---
_id: '7026'
abstract:
- lang: eng
text: Effective design of combination therapies requires understanding the changes
in cell physiology that result from drug interactions. Here, we show that the
genome-wide transcriptional response to combinations of two drugs, measured at
a rigorously controlled growth rate, can predict higher-order antagonism with
a third drug in Saccharomyces cerevisiae. Using isogrowth profiling, over 90%
of the variation in cellular response can be decomposed into three principal components
(PCs) that have clear biological interpretations. We demonstrate that the third
PC captures emergent transcriptional programs that are dependent on both drugs
and can predict antagonism with a third drug targeting the emergent pathway. We
further show that emergent gene expression patterns are most pronounced at a drug
ratio where the drug interaction is strongest, providing a guideline for future
measurements. Our results provide a readily applicable recipe for uncovering emergent
responses in other systems and for higher-order drug combinations. A record of
this paper’s transparent peer review process is included in the Supplemental Information.
acknowledged_ssus:
- _id: LifeSc
article_processing_charge: No
article_type: original
author:
- first_name: Martin
full_name: Lukacisin, Martin
id: 298FFE8C-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisin
orcid: 0000-0001-6549-4177
- first_name: Tobias
full_name: Bollenbach, Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
citation:
ama: Lukacisin M, Bollenbach MT. Emergent gene expression responses to drug combinations
predict higher-order drug interactions. Cell Systems. 2019;9(5):423-433.e1-e3.
doi:10.1016/j.cels.2019.10.004
apa: Lukacisin, M., & Bollenbach, M. T. (2019). Emergent gene expression responses
to drug combinations predict higher-order drug interactions. Cell Systems.
Cell Press. https://doi.org/10.1016/j.cels.2019.10.004
chicago: Lukacisin, Martin, and Mark Tobias Bollenbach. “Emergent Gene Expression
Responses to Drug Combinations Predict Higher-Order Drug Interactions.” Cell
Systems. Cell Press, 2019. https://doi.org/10.1016/j.cels.2019.10.004.
ieee: M. Lukacisin and M. T. Bollenbach, “Emergent gene expression responses to
drug combinations predict higher-order drug interactions,” Cell Systems,
vol. 9, no. 5. Cell Press, pp. 423-433.e1-e3, 2019.
ista: Lukacisin M, Bollenbach MT. 2019. Emergent gene expression responses to drug
combinations predict higher-order drug interactions. Cell Systems. 9(5), 423-433.e1-e3.
mla: Lukacisin, Martin, and Mark Tobias Bollenbach. “Emergent Gene Expression Responses
to Drug Combinations Predict Higher-Order Drug Interactions.” Cell Systems,
vol. 9, no. 5, Cell Press, 2019, pp. 423-433.e1-e3, doi:10.1016/j.cels.2019.10.004.
short: M. Lukacisin, M.T. Bollenbach, Cell Systems 9 (2019) 423-433.e1-e3.
date_created: 2019-11-15T10:51:42Z
date_published: 2019-11-27T00:00:00Z
date_updated: 2023-08-30T07:24:58Z
day: '27'
ddc:
- '570'
department:
- _id: ToBo
doi: 10.1016/j.cels.2019.10.004
external_id:
isi:
- '000499495400003'
file:
- access_level: open_access
checksum: 7a11d6c2f9523d65b049512d61733178
content_type: application/pdf
creator: dernst
date_created: 2019-11-15T10:57:42Z
date_updated: 2020-07-14T12:47:48Z
file_id: '7027'
file_name: 2019_CellSystems_Lukacisin.pdf
file_size: 4238460
relation: main_file
file_date_updated: 2020-07-14T12:47:48Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
issue: '5'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '11'
oa: 1
oa_version: Published Version
page: 423-433.e1-e3
project:
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
- _id: 25EB3A80-B435-11E9-9278-68D0E5697425
grant_number: RGP0042/2013
name: Revealing the fundamental limits of cell growth
publication: Cell Systems
publication_identifier:
issn:
- 2405-4712
publication_status: published
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Emergent gene expression responses to drug combinations predict higher-order
drug 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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2019'
...
---
_id: '7034'
abstract:
- lang: eng
text: We find a graph of genus 5 and its drawing on the orientable surface of genus
4 with every pair of independent edges crossing an even number of times. This
shows that the strong Hanani–Tutte theorem cannot be extended to the orientable
surface of genus 4. As a base step in the construction we use a counterexample
to an extension of the unified Hanani–Tutte theorem on the torus.
article_processing_charge: No
article_type: original
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
citation:
ama: Fulek R, Kynčl J. Counterexample to an extension of the Hanani-Tutte theorem
on the surface of genus 4. Combinatorica. 2019;39(6):1267-1279. doi:10.1007/s00493-019-3905-7
apa: Fulek, R., & Kynčl, J. (2019). Counterexample to an extension of the Hanani-Tutte
theorem on the surface of genus 4. Combinatorica. Springer Nature. https://doi.org/10.1007/s00493-019-3905-7
chicago: Fulek, Radoslav, and Jan Kynčl. “Counterexample to an Extension of the
Hanani-Tutte Theorem on the Surface of Genus 4.” Combinatorica. Springer
Nature, 2019. https://doi.org/10.1007/s00493-019-3905-7.
ieee: R. Fulek and J. Kynčl, “Counterexample to an extension of the Hanani-Tutte
theorem on the surface of genus 4,” Combinatorica, vol. 39, no. 6. Springer
Nature, pp. 1267–1279, 2019.
ista: Fulek R, Kynčl J. 2019. Counterexample to an extension of the Hanani-Tutte
theorem on the surface of genus 4. Combinatorica. 39(6), 1267–1279.
mla: Fulek, Radoslav, and Jan Kynčl. “Counterexample to an Extension of the Hanani-Tutte
Theorem on the Surface of Genus 4.” Combinatorica, vol. 39, no. 6, Springer
Nature, 2019, pp. 1267–79, doi:10.1007/s00493-019-3905-7.
short: R. Fulek, J. Kynčl, Combinatorica 39 (2019) 1267–1279.
date_created: 2019-11-18T14:29:50Z
date_published: 2019-10-29T00:00:00Z
date_updated: 2023-08-30T07:26:25Z
day: '29'
department:
- _id: UlWa
doi: 10.1007/s00493-019-3905-7
ec_funded: 1
external_id:
arxiv:
- '1709.00508'
isi:
- '000493267200003'
intvolume: ' 39'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1709.00508
month: '10'
oa: 1
oa_version: Preprint
page: 1267-1279
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication: Combinatorica
publication_identifier:
eissn:
- 1439-6912
issn:
- 0209-9683
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Counterexample to an extension of the Hanani-Tutte theorem on the surface of
genus 4
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 39
year: '2019'
...
---
_id: '7032'
abstract:
- lang: eng
text: Optical frequency combs (OFCs) are light sources whose spectra consists of
equally spaced frequency lines in the optical domain [1]. They have great potential
for improving high-capacity data transfer, all-optical atomic clocks, spectroscopy,
and high-precision measurements [2].
article_number: '8873300'
article_processing_charge: No
author:
- first_name: Alfredo R
full_name: Rueda Sanchez, Alfredo R
id: 3B82B0F8-F248-11E8-B48F-1D18A9856A87
last_name: Rueda Sanchez
orcid: 0000-0001-6249-5860
- first_name: Florian
full_name: Sedlmeir, Florian
last_name: Sedlmeir
- first_name: Gerd
full_name: Leuchs, Gerd
last_name: Leuchs
- first_name: Madhuri
full_name: Kuamri, Madhuri
last_name: Kuamri
- first_name: Harald G. L.
full_name: Schwefel, Harald G. L.
last_name: Schwefel
citation:
ama: 'Rueda Sanchez AR, Sedlmeir F, Leuchs G, Kuamri M, Schwefel HGL. Electro-optic
frequency comb generation in lithium niobate whispering gallery mode resonators.
In: 2019 Conference on Lasers and Electro-Optics Europe & European Quantum
Electronics Conference. IEEE; 2019. doi:10.1109/cleoe-eqec.2019.8873300'
apa: 'Rueda Sanchez, A. R., Sedlmeir, F., Leuchs, G., Kuamri, M., & Schwefel,
H. G. L. (2019). Electro-optic frequency comb generation in lithium niobate whispering
gallery mode resonators. In 2019 Conference on Lasers and Electro-Optics Europe
& European Quantum Electronics Conference. Munich, Germany: IEEE. https://doi.org/10.1109/cleoe-eqec.2019.8873300'
chicago: Rueda Sanchez, Alfredo R, Florian Sedlmeir, Gerd Leuchs, Madhuri Kuamri,
and Harald G. L. Schwefel. “Electro-Optic Frequency Comb Generation in Lithium
Niobate Whispering Gallery Mode Resonators.” In 2019 Conference on Lasers and
Electro-Optics Europe & European Quantum Electronics Conference. IEEE,
2019. https://doi.org/10.1109/cleoe-eqec.2019.8873300.
ieee: A. R. Rueda Sanchez, F. Sedlmeir, G. Leuchs, M. Kuamri, and H. G. L. Schwefel,
“Electro-optic frequency comb generation in lithium niobate whispering gallery
mode resonators,” in 2019 Conference on Lasers and Electro-Optics Europe &
European Quantum Electronics Conference, Munich, Germany, 2019.
ista: 'Rueda Sanchez AR, Sedlmeir F, Leuchs G, Kuamri M, Schwefel HGL. 2019. Electro-optic
frequency comb generation in lithium niobate whispering gallery mode resonators.
2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics
Conference. CLEO: Conference on Lasers and Electro-Optics Europe, 8873300.'
mla: Rueda Sanchez, Alfredo R., et al. “Electro-Optic Frequency Comb Generation
in Lithium Niobate Whispering Gallery Mode Resonators.” 2019 Conference on
Lasers and Electro-Optics Europe & European Quantum Electronics Conference,
8873300, IEEE, 2019, doi:10.1109/cleoe-eqec.2019.8873300.
short: A.R. Rueda Sanchez, F. Sedlmeir, G. Leuchs, M. Kuamri, H.G.L. Schwefel, in:,
2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics
Conference, IEEE, 2019.
conference:
end_date: 2019-06-27
location: Munich, Germany
name: 'CLEO: Conference on Lasers and Electro-Optics Europe'
start_date: 2019-06-23
date_created: 2019-11-18T13:58:22Z
date_published: 2019-10-17T00:00:00Z
date_updated: 2023-08-30T07:26:01Z
day: '17'
department:
- _id: JoFi
doi: 10.1109/cleoe-eqec.2019.8873300
external_id:
isi:
- '000630002701617'
isi: 1
language:
- iso: eng
month: '10'
oa_version: None
publication: 2019 Conference on Lasers and Electro-Optics Europe & European Quantum
Electronics Conference
publication_identifier:
isbn:
- '9781728104690'
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: Electro-optic frequency comb generation in lithium niobate whispering gallery
mode resonators
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2019'
...
