---
_id: '7686'
abstract:
- lang: eng
text: 'The agricultural green revolution spectacularly enhanced crop yield and lodging
resistance with modified DELLA-mediated gibberellin signaling. However, this was
achieved at the expense of reduced nitrogen-use efficiency (NUE). Recently, Wu
et al. revealed novel gibberellin signaling that provides a blueprint for improving
tillering and NUE in Green Revolution varieties (GRVs). '
article_processing_charge: No
article_type: original
author:
- first_name: Huidan
full_name: Xue, Huidan
last_name: Xue
- first_name: Yuzhou
full_name: Zhang, Yuzhou
id: 3B6137F2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
orcid: 0000-0003-2627-6956
- first_name: Guanghui
full_name: Xiao, Guanghui
last_name: Xiao
citation:
ama: 'Xue H, Zhang Y, Xiao G. Neo-gibberellin signaling: Guiding the next generation
of the green revolution. Trends in Plant Science. 2020;25(6):520-522. doi:10.1016/j.tplants.2020.04.001'
apa: 'Xue, H., Zhang, Y., & Xiao, G. (2020). Neo-gibberellin signaling: Guiding
the next generation of the green revolution. Trends in Plant Science. Elsevier.
https://doi.org/10.1016/j.tplants.2020.04.001'
chicago: 'Xue, Huidan, Yuzhou Zhang, and Guanghui Xiao. “Neo-Gibberellin Signaling:
Guiding the next Generation of the Green Revolution.” Trends in Plant Science.
Elsevier, 2020. https://doi.org/10.1016/j.tplants.2020.04.001.'
ieee: 'H. Xue, Y. Zhang, and G. Xiao, “Neo-gibberellin signaling: Guiding the next
generation of the green revolution,” Trends in Plant Science, vol. 25,
no. 6. Elsevier, pp. 520–522, 2020.'
ista: 'Xue H, Zhang Y, Xiao G. 2020. Neo-gibberellin signaling: Guiding the next
generation of the green revolution. Trends in Plant Science. 25(6), 520–522.'
mla: 'Xue, Huidan, et al. “Neo-Gibberellin Signaling: Guiding the next Generation
of the Green Revolution.” Trends in Plant Science, vol. 25, no. 6, Elsevier,
2020, pp. 520–22, doi:10.1016/j.tplants.2020.04.001.'
short: H. Xue, Y. Zhang, G. Xiao, Trends in Plant Science 25 (2020) 520–522.
date_created: 2020-04-26T22:00:46Z
date_published: 2020-06-01T00:00:00Z
date_updated: 2023-08-21T06:16:01Z
day: '01'
department:
- _id: JiFr
doi: 10.1016/j.tplants.2020.04.001
external_id:
isi:
- '000533518400003'
pmid:
- '32407691'
intvolume: ' 25'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa_version: None
page: 520-522
pmid: 1
publication: Trends in Plant Science
publication_identifier:
issn:
- 1360-1385
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Neo-gibberellin signaling: Guiding the next generation of the green revolution'
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 25
year: '2020'
...
---
_id: '7687'
abstract:
- lang: eng
text: A working group, which was established within the Network of Repository Managers (RepManNet), has dealt with common certifications for repositories. In
addition, current requirements of the research funding agencies FWF and EU were
also taken into account. The Core Trust Seal was examined in more detail. For
this purpose, a questionnaire was sent to those organizations that are already certified
with CTS in Austria. The answers were summarized and evaluated anonymously. It
is recommended to go for a repository certification. Moreover, the development
of a DINI certificate in Austria is strongly suggested.
- lang: ger
text: ' Eine Arbeitsgruppe, die im Rahmen des Netzwerks für RepositorienmanagerInnen
(RepManNet) entstanden ist, hat sich mit gängigen Zertifizierungen für Repositorien
beschäftigt. Weiters wurden aktuelle Vorgaben der Forschungsförderer FWF und EU
herangezogen. Das Core Trust Seal wurde genauer betrachtet. Hierfür wurden jenen Organisationen, die in Österreich bereits mit CTS zertifiziert
sind, ein Fragebogen übermittelt. Die Antworten wurden anonymisiert zusammengefasst
und ausgewertet. Plädiert wird für eine Zertifizierung von Repositorien und die
Entwicklung einer DINI-Zertifizierung in Österreich.'
