⁎A+UBU⁎
concentrates around the free additive convolution of the spectral distributions
of A and B on scales down to N−2/3N−2/3.
author:
- first_name: Zhigang
full_name: Bao, Zhigang
id: 442E6A6C-F248-11E8-B48F-1D18A9856A87
last_name: Bao
orcid: 0000-0003-3036-1475
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Kevin
full_name: Schnelli, Kevin
id: 434AD0AE-F248-11E8-B48F-1D18A9856A87
last_name: Schnelli
orcid: 0000-0003-0954-3231
citation:
ama: Bao Z, Erdös L, Schnelli K. Local stability of the free additive convolution.
Journal of Functional Analysis. 2016;271(3):672-719. doi:10.1016/j.jfa.2016.04.006
apa: Bao, Z., Erdös, L., & Schnelli, K. (2016). Local stability of the free
additive convolution. Journal of Functional Analysis. Academic Press. https://doi.org/10.1016/j.jfa.2016.04.006
chicago: Bao, Zhigang, László Erdös, and Kevin Schnelli. “Local Stability of the
Free Additive Convolution.” Journal of Functional Analysis. Academic Press,
2016. https://doi.org/10.1016/j.jfa.2016.04.006.
ieee: Z. Bao, L. Erdös, and K. Schnelli, “Local stability of the free additive convolution,”
Journal of Functional Analysis, vol. 271, no. 3. Academic Press, pp. 672–719,
2016.
ista: Bao Z, Erdös L, Schnelli K. 2016. Local stability of the free additive convolution.
Journal of Functional Analysis. 271(3), 672–719.
mla: Bao, Zhigang, et al. “Local Stability of the Free Additive Convolution.” Journal
of Functional Analysis, vol. 271, no. 3, Academic Press, 2016, pp. 672–719,
doi:10.1016/j.jfa.2016.04.006.
short: Z. Bao, L. Erdös, K. Schnelli, Journal of Functional Analysis 271 (2016)
672–719.
date_created: 2018-12-11T11:52:00Z
date_published: 2016-08-01T00:00:00Z
date_updated: 2021-01-12T06:50:42Z
day: '01'
department:
- _id: LaEr
doi: 10.1016/j.jfa.2016.04.006
ec_funded: 1
intvolume: ' 271'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1508.05905
month: '08'
oa: 1
oa_version: Preprint
page: 672 - 719
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Journal of Functional Analysis
publication_status: published
publisher: Academic Press
publist_id: '5764'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local stability of the free additive convolution
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 271
year: '2016'
...
---
_id: '1436'
abstract:
- lang: eng
text: We study the time evolution of a system of N spinless fermions in R3 which
interact through a pair potential, e.g., the Coulomb potential. We compare the
dynamics given by the solution to Schrödinger's equation with the time-dependent
Hartree-Fock approximation, and we give an estimate for the accuracy of this approximation
in terms of the kinetic energy of the system. This leads, in turn, to bounds in
terms of the initial total energy of the system.
author:
- first_name: Volker
full_name: Bach, Volker
last_name: Bach
- first_name: Sébastien
full_name: Breteaux, Sébastien
last_name: Breteaux
- first_name: Sören P
full_name: Petrat, Sören P
id: 40AC02DC-F248-11E8-B48F-1D18A9856A87
last_name: Petrat
orcid: 0000-0002-9166-5889
- first_name: Peter
full_name: Pickl, Peter
last_name: Pickl
- first_name: Tim
full_name: Tzaneteas, Tim
last_name: Tzaneteas
citation:
ama: Bach V, Breteaux S, Petrat SP, Pickl P, Tzaneteas T. Kinetic energy estimates
for the accuracy of the time-dependent Hartree-Fock approximation with Coulomb
interaction. Journal de Mathématiques Pures et Appliquées. 2016;105(1):1-30.
doi:10.1016/j.matpur.2015.09.003
apa: Bach, V., Breteaux, S., Petrat, S. P., Pickl, P., & Tzaneteas, T. (2016).
Kinetic energy estimates for the accuracy of the time-dependent Hartree-Fock approximation
with Coulomb interaction. Journal de Mathématiques Pures et Appliquées.
Elsevier. https://doi.org/10.1016/j.matpur.2015.09.003
chicago: Bach, Volker, Sébastien Breteaux, Sören P Petrat, Peter Pickl, and Tim
Tzaneteas. “Kinetic Energy Estimates for the Accuracy of the Time-Dependent Hartree-Fock
Approximation with Coulomb Interaction.” Journal de Mathématiques Pures et
Appliquées. Elsevier, 2016. https://doi.org/10.1016/j.matpur.2015.09.003.
ieee: V. Bach, S. Breteaux, S. P. Petrat, P. Pickl, and T. Tzaneteas, “Kinetic energy
estimates for the accuracy of the time-dependent Hartree-Fock approximation with
Coulomb interaction,” Journal de Mathématiques Pures et Appliquées, vol.
105, no. 1. Elsevier, pp. 1–30, 2016.
ista: Bach V, Breteaux S, Petrat SP, Pickl P, Tzaneteas T. 2016. Kinetic energy
estimates for the accuracy of the time-dependent Hartree-Fock approximation with
Coulomb interaction. Journal de Mathématiques Pures et Appliquées. 105(1), 1–30.
mla: Bach, Volker, et al. “Kinetic Energy Estimates for the Accuracy of the Time-Dependent
Hartree-Fock Approximation with Coulomb Interaction.” Journal de Mathématiques
Pures et Appliquées, vol. 105, no. 1, Elsevier, 2016, pp. 1–30, doi:10.1016/j.matpur.2015.09.003.
short: V. Bach, S. Breteaux, S.P. Petrat, P. Pickl, T. Tzaneteas, Journal de Mathématiques
Pures et Appliquées 105 (2016) 1–30.
date_created: 2018-12-11T11:52:00Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:43Z
day: '01'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1016/j.matpur.2015.09.003
ec_funded: 1
file:
- access_level: open_access
checksum: c5afe1f6935bc7f2b546adbde1d31a35
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:36Z
date_updated: 2020-07-14T12:44:54Z
file_id: '4825'
file_name: IST-2016-581-v1+1_1-s2.0-S0021782415001191-main.pdf
file_size: 658491
relation: main_file
file_date_updated: 2020-07-14T12:44:54Z
has_accepted_license: '1'
intvolume: ' 105'
issue: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: 1 - 30
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Journal de Mathématiques Pures et Appliquées
publication_status: published
publisher: Elsevier
publist_id: '5763'
pubrep_id: '581'
quality_controlled: '1'
scopus_import: 1
status: public
title: Kinetic energy estimates for the accuracy of the time-dependent Hartree-Fock
approximation with Coulomb interaction
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: 105
year: '2016'
...
---
_id: '1435'
abstract:
- lang: eng
text: ATP released from neurons and astrocytes during neuronal activity or under
pathophysiological circumstances is able to influence information flow in neuronal
circuits by activation of ionotropic P2X and metabotropic P2Y receptors and subsequent
modulation of cellular excitability, synaptic strength, and plasticity. In the
present paper we review cellular and network effects of P2Y receptors in the brain.
We show that P2Y receptors inhibit the release of neurotransmitters, modulate
voltage- and ligand-gated ion channels, and differentially influence the induction
of synaptic plasticity in the prefrontal cortex, hippocampus, and cerebellum.
The findings discussed here may explain how P2Y1 receptor activation during brain
injury, hypoxia, inflammation, schizophrenia, or Alzheimer's disease leads to
an impairment of cognitive processes. Hence, it is suggested that the blockade
of P2Y1 receptors may have therapeutic potential against cognitive disturbances
in these states.
article_number: '1207393'
author:
- first_name: José
full_name: Guzmán, José
id: 30CC5506-F248-11E8-B48F-1D18A9856A87
last_name: Guzmán
- first_name: Zoltan
full_name: Gerevich, Zoltan
last_name: Gerevich
citation:
ama: 'Guzmán J, Gerevich Z. P2Y receptors in synaptic transmission and plasticity:
Therapeutic potential in cognitive dysfunction. Neural Plasticity. 2016;2016.
doi:10.1155/2016/1207393'
apa: 'Guzmán, J., & Gerevich, Z. (2016). P2Y receptors in synaptic transmission
and plasticity: Therapeutic potential in cognitive dysfunction. Neural Plasticity.
Hindawi Publishing Corporation. https://doi.org/10.1155/2016/1207393'
chicago: 'Guzmán, José, and Zoltan Gerevich. “P2Y Receptors in Synaptic Transmission
and Plasticity: Therapeutic Potential in Cognitive Dysfunction.” Neural Plasticity.
Hindawi Publishing Corporation, 2016. https://doi.org/10.1155/2016/1207393.'
ieee: 'J. Guzmán and Z. Gerevich, “P2Y receptors in synaptic transmission and plasticity:
Therapeutic potential in cognitive dysfunction,” Neural Plasticity, vol.
2016. Hindawi Publishing Corporation, 2016.'
ista: 'Guzmán J, Gerevich Z. 2016. P2Y receptors in synaptic transmission and plasticity:
Therapeutic potential in cognitive dysfunction. Neural Plasticity. 2016, 1207393.'
mla: 'Guzmán, José, and Zoltan Gerevich. “P2Y Receptors in Synaptic Transmission
and Plasticity: Therapeutic Potential in Cognitive Dysfunction.” Neural Plasticity,
vol. 2016, 1207393, Hindawi Publishing Corporation, 2016, doi:10.1155/2016/1207393.'
short: J. Guzmán, Z. Gerevich, Neural Plasticity 2016 (2016).
date_created: 2018-12-11T11:52:00Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:50:43Z
day: '01'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1155/2016/1207393
file:
- access_level: open_access
checksum: 8dc5c2f3d44d4775a6e7e3edb0d7a0da
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:17Z
date_updated: 2020-07-14T12:44:54Z
file_id: '4740'
file_name: IST-2016-580-v1+1_1207393.pdf
file_size: 1395180
relation: main_file
file_date_updated: 2020-07-14T12:44:54Z
has_accepted_license: '1'
intvolume: ' 2016'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Neural Plasticity
publication_status: published
publisher: Hindawi Publishing Corporation
publist_id: '5762'
pubrep_id: '580'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'P2Y receptors in synaptic transmission and plasticity: Therapeutic potential
in cognitive dysfunction'
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: 2016
year: '2016'
...
---
_id: '1439'
abstract:
- lang: eng
text: Fault-tolerant distributed algorithms play an important role in many critical/high-availability
applications. These algorithms are notoriously difficult to implement correctly,
due to asynchronous communication and the occurrence of faults, such as the network
dropping messages or computers crashing. We introduce PSYNC, a domain specific
language based on the Heard-Of model, which views asynchronous faulty systems
as synchronous ones with an adversarial environment that simulates asynchrony
and faults by dropping messages. We define a runtime system for PSYNC that efficiently
executes on asynchronous networks. We formalize the relation between the runtime
system and PSYNC in terms of observational refinement. The high-level lockstep
abstraction introduced by PSYNC simplifies the design and implementation of fault-tolerant
distributed algorithms and enables automated formal verification. We have implemented
an embedding of PSYNC in the SCALA programming language with a runtime system
for asynchronous networks. We show the applicability of PSYNC by implementing
several important fault-tolerant distributed algorithms and we compare the implementation
of consensus algorithms in PSYNC against implementations in other languages in
terms of code size, runtime efficiency, and verification.
acknowledgement: 'Damien Zufferey was supported by DARPA (Grants FA8650-11-C-7192
and FA8650-15-C-7564) and NSF (Grant CCF-1138967). '
alternative_title:
- ACM SIGPLAN Notices
author:
- first_name: Cezara
full_name: Dragoi, Cezara
id: 2B2B5ED0-F248-11E8-B48F-1D18A9856A87
last_name: Dragoi
- 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: Damien
full_name: Zufferey, Damien
id: 4397AC76-F248-11E8-B48F-1D18A9856A87
last_name: Zufferey
orcid: 0000-0002-3197-8736
citation:
ama: 'Dragoi C, Henzinger TA, Zufferey D. PSYNC: A partially synchronous language
for fault-tolerant distributed algorithms. In: Vol 20-22. ACM; 2016:400-415. doi:10.1145/2837614.2837650'
apa: 'Dragoi, C., Henzinger, T. A., & Zufferey, D. (2016). PSYNC: A partially
synchronous language for fault-tolerant distributed algorithms (Vol. 20–22, pp.