---
_id: '7095'
abstract:
- lang: eng
text: BAX, a member of the BCL2 gene family, controls the committed step of the
intrinsic apoptotic program. Mitochondrial fragmentation is a commonly observed
feature of apoptosis, which occurs through the process of mitochondrial fission.
BAX has consistently been associated with mitochondrial fission, yet how BAX participates
in the process of mitochondrial fragmentation during apoptosis remains to be tested.
Time-lapse imaging of BAX recruitment and mitochondrial fragmentation demonstrates
that rapid mitochondrial fragmentation during apoptosis occurs after the complete
recruitment of BAX to the mitochondrial outer membrane (MOM). The requirement
of a fully functioning BAX protein for the fission process was demonstrated further
in BAX/BAK-deficient HCT116 cells expressing a P168A mutant of BAX. The mutant
performed fusion to restore the mitochondrial network. but was not demonstrably
recruited to the MOM after apoptosis induction. Under these conditions, mitochondrial
fragmentation was blocked. Additionally, we show that loss of the fission protein,
dynamin-like protein 1 (DRP1), does not temporally affect the initiation time
or rate of BAX recruitment, but does reduce the final level of BAX recruited to
the MOM during the late phase of BAX recruitment. These correlative observations
suggest a model where late-stage BAX oligomers play a functional part of the mitochondrial
fragmentation machinery in apoptotic cells.
article_number: '16565'
article_processing_charge: No
article_type: original
author:
- first_name: Margaret E
full_name: Maes, Margaret E
id: 3838F452-F248-11E8-B48F-1D18A9856A87
last_name: Maes
orcid: 0000-0001-9642-1085
- first_name: J. A.
full_name: Grosser, J. A.
last_name: Grosser
- first_name: R. L.
full_name: Fehrman, R. L.
last_name: Fehrman
- first_name: C. L.
full_name: Schlamp, C. L.
last_name: Schlamp
- first_name: R. W.
full_name: Nickells, R. W.
last_name: Nickells
citation:
ama: Maes ME, Grosser JA, Fehrman RL, Schlamp CL, Nickells RW. Completion of BAX
recruitment correlates with mitochondrial fission during apoptosis. Scientific
Reports. 2019;9. doi:10.1038/s41598-019-53049-w
apa: Maes, M. E., Grosser, J. A., Fehrman, R. L., Schlamp, C. L., & Nickells,
R. W. (2019). Completion of BAX recruitment correlates with mitochondrial fission
during apoptosis. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-019-53049-w
chicago: Maes, Margaret E, J. A. Grosser, R. L. Fehrman, C. L. Schlamp, and R. W.
Nickells. “Completion of BAX Recruitment Correlates with Mitochondrial Fission
during Apoptosis.” Scientific Reports. Springer Nature, 2019. https://doi.org/10.1038/s41598-019-53049-w.
ieee: M. E. Maes, J. A. Grosser, R. L. Fehrman, C. L. Schlamp, and R. W. Nickells,
“Completion of BAX recruitment correlates with mitochondrial fission during apoptosis,”
Scientific Reports, vol. 9. Springer Nature, 2019.
ista: Maes ME, Grosser JA, Fehrman RL, Schlamp CL, Nickells RW. 2019. Completion
of BAX recruitment correlates with mitochondrial fission during apoptosis. Scientific
Reports. 9, 16565.
mla: Maes, Margaret E., et al. “Completion of BAX Recruitment Correlates with Mitochondrial
Fission during Apoptosis.” Scientific Reports, vol. 9, 16565, Springer
Nature, 2019, doi:10.1038/s41598-019-53049-w.
short: M.E. Maes, J.A. Grosser, R.L. Fehrman, C.L. Schlamp, R.W. Nickells, Scientific
Reports 9 (2019).
date_created: 2019-11-25T07:45:17Z
date_published: 2019-11-12T00:00:00Z
date_updated: 2023-08-30T07:26:54Z
day: '12'
ddc:
- '570'
department:
- _id: SaSi
doi: 10.1038/s41598-019-53049-w
external_id:
isi:
- '000495857600019'
pmid:
- '31719602'
file:
- access_level: open_access
checksum: 9ab397ed9c1c454b34bffb8cc863d734
content_type: application/pdf
creator: dernst
date_created: 2019-11-25T07:49:52Z
date_updated: 2020-07-14T12:47:49Z
file_id: '7096'
file_name: 2019_ScientificReports_Maes.pdf
file_size: 6467393
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Scientific Reports
publication_identifier:
eissn:
- 2045-2322
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Completion of BAX recruitment correlates with mitochondrial fission during
apoptosis
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2019'
...
---
_id: '7097'
abstract:
- lang: eng
text: Early endosomes, also called sorting endosomes, are known to mature into late
endosomesvia the Rab5-mediated endolysosomal trafficking pathway. Thus, early
endosome existence isthought to be maintained by the continual fusion of transport
vesicles from the plasmamembrane and thetrans-Golgi network (TGN). Here we show
instead that endocytosis isdispensable and post-Golgi vesicle transport is crucial
for the formation of endosomes andthe subsequent endolysosomal traffic regulated
by yeast Rab5 Vps21p. Fittingly, all threeproteins required for endosomal nucleotide
exchange on Vps21p arefirst recruited to theTGN before transport to the endosome, namely the GEF Vps9p
and the epsin-relatedadaptors Ent3/5p. The TGN recruitment of these components
is distinctly controlled, withVps9p appearing to require the Arf1p GTPase, and
the Rab11s, Ypt31p/32p. These resultsprovide a different view of endosome formation
and identify the TGN as a critical location forregulating progress through the
endolysosomal trafficking pathway.
article_number: '419'
article_processing_charge: No
article_type: original
author:
- first_name: Makoto
full_name: Nagano, Makoto
last_name: Nagano
- first_name: Junko Y.
full_name: Toshima, Junko Y.
last_name: Toshima
- 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: Nagano M, Toshima JY, Siekhaus DE, Toshima J. Rab5-mediated endosome formation
is regulated at the trans-Golgi network. Communications Biology. 2019;2(1).
doi:10.1038/s42003-019-0670-5
apa: Nagano, M., Toshima, J. Y., Siekhaus, D. E., & Toshima, J. (2019). Rab5-mediated
endosome formation is regulated at the trans-Golgi network. Communications
Biology. Springer Nature. https://doi.org/10.1038/s42003-019-0670-5
chicago: Nagano, Makoto, Junko Y. Toshima, Daria E Siekhaus, and Jiro Toshima. “Rab5-Mediated
Endosome Formation Is Regulated at the Trans-Golgi Network.” Communications
Biology. Springer Nature, 2019. https://doi.org/10.1038/s42003-019-0670-5.
ieee: M. Nagano, J. Y. Toshima, D. E. Siekhaus, and J. Toshima, “Rab5-mediated endosome
formation is regulated at the trans-Golgi network,” Communications Biology,
vol. 2, no. 1. Springer Nature, 2019.
ista: Nagano M, Toshima JY, Siekhaus DE, Toshima J. 2019. Rab5-mediated endosome
formation is regulated at the trans-Golgi network. Communications Biology. 2(1),
419.
mla: Nagano, Makoto, et al. “Rab5-Mediated Endosome Formation Is Regulated at the
Trans-Golgi Network.” Communications Biology, vol. 2, no. 1, 419, Springer
Nature, 2019, doi:10.1038/s42003-019-0670-5.
short: M. Nagano, J.Y. Toshima, D.E. Siekhaus, J. Toshima, Communications Biology
2 (2019).
date_created: 2019-11-25T07:55:01Z
date_published: 2019-11-15T00:00:00Z
date_updated: 2023-08-30T07:27:55Z
day: '15'
ddc:
- '570'
department:
- _id: DaSi
doi: 10.1038/s42003-019-0670-5
external_id:
isi:
- '000496767800005'
file:
- access_level: open_access
checksum: c63c69a264fc8a0e52f2b0d482f3bdae
content_type: application/pdf
creator: dernst
date_created: 2019-11-25T07:58:05Z
date_updated: 2020-07-14T12:47:49Z
file_id: '7098'
file_name: 2019_CommunicBiology_Nagano.pdf
file_size: 2626069
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 2'
isi: 1
issue: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: Communications Biology
publication_identifier:
issn:
- 2399-3642
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rab5-mediated endosome formation is regulated at the trans-Golgi network
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 2
year: '2019'
...
---
_id: '7099'
acknowledgement: "The authors thank Gabi Schmid for excellent technical support. We
also thank\r\nDr. H. Harada, Dr. W. Kaufmann, and Dr. B. Kapelari for testing the
specificity\r\nof some of the antibodies used in this study on replicas. Funding
was provided\r\nby the Austrian Science Fund (Fonds zur Fo¨ rderung der Wissenschaftlichen\r\nForschung)
Sonderforschungsbereich grants F44-17 (to F.jF.), F44-10 and\r\nP25375-B24 (to N.S.),
and P26680 (to G.S.) and by the Novartis Research\r\nFoundation and the Swiss National
Science Foundation (to A.L). We also thank\r\nProf. M. Capogna for reading a previous
version of the manuscript."
article_processing_charge: No
article_type: original
author:
- first_name: Yu
full_name: Kasugai, Yu
last_name: Kasugai
- first_name: Elisabeth
full_name: Vogel, Elisabeth
last_name: Vogel
- first_name: Heide
full_name: Hörtnagl, Heide
last_name: Hörtnagl
- first_name: Sabine
full_name: Schönherr, Sabine
last_name: Schönherr
- first_name: Enrica
full_name: Paradiso, Enrica
last_name: Paradiso
- first_name: Markus
full_name: Hauschild, Markus
last_name: Hauschild
- first_name: Georg
full_name: Göbel, Georg
last_name: Göbel
- first_name: Ivan
full_name: Milenkovic, Ivan
last_name: Milenkovic
- first_name: Yvan
full_name: Peterschmitt, Yvan
last_name: Peterschmitt
- first_name: Ramon
full_name: Tasan, Ramon
last_name: Tasan
- first_name: Günther
full_name: Sperk, Günther
last_name: Sperk
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Werner
full_name: Sieghart, Werner
last_name: Sieghart
- first_name: Nicolas
full_name: Singewald, Nicolas
last_name: Singewald
- first_name: Andreas
full_name: Lüthi, Andreas
last_name: Lüthi
- first_name: Francesco
full_name: Ferraguti, Francesco
last_name: Ferraguti
citation:
ama: Kasugai Y, Vogel E, Hörtnagl H, et al. Structural and functional remodeling
of amygdala GABAergic synapses in associative fear learning. Neuron. 2019;104(4):781-794.e4.
doi:10.1016/j.neuron.2019.08.013
apa: Kasugai, Y., Vogel, E., Hörtnagl, H., Schönherr, S., Paradiso, E., Hauschild,
M., … Ferraguti, F. (2019). Structural and functional remodeling of amygdala GABAergic
synapses in associative fear learning. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2019.08.013
chicago: Kasugai, Yu, Elisabeth Vogel, Heide Hörtnagl, Sabine Schönherr, Enrica
Paradiso, Markus Hauschild, Georg Göbel, et al. “Structural and Functional Remodeling
of Amygdala GABAergic Synapses in Associative Fear Learning.” Neuron. Elsevier,
2019. https://doi.org/10.1016/j.neuron.2019.08.013.
ieee: Y. Kasugai et al., “Structural and functional remodeling of amygdala
GABAergic synapses in associative fear learning,” Neuron, vol. 104, no.