article_processing_charge: No
article_type: original
author:
- first_name: Doris
full_name: Ernst, Doris
id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
last_name: Ernst
orcid: 0000-0002-2354-0195
- first_name: Gertraud
full_name: Novotny, Gertraud
last_name: Novotny
- first_name: Eva Maria
full_name: Schönher, Eva Maria
last_name: Schönher
citation:
ama: Ernst D, Novotny G, Schönher EM. (Core Trust) Seal your repository! Mitteilungen
der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. 2020;73(1):46-59.
doi:10.31263/voebm.v73i1.3491
apa: Ernst, D., Novotny, G., & Schönher, E. M. (2020). (Core Trust) Seal your
repository! Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen
und Bibliothekare. Vereinigung Osterreichischer Bibliothekarinnen und Bibliothekare.
https://doi.org/10.31263/voebm.v73i1.3491
chicago: Ernst, Doris, Gertraud Novotny, and Eva Maria Schönher. “(Core Trust) Seal
your repository!” Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen
und Bibliothekare. Vereinigung Osterreichischer Bibliothekarinnen und Bibliothekare,
2020. https://doi.org/10.31263/voebm.v73i1.3491.
ieee: D. Ernst, G. Novotny, and E. M. Schönher, “(Core Trust) Seal your repository!,”
Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare,
vol. 73, no. 1. Vereinigung Osterreichischer Bibliothekarinnen und Bibliothekare,
pp. 46–59, 2020.
ista: Ernst D, Novotny G, Schönher EM. 2020. (Core Trust) Seal your repository!
Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare.
73(1), 46–59.
mla: Ernst, Doris, et al. “(Core Trust) Seal your repository!” Mitteilungen der
Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, vol. 73,
no. 1, Vereinigung Osterreichischer Bibliothekarinnen und Bibliothekare, 2020,
pp. 46–59, doi:10.31263/voebm.v73i1.3491.
short: D. Ernst, G. Novotny, E.M. Schönher, Mitteilungen der Vereinigung Österreichischer
Bibliothekarinnen und Bibliothekare 73 (2020) 46–59.
date_created: 2020-04-28T08:37:38Z
date_published: 2020-04-28T00:00:00Z
date_updated: 2024-02-27T13:41:03Z
day: '28'
ddc:
- '020'
department:
- _id: E-Lib
doi: 10.31263/voebm.v73i1.3491
file:
- access_level: open_access
checksum: fee784f15a489deb7def6ccf8c5bf8c3
content_type: application/pdf
creator: dernst
date_created: 2020-06-17T10:50:13Z
date_updated: 2023-04-03T09:17:25Z
file_id: '7970'
file_name: 2020_VOEB_Ernst.pdf
file_size: 579291
relation: main_file
file_date_updated: 2023-04-03T09:17:25Z
has_accepted_license: '1'
intvolume: ' 73'
issue: '1'
language:
- iso: ger
month: '04'
oa: 1
oa_version: Published Version
page: 46-59
popular_science: '1'
publication: Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare
publication_identifier:
issn:
- 1022-2588
publication_status: published
publisher: Vereinigung Osterreichischer Bibliothekarinnen und Bibliothekare
scopus_import: '1'
status: public
title: (Core Trust) Seal your repository!
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: 73
year: '2020'
...
---
_id: '7689'
abstract:
- lang: eng
text: "These are the supplementary research data to the publication \"Zero field
splitting of heavy-hole states in quantum dots\". All matrix files have the same
format. Within each column the bias voltage is changed. Each column corresponds
to either a different gate voltage or magnetic field. The voltage values are given
in mV, the current values in pA. Find a specific description in the included Readme
file.\r\n"
article_processing_charge: No
author:
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Katsaros G. Supplementary data for “Zero field splitting of heavy-hole states
in quantum dots.” 2020. doi:10.15479/AT:ISTA:7689
apa: Katsaros, G. (2020). Supplementary data for “Zero field splitting of heavy-hole
states in quantum dots.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7689
chicago: Katsaros, Georgios. “Supplementary Data for ‘Zero Field Splitting of Heavy-Hole
States in Quantum Dots.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7689.
ieee: G. Katsaros, “Supplementary data for ‘Zero field splitting of heavy-hole states
in quantum dots.’” Institute of Science and Technology Austria, 2020.
ista: Katsaros G. 2020. Supplementary data for ‘Zero field splitting of heavy-hole
states in quantum dots’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7689.
mla: Katsaros, Georgios. Supplementary Data for “Zero Field Splitting of Heavy-Hole
States in Quantum Dots.” Institute of Science and Technology Austria, 2020,
doi:10.15479/AT:ISTA:7689.