400–415). Presented at the POPL: Principles of Programming Languages, St. Petersburg,
FL, USA: ACM. https://doi.org/10.1145/2837614.2837650'
chicago: 'Dragoi, Cezara, Thomas A Henzinger, and Damien Zufferey. “PSYNC: A Partially
Synchronous Language for Fault-Tolerant Distributed Algorithms,” 20–22:400–415.
ACM, 2016. https://doi.org/10.1145/2837614.2837650.'
ieee: 'C. Dragoi, T. A. Henzinger, and D. Zufferey, “PSYNC: A partially synchronous
language for fault-tolerant distributed algorithms,” presented at the POPL: Principles
of Programming Languages, St. Petersburg, FL, USA, 2016, vol. 20–22, pp. 400–415.'
ista: 'Dragoi C, Henzinger TA, Zufferey D. 2016. PSYNC: A partially synchronous
language for fault-tolerant distributed algorithms. POPL: Principles of Programming
Languages, ACM SIGPLAN Notices, vol. 20–22, 400–415.'
mla: 'Dragoi, Cezara, et al. PSYNC: A Partially Synchronous Language for Fault-Tolerant
Distributed Algorithms. Vol. 20–22, ACM, 2016, pp. 400–15, doi:10.1145/2837614.2837650.'
short: C. Dragoi, T.A. Henzinger, D. Zufferey, in:, ACM, 2016, pp. 400–415.
conference:
end_date: 2016-01-22
location: St. Petersburg, FL, USA
name: 'POPL: Principles of Programming Languages'
start_date: 2016-01-20
date_created: 2018-12-11T11:52:01Z
date_published: 2016-01-11T00:00:00Z
date_updated: 2021-01-12T06:50:45Z
day: '11'
department:
- _id: ToHe
doi: 10.1145/2837614.2837650
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://hal.inria.fr/hal-01251199/
month: '01'
oa: 1
oa_version: Preprint
page: 400 - 415
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication_status: published
publisher: ACM
publist_id: '5759'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'PSYNC: A partially synchronous language for fault-tolerant distributed algorithms'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 20-22
year: '2016'
...
---
_id: '1440'
acknowledgement: The author thanks Banerjee et al. (2016) for providing coordinates
prior to public release and apologizes to colleagues whose work was not cited or
discussed due to the limited space available. The author is supported by grants
from EU FP7 (CIG-303564), HFSP (RGY0084_2012), and FWF (W1232).
author:
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
citation:
ama: 'Janovjak HL. Light at the end of the protein: Crystal structure of a C-terminal
light-sensing domain. Structure. 2016;24(2):213-215. doi:10.1016/j.str.2016.01.002'
apa: 'Janovjak, H. L. (2016). Light at the end of the protein: Crystal structure
of a C-terminal light-sensing domain. Structure. Cell Press. https://doi.org/10.1016/j.str.2016.01.002'
chicago: 'Janovjak, Harald L. “Light at the End of the Protein: Crystal Structure
of a C-Terminal Light-Sensing Domain.” Structure. Cell Press, 2016. https://doi.org/10.1016/j.str.2016.01.002.'
ieee: 'H. L. Janovjak, “Light at the end of the protein: Crystal structure of a
C-terminal light-sensing domain,” Structure, vol. 24, no. 2. Cell Press,
pp. 213–215, 2016.'
ista: 'Janovjak HL. 2016. Light at the end of the protein: Crystal structure of
a C-terminal light-sensing domain. Structure. 24(2), 213–215.'
mla: 'Janovjak, Harald L. “Light at the End of the Protein: Crystal Structure of
a C-Terminal Light-Sensing Domain.” Structure, vol. 24, no. 2, Cell Press,
2016, pp. 213–15, doi:10.1016/j.str.2016.01.002.'
short: H.L. Janovjak, Structure 24 (2016) 213–215.
date_created: 2018-12-11T11:52:02Z
date_published: 2016-02-02T00:00:00Z
date_updated: 2021-01-12T06:50:46Z
day: '02'
department:
- _id: HaJa
doi: 10.1016/j.str.2016.01.002
ec_funded: 1
intvolume: ' 24'
issue: '2'
language:
- iso: eng
month: '02'
oa_version: None
page: 213 - 215
project:
- _id: 255BFFFA-B435-11E9-9278-68D0E5697425
grant_number: RGY0084/2012
name: In situ real-time imaging of neurotransmitter signaling using designer optical
sensors (HFSP Young Investigator)
- _id: 25548C20-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303564'
name: Microbial Ion Channels for Synthetic Neurobiology
- _id: 255A6082-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: Structure
publication_status: published
publisher: Cell Press
publist_id: '5756'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Light at the end of the protein: Crystal structure of a C-terminal light-sensing
domain'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2016'
...
---
_id: '1446'
abstract:
- lang: eng
text: The accuracy of interdisciplinarity measurements is directly related to the
quality of the underlying bibliographic data. Existing indicators of interdisciplinarity
are not capable of reflecting the inaccuracies introduced by incorrect and incomplete
records because correct and complete bibliographic data can rarely be obtained.
This is the case for the Rao–Stirling index, which cannot handle references that
are not categorized into disciplinary fields. We introduce a method that addresses
this problem. It extends the Rao–Stirling index to acknowledge missing data by
calculating its interval of uncertainty using computational optimization. The
evaluation of our method indicates that the uncertainty interval is not only useful
for estimating the inaccuracy of interdisciplinarity measurements, but it also
delivers slightly more accurate aggregated interdisciplinarity measurements than
the Rao–Stirling index.
article_processing_charge: No
author:
- first_name: Maria
full_name: Calatrava Moreno, Maria
last_name: Calatrava Moreno
- first_name: Thomas
full_name: Auzinger, Thomas
id: 4718F954-F248-11E8-B48F-1D18A9856A87
last_name: Auzinger
orcid: 0000-0002-1546-3265
- first_name: Hannes
full_name: Werthner, Hannes
last_name: Werthner
citation:
ama: Calatrava Moreno M, Auzinger T, Werthner H. On the uncertainty of interdisciplinarity
measurements due to incomplete bibliographic data. Scientometrics. 2016;107(1):213-232.
doi:10.1007/s11192-016-1842-4
apa: Calatrava Moreno, M., Auzinger, T., & Werthner, H. (2016). On the uncertainty
of interdisciplinarity measurements due to incomplete bibliographic data. Scientometrics.
Springer. https://doi.org/10.1007/s11192-016-1842-4
chicago: Calatrava Moreno, Maria, Thomas Auzinger, and Hannes Werthner. “On the
Uncertainty of Interdisciplinarity Measurements Due to Incomplete Bibliographic
Data.” Scientometrics. Springer, 2016. https://doi.org/10.1007/s11192-016-1842-4.
ieee: M. Calatrava Moreno, T. Auzinger, and H. Werthner, “On the uncertainty of
interdisciplinarity measurements due to incomplete bibliographic data,” Scientometrics,
vol. 107, no. 1. Springer, pp. 213–232, 2016.
ista: Calatrava Moreno M, Auzinger T, Werthner H. 2016. On the uncertainty of interdisciplinarity
measurements due to incomplete bibliographic data. Scientometrics. 107(1), 213–232.
mla: Calatrava Moreno, Maria, et al. “On the Uncertainty of Interdisciplinarity
Measurements Due to Incomplete Bibliographic Data.” Scientometrics, vol.
107, no. 1, Springer, 2016, pp. 213–32, doi:10.1007/s11192-016-1842-4.
short: M. Calatrava Moreno, T. Auzinger, H. Werthner, Scientometrics 107 (2016)
213–232.
date_created: 2018-12-11T11:52:04Z
date_published: 2016-04-01T00:00:00Z
date_updated: 2021-11-16T08:29:11Z
day: '01'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1007/s11192-016-1842-4
file:
- access_level: open_access
checksum: 32d46268588b87d9b686492018e6a2b2
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:56Z
date_updated: 2020-07-14T12:44:55Z
file_id: '4848'
file_name: IST-2016-530-v1+1_s11192-016-1842-4.pdf
file_size: 806035
relation: main_file
file_date_updated: 2020-07-14T12:44:55Z
has_accepted_license: '1'
intvolume: ' 107'
issue: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 213 - 232
publication: Scientometrics
publication_status: published
publisher: Springer
publist_id: '5750'
pubrep_id: '530'
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1007/s11192-016-1902-9
scopus_import: '1'
status: public
title: On the uncertainty of interdisciplinarity measurements due to incomplete bibliographic
data
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 107
year: '2016'
...
---
_id: '1448'
abstract:
- lang: eng
text: We develop a new and systematic method for proving entropic Ricci curvature
lower bounds for Markov chains on discrete sets. Using different methods, such
bounds have recently been obtained in several examples (e.g., 1-dimensional birth
and death chains, product chains, Bernoulli–Laplace models, and random transposition
models). However, a general method to obtain discrete Ricci bounds had been lacking.
Our method covers all of the examples above. In addition we obtain new Ricci curvature
bounds for zero-range processes on the complete graph. The method is inspired
by recent work of Caputo, Dai Pra and Posta on discrete functional inequalities.
acknowledgement: "Supported by the German Research Foundation through the Collaborative
Research Center 1060\r\nThe Mathematics of Emergent Effects and the Hausdorff Center
for Mathematics. Part of this work has been done while M. Fathi visited J. Maas
at the University of Bonn in July 2014.We would like to thank the referees for their
careful reading of the manuscript. "
author:
- first_name: Max
full_name: Fathi, Max
last_name: Fathi
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
citation:
ama: Fathi M, Maas J. Entropic Ricci curvature bounds for discrete interacting systems.
The Annals of Applied Probability. 2016;26(3):1774-1806. doi:10.1214/15-AAP1133
apa: Fathi, M., & Maas, J. (2016). Entropic Ricci curvature bounds for discrete
interacting systems. The Annals of Applied Probability. Institute of Mathematical
Statistics. https://doi.org/10.1214/15-AAP1133
chicago: Fathi, Max, and Jan Maas. “Entropic Ricci Curvature Bounds for Discrete
Interacting Systems.” The Annals of Applied Probability. Institute of Mathematical
Statistics, 2016. https://doi.org/10.1214/15-AAP1133.
ieee: M. Fathi and J. Maas, “Entropic Ricci curvature bounds for discrete interacting
systems,” The Annals of Applied Probability, vol. 26, no. 3. Institute
of Mathematical Statistics, pp. 1774–1806, 2016.
ista: Fathi M, Maas J. 2016. Entropic Ricci curvature bounds for discrete interacting
systems. The Annals of Applied Probability. 26(3), 1774–1806.
mla: Fathi, Max, and Jan Maas. “Entropic Ricci Curvature Bounds for Discrete Interacting
Systems.” The Annals of Applied Probability, vol. 26, no. 3, Institute
of Mathematical Statistics, 2016, pp. 1774–806, doi:10.1214/15-AAP1133.
short: M. Fathi, J. Maas, The Annals of Applied Probability 26 (2016) 1774–1806.
date_created: 2018-12-11T11:52:05Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2021-01-12T06:50:49Z
day: '01'
department:
- _id: JaMa
doi: 10.1214/15-AAP1133
intvolume: ' 26'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1501.00562
month: '06'
oa: 1
oa_version: Preprint
page: 1774 - 1806
publication: The Annals of Applied Probability
publication_status: published
publisher: Institute of Mathematical Statistics
publist_id: '5748'
quality_controlled: '1'
scopus_import: 1
status: public
title: Entropic Ricci curvature bounds for discrete interacting systems
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2016'
...