4. Elsevier, p. 781–794.e4, 2019.
ista: Kasugai Y, Vogel E, Hörtnagl H, Schönherr S, Paradiso E, Hauschild M, Göbel
G, Milenkovic I, Peterschmitt Y, Tasan R, Sperk G, Shigemoto R, Sieghart W, Singewald
N, Lüthi A, Ferraguti F. 2019. Structural and functional remodeling of amygdala
GABAergic synapses in associative fear learning. Neuron. 104(4), 781–794.e4.
mla: Kasugai, Yu, et al. “Structural and Functional Remodeling of Amygdala GABAergic
Synapses in Associative Fear Learning.” Neuron, vol. 104, no. 4, Elsevier,
2019, p. 781–794.e4, doi:10.1016/j.neuron.2019.08.013.
short: Y. Kasugai, E. Vogel, H. Hörtnagl, S. Schönherr, E. Paradiso, M. Hauschild,
G. Göbel, I. Milenkovic, Y. Peterschmitt, R. Tasan, G. Sperk, R. Shigemoto, W.
Sieghart, N. Singewald, A. Lüthi, F. Ferraguti, Neuron 104 (2019) 781–794.e4.
date_created: 2019-11-25T08:02:39Z
date_published: 2019-11-20T00:00:00Z
date_updated: 2023-08-30T07:28:22Z
day: '20'
ddc:
- '571'
- '599'
department:
- _id: RySh
doi: 10.1016/j.neuron.2019.08.013
external_id:
isi:
- '000497963500017'
pmid:
- '31543297'
has_accepted_license: '1'
intvolume: ' 104'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.neuron.2019.08.013
month: '11'
oa: 1
oa_version: Published Version
page: 781-794.e4
pmid: 1
publication: Neuron
publication_identifier:
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structural and functional remodeling of amygdala GABAergic synapses in associative
fear learning
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 104
year: '2019'
...
---
_id: '6455'
abstract:
- lang: eng
text: During corticogenesis, distinct subtypes of neurons are sequentially born
from ventricular zone progenitors. How these cells are molecularly temporally
patterned is poorly understood. We used single-cell RNA sequencing at high temporal
resolution to trace the lineage of the molecular identities of successive generations
of apical progenitors (APs) and their daughter neurons in mouse embryos. We identified
a core set of evolutionarily conserved, temporally patterned genes that drive
APs from internally driven to more exteroceptive states. We found that the Polycomb
repressor complex 2 (PRC2) epigenetically regulates AP temporal progression. Embryonic
age–dependent AP molecular states are transmitted to their progeny as successive
ground states, onto which essentially conserved early postmitotic differentiation
programs are applied, and are complemented by later-occurring environment-dependent
signals. Thus, epigenetically regulated temporal molecular birthmarks present
in progenitors act in their postmitotic progeny to seed adult neuronal diversity.
article_number: eaav2522
article_processing_charge: No
article_type: original
author:
- first_name: L
full_name: Telley, L
last_name: Telley
- first_name: G
full_name: Agirman, G
last_name: Agirman
- first_name: J
full_name: Prados, J
last_name: Prados
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: S
full_name: Fièvre, S
last_name: Fièvre
- first_name: P
full_name: Oberst, P
last_name: Oberst
- first_name: G
full_name: Bartolini, G
last_name: Bartolini
- first_name: I
full_name: Vitali, I
last_name: Vitali
- first_name: C
full_name: Cadilhac, C
last_name: Cadilhac
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: L
full_name: Nguyen, L
last_name: Nguyen
- first_name: A
full_name: Dayer, A
last_name: Dayer
- first_name: D
full_name: Jabaudon, D
last_name: Jabaudon
citation:
ama: Telley L, Agirman G, Prados J, et al. Temporal patterning of apical progenitors
and their daughter neurons in the developing neocortex. Science. 2019;364(6440).
doi:10.1126/science.aav2522
apa: Telley, L., Agirman, G., Prados, J., Amberg, N., Fièvre, S., Oberst, P., …
Jabaudon, D. (2019). Temporal patterning of apical progenitors and their daughter
neurons in the developing neocortex. Science. AAAS. https://doi.org/10.1126/science.aav2522
chicago: Telley, L, G Agirman, J Prados, Nicole Amberg, S Fièvre, P Oberst, G Bartolini,
et al. “Temporal Patterning of Apical Progenitors and Their Daughter Neurons in
the Developing Neocortex.” Science. AAAS, 2019. https://doi.org/10.1126/science.aav2522.
ieee: L. Telley et al., “Temporal patterning of apical progenitors and their
daughter neurons in the developing neocortex,” Science, vol. 364, no. 6440.
AAAS, 2019.
ista: Telley L, Agirman G, Prados J, Amberg N, Fièvre S, Oberst P, Bartolini G,
Vitali I, Cadilhac C, Hippenmeyer S, Nguyen L, Dayer A, Jabaudon D. 2019. Temporal
patterning of apical progenitors and their daughter neurons in the developing
neocortex. Science. 364(6440), eaav2522.
mla: Telley, L., et al. “Temporal Patterning of Apical Progenitors and Their Daughter
Neurons in the Developing Neocortex.” Science, vol. 364, no. 6440, eaav2522,
AAAS, 2019, doi:10.1126/science.aav2522.
short: L. Telley, G. Agirman, J. Prados, N. Amberg, S. Fièvre, P. Oberst, G. Bartolini,
I. Vitali, C. Cadilhac, S. Hippenmeyer, L. Nguyen, A. Dayer, D. Jabaudon, Science
364 (2019).
date_created: 2019-05-14T13:07:47Z
date_published: 2019-05-10T00:00:00Z
date_updated: 2023-09-05T11:51:09Z
day: '10'
department:
- _id: SiHi
doi: 10.1126/science.aav2522
ec_funded: 1
external_id:
isi:
- '000467631800034'
pmid:
- '31073041'
intvolume: ' 364'
isi: 1
issue: '6440'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://orbi.uliege.be/bitstream/2268/239604/1/Telley_Agirman_Science2019.pdf
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
- _id: 268F8446-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T0101031
name: Role of Eed in neural stem cell lineage progression
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: AAAS
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/how-to-generate-a-brain-of-correct-size-and-composition/
scopus_import: '1'
status: public
title: Temporal patterning of apical progenitors and their daughter neurons in the
developing neocortex
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 364
year: '2019'
...
---
_id: '6586'
abstract:
- lang: eng
text: The bottom-up assembly of colloidal nanocrystals is a versatile methodology
to produce composite nanomaterials with precisely tuned electronic properties.
Beyond the synthetic control over crystal domain size, shape, crystal phase, and
composition, solution-processed nanocrystals allow exquisite surface engineering.
This provides additional means to modulate the nanomaterial characteristics and
particularly its electronic transport properties. For instance, inorganic surface
ligands can be used to tune the type and concentration of majority carriers or
to modify the electronic band structure. Herein, we report the thermoelectric
properties of SnTe nanocomposites obtained from the consolidation of surface-engineered
SnTe nanocrystals into macroscopic pellets. A CdSe-based ligand is selected to
(i) converge the light and heavy bands through partial Cd alloying and (ii) generate
CdSe nanoinclusions as a secondary phase within the SnTe matrix, thereby reducing
the thermal conductivity. These SnTe-CdSe nanocomposites possess thermoelectric
figures of merit of up to 1.3 at 850 K, which is, to the best of our knowledge,
the highest thermoelectric figure of merit reported for solution-processed SnTe.
article_processing_charge: No
article_type: original
author:
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Roger
full_name: Hasler, Roger
last_name: Hasler
- first_name: Aziz
full_name: Genç, Aziz
last_name: Genç
- first_name: Yu
full_name: Liu, Yu
id: 2A70014E-F248-11E8-B48F-1D18A9856A87
last_name: Liu
orcid: 0000-0001-7313-6740
- first_name: Beatrice
full_name: Kuster, Beatrice
last_name: Kuster
- first_name: Maximilian
full_name: Schuster, Maximilian
last_name: Schuster
- first_name: Oleksandr
full_name: Dobrozhan, Oleksandr
last_name: Dobrozhan
- first_name: Doris
full_name: Cadavid, Doris
last_name: Cadavid
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
- first_name: Maksym V.
full_name: Kovalenko, Maksym V.
last_name: Kovalenko
citation:
ama: Ibáñez M, Hasler R, Genç A, et al. Ligand-mediated band engineering in bottom-up
assembled SnTe nanocomposites for thermoelectric energy conversion. Journal
of the American Chemical Society. 2019;141(20):8025-8029. doi:10.1021/jacs.9b01394
apa: Ibáñez, M., Hasler, R., Genç, A., Liu, Y., Kuster, B., Schuster, M., … Kovalenko,
M. V. (2019). Ligand-mediated band engineering in bottom-up assembled SnTe nanocomposites
for thermoelectric energy conversion. Journal of the American Chemical Society.