---
_id: '1476'
abstract:
- lang: eng
text: The dynamic assembly and disassembly of actin filaments is essential for the
formation and transport of vesicles during endocytosis. In yeast, two types of
actin structures, namely cortical patches and cytoplasmic cables, play a direct
role in endocytosis, but how their interaction is regulated remains unclear. Here,
we show that Srv2/CAP, an evolutionarily conserved actin regulator, is required
for efficient endocytosis owing to its role in the formation of the actin patches
that aid initial vesicle invagination and of the actin cables that these move
along. Deletion of the SRV2 gene resulted in the appearance of aberrant fragmented
actin cables that frequently moved past actin patches, the sites of endocytosis.
We find that the C-terminal CARP domain of Srv2p is vitally important for the
proper assembly of actin patches and cables; we also demonstrate that the N-terminal
helical folded domain of Srv2 is required for its localization to actin patches,
specifically to the ADP-actin rich region through an interaction with cofilin.
These results demonstrate the in vivo roles of Srv2p in the regulation of the
actin cytoskeleton during clathrin-mediated endocytosis
acknowledgement: We are grateful to Anthony Bretscher (Cornell University, NY) for
providing the bni1-12 bnr1Δ (Y4135) strain. J.Y.T. was supported by a Japan Society
for the Promotion of Science (JSPS) KAKENHI grant [grant number 26440067]; the Takeda
Science Foundation; and the Novartis Foundation (Japan). J.T. was supported by a
JSPS KAKENHI grant [grant number 25440054]; the Takeda Science Foundation; and the
Kurata Memorial Hitachi Science and Technology Foundation. D.E.S. was supported
by the European Union [grant number PCIG12-GA-2012-334077].
author:
- first_name: Junko
full_name: Toshima, Junko
last_name: Toshima
- first_name: Chika
full_name: Horikomi, Chika
last_name: Horikomi
- first_name: Asuka
full_name: Okada, Asuka
last_name: Okada
- first_name: Makiko
full_name: Hatori, Makiko
last_name: Hatori
- first_name: Makoto
full_name: Nagano, Makoto
last_name: Nagano
- first_name: Atsushi
full_name: Masuda, Atsushi
last_name: Masuda
- first_name: Wataru
full_name: Yamamoto, Wataru
last_name: Yamamoto
- first_name: Daria E
full_name: Siekhaus, Daria E
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: Jiro
full_name: Toshima, Jiro
last_name: Toshima
citation:
ama: Toshima J, Horikomi C, Okada A, et al. Srv2/CAP is required for polarized actin
cable assembly and patch internalization during clathrin-mediated endocytosis.
Journal of Cell Science. 2016;129(2):367-379. doi:10.1242/jcs.176651
apa: Toshima, J., Horikomi, C., Okada, A., Hatori, M., Nagano, M., Masuda, A., …
Toshima, J. (2016). Srv2/CAP is required for polarized actin cable assembly and
patch internalization during clathrin-mediated endocytosis. Journal of Cell
Science. Company of Biologists. https://doi.org/10.1242/jcs.176651
chicago: Toshima, Junko, Chika Horikomi, Asuka Okada, Makiko Hatori, Makoto Nagano,
Atsushi Masuda, Wataru Yamamoto, Daria E Siekhaus, and Jiro Toshima. “Srv2/CAP
Is Required for Polarized Actin Cable Assembly and Patch Internalization during
Clathrin-Mediated Endocytosis.” Journal of Cell Science. Company of Biologists,
2016. https://doi.org/10.1242/jcs.176651.
ieee: J. Toshima et al., “Srv2/CAP is required for polarized actin cable
assembly and patch internalization during clathrin-mediated endocytosis,” Journal
of Cell Science, vol. 129, no. 2. Company of Biologists, pp. 367–379, 2016.
ista: Toshima J, Horikomi C, Okada A, Hatori M, Nagano M, Masuda A, Yamamoto W,
Siekhaus DE, Toshima J. 2016. Srv2/CAP is required for polarized actin cable assembly
and patch internalization during clathrin-mediated endocytosis. Journal of Cell
Science. 129(2), 367–379.
mla: Toshima, Junko, et al. “Srv2/CAP Is Required for Polarized Actin Cable Assembly
and Patch Internalization during Clathrin-Mediated Endocytosis.” Journal of
Cell Science, vol. 129, no. 2, Company of Biologists, 2016, pp. 367–79, doi:10.1242/jcs.176651.
short: J. Toshima, C. Horikomi, A. Okada, M. Hatori, M. Nagano, A. Masuda, W. Yamamoto,
D.E. Siekhaus, J. Toshima, Journal of Cell Science 129 (2016) 367–379.
date_created: 2018-12-11T11:52:14Z
date_published: 2016-01-15T00:00:00Z
date_updated: 2021-01-12T06:51:00Z
day: '15'
ddc:
- '570'
- '576'
department:
- _id: DaSi
doi: 10.1242/jcs.176651
ec_funded: 1
file:
- access_level: open_access
checksum: 2da0a09149a9ed956cdf79a95c17f08a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:08Z
date_updated: 2020-07-14T12:44:56Z
file_id: '4861'
file_name: IST-2017-767-v1+1_367.full.pdf
file_size: 7176912
relation: main_file
file_date_updated: 2020-07-14T12:44:56Z
has_accepted_license: '1'
intvolume: ' 129'
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 367 - 379
project:
- _id: 2536F660-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '334077'
name: Investigating the role of transporters in invasive migration through junctions
publication: Journal of Cell Science
publication_status: published
publisher: Company of Biologists
publist_id: '5720'
pubrep_id: '767'
quality_controlled: '1'
scopus_import: 1
status: public
title: Srv2/CAP is required for polarized actin cable assembly and patch internalization
during clathrin-mediated endocytosis
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 129
year: '2016'
...
---
_id: '1475'
abstract:
- lang: eng
text: The actin cytoskeleton plays important roles in the formation and internalization
of endocytic vesicles. In yeast, endocytic vesicles move towards early endosomes
along actin cables, however, the molecular machinery regulating interaction between
endocytic vesicles and actin cables is poorly understood. The Eps15-like protein
Pan1p plays a key role in actin-mediated endocytosis and is negatively regulated
by Ark1 and Prk1 kinases. Here we show that pan1 mutated to prevent phosphorylation
at all 18 threonines, pan1-18TA, displayed almost the same endocytic defect as
ark1Δ prk1Δ cells, and contained abnormal actin concentrations including several
endocytic compartments. Early endosomes were highly localized in the actin concentrations
and displayed movement along actin cables. The dephosphorylated form of Pan1p
also caused stable associations between endocytic vesicles and actin cables, and
between endocytic vesicles and endosomes. Thus Pan1 phosphorylation is part of
a novel mechanism that regulates endocytic compartment interactions with each
other and with actin cables.
article_number: e10276
author:
- first_name: Junko
full_name: Toshima, Junko
last_name: Toshima
- first_name: Eri
full_name: Furuya, Eri
last_name: Furuya
- first_name: Makoto
full_name: Nagano, Makoto
last_name: Nagano
- first_name: Chisa
full_name: Kanno, Chisa
last_name: Kanno
- first_name: Yuta
full_name: Sakamoto, Yuta
last_name: Sakamoto
- first_name: Masashi
full_name: Ebihara, Masashi
last_name: Ebihara
- first_name: Daria E
full_name: Siekhaus, Daria E
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: Jiro
full_name: Toshima, Jiro
last_name: Toshima
citation:
ama: Toshima J, Furuya E, Nagano M, et al. Yeast Eps15-like endocytic protein Pan1p
regulates the interaction between endocytic vesicles, endosomes and the actin
cytoskeleton. eLife. 2016;5(February 2016). doi:10.7554/eLife.10276
apa: Toshima, J., Furuya, E., Nagano, M., Kanno, C., Sakamoto, Y., Ebihara, M.,
… Toshima, J. (2016). Yeast Eps15-like endocytic protein Pan1p regulates the interaction
between endocytic vesicles, endosomes and the actin cytoskeleton. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.10276
chicago: Toshima, Junko, Eri Furuya, Makoto Nagano, Chisa Kanno, Yuta Sakamoto,
Masashi Ebihara, Daria E Siekhaus, and Jiro Toshima. “Yeast Eps15-like Endocytic
Protein Pan1p Regulates the Interaction between Endocytic Vesicles, Endosomes
and the Actin Cytoskeleton.” ELife. eLife Sciences Publications, 2016.
https://doi.org/10.7554/eLife.10276.
ieee: J. Toshima et al., “Yeast Eps15-like endocytic protein Pan1p regulates
the interaction between endocytic vesicles, endosomes and the actin cytoskeleton,”
eLife, vol. 5, no. February 2016. eLife Sciences Publications, 2016.
ista: Toshima J, Furuya E, Nagano M, Kanno C, Sakamoto Y, Ebihara M, Siekhaus DE,
Toshima J. 2016. Yeast Eps15-like endocytic protein Pan1p regulates the interaction
between endocytic vesicles, endosomes and the actin cytoskeleton. eLife. 5(February
2016), e10276.
mla: Toshima, Junko, et al. “Yeast Eps15-like Endocytic Protein Pan1p Regulates
the Interaction between Endocytic Vesicles, Endosomes and the Actin Cytoskeleton.”
ELife, vol. 5, no. February 2016, e10276, eLife Sciences Publications,
2016, doi:10.7554/eLife.10276.
short: J. Toshima, E. Furuya, M. Nagano, C. Kanno, Y. Sakamoto, M. Ebihara, D.E.
Siekhaus, J. Toshima, ELife 5 (2016).
date_created: 2018-12-11T11:52:14Z
date_published: 2016-02-25T00:00:00Z
date_updated: 2021-01-12T06:50:59Z
day: '25'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.7554/eLife.10276
ec_funded: 1
file:
- access_level: open_access
checksum: d1cc44870580756ba8badd8e41adfdb5
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:08Z
date_updated: 2020-07-14T12:44:56Z
file_id: '4793'
file_name: IST-2016-529-v1+1_elife-10276-v1.pdf
file_size: 5198001
relation: main_file
file_date_updated: 2020-07-14T12:44:56Z
has_accepted_license: '1'
intvolume: ' 5'
issue: February 2016
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 2536F660-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '334077'
name: Investigating the role of transporters in invasive migration through junctions
publication: eLife
publication_status: published
publisher: eLife Sciences Publications
publist_id: '5721'
pubrep_id: '529'
quality_controlled: '1'
scopus_import: 1
status: public
title: Yeast Eps15-like endocytic protein Pan1p regulates the interaction between
endocytic vesicles, endosomes and the actin cytoskeleton
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: 5
year: '2016'
...
---
_id: '1478'
abstract:
- lang: eng
text: We consider the Tonks-Girardeau gas subject to a random external potential.
If the disorder is such that the underlying one-particle Hamiltonian displays
localization (which is known to be generically the case), we show that there is
exponential decay of correlations in the many-body eigenstates. Moreover, there
is no Bose-Einstein condensation and no superfluidity, even at zero temperature.
article_number: '035002'
author:
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Simone
full_name: Warzel, Simone
last_name: Warzel
citation:
ama: Seiringer R, Warzel S. Decay of correlations and absence of superfluidity in
the disordered Tonks-Girardeau gas. New Journal of Physics. 2016;18(3).
doi:10.1088/1367-2630/18/3/035002
apa: Seiringer, R., & Warzel, S. (2016). Decay of correlations and absence of
superfluidity in the disordered Tonks-Girardeau gas. New Journal of Physics.
IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/18/3/035002
chicago: Seiringer, Robert, and Simone Warzel. “Decay of Correlations and Absence
of Superfluidity in the Disordered Tonks-Girardeau Gas.” New Journal of Physics.
IOP Publishing Ltd., 2016. https://doi.org/10.1088/1367-2630/18/3/035002.
ieee: R. Seiringer and S. Warzel, “Decay of correlations and absence of superfluidity
in the disordered Tonks-Girardeau gas,” New Journal of Physics, vol. 18,
no. 3. IOP Publishing Ltd., 2016.
ista: Seiringer R, Warzel S. 2016. Decay of correlations and absence of superfluidity
in the disordered Tonks-Girardeau gas. New Journal of Physics. 18(3), 035002.
mla: Seiringer, Robert, and Simone Warzel. “Decay of Correlations and Absence of
Superfluidity in the Disordered Tonks-Girardeau Gas.” New Journal of Physics,
vol. 18, no. 3, 035002, IOP Publishing Ltd., 2016, doi:10.1088/1367-2630/18/3/035002.
short: R. Seiringer, S. Warzel, New Journal of Physics 18 (2016).
date_created: 2018-12-11T11:52:15Z
date_published: 2016-02-29T00:00:00Z
date_updated: 2021-01-12T06:51:01Z
day: '29'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1088/1367-2630/18/3/035002
file:
- access_level: open_access
checksum: 4f959eabc19d2a2f518318a450a4d424
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:22Z
date_updated: 2020-07-14T12:44:56Z
file_id: '5276'
file_name: IST-2016-579-v1+1_njp_18_3_035002.pdf
file_size: 965607
relation: main_file
file_date_updated: 2020-07-14T12:44:56Z
has_accepted_license: '1'
intvolume: ' 18'
issue: '3'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
publication: New Journal of Physics
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5716'
pubrep_id: '579'
quality_controlled: '1'
scopus_import: 1
status: public
title: Decay of correlations and absence of superfluidity in the disordered Tonks-Girardeau
gas
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: 18
year: '2016'
...
---
_id: '1480'
abstract:
- lang: eng
text: 'Exponential varieties arise from exponential families in statistics. These
real algebraic varieties have strong positivity and convexity properties, familiar
from toric varieties and their moment maps. Among them are varieties of inverses
of symmetric matrices satisfying linear constraints. This class includes Gaussian
graphical models. We develop a general theory of exponential varieties. These
are derived from hyperbolic polynomials and their integral representations. We
compare the multidegrees and ML degrees of the gradient map for hyperbolic polynomials. '
author:
- first_name: Mateusz
full_name: Michałek, Mateusz
last_name: Michałek
- first_name: Bernd
full_name: Sturmfels, Bernd
last_name: Sturmfels
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
- first_name: Piotr
full_name: Zwiernik, Piotr
last_name: Zwiernik
citation:
ama: Michałek M, Sturmfels B, Uhler C, Zwiernik P. Exponential varieties. Proceedings
of the London Mathematical Society. 2016;112(1):27-56. doi:10.1112/plms/pdv066
apa: Michałek, M., Sturmfels, B., Uhler, C., & Zwiernik, P. (2016). Exponential
varieties. Proceedings of the London Mathematical Society. Oxford University
Press. https://doi.org/10.1112/plms/pdv066
chicago: Michałek, Mateusz, Bernd Sturmfels, Caroline Uhler, and Piotr Zwiernik.
“Exponential Varieties.” Proceedings of the London Mathematical Society.
Oxford University Press, 2016. https://doi.org/10.1112/plms/pdv066.
ieee: M. Michałek, B. Sturmfels, C. Uhler, and P. Zwiernik, “Exponential varieties,”
Proceedings of the London Mathematical Society, vol. 112, no. 1. Oxford
University Press, pp. 27–56, 2016.
ista: Michałek M, Sturmfels B, Uhler C, Zwiernik P. 2016. Exponential varieties.
Proceedings of the London Mathematical Society. 112(1), 27–56.
mla: Michałek, Mateusz, et al. “Exponential Varieties.” Proceedings of the London
Mathematical Society, vol. 112, no. 1, Oxford University Press, 2016, pp.
27–56, doi:10.1112/plms/pdv066.
short: M. Michałek, B. Sturmfels, C. Uhler, P. Zwiernik, Proceedings of the London
Mathematical Society 112 (2016) 27–56.
date_created: 2018-12-11T11:52:16Z
date_published: 2016-01-07T00:00:00Z
date_updated: 2021-01-12T06:51:02Z
day: '07'
department:
- _id: CaUh
doi: 10.1112/plms/pdv066
intvolume: ' 112'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1412.6185
month: '01'
oa: 1
oa_version: Preprint
page: 27 - 56
publication: Proceedings of the London Mathematical Society
publication_status: published
publisher: Oxford University Press
publist_id: '5714'
quality_controlled: '1'
scopus_import: 1
status: public
title: Exponential varieties
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 112
year: '2016'
...
---
_id: '1487'
abstract:
- lang: eng
text: Rhythms with time scales of multiple cycles per second permeate the mammalian
brain, yet neuroscientists are not certain of their functional roles. One leading
idea is that coherent oscillation between two brain regions facilitates the exchange
of information between them. In rats, the hippocampus and the vibrissal sensorimotor
system both are characterized by rhythmic oscillation in the theta range, 5–12
Hz. Previous work has been divided as to whether the two rhythms are independent
or coherent. To resolve this question, we acquired three measures from rats—whisker
motion, hippocampal local field potential (LFP), and barrel cortex unit firing—during
a whisker-mediated texture discrimination task and during control conditions (not
engaged in a whisker-mediated memory task). Compared to control conditions, the
theta band of hippocampal LFP showed a marked increase in power as the rats approached
and then palpated the texture. Phase synchronization between whisking and hippocampal
LFP increased by almost 50% during approach and texture palpation. In addition,
a greater proportion of barrel cortex neurons showed firing that was phase-locked
to hippocampal theta while rats were engaged in the discrimination task. Consistent
with a behavioral consequence of phase synchronization, the rats identified the
texture more rapidly and with lower error likelihood on trials in which there
was an increase in theta-whisking coherence at the moment of texture palpation.
These results suggest that coherence between the whisking rhythm, barrel cortex
firing, and hippocampal LFP is augmented selectively during epochs in which the
rat collects sensory information and that such coherence enhances the efficiency
of integration of stimulus information into memory and decision-making centers.
acknowledgement: We thank Eric Maris, Demian Battaglia, and Rodrigo Quian Quiroga
for useful discussions. We are grateful to Fabrizio Manzino and Marco Gigante for
construction of the behavioral apparatus, Igor Perkon for developing custom whisker
tracking software and to Francesca Pulecchi for animal care and histological processing.
article_number: e1002384
author:
- first_name: Natalia
full_name: Grion, Natalia
last_name: Grion
- first_name: Athena
full_name: Akrami, Athena
last_name: Akrami
- first_name: Yangfang
full_name: Zuo, Yangfang
last_name: Zuo
- first_name: Federico
full_name: Stella, Federico
id: 39AF1E74-F248-11E8-B48F-1D18A9856A87
last_name: Stella
orcid: 0000-0001-9439-3148
- first_name: Mathew
full_name: Diamond, Mathew
last_name: Diamond
citation:
ama: Grion N, Akrami A, Zuo Y, Stella F, Diamond M. Coherence between rat sensorimotor
system and hippocampus is enhanced during tactile discrimination. PLoS Biology.
2016;14(2). doi:10.1371/journal.pbio.1002384
apa: Grion, N., Akrami, A., Zuo, Y., Stella, F., & Diamond, M. (2016). Coherence
between rat sensorimotor system and hippocampus is enhanced during tactile discrimination.
PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1002384
chicago: Grion, Natalia, Athena Akrami, Yangfang Zuo, Federico Stella, and Mathew
Diamond. “Coherence between Rat Sensorimotor System and Hippocampus Is Enhanced
during Tactile Discrimination.” PLoS Biology. Public Library of Science,
2016. https://doi.org/10.1371/journal.pbio.1002384.
ieee: N. Grion, A. Akrami, Y. Zuo, F. Stella, and M. Diamond, “Coherence between
rat sensorimotor system and hippocampus is enhanced during tactile discrimination,”
PLoS Biology, vol. 14, no. 2. Public Library of Science, 2016.
ista: Grion N, Akrami A, Zuo Y, Stella F, Diamond M. 2016. Coherence between rat
sensorimotor system and hippocampus is enhanced during tactile discrimination.
PLoS Biology. 14(2), e1002384.
mla: Grion, Natalia, et al. “Coherence between Rat Sensorimotor System and Hippocampus
Is Enhanced during Tactile Discrimination.” PLoS Biology, vol. 14, no.
2, e1002384, Public Library of Science, 2016, doi:10.1371/journal.pbio.1002384.
short: N. Grion, A. Akrami, Y. Zuo, F. Stella, M. Diamond, PLoS Biology 14 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-02-18T00:00:00Z
date_updated: 2021-01-12T06:51:05Z
day: '18'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1371/journal.pbio.1002384
file:
- access_level: open_access
checksum: 3a5ce0d4e4e36bd6ceb4be761f85644a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:11Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5129'
file_name: IST-2016-518-v1+1_journal.pbio.1002384.PDF
file_size: 2879899
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 14'
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '5700'
pubrep_id: '518'
quality_controlled: '1'
scopus_import: 1
status: public
title: Coherence between rat sensorimotor system and hippocampus is enhanced during
tactile discrimination
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: 14
year: '2016'
...
---
_id: '1482'
abstract:
- lang: eng
text: Plants have the ability to continously generate new organs by maintaining
populations of stem cells throught their lives. The shoot apical meristem (SAM)
provides a stable environment for the maintenance of stem cells. All cells inside
the SAM divide, yet boundaries and patterns are maintained. Experimental evidence
indicates that patterning is independent of cell lineage, thus a dynamic self-regulatory
mechanism is required. A pivotal role in the organization of the SAM is played
by the WUSCHEL gene (WUS). An important question in this regard is that how WUS
expression is positioned in the SAM via a cell-lineage independent signaling mechanism.
In this study we demonstrate via mathematical modeling that a combination of an
inhibitor of the Cytokinin (CK) receptor, Arabidopsis histidine kinase 4 (AHK4)
and two morphogens originating from the top cell layer, can plausibly account
for the cell lineage-independent centering of WUS expression within SAM. Furthermore,
our laser ablation and microsurgical experiments support the hypothesis that patterning
in SAM occurs at the level of CK reception and signaling. The model suggests that
the interplay between CK signaling, WUS/CLV feedback loop and boundary signals
can account for positioning of the WUS expression, and provides directions for
further experimental investigation.
acknowledgement: We thank J. Traas, B. Müller and V. Reddy for providing seed materials
and Y. Deb for advice regarding the laser ablation experiments. We specially thank
Thomas Laux for stimulating discussions and support in the initial phase of this
project.
article_number: e0147830
author:
- first_name: Milad
full_name: Adibi, Milad
last_name: Adibi
- first_name: Saiko
full_name: Yoshida, Saiko
id: 2E46069C-F248-11E8-B48F-1D18A9856A87
last_name: Yoshida
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Christian
full_name: Fleck, Christian
last_name: Fleck
citation:
ama: Adibi M, Yoshida S, Weijers D, Fleck C. Centering the organizing center in
the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling
and self-organization. PLoS One. 2016;11(2). doi:10.1371/journal.pone.0147830
apa: Adibi, M., Yoshida, S., Weijers, D., & Fleck, C. (2016). Centering the
organizing center in the Arabidopsis thaliana shoot apical meristem by a combination
of cytokinin signaling and self-organization. PLoS One. Public Library
of Science. https://doi.org/10.1371/journal.pone.0147830
chicago: Adibi, Milad, Saiko Yoshida, Dolf Weijers, and Christian Fleck. “Centering
the Organizing Center in the Arabidopsis Thaliana Shoot Apical Meristem by a Combination
of Cytokinin Signaling and Self-Organization.” PLoS One. Public Library
of Science, 2016. https://doi.org/10.1371/journal.pone.0147830.
ieee: M. Adibi, S. Yoshida, D. Weijers, and C. Fleck, “Centering the organizing
center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin
signaling and self-organization,” PLoS One, vol. 11, no. 2. Public Library
of Science, 2016.
ista: Adibi M, Yoshida S, Weijers D, Fleck C. 2016. Centering the organizing center
in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin
signaling and self-organization. PLoS One. 11(2), e0147830.
mla: Adibi, Milad, et al. “Centering the Organizing Center in the Arabidopsis Thaliana
Shoot Apical Meristem by a Combination of Cytokinin Signaling and Self-Organization.”