American Chemical Society. https://doi.org/10.1021/jacs.9b01394
chicago: Ibáñez, Maria, Roger Hasler, Aziz Genç, Yu Liu, Beatrice Kuster, Maximilian
Schuster, Oleksandr Dobrozhan, et al. “Ligand-Mediated Band Engineering in Bottom-up
Assembled SnTe Nanocomposites for Thermoelectric Energy Conversion.” Journal
of the American Chemical Society. American Chemical Society, 2019. https://doi.org/10.1021/jacs.9b01394.
ieee: M. Ibáñez et al., “Ligand-mediated band engineering in bottom-up assembled
SnTe nanocomposites for thermoelectric energy conversion,” Journal of the American
Chemical Society, vol. 141, no. 20. American Chemical Society, pp. 8025–8029,
2019.
ista: Ibáñez M, Hasler R, Genç A, Liu Y, Kuster B, Schuster M, Dobrozhan O, Cadavid
D, Arbiol J, Cabot A, Kovalenko MV. 2019. Ligand-mediated band engineering in
bottom-up assembled SnTe nanocomposites for thermoelectric energy conversion.
Journal of the American Chemical Society. 141(20), 8025–8029.
mla: Ibáñez, Maria, et al. “Ligand-Mediated Band Engineering in Bottom-up Assembled
SnTe Nanocomposites for Thermoelectric Energy Conversion.” Journal of the American
Chemical Society, vol. 141, no. 20, American Chemical Society, 2019, pp. 8025–29,
doi:10.1021/jacs.9b01394.
short: M. Ibáñez, R. Hasler, A. Genç, Y. Liu, B. Kuster, M. Schuster, O. Dobrozhan,
D. Cadavid, J. Arbiol, A. Cabot, M.V. Kovalenko, Journal of the American Chemical
Society 141 (2019) 8025–8029.
date_created: 2019-06-25T11:53:35Z
date_published: 2019-04-19T00:00:00Z
date_updated: 2023-09-05T12:03:45Z
day: '19'
ddc:
- '540'
department:
- _id: MaIb
doi: 10.1021/jacs.9b01394
ec_funded: 1
external_id:
isi:
- '000469292300004'
pmid:
- '31017419 '
file:
- access_level: open_access
checksum: 34d7ec837869cc6a07996b54f75696b7
content_type: application/pdf
creator: cpetz
date_created: 2019-06-25T11:59:00Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6587'
file_name: JACS_April2019.pdf
file_size: 6234004
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 141'
isi: 1
issue: '20'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 8025-8029
pmid: 1
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Journal of the American Chemical Society
publication_identifier:
eissn:
- 1520-5126
issn:
- 0002-7863
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ligand-mediated band engineering in bottom-up assembled SnTe nanocomposites
for thermoelectric energy conversion
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 141
year: '2019'
...
---
_id: '6174'
abstract:
- lang: eng
text: We propose a scaling theory for the many-body localization (MBL) phase transition
in one dimension, building on the idea that it proceeds via a “quantum avalanche.”
We argue that the critical properties can be captured at a coarse-grained level
by a Kosterlitz-Thouless (KT) renormalization group (RG) flow. On phenomenological
grounds, we identify the scaling variables as the density of thermal regions and
the length scale that controls the decay of typical matrix elements. Within this
KT picture, the MBL phase is a line of fixed points that terminates at the delocalization
transition. We discuss two possible scenarios distinguished by the distribution
of rare, fractal thermal inclusions within the MBL phase. In the first scenario,
these regions have a stretched exponential distribution in the MBL phase. In the
second scenario, the near-critical MBL phase hosts rare thermal regions that are
power-law-distributed in size. This points to the existence of a second transition
within the MBL phase, at which these power laws change to the stretched exponential
form expected at strong disorder. We numerically simulate two different phenomenological
RGs previously proposed to describe the MBL transition. Both RGs display a universal
power-law length distribution of thermal regions at the transition with a critical
exponent αc=2, and continuously varying exponents in the MBL phase consistent
with the KT picture.
article_number: '094205'
article_processing_charge: No
article_type: original
author:
- first_name: Philipp T.
full_name: Dumitrescu, Philipp T.
last_name: Dumitrescu
- first_name: Anna
full_name: Goremykina, Anna
last_name: Goremykina
- first_name: Siddharth A.
full_name: Parameswaran, Siddharth A.
last_name: Parameswaran
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Romain
full_name: Vasseur, Romain
last_name: Vasseur
citation:
ama: Dumitrescu PT, Goremykina A, Parameswaran SA, Serbyn M, Vasseur R. Kosterlitz-Thouless
scaling at many-body localization phase transitions. Physical Review B.
2019;99(9). doi:10.1103/physrevb.99.094205
apa: Dumitrescu, P. T., Goremykina, A., Parameswaran, S. A., Serbyn, M., & Vasseur,
R. (2019). Kosterlitz-Thouless scaling at many-body localization phase transitions.
Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.99.094205
chicago: Dumitrescu, Philipp T., Anna Goremykina, Siddharth A. Parameswaran, Maksym
Serbyn, and Romain Vasseur. “Kosterlitz-Thouless Scaling at Many-Body Localization
Phase Transitions.” Physical Review B. American Physical Society, 2019.
https://doi.org/10.1103/physrevb.99.094205.
ieee: P. T. Dumitrescu, A. Goremykina, S. A. Parameswaran, M. Serbyn, and R. Vasseur,
“Kosterlitz-Thouless scaling at many-body localization phase transitions,” Physical
Review B, vol. 99, no. 9. American Physical Society, 2019.
ista: Dumitrescu PT, Goremykina A, Parameswaran SA, Serbyn M, Vasseur R. 2019. Kosterlitz-Thouless
scaling at many-body localization phase transitions. Physical Review B. 99(9),
094205.
mla: Dumitrescu, Philipp T., et al. “Kosterlitz-Thouless Scaling at Many-Body Localization
Phase Transitions.” Physical Review B, vol. 99, no. 9, 094205, American
Physical Society, 2019, doi:10.1103/physrevb.99.094205.
short: P.T. Dumitrescu, A. Goremykina, S.A. Parameswaran, M. Serbyn, R. Vasseur,
Physical Review B 99 (2019).
date_created: 2019-03-25T07:32:08Z
date_published: 2019-03-22T00:00:00Z
date_updated: 2023-09-05T12:11:13Z
day: '22'
department:
- _id: MaSe
doi: 10.1103/physrevb.99.094205
external_id:
arxiv:
- '1811.03103'
isi:
- '000462883200001'
intvolume: ' 99'
isi: 1
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1811.03103
month: '03'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Kosterlitz-Thouless scaling at many-body localization phase transitions
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 99
year: '2019'
...
---
_id: '6366'
abstract:
- lang: eng
text: Plants have a remarkable capacity to adjust their growth and development to
elevated ambient temperatures. Increased elongation growth of roots, hypocotyls
and petioles in warm temperatures are hallmarks of seedling thermomorphogenesis.
In the last decade, significant progress has been made to identify the molecular
signaling components regulating these growth responses. Increased ambient temperature
utilizes diverse components of the light sensing and signal transduction network
to trigger growth adjustments. However, it remains unknown whether temperature
sensing and responses are universal processes that occur uniformly in all plant
organs. Alternatively, temperature sensing may be confined to specific tissues
or organs, which would require a systemic signal that mediates responses in distal
parts of the plant. Here we show that Arabidopsis (Arabidopsis thaliana) seedlings
show organ-specific transcriptome responses to elevated temperatures, and that
thermomorphogenesis involves both autonomous and organ-interdependent temperature
sensing and signaling. Seedling roots can sense and respond to temperature in
a shoot-independent manner, whereas shoot temperature responses require both local
and systemic processes. The induction of cell elongation in hypocotyls requires
temperature sensing in cotyledons, followed by generation of a mobile auxin signal.
Subsequently, auxin travels to the hypocotyl where it triggers local brassinosteroid-induced
cell elongation in seedling stems, which depends upon a distinct, permissive temperature
sensor in the hypocotyl.
article_processing_charge: No
article_type: original
author:
- first_name: Julia
full_name: Bellstaedt, Julia
last_name: Bellstaedt
- first_name: Jana
full_name: Trenner, Jana
last_name: Trenner
- first_name: Rebecca
full_name: Lippmann, Rebecca
last_name: Lippmann
- first_name: Yvonne
full_name: Poeschl, Yvonne
last_name: Poeschl
- first_name: Xixi
full_name: Zhang, Xixi
id: 61A66458-47E9-11EA-85BA-8AEAAF14E49A
last_name: Zhang
orcid: 0000-0001-7048-4627
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Marcel
full_name: Quint, Marcel
last_name: Quint
- first_name: Carolin
full_name: Delker, Carolin
last_name: Delker
citation:
ama: Bellstaedt J, Trenner J, Lippmann R, et al. A mobile auxin signal connects
temperature sensing in cotyledons with growth responses in hypocotyls. Plant
Physiology. 2019;180(2):757-766. doi:10.1104/pp.18.01377
apa: Bellstaedt, J., Trenner, J., Lippmann, R., Poeschl, Y., Zhang, X., Friml, J.,
… Delker, C. (2019). A mobile auxin signal connects temperature sensing in cotyledons
with growth responses in hypocotyls. Plant Physiology. ASPB. https://doi.org/10.1104/pp.18.01377
chicago: Bellstaedt, Julia, Jana Trenner, Rebecca Lippmann, Yvonne Poeschl, Xixi
Zhang, Jiří Friml, Marcel Quint, and Carolin Delker. “A Mobile Auxin Signal Connects
Temperature Sensing in Cotyledons with Growth Responses in Hypocotyls.” Plant
Physiology. ASPB, 2019. https://doi.org/10.1104/pp.18.01377.
ieee: J. Bellstaedt et al., “A mobile auxin signal connects temperature sensing
in cotyledons with growth responses in hypocotyls,” Plant Physiology, vol.
180, no. 2. ASPB, pp. 757–766, 2019.
ista: Bellstaedt J, Trenner J, Lippmann R, Poeschl Y, Zhang X, Friml J, Quint M,
Delker C. 2019. A mobile auxin signal connects temperature sensing in cotyledons
with growth responses in hypocotyls. Plant Physiology. 180(2), 757–766.
mla: Bellstaedt, Julia, et al. “A Mobile Auxin Signal Connects Temperature Sensing
in Cotyledons with Growth Responses in Hypocotyls.” Plant Physiology, vol.
180, no. 2, ASPB, 2019, pp. 757–66, doi:10.1104/pp.18.01377.
short: J. Bellstaedt, J. Trenner, R. Lippmann, Y. Poeschl, X. Zhang, J. Friml, M.