PLoS One, vol. 11, no. 2, e0147830, Public Library of Science, 2016, doi:10.1371/journal.pone.0147830.
short: M. Adibi, S. Yoshida, D. Weijers, C. Fleck, PLoS One 11 (2016).
date_created: 2018-12-11T11:52:17Z
date_published: 2016-02-01T00:00:00Z
date_updated: 2021-01-12T06:51:03Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1371/journal.pone.0147830
file:
- access_level: open_access
checksum: 6066146e527335030f83aa5924ab72a6
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:16Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5066'
file_name: IST-2016-521-v1+1_journal.pone.0147830.PDF
file_size: 4297148
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 11'
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '5711'
pubrep_id: '521'
quality_controlled: '1'
scopus_import: 1
status: public
title: Centering the organizing center in the Arabidopsis thaliana shoot apical meristem
by a combination of cytokinin signaling and self-organization
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: 11
year: '2016'
...
---
_id: '1484'
acknowledgement: We thank Maciek Adamowski for helpful discussions and Qiang Zhu and
Israel Ausin for critical reading of the manuscript. We sincerely apologize to colleagues
whose work we could not include owing to space limitations.
article_type: review
author:
- first_name: Xu
full_name: Chen, Xu
id: 4E5ADCAA-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Shuang
full_name: Wu, Shuang
last_name: Wu
- first_name: Zengyu
full_name: Liu, Zengyu
last_name: Liu
- first_name: Jiřĺ
full_name: Friml, Jiřĺ
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Chen X, Wu S, Liu Z, Friml J. Environmental and endogenous control of cortical
microtubule orientation. Trends in Cell Biology. 2016;26(6):409-419. doi:10.1016/j.tcb.2016.02.003
apa: Chen, X., Wu, S., Liu, Z., & Friml, J. (2016). Environmental and endogenous
control of cortical microtubule orientation. Trends in Cell Biology. Cell
Press. https://doi.org/10.1016/j.tcb.2016.02.003
chicago: Chen, Xu, Shuang Wu, Zengyu Liu, and Jiří Friml. “Environmental and Endogenous
Control of Cortical Microtubule Orientation.” Trends in Cell Biology. Cell
Press, 2016. https://doi.org/10.1016/j.tcb.2016.02.003.
ieee: X. Chen, S. Wu, Z. Liu, and J. Friml, “Environmental and endogenous control
of cortical microtubule orientation,” Trends in Cell Biology, vol. 26,
no. 6. Cell Press, pp. 409–419, 2016.
ista: Chen X, Wu S, Liu Z, Friml J. 2016. Environmental and endogenous control of
cortical microtubule orientation. Trends in Cell Biology. 26(6), 409–419.
mla: Chen, Xu, et al. “Environmental and Endogenous Control of Cortical Microtubule
Orientation.” Trends in Cell Biology, vol. 26, no. 6, Cell Press, 2016,
pp. 409–19, doi:10.1016/j.tcb.2016.02.003.
short: X. Chen, S. Wu, Z. Liu, J. Friml, Trends in Cell Biology 26 (2016) 409–419.
date_created: 2018-12-11T11:52:17Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2021-01-12T06:51:04Z
day: '01'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1016/j.tcb.2016.02.003
file:
- access_level: open_access
checksum: b229e5bb4676ec3e27b7b9ea603b3a63
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:34Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5155'
file_name: IST-2018-1002-v1+1_Chen_TICB_2016_proofs.pdf
file_size: 2329117
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 26'
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 409 - 419
publication: Trends in Cell Biology
publication_status: published
publisher: Cell Press
publist_id: '5704'
pubrep_id: '1002'
quality_controlled: '1'
scopus_import: 1
status: public
title: Environmental and endogenous control of cortical microtubule orientation
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2016'
...
---
_id: '1485'
abstract:
- lang: eng
text: In this article the notion of metabolic turnover is revisited in the light
of recent results of out-of-equilibrium thermodynamics. By means of Monte Carlo
methods we perform an exact sampling of the enzymatic fluxes in a genome scale
metabolic network of E. Coli in stationary growth conditions from which we infer
the metabolites turnover times. However the latter are inferred from net fluxes,
and we argue that this approximation is not valid for enzymes working nearby thermodynamic
equilibrium. We recalculate turnover times from total fluxes by performing an
energy balance analysis of the network and recurring to the fluctuation theorem.
We find in many cases values one of order of magnitude lower, implying a faster
picture of intermediate metabolism.
article_number: '016003'
author:
- first_name: Daniele
full_name: De Martino, Daniele
id: 3FF5848A-F248-11E8-B48F-1D18A9856A87
last_name: De Martino
orcid: 0000-0002-5214-4706
citation:
ama: De Martino D. Genome-scale estimate of the metabolic turnover of E. Coli from
the energy balance analysis. Physical Biology. 2016;13(1). doi:10.1088/1478-3975/13/1/016003
apa: De Martino, D. (2016). Genome-scale estimate of the metabolic turnover of E.
Coli from the energy balance analysis. Physical Biology. IOP Publishing
Ltd. https://doi.org/10.1088/1478-3975/13/1/016003
chicago: De Martino, Daniele. “Genome-Scale Estimate of the Metabolic Turnover of
E. Coli from the Energy Balance Analysis.” Physical Biology. IOP Publishing
Ltd., 2016. https://doi.org/10.1088/1478-3975/13/1/016003.
ieee: D. De Martino, “Genome-scale estimate of the metabolic turnover of E. Coli
from the energy balance analysis,” Physical Biology, vol. 13, no. 1. IOP
Publishing Ltd., 2016.
ista: De Martino D. 2016. Genome-scale estimate of the metabolic turnover of E.
Coli from the energy balance analysis. Physical Biology. 13(1), 016003.
mla: De Martino, Daniele. “Genome-Scale Estimate of the Metabolic Turnover of E.
Coli from the Energy Balance Analysis.” Physical Biology, vol. 13, no.
1, 016003, IOP Publishing Ltd., 2016, doi:10.1088/1478-3975/13/1/016003.
short: D. De Martino, Physical Biology 13 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-01-29T00:00:00Z
date_updated: 2021-01-12T06:51:04Z
day: '29'
department:
- _id: GaTk
doi: 10.1088/1478-3975/13/1/016003
ec_funded: 1
intvolume: ' 13'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1505.04613
month: '01'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Biology
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5702'
quality_controlled: '1'
scopus_import: 1
status: public
title: Genome-scale estimate of the metabolic turnover of E. Coli from the energy
balance analysis
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2016'
...
---
_id: '1486'
abstract:
- lang: eng
text: We review recent results concerning the mathematical properties of the Bardeen-Cooper-Schrieffer
(BCS) functional of superconductivity, which were obtained in a series of papers,
partly in collaboration with R. Frank, E. Hamza, S. Naboko, and J. P. Solovej.
Our discussion includes, in particular, an investigation of the critical temperature
for a general class of interaction potentials, as well as a study of its dependence
on external fields. We shall explain how the Ginzburg-Landau model can be derived
from the BCS theory in a suitable parameter regime.
article_number: '021101'
author:
- first_name: Christian
full_name: Hainzl, Christian
last_name: Hainzl
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Hainzl C, Seiringer R. The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties. Journal of Mathematical Physics. 2016;57(2).
doi:10.1063/1.4941723
apa: Hainzl, C., & Seiringer, R. (2016). The Bardeen–Cooper–Schrieffer functional
of superconductivity and its mathematical properties. Journal of Mathematical
Physics. American Institute of Physics. https://doi.org/10.1063/1.4941723
chicago: Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer
Functional of Superconductivity and Its Mathematical Properties.” Journal of
Mathematical Physics. American Institute of Physics, 2016. https://doi.org/10.1063/1.4941723.
ieee: C. Hainzl and R. Seiringer, “The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties,” Journal of Mathematical Physics, vol.
57, no. 2. American Institute of Physics, 2016.
ista: Hainzl C, Seiringer R. 2016. The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties. Journal of Mathematical Physics. 57(2), 021101.
mla: Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer Functional
of Superconductivity and Its Mathematical Properties.” Journal of Mathematical
Physics, vol. 57, no. 2, 021101, American Institute of Physics, 2016, doi:10.1063/1.4941723.
short: C. Hainzl, R. Seiringer, Journal of Mathematical Physics 57 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-02-24T00:00:00Z
date_updated: 2021-01-12T06:51:04Z
day: '24'
department:
- _id: RoSe
doi: 10.1063/1.4941723
intvolume: ' 57'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1511.01995
month: '02'
oa: 1
oa_version: Preprint
publication: Journal of Mathematical Physics
publication_status: published
publisher: American Institute of Physics
publist_id: '5701'
quality_controlled: '1'
scopus_import: 1
status: public
title: The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical
properties
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 57
year: '2016'
...
---
_id: '1488'
abstract:
- lang: eng
text: Branching morphogenesis of the epithelial ureteric bud forms the renal collecting
duct system and is critical for normal nephron number, while low nephron number
is implicated in hypertension and renal disease. Ureteric bud growth and branching
requires GDNF signaling from the surrounding mesenchyme to cells at the ureteric
bud tips, via the Ret receptor tyrosine kinase and coreceptor Gfrα1; Ret signaling
up-regulates transcription factors Etv4 and Etv5, which are also critical for
branching. Despite extensive knowledge of the genetic control of these events,
it is not understood, at the cellular level, how renal branching morphogenesis
is achieved or how Ret signaling influences epithelial cell behaviors to promote
this process. Analysis of chimeric embryos previously suggested a role for Ret
signaling in promoting cell rearrangements in the nephric duct, but this method
was unsuited to study individual cell behaviors during ureteric bud branching.
Here, we use Mosaic Analysis with Double Markers (MADM), combined with organ culture
and time-lapse imaging, to trace the movements and divisions of individual ureteric
bud tip cells. We first examine wild-type clones and then Ret or Etv4 mutant/wild-type
clones in which the mutant and wild-type sister cells are differentially and heritably
marked by green and red fluorescent proteins. We find that, in normal kidneys,
most individual tip cells behave as self-renewing progenitors, some of whose progeny
remain at the tips while others populate the growing UB trunks. In Ret or Etv4
MADM clones, the wild-type cells generated at a UB tip are much more likely to
remain at, or move to, the new tips during branching and elongation, while their
Ret−/− or Etv4−/− sister cells tend to lag behind and contribute only to the trunks.
By tracking successive mitoses in a cell lineage, we find that Ret signaling has
little effect on proliferation, in contrast to its effects on cell movement. Our
results show that Ret/Etv4 signaling promotes directed cell movements in the ureteric
bud tips, and suggest a model in which these cell movements mediate branching
morphogenesis.
acknowledgement: We thank Silvia Arber, Thomas Jessell, Kenneth M. Murphy, Carlton
Bates, Hideki Enomoto, Liqun Luo and Andrew McMahon for mouse strains; Thomas Jessell
for antibodies; and Laura Martinez Prat for experimental assistance.
article_number: e1002382
author:
- first_name: Paul
full_name: Riccio, Paul
last_name: Riccio
- first_name: Cristina
full_name: Cebrián, Cristina
last_name: Cebrián
- first_name: Hui
full_name: Zong, Hui
last_name: Zong
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Frank
full_name: Costantini, Frank
last_name: Costantini
citation:
ama: Riccio P, Cebrián C, Zong H, Hippenmeyer S, Costantini F. Ret and Etv4 promote
directed movements of progenitor cells during renal branching morphogenesis. PLoS
Biology. 2016;14(2). doi:10.1371/journal.pbio.1002382
apa: Riccio, P., Cebrián, C., Zong, H., Hippenmeyer, S., & Costantini, F. (2016).
Ret and Etv4 promote directed movements of progenitor cells during renal branching
morphogenesis. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1002382
chicago: Riccio, Paul, Cristina Cebrián, Hui Zong, Simon Hippenmeyer, and Frank
Costantini. “Ret and Etv4 Promote Directed Movements of Progenitor Cells during
Renal Branching Morphogenesis.” PLoS Biology. Public Library of Science,
2016. https://doi.org/10.1371/journal.pbio.1002382.
ieee: P. Riccio, C. Cebrián, H. Zong, S. Hippenmeyer, and F. Costantini, “Ret and
Etv4 promote directed movements of progenitor cells during renal branching morphogenesis,”
PLoS Biology, vol. 14, no. 2. Public Library of Science, 2016.
ista: Riccio P, Cebrián C, Zong H, Hippenmeyer S, Costantini F. 2016. Ret and Etv4
promote directed movements of progenitor cells during renal branching morphogenesis.
PLoS Biology. 14(2), e1002382.
mla: Riccio, Paul, et al. “Ret and Etv4 Promote Directed Movements of Progenitor
Cells during Renal Branching Morphogenesis.” PLoS Biology, vol. 14, no.
2, e1002382, Public Library of Science, 2016, doi:10.1371/journal.pbio.1002382.
short: P. Riccio, C. Cebrián, H. Zong, S. Hippenmeyer, F. Costantini, PLoS Biology
14 (2016).
date_created: 2018-12-11T11:52:19Z
date_published: 2016-02-19T00:00:00Z
date_updated: 2023-02-23T10:01:08Z
day: '19'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1371/journal.pbio.1002382
file:
- access_level: open_access
checksum: 7f8fa1b3a29f94c0a14dd4465278cdbc
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:42Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5027'
file_name: IST-2016-517-v1+1_journal.pbio.1002382_1_.PDF
file_size: 5904773
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 14'
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '5699'
pubrep_id: '517'
quality_controlled: '1'
related_material:
record:
- id: '9703'
relation: research_data
status: deleted
scopus_import: 1
status: public
title: Ret and Etv4 promote directed movements of progenitor cells during renal branching
morphogenesis
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: 14
year: '2016'
...
---
_id: '1489'
abstract:
- lang: eng
text: 'We prove optimal local law, bulk universality and non-trivial decay for the
off-diagonal elements of the resolvent for a class of translation invariant Gaussian
random matrix ensembles with correlated entries. '
acknowledgement: Open access funding provided by Institute of Science and Technology
(IST Austria). Oskari H. Ajanki was Partially supported by ERC Advanced Grant RANMAT
No. 338804, and SFB-TR 12 Grant of the German Research Council. László Erdős was
Partially supported by ERC Advanced Grant RANMAT No. 338804. Torben Krüger was Partially
supported by ERC Advanced Grant RANMAT No. 338804, and SFB-TR 12 Grant of the German
Research Council.
article_processing_charge: Yes (via OA deal)
author:
- first_name: Oskari H
full_name: Ajanki, Oskari H
id: 36F2FB7E-F248-11E8-B48F-1D18A9856A87
last_name: Ajanki
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
citation:
ama: Ajanki OH, Erdös L, Krüger TH. Local spectral statistics of Gaussian matrices
with correlated entries. Journal of Statistical Physics. 2016;163(2):280-302.
doi:10.1007/s10955-016-1479-y
apa: Ajanki, O. H., Erdös, L., & Krüger, T. H. (2016). Local spectral statistics
of Gaussian matrices with correlated entries. Journal of Statistical Physics.
Springer. https://doi.org/10.1007/s10955-016-1479-y
chicago: Ajanki, Oskari H, László Erdös, and Torben H Krüger. “Local Spectral Statistics
of Gaussian Matrices with Correlated Entries.” Journal of Statistical Physics.
Springer, 2016. https://doi.org/10.1007/s10955-016-1479-y.
ieee: O. H. Ajanki, L. Erdös, and T. H. Krüger, “Local spectral statistics of Gaussian
matrices with correlated entries,” Journal of Statistical Physics, vol.
163, no. 2. Springer, pp. 280–302, 2016.
ista: Ajanki OH, Erdös L, Krüger TH. 2016. Local spectral statistics of Gaussian
matrices with correlated entries. Journal of Statistical Physics. 163(2), 280–302.
mla: Ajanki, Oskari H., et al. “Local Spectral Statistics of Gaussian Matrices with
Correlated Entries.” Journal of Statistical Physics, vol. 163, no. 2, Springer,
2016, pp. 280–302, doi:10.1007/s10955-016-1479-y.
short: O.H. Ajanki, L. Erdös, T.H. Krüger, Journal of Statistical Physics 163 (2016)
280–302.
date_created: 2018-12-11T11:52:19Z
date_published: 2016-04-01T00:00:00Z
date_updated: 2021-01-12T06:51:05Z
day: '01'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1007/s10955-016-1479-y
ec_funded: 1
file:
- access_level: open_access
checksum: 7139598dcb1cafbe6866bd2bfd732b33
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:16Z
date_updated: 2020-07-14T12:44:57Z
file_id: '4869'
file_name: IST-2016-516-v1+1_s10955-016-1479-y.pdf
file_size: 660602
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 163'
issue: '2'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 280 - 302
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Journal of Statistical Physics
publication_status: published
publisher: Springer
publist_id: '5698'
pubrep_id: '516'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local spectral statistics of Gaussian matrices with correlated entries
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: 163
year: '2016'
...
---
_id: '1490'
abstract:
- lang: eng
text: To induce adaptive immunity, dendritic cells (DCs) migrate through afferent
lymphatic vessels (LVs) to draining lymph nodes (dLNs). This process occurs in
several consecutive steps. Upon entry into lymphatic capillaries, DCs first actively
crawl into downstream collecting vessels. From there, they are next passively
and rapidly transported to the dLN by lymph flow. Here, we describe a role for
the chemokine CCL21 in intralymphatic DC crawling. Performing time-lapse imaging
in murine skin, we found that blockade of CCL21-but not the absence of lymph flow-completely
abolished DC migration from capillaries toward collecting vessels and reduced
the ability of intralymphatic DCs to emigrate from skin. Moreover, we found that
in vitro low laminar flow established a CCL21 gradient along lymphatic endothelial
monolayers, thereby inducing downstream-directed DC migration. These findings
reveal a role for intralymphatic CCL21 in promoting DC trafficking to dLNs, through
the formation of a flow-induced gradient.
author:
- first_name: Erica
full_name: Russo, Erica
last_name: Russo
- first_name: Alvaro
full_name: Teijeira, Alvaro
last_name: Teijeira
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
- first_name: Ann
full_name: Willrodt, Ann
last_name: Willrodt
- first_name: Joël
full_name: Bloch, Joël
last_name: Bloch
- first_name: Maximilian
full_name: Nitschké, Maximilian
last_name: Nitschké
- first_name: Laura
full_name: Santambrogio, Laura
last_name: Santambrogio
- first_name: Dontscho
full_name: Kerjaschki, Dontscho
last_name: Kerjaschki
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Cornelia
full_name: Halin, Cornelia
last_name: Halin
citation:
ama: Russo E, Teijeira A, Vaahtomeri K, et al. Intralymphatic CCL21 promotes tissue
egress of dendritic cells through afferent lymphatic vessels. Cell Reports.
2016;14(7):1723-1734. doi:10.1016/j.celrep.2016.01.048
apa: Russo, E., Teijeira, A., Vaahtomeri, K., Willrodt, A., Bloch, J., Nitschké,
M., … Halin, C. (2016). Intralymphatic CCL21 promotes tissue egress of dendritic
cells through afferent lymphatic vessels. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2016.01.048
chicago: Russo, Erica, Alvaro Teijeira, Kari Vaahtomeri, Ann Willrodt, Joël Bloch,
Maximilian Nitschké, Laura Santambrogio, Dontscho Kerjaschki, Michael K Sixt,
and Cornelia Halin. “Intralymphatic CCL21 Promotes Tissue Egress of Dendritic
Cells through Afferent Lymphatic Vessels.” Cell Reports. Cell Press, 2016.
https://doi.org/10.1016/j.celrep.2016.01.048.
ieee: E. Russo et al., “Intralymphatic CCL21 promotes tissue egress of dendritic
cells through afferent lymphatic vessels,” Cell Reports, vol. 14, no. 7.
Cell Press, pp. 1723–1734, 2016.
ista: Russo E, Teijeira A, Vaahtomeri K, Willrodt A, Bloch J, Nitschké M, Santambrogio
L, Kerjaschki D, Sixt MK, Halin C. 2016. Intralymphatic CCL21 promotes tissue
egress of dendritic cells through afferent lymphatic vessels. Cell Reports. 14(7),
1723–1734.
mla: Russo, Erica, et al. “Intralymphatic CCL21 Promotes Tissue Egress of Dendritic
Cells through Afferent Lymphatic Vessels.” Cell Reports, vol. 14, no. 7,
Cell Press, 2016, pp. 1723–34, doi:10.1016/j.celrep.2016.01.048.
short: E. Russo, A. Teijeira, K. Vaahtomeri, A. Willrodt, J. Bloch, M. Nitschké,
L. Santambrogio, D. Kerjaschki, M.K. Sixt, C. Halin, Cell Reports 14 (2016) 1723–1734.
date_created: 2018-12-11T11:52:19Z
date_published: 2016-02-23T00:00:00Z
date_updated: 2021-01-12T06:51:07Z
day: '23'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1016/j.celrep.2016.01.048
file:
- access_level: open_access
checksum: c98c1151d5f1e5ce1643a83d8d7f3c29
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:30Z
date_updated: 2020-07-14T12:44:58Z
file_id: '4948'
file_name: IST-2016-515-v1+1_1-s2.0-S2211124716300262-main.pdf
file_size: 5489897
relation: main_file
file_date_updated: 2020-07-14T12:44:58Z
has_accepted_license: '1'
intvolume: ' 14'
issue: '7'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1723 - 1734
publication: Cell Reports
publication_status: published
publisher: Cell Press
publist_id: '5697'
pubrep_id: '515'
quality_controlled: '1'
scopus_import: 1
status: public
title: Intralymphatic CCL21 promotes tissue egress of dendritic cells through afferent
lymphatic vessels
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: 14
year: '2016'
...
---
_id: '1493'
abstract:
- lang: eng
text: We introduce a new method for deriving the time-dependent Hartree or Hartree-Fock
equations as an effective mean-field dynamics from the microscopic Schrödinger
equation for fermionic many-particle systems in quantum mechanics. The method
is an adaption of the method used in Pickl (Lett. Math. Phys. 97 (2) 151–164 2011)
for bosonic systems to fermionic systems. It is based on a Gronwall type estimate
for a suitable measure of distance between the microscopic solution and an antisymmetrized
product state. We use this method to treat a new mean-field limit for fermions
with long-range interactions in a large volume. Some of our results hold for singular
attractive or repulsive interactions. We can also treat Coulomb interaction assuming
either a mild singularity cutoff or certain regularity conditions on the solutions
to the Hartree(-Fock) equations. In the considered limit, the kinetic and interaction
energy are of the same order, while the average force is subleading. For some
interactions, we prove that the Hartree(-Fock) dynamics is a more accurate approximation
than a simpler dynamics that one would expect from the subleading force. With
our method we also treat the mean-field limit coupled to a semiclassical limit,
which was discussed in the literature before, and we recover some of the previous
results. All results hold for initial data close (but not necessarily equal) to
antisymmetrized product states and we always provide explicit rates of convergence.
acknowledgement: 'Open access funding provided by Institute of Science and Technology
(IST Austria). '
article_number: '3'
article_processing_charge: Yes (via OA deal)
author:
- first_name: Sören P
full_name: Petrat, Sören P
id: 40AC02DC-F248-11E8-B48F-1D18A9856A87
last_name: Petrat
orcid: 0000-0002-9166-5889
- first_name: Peter
full_name: Pickl, Peter
last_name: Pickl
citation:
ama: Petrat SP, Pickl P. A new method and a new scaling for deriving fermionic mean-field
dynamics. Mathematical Physics, Analysis and Geometry. 2016;19(1). doi:10.1007/s11040-016-9204-2
apa: Petrat, S. P., & Pickl, P. (2016). A new method and a new scaling for deriving
fermionic mean-field dynamics. Mathematical Physics, Analysis and Geometry.
Springer. https://doi.org/10.1007/s11040-016-9204-2
chicago: Petrat, Sören P, and Peter Pickl. “A New Method and a New Scaling for Deriving
Fermionic Mean-Field Dynamics.” Mathematical Physics, Analysis and Geometry.
Springer, 2016. https://doi.org/10.1007/s11040-016-9204-2.
ieee: S. P. Petrat and P. Pickl, “A new method and a new scaling for deriving fermionic
mean-field dynamics,” Mathematical Physics, Analysis and Geometry, vol.