Quint, C. Delker, Plant Physiology 180 (2019) 757–766.
date_created: 2019-04-30T15:24:22Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2023-09-05T12:25:19Z
day: '01'
department:
- _id: JiFr
doi: 10.1104/pp.18.01377
external_id:
isi:
- '000470086100019'
pmid:
- '31000634'
intvolume: ' 180'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: www.doi.org/10.1104/pp.18.01377
month: '06'
oa: 1
oa_version: Published Version
page: 757-766
pmid: 1
publication: Plant Physiology
publication_identifier:
eissn:
- 1532-2548
issn:
- 0032-0889
publication_status: published
publisher: ASPB
quality_controlled: '1'
scopus_import: '1'
status: public
title: A mobile auxin signal connects temperature sensing in cotyledons with growth
responses in hypocotyls
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 180
year: '2019'
...
---
_id: '6986'
abstract:
- lang: eng
text: 'Li-Nadler proposed a conjecture about traces of Hecke categories, which implies
the semistable part of the Betti geometric Langlands conjecture of Ben-Zvi-Nadler
in genus 1. We prove a Weyl group analogue of this conjecture. Our theorem holds
in the natural generality of reflection groups in Euclidean or hyperbolic space.
As a corollary, we give an expression of the centralizer of a finite order element
in a reflection group using homotopy theory. '
article_processing_charge: No
article_type: original
author:
- first_name: Penghui
full_name: Li, Penghui
id: 42A24CCC-F248-11E8-B48F-1D18A9856A87
last_name: Li
citation:
ama: Li P. A colimit of traces of reflection groups. Proceedings of the American
Mathematical Society. 2019;147(11):4597-4604. doi:10.1090/proc/14586
apa: Li, P. (2019). A colimit of traces of reflection groups. Proceedings of
the American Mathematical Society. AMS. https://doi.org/10.1090/proc/14586
chicago: Li, Penghui. “A Colimit of Traces of Reflection Groups.” Proceedings
of the American Mathematical Society. AMS, 2019. https://doi.org/10.1090/proc/14586.
ieee: P. Li, “A colimit of traces of reflection groups,” Proceedings of the American
Mathematical Society, vol. 147, no. 11. AMS, pp. 4597–4604, 2019.
ista: Li P. 2019. A colimit of traces of reflection groups. Proceedings of the American
Mathematical Society. 147(11), 4597–4604.
mla: Li, Penghui. “A Colimit of Traces of Reflection Groups.” Proceedings of
the American Mathematical Society, vol. 147, no. 11, AMS, 2019, pp. 4597–604,
doi:10.1090/proc/14586.
short: P. Li, Proceedings of the American Mathematical Society 147 (2019) 4597–4604.
date_created: 2019-11-04T16:10:50Z
date_published: 2019-11-01T00:00:00Z
date_updated: 2023-09-05T12:22:21Z
day: '01'
department:
- _id: TaHa
doi: 10.1090/proc/14586
ec_funded: 1
external_id:
arxiv:
- '1810.07039'
isi:
- '000488621700004'
intvolume: ' 147'
isi: 1
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1810.07039
month: '11'
oa: 1
oa_version: Preprint
page: 4597-4604
project:
- _id: 25E549F4-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '320593'
name: Arithmetic and physics of Higgs moduli spaces
publication: Proceedings of the American Mathematical Society
publication_identifier:
eissn:
- 1088-6826
issn:
- 0002-9939
publication_status: published
publisher: AMS
quality_controlled: '1'
scopus_import: '1'
status: public
title: A colimit of traces of reflection groups
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 147
year: '2019'
...
---
_id: '6454'
abstract:
- lang: eng
text: 'Adult neural stem cells and multiciliated ependymalcells are glial cells
essential for neurological func-tions. Together, they make up the adult neurogenicniche.
Using both high-throughput clonal analysisand single-cell resolution of progenitor
division pat-terns and fate, we show that these two componentsof the neurogenic
niche are lineally related: adult neu-ral stem cells are sister cells to ependymal
cells,whereas most ependymal cells arise from the termi-nal symmetric divisions
of the lineage. Unexpectedly,we found that the antagonist regulators of DNA repli-cation,
GemC1 and Geminin, can tune the proportionof neural stem cells and ependymal cells.
Our find-ings reveal the controlled dynamic of the neurogenicniche ontogeny and
identify the Geminin familymembers as key regulators of the initial pool of adultneural
stem cells.'
article_processing_charge: No
author:
- first_name: G
full_name: Ortiz-Álvarez, G
last_name: Ortiz-Álvarez
- first_name: M
full_name: Daclin, M
last_name: Daclin
- first_name: A
full_name: Shihavuddin, A
last_name: Shihavuddin
- first_name: P
full_name: Lansade, P
last_name: Lansade
- first_name: A
full_name: Fortoul, A
last_name: Fortoul
- first_name: M
full_name: Faucourt, M
last_name: Faucourt
- first_name: S
full_name: Clavreul, S
last_name: Clavreul
- first_name: ME
full_name: Lalioti, ME
last_name: Lalioti
- first_name: S
full_name: Taraviras, S
last_name: Taraviras
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: J
full_name: Livet, J
last_name: Livet
- first_name: A
full_name: Meunier, A
last_name: Meunier
- first_name: A
full_name: Genovesio, A
last_name: Genovesio
- first_name: N
full_name: Spassky, N
last_name: Spassky
citation:
ama: Ortiz-Álvarez G, Daclin M, Shihavuddin A, et al. Adult neural stem cells and
multiciliated ependymal cells share a common lineage regulated by the Geminin
family members. Neuron. 2019;102(1):159-172.e7. doi:10.1016/j.neuron.2019.01.051
apa: Ortiz-Álvarez, G., Daclin, M., Shihavuddin, A., Lansade, P., Fortoul, A., Faucourt,
M., … Spassky, N. (2019). Adult neural stem cells and multiciliated ependymal
cells share a common lineage regulated by the Geminin family members. Neuron.
Elsevier. https://doi.org/10.1016/j.neuron.2019.01.051
chicago: Ortiz-Álvarez, G, M Daclin, A Shihavuddin, P Lansade, A Fortoul, M Faucourt,
S Clavreul, et al. “Adult Neural Stem Cells and Multiciliated Ependymal Cells
Share a Common Lineage Regulated by the Geminin Family Members.” Neuron.
Elsevier, 2019. https://doi.org/10.1016/j.neuron.2019.01.051.
ieee: G. Ortiz-Álvarez et al., “Adult neural stem cells and multiciliated
ependymal cells share a common lineage regulated by the Geminin family members,”
Neuron, vol. 102, no. 1. Elsevier, p. 159–172.e7, 2019.
ista: Ortiz-Álvarez G, Daclin M, Shihavuddin A, Lansade P, Fortoul A, Faucourt M,
Clavreul S, Lalioti M, Taraviras S, Hippenmeyer S, Livet J, Meunier A, Genovesio
A, Spassky N. 2019. Adult neural stem cells and multiciliated ependymal cells
share a common lineage regulated by the Geminin family members. Neuron. 102(1),
159–172.e7.
mla: Ortiz-Álvarez, G., et al. “Adult Neural Stem Cells and Multiciliated Ependymal
Cells Share a Common Lineage Regulated by the Geminin Family Members.” Neuron,
vol. 102, no. 1, Elsevier, 2019, p. 159–172.e7, doi:10.1016/j.neuron.2019.01.051.
short: G. Ortiz-Álvarez, M. Daclin, A. Shihavuddin, P. Lansade, A. Fortoul, M. Faucourt,
S. Clavreul, M. Lalioti, S. Taraviras, S. Hippenmeyer, J. Livet, A. Meunier, A.
Genovesio, N. Spassky, Neuron 102 (2019) 159–172.e7.
date_created: 2019-05-14T13:06:30Z
date_published: 2019-04-03T00:00:00Z
date_updated: 2023-09-05T13:02:21Z
day: '03'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1016/j.neuron.2019.01.051
ec_funded: 1
external_id:
isi:
- '000463337900018'
pmid:
- '30824354'
file:
- access_level: open_access
checksum: 1fb6e195c583eb0c5cabf26f69ff6675
content_type: application/pdf
creator: dernst
date_created: 2019-05-15T09:28:41Z
date_updated: 2020-07-14T12:47:30Z
file_id: '6457'
file_name: 2019_Neuron_Ortiz.pdf
file_size: 7288572
relation: main_file
file_date_updated: 2020-07-14T12:47:30Z
has_accepted_license: '1'
intvolume: ' 102'
isi: 1
issue: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '04'
oa: 1
oa_version: Published Version
page: 159-172.e7
pmid: 1
project:
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Neuron
publication_identifier:
eissn:
- 1097-4199
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Adult neural stem cells and multiciliated ependymal cells share a common lineage
regulated by the Geminin family members
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 102
year: '2019'
...
---
_id: '6979'
article_processing_charge: No
article_type: original
author:
- first_name: Aglaja
full_name: Kopf, Aglaja
id: 31DAC7B6-F248-11E8-B48F-1D18A9856A87
last_name: Kopf
orcid: 0000-0002-2187-6656
- 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: 'Kopf A, Sixt MK. Gut homeostasis: Active migration of intestinal epithelial
cells in tissue renewal. Current Biology. 2019;29(20):R1091-R1093. doi:10.1016/j.cub.2019.08.068'
apa: 'Kopf, A., & Sixt, M. K. (2019). Gut homeostasis: Active migration of intestinal
epithelial cells in tissue renewal. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2019.08.068'
chicago: 'Kopf, Aglaja, and Michael K Sixt. “Gut Homeostasis: Active Migration of
Intestinal Epithelial Cells in Tissue Renewal.” Current Biology. Cell Press,
2019. https://doi.org/10.1016/j.cub.2019.08.068.'
ieee: 'A. Kopf and M. K. Sixt, “Gut homeostasis: Active migration of intestinal
epithelial cells in tissue renewal,” Current Biology, vol. 29, no. 20.
Cell Press, pp. R1091–R1093, 2019.'
ista: 'Kopf A, Sixt MK. 2019. Gut homeostasis: Active migration of intestinal epithelial
cells in tissue renewal. Current Biology. 29(20), R1091–R1093.'
mla: 'Kopf, Aglaja, and Michael K. Sixt. “Gut Homeostasis: Active Migration of Intestinal
Epithelial Cells in Tissue Renewal.” Current Biology, vol. 29, no. 20,
Cell Press, 2019, pp. R1091–93, doi:10.1016/j.cub.2019.08.068.'
short: A. Kopf, M.K. Sixt, Current Biology 29 (2019) R1091–R1093.
date_created: 2019-11-04T15:18:29Z
date_published: 2019-10-21T00:00:00Z
date_updated: 2023-09-05T12:43:43Z
day: '21'
department:
- _id: MiSi
doi: 10.1016/j.cub.2019.08.068
external_id:
isi:
- '000491286200016'
pmid:
- '31639357'
intvolume: ' 29'
isi: 1
issue: '20'
language:
- iso: eng
month: '10'
oa_version: None
page: R1091-R1093
pmid: 1
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
publication_status: published
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Gut homeostasis: Active migration of intestinal epithelial cells in tissue
renewal'
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 29
year: '2019'
...
---
_id: '6980'
abstract:
- lang: eng
text: Tissue morphogenesis in multicellular organisms is brought about by spatiotemporal
coordination of mechanical and chemical signals. Extensive work on how mechanical
forces together with the well‐established morphogen signalling pathways can actively
shape living tissues has revealed evolutionary conserved mechanochemical features
of embryonic development. More recently, attention has been drawn to the description
of tissue material properties and how they can influence certain morphogenetic
processes. Interestingly, besides the role of tissue material properties in determining
how much tissues deform in response to force application, there is increasing
theoretical and experimental evidence, suggesting that tissue material properties
can abruptly and drastically change in development. These changes resemble phase
transitions, pointing at the intriguing possibility that important morphogenetic
processes in development, such as symmetry breaking and self‐organization, might
be mediated by tissue phase transitions. In this review, we summarize recent findings
on the regulation and role of tissue material properties in the context of the
developing embryo. We posit that abrupt changes of tissue rheological properties
may have important implications in maintaining the balance between robustness
and adaptability during embryonic development.
article_number: e102497
article_processing_charge: Yes (via OA deal)
article_type: review
author:
- first_name: Nicoletta
full_name: Petridou, Nicoletta
id: 2A003F6C-F248-11E8-B48F-1D18A9856A87
last_name: Petridou
orcid: 0000-0002-8451-1195
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Petridou N, Heisenberg C-PJ. Tissue rheology in embryonic organization. The
EMBO Journal. 2019;38(20). doi:10.15252/embj.2019102497
apa: Petridou, N., & Heisenberg, C.-P. J. (2019). Tissue rheology in embryonic
organization. The EMBO Journal. EMBO. https://doi.org/10.15252/embj.2019102497
chicago: Petridou, Nicoletta, and Carl-Philipp J Heisenberg. “Tissue Rheology in
Embryonic Organization.” The EMBO Journal. EMBO, 2019. https://doi.org/10.15252/embj.2019102497.
ieee: N. Petridou and C.-P. J. Heisenberg, “Tissue rheology in embryonic organization,”
The EMBO Journal, vol. 38, no. 20. EMBO, 2019.
ista: Petridou N, Heisenberg C-PJ. 2019. Tissue rheology in embryonic organization.
The EMBO Journal. 38(20), e102497.
mla: Petridou, Nicoletta, and Carl-Philipp J. Heisenberg. “Tissue Rheology in Embryonic
Organization.” The EMBO Journal, vol. 38, no. 20, e102497, EMBO, 2019,
doi:10.15252/embj.2019102497.
short: N. Petridou, C.-P.J. Heisenberg, The EMBO Journal 38 (2019).
date_created: 2019-11-04T15:24:29Z
date_published: 2019-10-15T00:00:00Z
date_updated: 2023-09-05T13:04:13Z
day: '15'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.15252/embj.2019102497
ec_funded: 1
external_id:
isi:
- '000485561900001'
pmid:
- '31512749'
file:
- access_level: open_access
checksum: 76f7f4e79ab6d850c30017a69726fd85
content_type: application/pdf
creator: dernst
date_created: 2019-11-04T15:30:08Z
date_updated: 2020-07-14T12:47:46Z
file_id: '6981'
file_name: 2019_Embo_Petridou.pdf
file_size: 847356
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 38'
isi: 1
issue: '20'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
- _id: 2693FD8C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: V00736
name: Tissue material properties in embryonic development
publication: The EMBO Journal
publication_identifier:
eissn:
- 1460-2075
issn:
- 0261-4189
publication_status: published
publisher: EMBO
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tissue rheology in embryonic 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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 38
year: '2019'
...
---
_id: '6554'
abstract:
- lang: eng
text: Due to the importance of zero-shot learning, i.e. classifying images where
there is a lack of labeled training data, the number of proposed approaches has
recently increased steadily. We argue that it is time to take a step back and
to analyze the status quo of the area. The purpose of this paper is three-fold.
First, given the fact that there is no agreed upon zero-shot learning benchmark,
we first define a new benchmark by unifying both the evaluation protocols and
data splits of publicly available datasets used for this task. This is an important
contribution as published results are often not comparable and sometimes even
flawed due to, e.g. pre-training on zero-shot test classes. Moreover, we propose
a new zero-shot learning dataset, the Animals with Attributes 2 (AWA2) dataset
which we make publicly available both in terms of image features and the images
themselves. Second, we compare and analyze a significant number of the state-of-the-art
methods in depth, both in the classic zero-shot setting but also in the more realistic
generalized zero-shot setting. Finally, we discuss in detail the limitations of
the current status of the area which can be taken as a basis for advancing it.
article_processing_charge: No
article_type: original
author:
- first_name: Yongqin
full_name: Xian, Yongqin
last_name: Xian
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0002-4561-241X
- first_name: Bernt
full_name: Schiele, Bernt
last_name: Schiele
- first_name: Zeynep
full_name: Akata, Zeynep
last_name: Akata
citation:
ama: Xian Y, Lampert C, Schiele B, Akata Z. Zero-shot learning - A comprehensive
evaluation of the good, the bad and the ugly. IEEE Transactions on Pattern
Analysis and Machine Intelligence. 2019;41(9):2251-2265. doi:10.1109/tpami.2018.2857768
apa: Xian, Y., Lampert, C., Schiele, B., & Akata, Z. (2019). Zero-shot learning
- A comprehensive evaluation of the good, the bad and the ugly. IEEE Transactions
on Pattern Analysis and Machine Intelligence. Institute of Electrical and
Electronics Engineers (IEEE). https://doi.org/10.1109/tpami.2018.2857768
chicago: Xian, Yongqin, Christoph Lampert, Bernt Schiele, and Zeynep Akata. “Zero-Shot
Learning - A Comprehensive Evaluation of the Good, the Bad and the Ugly.” IEEE
Transactions on Pattern Analysis and Machine Intelligence. Institute of Electrical
and Electronics Engineers (IEEE), 2019. https://doi.org/10.1109/tpami.2018.2857768.
ieee: Y. Xian, C. Lampert, B. Schiele, and Z. Akata, “Zero-shot learning - A comprehensive
evaluation of the good, the bad and the ugly,” IEEE Transactions on Pattern
Analysis and Machine Intelligence, vol. 41, no. 9. Institute of Electrical
and Electronics Engineers (IEEE), pp. 2251–2265, 2019.
ista: Xian Y, Lampert C, Schiele B, Akata Z. 2019. Zero-shot learning - A comprehensive
evaluation of the good, the bad and the ugly. IEEE Transactions on Pattern Analysis
and Machine Intelligence. 41(9), 2251–2265.
mla: Xian, Yongqin, et al. “Zero-Shot Learning - A Comprehensive Evaluation of the
Good, the Bad and the Ugly.” IEEE Transactions on Pattern Analysis and Machine
Intelligence, vol. 41, no. 9, Institute of Electrical and Electronics Engineers
(IEEE), 2019, pp. 2251–65, doi:10.1109/tpami.2018.2857768.
short: Y. Xian, C. Lampert, B. Schiele, Z. Akata, IEEE Transactions on Pattern Analysis
and Machine Intelligence 41 (2019) 2251–2265.
date_created: 2019-06-11T14:05:59Z
date_published: 2019-09-01T00:00:00Z
date_updated: 2023-09-05T13:18:09Z
day: '01'
department:
- _id: ChLa
doi: 10.1109/tpami.2018.2857768
external_id:
arxiv:
- '1707.00600'
isi:
- '000480343900015'
intvolume: ' 41'
isi: 1
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1707.00600
month: '09'
oa: 1
oa_version: Preprint
page: 2251 - 2265
publication: IEEE Transactions on Pattern Analysis and Machine Intelligence
publication_identifier:
eissn:
- 1939-3539
issn:
- 0162-8828
publication_status: published
publisher: Institute of Electrical and Electronics Engineers (IEEE)
quality_controlled: '1'
scopus_import: '1'
status: public
title: Zero-shot learning - A comprehensive evaluation of the good, the bad and the
ugly
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 41
year: '2019'
...
---
_id: '6259'
abstract:
- lang: eng
text: The plant hormone auxin has crucial roles in almost all aspects of plant growth
and development. Concentrations of auxin vary across different tissues, mediating
distinct developmental outcomes and contributing to the functional diversity of
auxin. However, the mechanisms that underlie these activities are poorly understood.
Here we identify an auxin signalling mechanism, which acts in parallel to the
canonical auxin pathway based on the transport inhibitor response1 (TIR1) and
other auxin receptor F-box (AFB) family proteins (TIR1/AFB receptors)1,2, that
translates levels of cellular auxin to mediate differential growth during apical-hook
development. This signalling mechanism operates at the concave side of the apical
hook, and involves auxin-mediated C-terminal cleavage of transmembrane kinase
1 (TMK1). The cytosolic and nucleus-translocated C terminus of TMK1 specifically
interacts with and phosphorylates two non-canonical transcriptional repressors
of the auxin or indole-3-acetic acid (Aux/IAA) family (IAA32 and IAA34), thereby
regulating ARF transcription factors. In contrast to the degradation of Aux/IAA
transcriptional repressors in the canonical pathway, the newly identified mechanism
stabilizes the non-canonical IAA32 and IAA34 transcriptional repressors to regulate
gene expression and ultimately inhibit growth. The auxin–TMK1 signalling pathway
originates at the cell surface, is triggered by high levels of auxin and shares
a partially overlapping set of transcription factors with the TIR1/AFB signalling
pathway. This allows distinct interpretations of different concentrations of cellular
auxin, and thus enables this versatile signalling molecule to mediate complex
developmental outcomes.
article_processing_charge: No
article_type: original
author:
- first_name: Min
full_name: Cao, Min
last_name: Cao
- first_name: Rong
full_name: Chen, Rong
last_name: Chen
- first_name: Pan
full_name: Li, Pan
last_name: Li
- first_name: Yongqiang
full_name: Yu, Yongqiang
last_name: Yu
- first_name: Rui
full_name: Zheng, Rui
last_name: Zheng
- first_name: Danfeng
full_name: Ge, Danfeng
last_name: Ge
- first_name: Wei
full_name: Zheng, Wei
last_name: Zheng
- first_name: Xuhui
full_name: Wang, Xuhui
last_name: Wang
- first_name: Yangtao
full_name: Gu, Yangtao
last_name: Gu
- first_name: Zuzana
full_name: Gelová, Zuzana
id: 0AE74790-0E0B-11E9-ABC7-1ACFE5697425
last_name: Gelová
orcid: 0000-0003-4783-1752
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Heng
full_name: Zhang, Heng
last_name: Zhang
- first_name: Renyi
full_name: Liu, Renyi
last_name: Liu
- first_name: Jun
full_name: He, Jun
last_name: He
- first_name: Tongda
full_name: Xu, Tongda
last_name: Xu
citation:
ama: Cao M, Chen R, Li P, et al. TMK1-mediated auxin signalling regulates differential
growth of the apical hook. Nature. 2019;568:240-243. doi:10.1038/s41586-019-1069-7
apa: Cao, M., Chen, R., Li, P., Yu, Y., Zheng, R., Ge, D., … Xu, T. (2019). TMK1-mediated
auxin signalling regulates differential growth of the apical hook. Nature.