19, no. 1. Springer, 2016.
ista: Petrat SP, Pickl P. 2016. A new method and a new scaling for deriving fermionic
mean-field dynamics. Mathematical Physics, Analysis and Geometry. 19(1), 3.
mla: Petrat, Sören P., and Peter Pickl. “A New Method and a New Scaling for Deriving
Fermionic Mean-Field Dynamics.” Mathematical Physics, Analysis and Geometry,
vol. 19, no. 1, 3, Springer, 2016, doi:10.1007/s11040-016-9204-2.
short: S.P. Petrat, P. Pickl, Mathematical Physics, Analysis and Geometry 19 (2016).
date_created: 2018-12-11T11:52:20Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2021-01-12T06:51:08Z
day: '01'
ddc:
- '510'
- '530'
department:
- _id: RoSe
doi: 10.1007/s11040-016-9204-2
ec_funded: 1
file:
- access_level: open_access
checksum: eb5d2145ef0d377c4f78bf06e18f4529
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:55Z
date_updated: 2020-07-14T12:44:58Z
file_id: '5246'
file_name: IST-2016-514-v1+1_s11040-016-9204-2.pdf
file_size: 911310
relation: main_file
file_date_updated: 2020-07-14T12:44:58Z
has_accepted_license: '1'
intvolume: ' 19'
issue: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Mathematical Physics, Analysis and Geometry
publication_status: published
publisher: Springer
publist_id: '5690'
pubrep_id: '514'
quality_controlled: '1'
scopus_import: 1
status: public
title: A new method and a new scaling for deriving fermionic mean-field dynamics
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: 19
year: '2016'
...
---
_id: '1492'
abstract:
- lang: eng
text: To sustain a lifelong ability to initiate organs, plants retain pools of undifferentiated
cells with a preserved prolif eration capacity. The root pericycle represents
a unique tissue with conditional meristematic activity, and its tight control
determines initiation of lateral organs. Here we show that the meristematic activity
of the pericycle is constrained by the interaction with the adjacent endodermis.
Release of these restraints by elimination of endo dermal cells by single-cell
ablation triggers the pericycle to re-enter the cell cycle. We found that endodermis
removal substitutes for the phytohormone auxin-dependent initiation of the pericycle
meristematic activity. However, auxin is indispensable to steer the cell division
plane orientation of new organ-defining divisions. We propose a dual, spatiotemporally
distinct role for auxin during lateral root initiation. In the endodermis, auxin
releases constraints arising from cell-to-cell interactions that compromise the
pericycle meristematic activity, whereas, in the pericycle, auxin defines the
orientation of the cell division plane to initiate lateral roots.
acknowledged_ssus:
- _id: LifeSc
acknowledgement: 'This work was supported by a European Research Council Starting
Inde-pendent Research grant (ERC-2007-Stg-207362-HCPO to J.D.), Research Foundation-Flanders
(G033711N to A.A.), and the Austrian Science Fund (FWF01_I1774S to E.B.). P.M. is
indebted to the Federation of European Biochemical Sciences for a Long-Term Fellowship. '
author:
- first_name: Peter
full_name: Marhavy, Peter
id: 3F45B078-F248-11E8-B48F-1D18A9856A87
last_name: Marhavy
orcid: 0000-0001-5227-5741
- first_name: Juan C
full_name: Montesinos López, Juan C
id: 310A8E3E-F248-11E8-B48F-1D18A9856A87
last_name: Montesinos López
orcid: 0000-0001-9179-6099
- first_name: Anas
full_name: Abuzeineh, Anas
last_name: Abuzeineh
- first_name: Daniël
full_name: Van Damme, Daniël
last_name: Van Damme
- first_name: Joop
full_name: Vermeer, Joop
last_name: Vermeer
- first_name: Jérôme
full_name: Duclercq, Jérôme
last_name: Duclercq
- first_name: Hana
full_name: Rakusova, Hana
last_name: Rakusova
- first_name: Petra
full_name: Marhavá, Petra
id: 44E59624-F248-11E8-B48F-1D18A9856A87
last_name: Marhavá
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Niko
full_name: Geldner, Niko
last_name: Geldner
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Marhavý P, Montesinos López JC, Abuzeineh A, et al. Targeted cell elimination
reveals an auxin-guided biphasic mode of lateral root initiation. Genes and
Development. 2016;30(4):471-483. doi:10.1101/gad.276964.115
apa: Marhavý, P., Montesinos López, J. C., Abuzeineh, A., Van Damme, D., Vermeer,
J., Duclercq, J., … Benková, E. (2016). Targeted cell elimination reveals an auxin-guided
biphasic mode of lateral root initiation. Genes and Development. Cold Spring
Harbor Laboratory Press. https://doi.org/10.1101/gad.276964.115
chicago: Marhavý, Peter, Juan C Montesinos López, Anas Abuzeineh, Daniël Van Damme,
Joop Vermeer, Jérôme Duclercq, Hana Rakusova, et al. “Targeted Cell Elimination
Reveals an Auxin-Guided Biphasic Mode of Lateral Root Initiation.” Genes and
Development. Cold Spring Harbor Laboratory Press, 2016. https://doi.org/10.1101/gad.276964.115.
ieee: P. Marhavý et al., “Targeted cell elimination reveals an auxin-guided
biphasic mode of lateral root initiation,” Genes and Development, vol.
30, no. 4. Cold Spring Harbor Laboratory Press, pp. 471–483, 2016.
ista: Marhavý P, Montesinos López JC, Abuzeineh A, Van Damme D, Vermeer J, Duclercq
J, Rakusova H, Marhavá P, Friml J, Geldner N, Benková E. 2016. Targeted cell elimination
reveals an auxin-guided biphasic mode of lateral root initiation. Genes and Development.
30(4), 471–483.
mla: Marhavý, Peter, et al. “Targeted Cell Elimination Reveals an Auxin-Guided Biphasic
Mode of Lateral Root Initiation.” Genes and Development, vol. 30, no. 4,
Cold Spring Harbor Laboratory Press, 2016, pp. 471–83, doi:10.1101/gad.276964.115.
short: P. Marhavý, J.C. Montesinos López, A. Abuzeineh, D. Van Damme, J. Vermeer,
J. Duclercq, H. Rakusova, P. Marhavá, J. Friml, N. Geldner, E. Benková, Genes
and Development 30 (2016) 471–483.
date_created: 2018-12-11T11:52:20Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2021-01-12T06:51:08Z
day: '01'
ddc:
- '570'
department:
- _id: EvBe
doi: 10.1101/gad.276964.115
external_id:
pmid:
- ' 26883363'
file:
- access_level: open_access
checksum: ea394498ee56270e021d1028a29358a0
content_type: application/pdf
creator: kschuh
date_created: 2019-01-25T09:56:11Z
date_updated: 2020-07-14T12:44:58Z
file_id: '5883'
file_name: 2016_GeneDev_Marhavy.pdf
file_size: 2757636
relation: main_file
file_date_updated: 2020-07-14T12:44:58Z
has_accepted_license: '1'
intvolume: ' 30'
issue: '4'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 471 - 483
pmid: 1
publication: Genes and Development
publication_status: published
publisher: Cold Spring Harbor Laboratory Press
publist_id: '5691'
quality_controlled: '1'
scopus_import: 1
status: public
title: Targeted cell elimination reveals an auxin-guided biphasic mode of lateral
root initiation
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2016'
...
---
_id: '1496'
abstract:
- lang: eng
text: The two-photon 1s2 2s 2p 3P0 1s22s2 1S0 transition in berylliumlike ions is
theoretically investigated within a fully relativistic framework and a second-order
perturbation theory. We focus our analysis on how electron correlation, as well
as the negative-energy spectrum, can affect the forbidden E1M1 decay rate. For
this purpose, we include the electronic correlation via an effective local potential
and within a single configuration-state model. Due to its experimental interest,
evaluations of decay rates are performed for berylliumlike xenon and uranium.
We find that the negative-energy contribution can be neglected at the present
level of accuracy in the evaluation of the decay rate. On the other hand, if contributions
of electronic correlation are not carefully taken into account, it may change
the lifetime of the metastable state by up to 20%. By performing a full-relativistic
jj-coupling calculation, we found a decrease of the decay rate by two orders of
magnitude compared to non-relativistic LS-coupling calculations, for the selected
heavy ions.
acknowledgement: 'This research was supported in part by FCT, Portugal, through
Project No. PTDC/FIS/117606/2010, financed by the European Community Fund FEDER through the COMPETE. '
article_number: '032502'
author:
- first_name: Pedro
full_name: Amaro, Pedro
last_name: Amaro
- first_name: Filippo
full_name: Fratini, Filippo
last_name: Fratini
- first_name: Laleh
full_name: Safari, Laleh
id: 3C325E5E-F248-11E8-B48F-1D18A9856A87
last_name: Safari
- first_name: Jorge
full_name: Machado, Jorge
last_name: Machado
- first_name: Mauro
full_name: Guerra, Mauro
last_name: Guerra
- first_name: Paul
full_name: Indelicato, Paul
last_name: Indelicato
- first_name: José
full_name: Santos, José
last_name: Santos
citation:
ama: Amaro P, Fratini F, Safari L, et al. Relativistic evaluation of the two-photon
decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential
model. Physical Review A - Atomic, Molecular, and Optical Physics. 2016;93(3).
doi:10.1103/PhysRevA.93.032502
apa: Amaro, P., Fratini, F., Safari, L., Machado, J., Guerra, M., Indelicato, P.,
& Santos, J. (2016). Relativistic evaluation of the two-photon decay of the
metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential
model. Physical Review A - Atomic, Molecular, and Optical Physics. American
Physical Society. https://doi.org/10.1103/PhysRevA.93.032502
chicago: Amaro, Pedro, Filippo Fratini, Laleh Safari, Jorge Machado, Mauro Guerra,
Paul Indelicato, and José Santos. “Relativistic Evaluation of the Two-Photon Decay
of the Metastable 1s22s2p3P0 State in Berylliumlike Ions with an Effective-Potential
Model.” Physical Review A - Atomic, Molecular, and Optical Physics. American
Physical Society, 2016. https://doi.org/10.1103/PhysRevA.93.032502.
ieee: P. Amaro et al., “Relativistic evaluation of the two-photon decay of
the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential
model,” Physical Review A - Atomic, Molecular, and Optical Physics, vol.
93, no. 3. American Physical Society, 2016.
ista: Amaro P, Fratini F, Safari L, Machado J, Guerra M, Indelicato P, Santos J.
2016. Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0
state in berylliumlike ions with an effective-potential model. Physical Review
A - Atomic, Molecular, and Optical Physics. 93(3), 032502.
mla: Amaro, Pedro, et al. “Relativistic Evaluation of the Two-Photon Decay of the
Metastable 1s22s2p3P0 State in Berylliumlike Ions with an Effective-Potential
Model.” Physical Review A - Atomic, Molecular, and Optical Physics, vol.
93, no. 3, 032502, American Physical Society, 2016, doi:10.1103/PhysRevA.93.032502.
short: P. Amaro, F. Fratini, L. Safari, J. Machado, M. Guerra, P. Indelicato, J.
Santos, Physical Review A - Atomic, Molecular, and Optical Physics 93 (2016).
date_created: 2018-12-11T11:52:21Z
date_published: 2016-03-07T00:00:00Z
date_updated: 2021-01-12T06:51:09Z
day: '07'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.93.032502
ec_funded: 1
intvolume: ' 93'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1508.06169
month: '03'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review A - Atomic, Molecular, and Optical Physics
publication_status: published
publisher: American Physical Society
publist_id: '5683'
quality_controlled: '1'
scopus_import: 1
status: public
title: Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0
state in berylliumlike ions with an effective-potential model
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1494'
abstract:
- lang: eng
text: Turbulence is one of the most frequently encountered non-equilibrium phenomena
in nature, yet characterizing the transition that gives rise to turbulence in
basic shear flows has remained an elusive task. Although, in recent studies, critical
points marking the onset of sustained turbulence have been determined for several
such flows, the physical nature of the transition could not be fully explained.