Springer Nature. https://doi.org/10.1038/s41586-019-1069-7
chicago: Cao, Min, Rong Chen, Pan Li, Yongqiang Yu, Rui Zheng, Danfeng Ge, Wei Zheng,
et al. “TMK1-Mediated Auxin Signalling Regulates Differential Growth of the Apical
Hook.” Nature. Springer Nature, 2019. https://doi.org/10.1038/s41586-019-1069-7.
ieee: M. Cao et al., “TMK1-mediated auxin signalling regulates differential
growth of the apical hook,” Nature, vol. 568. Springer Nature, pp. 240–243,
2019.
ista: Cao M, Chen R, Li P, Yu Y, Zheng R, Ge D, Zheng W, Wang X, Gu Y, Gelová Z,
Friml J, Zhang H, Liu R, He J, Xu T. 2019. TMK1-mediated auxin signalling regulates
differential growth of the apical hook. Nature. 568, 240–243.
mla: Cao, Min, et al. “TMK1-Mediated Auxin Signalling Regulates Differential Growth
of the Apical Hook.” Nature, vol. 568, Springer Nature, 2019, pp. 240–43,
doi:10.1038/s41586-019-1069-7.
short: M. Cao, R. Chen, P. Li, Y. Yu, R. Zheng, D. Ge, W. Zheng, X. Wang, Y. Gu,
Z. Gelová, J. Friml, H. Zhang, R. Liu, J. He, T. Xu, Nature 568 (2019) 240–243.
date_created: 2019-04-09T08:37:05Z
date_published: 2019-04-11T00:00:00Z
date_updated: 2023-09-05T14:58:41Z
day: '11'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1038/s41586-019-1069-7
ec_funded: 1
external_id:
isi:
- '000464412700050'
pmid:
- '30944466'
file:
- access_level: open_access
checksum: 6b84ab602a34382cf0340a37a1378c75
content_type: application/pdf
creator: dernst
date_created: 2020-11-13T07:37:41Z
date_updated: 2020-11-13T07:37:41Z
file_id: '8751'
file_name: 2019_Nature _Cao_accepted.pdf
file_size: 4321328
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success: 1
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intvolume: ' 568'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Submitted Version
page: 240-243
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/newly-discovered-mechanism-of-plant-hormone-auxin-acts-the-opposite-way/
scopus_import: '1'
status: public
title: TMK1-mediated auxin signalling regulates differential growth of the apical
hook
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 568
year: '2019'
...
---
_id: '6987'
abstract:
- lang: eng
text: Cells are arranged into species-specific patterns during early embryogenesis.
Such cell division patterns are important since they often reflect the distribution
of localized cortical factors from eggs/fertilized eggs to specific cells as well
as the emergence of organismal form. However, it has proven difficult to reveal
the mechanisms that underlie the emergence of cell positioning patterns that underlie
embryonic shape, likely because a systems-level approach is required that integrates
cell biological, genetic, developmental, and mechanical parameters. The choice
of organism to address such questions is also important. Because ascidians display
the most extreme form of invariant cleavage pattern among the metazoans, we have
been analyzing the cell biological mechanisms that underpin three aspects of cell
division (unequal cell division (UCD), oriented cell division (OCD), and asynchronous
cell cycles) which affect the overall shape of the blastula-stage ascidian embryo
composed of 64 cells. In ascidians, UCD creates two small cells at the 16-cell
stage that in turn undergo two further successive rounds of UCD. Starting at the
16-cell stage, the cell cycle becomes asynchronous, whereby the vegetal half divides
before the animal half, thus creating 24-, 32-, 44-, and then 64-cell stages.
Perturbing either UCD or the alternate cell division rhythm perturbs cell position.
We propose that dynamic cell shape changes propagate throughout the embryo via
cell-cell contacts to create the ascidian-specific invariant cleavage pattern.
alternative_title:
- RESULTS
article_processing_charge: No
author:
- first_name: Alex
full_name: McDougall, Alex
last_name: McDougall
- first_name: Janet
full_name: Chenevert, Janet
last_name: Chenevert
- first_name: Benoit G
full_name: Godard, Benoit G
id: 33280250-F248-11E8-B48F-1D18A9856A87
last_name: Godard
- first_name: Remi
full_name: Dumollard, Remi
last_name: Dumollard
citation:
ama: 'McDougall A, Chenevert J, Godard BG, Dumollard R. Emergence of embryo shape
during cleavage divisions. In: Tworzydlo W, Bilinski SM, eds. Evo-Devo: Non-Model
Species in Cell and Developmental Biology. Vol 68. Springer Nature; 2019:127-154.
doi:10.1007/978-3-030-23459-1_6'
apa: 'McDougall, A., Chenevert, J., Godard, B. G., & Dumollard, R. (2019). Emergence
of embryo shape during cleavage divisions. In W. Tworzydlo & S. M. Bilinski
(Eds.), Evo-Devo: Non-model species in cell and developmental biology (Vol.
68, pp. 127–154). Springer Nature. https://doi.org/10.1007/978-3-030-23459-1_6'
chicago: 'McDougall, Alex, Janet Chenevert, Benoit G Godard, and Remi Dumollard.
“Emergence of Embryo Shape during Cleavage Divisions.” In Evo-Devo: Non-Model
Species in Cell and Developmental Biology, edited by Waclaw Tworzydlo and
Szczepan M. Bilinski, 68:127–54. Springer Nature, 2019. https://doi.org/10.1007/978-3-030-23459-1_6.'
ieee: 'A. McDougall, J. Chenevert, B. G. Godard, and R. Dumollard, “Emergence of
embryo shape during cleavage divisions,” in Evo-Devo: Non-model species in
cell and developmental biology, vol. 68, W. Tworzydlo and S. M. Bilinski,
Eds. Springer Nature, 2019, pp. 127–154.'
ista: 'McDougall A, Chenevert J, Godard BG, Dumollard R. 2019.Emergence of embryo
shape during cleavage divisions. In: Evo-Devo: Non-model species in cell and developmental
biology. RESULTS, vol. 68, 127–154.'
mla: 'McDougall, Alex, et al. “Emergence of Embryo Shape during Cleavage Divisions.”
Evo-Devo: Non-Model Species in Cell and Developmental Biology, edited by
Waclaw Tworzydlo and Szczepan M. Bilinski, vol. 68, Springer Nature, 2019, pp.
127–54, doi:10.1007/978-3-030-23459-1_6.'
short: 'A. McDougall, J. Chenevert, B.G. Godard, R. Dumollard, in:, W. Tworzydlo,
S.M. Bilinski (Eds.), Evo-Devo: Non-Model Species in Cell and Developmental Biology,
Springer Nature, 2019, pp. 127–154.'
date_created: 2019-11-04T16:20:19Z
date_published: 2019-10-10T00:00:00Z
date_updated: 2023-09-05T15:01:12Z
day: '10'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.1007/978-3-030-23459-1_6
editor:
- first_name: Waclaw
full_name: Tworzydlo, Waclaw
last_name: Tworzydlo
- first_name: Szczepan M.
full_name: Bilinski, Szczepan M.
last_name: Bilinski
external_id:
pmid:
- '31598855'
file:
- access_level: open_access
checksum: 7f43e1e3706d15061475c5c57efc2786
content_type: application/pdf
creator: dernst
date_created: 2020-05-14T10:09:30Z
date_updated: 2020-07-14T12:47:46Z
file_id: '7829'
file_name: 2019_RESULTS_McDougall.pdf
file_size: 19317348
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 68'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 127-154
pmid: 1
publication: 'Evo-Devo: Non-model species in cell and developmental biology'
publication_identifier:
eissn:
- 1861-0412
isbn:
- '9783030234584'
- '9783030234591'
issn:
- 0080-1844
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Emergence of embryo shape during cleavage divisions
type: book_chapter
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 68
year: '2019'
...
---
_id: '6762'
abstract:
- lang: eng
text: "We present and study novel optimal control problems motivated by the search
for photovoltaic materials with high power-conversion efficiency. The material
must perform the first step: convert light (photons) into electronic excitations.
We formulate various desirable properties of the excitations as mathematical control
goals at the Kohn-Sham-DFT level\r\nof theory, with the control being given by
the nuclear charge distribution. We prove that nuclear distributions exist which
give rise to optimal HOMO-LUMO excitations, and present illustrative numerical
simulations for 1D finite nanocrystals. We observe pronounced goal-dependent features
such as large electron-hole separation, and a hierarchy of length scales: internal
HOMO and LUMO wavelengths < atomic spacings < (irregular) fluctuations of the
doping profiles < system size."
article_processing_charge: No
author:
- first_name: Gero
full_name: Friesecke, Gero
last_name: Friesecke
- first_name: Michael
full_name: Kniely, Michael
id: 2CA2C08C-F248-11E8-B48F-1D18A9856A87
last_name: Kniely
orcid: 0000-0001-5645-4333
citation:
ama: Friesecke G, Kniely M. New optimal control problems in density functional theory
motivated by photovoltaics. Multiscale Modeling and Simulation. 2019;17(3):926-947.
doi:10.1137/18M1207272
apa: Friesecke, G., & Kniely, M. (2019). New optimal control problems in density
functional theory motivated by photovoltaics. Multiscale Modeling and Simulation.