In extensive experimental and computational studies we show for the example of
Couette flow that the onset of turbulence is a second-order phase transition and
falls into the directed percolation universality class. Consequently, the complex
laminar–turbulent patterns distinctive for the onset of turbulence in shear flows
result from short-range interactions of turbulent domains and are characterized
by universal critical exponents. More generally, our study demonstrates that even
high-dimensional systems far from equilibrium such as turbulence exhibit universality
at onset and that here the collective dynamics obeys simple rules.
acknowledgement: We thank P. Maier for providing valuable ideas and supporting us
in the technical aspects. Discussions with D. Barkley, Y. Duguet, B. Eckhart, N.
Goldenfeld, P. Manneville and K. Takeuchi are gratefully acknowledged. We acknowledge
the Deutsche Forschungsgemeinschaft (Project No. FOR 1182), and the European Research
Council under the European Union’s Seventh Framework Programme (FP/2007-2013)/ERC
Grant Agreement 306589 for financial support. L.S. and B.H. acknowledge research
funding by Deutsche Forschungsgemeinschaft (DFG) under Grant No. SFB 963/1 (project
A8). Numerical simulations were performed thanks to the CPU time allocations of
JUROPA in Juelich Supercomputing Center (project HGU17) and of the Max Planck Computing
and Data Facility (Garching, Germany). Excellent technical support from M. Rampp
on the hybrid code nsCouette is appreciated.
author:
- first_name: Grégoire M
full_name: Lemoult, Grégoire M
id: 4787FE80-F248-11E8-B48F-1D18A9856A87
last_name: Lemoult
- first_name: Liang
full_name: Shi, Liang
id: 374A3F1A-F248-11E8-B48F-1D18A9856A87
last_name: Shi
- first_name: Kerstin
full_name: Avila, Kerstin
last_name: Avila
- first_name: Shreyas V
full_name: Jalikop, Shreyas V
id: 44A1D772-F248-11E8-B48F-1D18A9856A87
last_name: Jalikop
- first_name: Marc
full_name: Avila, Marc
last_name: Avila
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Lemoult GM, Shi L, Avila K, Jalikop SV, Avila M, Hof B. Directed percolation
phase transition to sustained turbulence in Couette flow. Nature Physics.
2016;12(3):254-258. doi:10.1038/nphys3675
apa: Lemoult, G. M., Shi, L., Avila, K., Jalikop, S. V., Avila, M., & Hof, B.
(2016). Directed percolation phase transition to sustained turbulence in Couette
flow. Nature Physics. Nature Publishing Group. https://doi.org/10.1038/nphys3675
chicago: Lemoult, Grégoire M, Liang Shi, Kerstin Avila, Shreyas V Jalikop, Marc
Avila, and Björn Hof. “Directed Percolation Phase Transition to Sustained Turbulence
in Couette Flow.” Nature Physics. Nature Publishing Group, 2016. https://doi.org/10.1038/nphys3675.
ieee: G. M. Lemoult, L. Shi, K. Avila, S. V. Jalikop, M. Avila, and B. Hof, “Directed
percolation phase transition to sustained turbulence in Couette flow,” Nature
Physics, vol. 12, no. 3. Nature Publishing Group, pp. 254–258, 2016.
ista: Lemoult GM, Shi L, Avila K, Jalikop SV, Avila M, Hof B. 2016. Directed percolation
phase transition to sustained turbulence in Couette flow. Nature Physics. 12(3),
254–258.
mla: Lemoult, Grégoire M., et al. “Directed Percolation Phase Transition to Sustained
Turbulence in Couette Flow.” Nature Physics, vol. 12, no. 3, Nature Publishing
Group, 2016, pp. 254–58, doi:10.1038/nphys3675.
short: G.M. Lemoult, L. Shi, K. Avila, S.V. Jalikop, M. Avila, B. Hof, Nature Physics
12 (2016) 254–258.
date_created: 2018-12-11T11:52:21Z
date_published: 2016-02-15T00:00:00Z
date_updated: 2021-01-12T06:51:08Z
day: '15'
department:
- _id: BjHo
doi: 10.1038/nphys3675
ec_funded: 1
intvolume: ' 12'
issue: '3'
language:
- iso: eng
month: '02'
oa_version: None
page: 254 - 258
project:
- _id: 25152F3A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '306589'
name: Decoding the complexity of turbulence at its origin
- _id: 2511D90C-B435-11E9-9278-68D0E5697425
grant_number: SFB 963 TP A8
name: Astrophysical instability of currents and turbulences
publication: Nature Physics
publication_status: published
publisher: Nature Publishing Group
publist_id: '5685'
quality_controlled: '1'
scopus_import: 1
status: public
title: Directed percolation phase transition to sustained turbulence in Couette flow
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2016'
...
---
_id: '1491'
abstract:
- lang: eng
text: We study the ground state of a trapped Bose gas, starting from the full many-body
Schrödinger Hamiltonian, and derive the non-linear Schrödinger energy functional
in the limit of a large particle number, when the interaction potential converges
slowly to a Dirac delta function. Our method is based on quantitative estimates
on the discrepancy between the full many-body energy and its mean-field approximation
using Hartree states. These are proved using finite dimensional localization and
a quantitative version of the quantum de Finetti theorem. Our approach covers
the case of attractive interactions in the regime of stability. In particular,
our main new result is a derivation of the 2D attractive non-linear Schrödinger
ground state.
acknowledgement: The authors acknowledge financial support from the European Research
Council (FP7/2007-2013 Grant Agreement MNIQS 258023) and the ANR (Mathostaq project,
ANR-13-JS01-0005-01). The second and third authors have benefited from the hospitality
of the Institute for Mathematical Science of the National University of Singapore.
author:
- first_name: Mathieu
full_name: Lewin, Mathieu
last_name: Lewin
- first_name: Phan
full_name: Nam, Phan
id: 404092F4-F248-11E8-B48F-1D18A9856A87
last_name: Nam
- first_name: Nicolas
full_name: Rougerie, Nicolas
last_name: Rougerie
citation:
ama: Lewin M, Nam P, Rougerie N. The mean-field approximation and the non-linear
Schrödinger functional for trapped Bose gases. Transactions of the American
Mathematical Society. 2016;368(9):6131-6157. doi:10.1090/tran/6537
apa: Lewin, M., Nam, P., & Rougerie, N. (2016). The mean-field approximation
and the non-linear Schrödinger functional for trapped Bose gases. Transactions
of the American Mathematical Society. American Mathematical Society. https://doi.org/10.1090/tran/6537
chicago: Lewin, Mathieu, Phan Nam, and Nicolas Rougerie. “The Mean-Field Approximation
and the Non-Linear Schrödinger Functional for Trapped Bose Gases.” Transactions
of the American Mathematical Society. American Mathematical Society, 2016.
https://doi.org/10.1090/tran/6537.
ieee: M. Lewin, P. Nam, and N. Rougerie, “The mean-field approximation and the non-linear
Schrödinger functional for trapped Bose gases,” Transactions of the American
Mathematical Society, vol. 368, no. 9. American Mathematical Society, pp.
6131–6157, 2016.
ista: Lewin M, Nam P, Rougerie N. 2016. The mean-field approximation and the non-linear
Schrödinger functional for trapped Bose gases. Transactions of the American Mathematical
Society. 368(9), 6131–6157.
mla: Lewin, Mathieu, et al. “The Mean-Field Approximation and the Non-Linear Schrödinger
Functional for Trapped Bose Gases.” Transactions of the American Mathematical
Society, vol. 368, no. 9, American Mathematical Society, 2016, pp. 6131–57,
doi:10.1090/tran/6537.
short: M. Lewin, P. Nam, N. Rougerie, Transactions of the American Mathematical
Society 368 (2016) 6131–6157.
date_created: 2018-12-11T11:52:20Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:51:07Z
day: '01'
department:
- _id: RoSe
doi: 10.1090/tran/6537
intvolume: ' 368'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1405.3220
month: '01'
oa: 1
oa_version: Submitted Version
page: 6131 - 6157
publication: Transactions of the American Mathematical Society
publication_status: published
publisher: American Mathematical Society
publist_id: '5692'
quality_controlled: '1'
scopus_import: 1
status: public
title: The mean-field approximation and the non-linear Schrödinger functional for
trapped Bose gases
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 368
year: '2016'
...
---
_id: '1408'
abstract:
- lang: eng
text: 'The concept of well group in a special but important case captures homological
properties of the zero set of a continuous map (Formula presented.) on a compact
space K that are invariant with respect to perturbations of f. The perturbations
are arbitrary continuous maps within (Formula presented.) distance r from f for
a given (Formula presented.). The main drawback of the approach is that the computability
of well groups was shown only when (Formula presented.) or (Formula presented.).
Our contribution to the theory of well groups is twofold: on the one hand we improve
on the computability issue, but on the other hand we present a range of examples
where the well groups are incomplete invariants, that is, fail to capture certain
important robust properties of the zero set. For the first part, we identify a
computable subgroup of the well group that is obtained by cap product with the
pullback of the orientation of (Formula presented.) by f. In other words, well
groups can be algorithmically approximated from below. When f is smooth and (Formula
presented.), our approximation of the (Formula presented.)th well group is exact.
For the second part, we find examples of maps (Formula presented.) with all well
groups isomorphic but whose perturbations have different zero sets. We discuss
on a possible replacement of the well groups of vector valued maps by an invariant
of a better descriptive power and computability status.'
acknowledgement: 'Open access funding provided by Institute of Science and Technology
(IST Austria). '
article_processing_charge: Yes (via OA deal)
author:
- first_name: Peter
full_name: Franek, Peter
id: 473294AE-F248-11E8-B48F-1D18A9856A87
last_name: Franek
- first_name: Marek
full_name: Krcál, Marek
id: 33E21118-F248-11E8-B48F-1D18A9856A87
last_name: Krcál
citation:
ama: Franek P, Krcál M. On computability and triviality of well groups. Discrete
& Computational Geometry. 2016;56(1):126-164. doi:10.1007/s00454-016-9794-2
apa: Franek, P., & Krcál, M. (2016). On computability and triviality of well
groups. Discrete & Computational Geometry. Springer. https://doi.org/10.1007/s00454-016-9794-2
chicago: Franek, Peter, and Marek Krcál. “On Computability and Triviality of Well
Groups.” Discrete & Computational Geometry. Springer, 2016. https://doi.org/10.1007/s00454-016-9794-2.
ieee: P. Franek and M. Krcál, “On computability and triviality of well groups,”
Discrete & Computational Geometry, vol. 56, no. 1. Springer, pp. 126–164,
2016.
ista: Franek P, Krcál M. 2016. On computability and triviality of well groups. Discrete
& Computational Geometry. 56(1), 126–164.
mla: Franek, Peter, and Marek Krcál. “On Computability and Triviality of Well Groups.”
Discrete & Computational Geometry, vol. 56, no. 1, Springer, 2016,
pp. 126–64, doi:10.1007/s00454-016-9794-2.
short: P. Franek, M. Krcál, Discrete & Computational Geometry 56 (2016) 126–164.
date_created: 2018-12-11T11:51:51Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2023-02-23T10:02:11Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
- _id: HeEd
doi: 10.1007/s00454-016-9794-2
ec_funded: 1
file:
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checksum: e0da023abf6b72abd8c6a8c76740d53c
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creator: system
date_created: 2018-12-12T10:10:55Z
date_updated: 2020-07-14T12:44:53Z
file_id: '4846'
file_name: IST-2016-614-v1+1_s00454-016-9794-2.pdf
file_size: 905303
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has_accepted_license: '1'
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issue: '1'
language:
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month: '07'
oa: 1
oa_version: Published Version
page: 126 - 164
project:
- _id: 25F8B9BC-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M01980
name: Robust invariants of Nonlinear Systems
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Discrete & Computational Geometry
publication_status: published
publisher: Springer
publist_id: '5799'
pubrep_id: '614'
quality_controlled: '1'
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relation: earlier_version
status: public
scopus_import: 1
status: public
title: On computability and triviality of well groups
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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: 56
year: '2016'
...