SIAM. https://doi.org/10.1137/18M1207272
chicago: Friesecke, Gero, and Michael Kniely. “New Optimal Control Problems in Density
Functional Theory Motivated by Photovoltaics.” Multiscale Modeling and Simulation.
SIAM, 2019. https://doi.org/10.1137/18M1207272.
ieee: G. Friesecke and M. Kniely, “New optimal control problems in density functional
theory motivated by photovoltaics,” Multiscale Modeling and Simulation,
vol. 17, no. 3. SIAM, pp. 926–947, 2019.
ista: Friesecke G, Kniely M. 2019. New optimal control problems in density functional
theory motivated by photovoltaics. Multiscale Modeling and Simulation. 17(3),
926–947.
mla: Friesecke, Gero, and Michael Kniely. “New Optimal Control Problems in Density
Functional Theory Motivated by Photovoltaics.” Multiscale Modeling and Simulation,
vol. 17, no. 3, SIAM, 2019, pp. 926–47, doi:10.1137/18M1207272.
short: G. Friesecke, M. Kniely, Multiscale Modeling and Simulation 17 (2019) 926–947.
date_created: 2019-08-04T21:59:21Z
date_published: 2019-07-16T00:00:00Z
date_updated: 2023-09-05T15:05:45Z
day: '16'
department:
- _id: JuFi
doi: 10.1137/18M1207272
external_id:
arxiv:
- '1808.04200'
isi:
- '000487931800002'
intvolume: ' 17'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1808.04200
month: '07'
oa: 1
oa_version: Preprint
page: 926-947
publication: Multiscale Modeling and Simulation
publication_identifier:
eissn:
- '15403467'
issn:
- '15403459'
publication_status: published
publisher: SIAM
quality_controlled: '1'
scopus_import: '1'
status: public
title: New optimal control problems in density functional theory motivated by photovoltaics
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 17
year: '2019'
...
---
_id: '10874'
abstract:
- lang: eng
text: In this article we prove an analogue of a theorem of Lachaud, Ritzenthaler,
and Zykin, which allows us to connect invariants of binary octics to Siegel modular
forms of genus 3. We use this connection to show that certain modular functions,
when restricted to the hyperelliptic locus, assume values whose denominators are
products of powers of primes of bad reduction for the associated hyperelliptic
curves. We illustrate our theorem with explicit computations. This work is motivated
by the study of the values of these modular functions at CM points of the Siegel
upper half-space, which, if their denominators are known, can be used to effectively
compute models of (hyperelliptic, in our case) curves with CM.
acknowledgement: "The authors would like to thank the Lorentz Center in Leiden for
hosting the Women in Numbers Europe 2 workshop and providing a productive and enjoyable
environment for our initial work on this project. We are grateful to the organizers
of WIN-E2, Irene Bouw, Rachel Newton and Ekin Ozman, for making this conference
and this collaboration possible. We\r\nthank Irene Bouw and Christophe Ritzenhaler
for helpful discussions. Ionica acknowledges support from the Thomas Jefferson Fund
of the Embassy of France in the United States and the FACE Foundation. Most of Kılıçer’s
work was carried out during her stay in Universiteit Leiden and Carl von Ossietzky
Universität Oldenburg. Massierer was supported by the Australian Research Council
(DP150101689). Vincent is supported by the National Science Foundation under Grant
No. DMS-1802323 and by the Thomas Jefferson Fund of the Embassy of France in the
United States and the FACE Foundation. "
article_number: '9'
article_processing_charge: No
article_type: original
author:
- first_name: Sorina
full_name: Ionica, Sorina
last_name: Ionica
- first_name: Pınar
full_name: Kılıçer, Pınar
last_name: Kılıçer
- first_name: Kristin
full_name: Lauter, Kristin
last_name: Lauter
- first_name: Elisa
full_name: Lorenzo García, Elisa
last_name: Lorenzo García
- first_name: Maria-Adelina
full_name: Manzateanu, Maria-Adelina
id: be8d652e-a908-11ec-82a4-e2867729459c
last_name: Manzateanu
- first_name: Maike
full_name: Massierer, Maike
last_name: Massierer
- first_name: Christelle
full_name: Vincent, Christelle
last_name: Vincent
citation:
ama: Ionica S, Kılıçer P, Lauter K, et al. Modular invariants for genus 3 hyperelliptic
curves. Research in Number Theory. 2019;5. doi:10.1007/s40993-018-0146-6
apa: Ionica, S., Kılıçer, P., Lauter, K., Lorenzo García, E., Manzateanu, M.-A.,
Massierer, M., & Vincent, C. (2019). Modular invariants for genus 3 hyperelliptic
curves. Research in Number Theory. Springer Nature. https://doi.org/10.1007/s40993-018-0146-6
chicago: Ionica, Sorina, Pınar Kılıçer, Kristin Lauter, Elisa Lorenzo García, Maria-Adelina
Manzateanu, Maike Massierer, and Christelle Vincent. “Modular Invariants for Genus
3 Hyperelliptic Curves.” Research in Number Theory. Springer Nature, 2019.
https://doi.org/10.1007/s40993-018-0146-6.
ieee: S. Ionica et al., “Modular invariants for genus 3 hyperelliptic curves,”
Research in Number Theory, vol. 5. Springer Nature, 2019.
ista: Ionica S, Kılıçer P, Lauter K, Lorenzo García E, Manzateanu M-A, Massierer
M, Vincent C. 2019. Modular invariants for genus 3 hyperelliptic curves. Research
in Number Theory. 5, 9.
mla: Ionica, Sorina, et al. “Modular Invariants for Genus 3 Hyperelliptic Curves.”
Research in Number Theory, vol. 5, 9, Springer Nature, 2019, doi:10.1007/s40993-018-0146-6.
short: S. Ionica, P. Kılıçer, K. Lauter, E. Lorenzo García, M.-A. Manzateanu, M.
Massierer, C. Vincent, Research in Number Theory 5 (2019).
date_created: 2022-03-18T12:09:48Z
date_published: 2019-01-02T00:00:00Z
date_updated: 2023-09-05T15:39:31Z
day: '02'
department:
- _id: TiBr
doi: 10.1007/s40993-018-0146-6
external_id:
arxiv:
- '1807.08986'
intvolume: ' 5'
keyword:
- Algebra and Number Theory
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1807.08986
month: '01'
oa: 1
oa_version: Preprint
publication: Research in Number Theory
publication_identifier:
eissn:
- 2363-9555
issn:
- 2522-0160
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Modular invariants for genus 3 hyperelliptic curves
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 5
year: '2019'
...
---
_id: '7100'
abstract:
- lang: eng
text: We present microscopic derivations of the defocusing two-dimensional cubic
nonlinear Schrödinger equation and the Gross–Pitaevskii equation starting froman
interacting N-particle system of bosons. We consider the interaction potential
to be given either by Wβ(x)=N−1+2βW(Nβx), for any β>0, or to be given by VN(x)=e2NV(eNx),
for some spherical symmetric, nonnegative and compactly supported W,V∈L∞(R2,R).
In both cases we prove the convergence of the reduced density corresponding to
the exact time evolution to the projector onto the solution of the corresponding
nonlinear Schrödinger equation in trace norm. For the latter potential VN we show
that it is crucial to take the microscopic structure of the condensate into account
in order to obtain the correct dynamics.
acknowledgement: OA fund by IST Austria
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Maximilian
full_name: Jeblick, Maximilian
last_name: Jeblick
- first_name: Nikolai K
full_name: Leopold, Nikolai K
id: 4BC40BEC-F248-11E8-B48F-1D18A9856A87
last_name: Leopold
orcid: 0000-0002-0495-6822
- first_name: Peter
full_name: Pickl, Peter
last_name: Pickl
citation:
ama: Jeblick M, Leopold NK, Pickl P. Derivation of the time dependent Gross–Pitaevskii
equation in two dimensions. Communications in Mathematical Physics. 2019;372(1):1-69.
doi:10.1007/s00220-019-03599-x
apa: Jeblick, M., Leopold, N. K., & Pickl, P. (2019). Derivation of the time
dependent Gross–Pitaevskii equation in two dimensions. Communications in Mathematical
Physics. Springer Nature. https://doi.org/10.1007/s00220-019-03599-x
chicago: Jeblick, Maximilian, Nikolai K Leopold, and Peter Pickl. “Derivation of
the Time Dependent Gross–Pitaevskii Equation in Two Dimensions.” Communications
in Mathematical Physics. Springer Nature, 2019. https://doi.org/10.1007/s00220-019-03599-x.
ieee: M. Jeblick, N. K. Leopold, and P. Pickl, “Derivation of the time dependent
Gross–Pitaevskii equation in two dimensions,” Communications in Mathematical
Physics, vol. 372, no. 1. Springer Nature, pp. 1–69, 2019.
ista: Jeblick M, Leopold NK, Pickl P. 2019. Derivation of the time dependent Gross–Pitaevskii
equation in two dimensions. Communications in Mathematical Physics. 372(1), 1–69.
mla: Jeblick, Maximilian, et al. “Derivation of the Time Dependent Gross–Pitaevskii
Equation in Two Dimensions.” Communications in Mathematical Physics, vol.
372, no. 1, Springer Nature, 2019, pp. 1–69, doi:10.1007/s00220-019-03599-x.
short: M. Jeblick, N.K. Leopold, P. Pickl, Communications in Mathematical Physics
372 (2019) 1–69.
date_created: 2019-11-25T08:08:02Z
date_published: 2019-11-08T00:00:00Z
date_updated: 2023-09-06T10:47:43Z
day: '08'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00220-019-03599-x
ec_funded: 1
external_id:
isi:
- '000495193700002'
file:
- access_level: open_access
checksum: cd283b475dd739e04655315abd46f528
content_type: application/pdf
creator: dernst
date_created: 2019-11-25T08:11:11Z
date_updated: 2020-07-14T12:47:49Z
file_id: '7101'
file_name: 2019_CommMathPhys_Jeblick.pdf
file_size: 884469
relation: main_file
file_date_updated: 2020-07-14T12:47:49Z
has_accepted_license: '1'
intvolume: ' 372'
isi: 1
issue: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 1-69
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Communications in Mathematical Physics
publication_identifier:
eissn:
- 1432-0916
issn:
- 0010-3616
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Derivation of the time dependent Gross–Pitaevskii equation in two dimensions
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 372
year: '2019'
...