short: G. Katsaros, (2020).
contributor:
- contributor_type: contact_person
first_name: Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
date_created: 2020-05-01T15:14:46Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2024-02-21T12:44:02Z
day: '01'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.15479/AT:ISTA:7689
ec_funded: 1
file:
- access_level: open_access
checksum: d23c0cb9e2d19e14e2f902b88b97c05d
content_type: application/x-zip-compressed
creator: gkatsaro
date_created: 2020-05-01T15:13:28Z
date_updated: 2020-07-14T12:48:02Z
file_id: '7786'
file_name: DOI_ZeroFieldSplitting.zip
file_size: 5514403
relation: main_file
file_date_updated: 2020-07-14T12:48:02Z
has_accepted_license: '1'
license: https://creativecommons.org/publicdomain/zero/1.0/
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 237E5020-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '862046'
name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS
- _id: 237B3DA4-32DE-11EA-91FC-C7463DDC885E
call_identifier: FWF
grant_number: P32235
name: Towards scalable hut wire quantum devices
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8203'
relation: used_in_publication
status: public
status: public
title: Supplementary data for "Zero field splitting of heavy-hole states in quantum
dots"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7695'
abstract:
- lang: eng
text: The TPLATE complex (TPC) is a key endocytic adaptor protein complex in plants.
TPC in Arabidopsis (Arabidopsis thaliana) contains six evolutionarily conserved
subunits and two plant-specific subunits, AtEH1/Pan1 and AtEH2/Pan1, although
cytoplasmic proteins are not associated with the hexameric subcomplex in the cytoplasm.
To investigate the dynamic assembly of the octameric TPC at the plasma membrane
(PM), we performed state-of-the-art dual-color live cell imaging at physiological
and lowered temperatures. Lowering the temperature slowed down endocytosis, thereby
enhancing the temporal resolution of the differential recruitment of endocytic
components. Under both normal and lowered temperature conditions, the core TPC
subunit TPLATE and the AtEH/Pan1 proteins exhibited simultaneous recruitment at
the PM. These results, together with co-localization analysis of different TPC
subunits, allow us to conclude that TPC in plant cells is not recruited to the
PM sequentially but as an octameric complex.
article_processing_charge: No
article_type: original
author:
- first_name: J
full_name: Wang, J
last_name: Wang
- first_name: E
full_name: Mylle, E
last_name: Mylle
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
- first_name: N
full_name: Besbrugge, N
last_name: Besbrugge
- first_name: G
full_name: De Jaeger, G
last_name: De Jaeger
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: R
full_name: Pleskot, R
last_name: Pleskot
- first_name: D
full_name: van Damme, D
last_name: van Damme
citation:
ama: Wang J, Mylle E, Johnson AJ, et al. High temporal resolution reveals simultaneous
plasma membrane recruitment of TPLATE complex subunits. Plant Physiology.
2020;183(3):986-997. doi:10.1104/pp.20.00178
apa: Wang, J., Mylle, E., Johnson, A. J., Besbrugge, N., De Jaeger, G., Friml, J.,
… van Damme, D. (2020). High temporal resolution reveals simultaneous plasma membrane
recruitment of TPLATE complex subunits. Plant Physiology. American Society
of Plant Biologists. https://doi.org/10.1104/pp.20.00178
chicago: Wang, J, E Mylle, Alexander J Johnson, N Besbrugge, G De Jaeger, Jiří Friml,
R Pleskot, and D van Damme. “High Temporal Resolution Reveals Simultaneous Plasma
Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology. American
Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00178.
ieee: J. Wang et al., “High temporal resolution reveals simultaneous plasma
membrane recruitment of TPLATE complex subunits,” Plant Physiology, vol.
183, no. 3. American Society of Plant Biologists, pp. 986–997, 2020.
ista: Wang J, Mylle E, Johnson AJ, Besbrugge N, De Jaeger G, Friml J, Pleskot R,
van Damme D. 2020. High temporal resolution reveals simultaneous plasma membrane
recruitment of TPLATE complex subunits. Plant Physiology. 183(3), 986–997.
mla: Wang, J., et al. “High Temporal Resolution Reveals Simultaneous Plasma Membrane
Recruitment of TPLATE Complex Subunits.” Plant Physiology, vol. 183, no.
3, American Society of Plant Biologists, 2020, pp. 986–97, doi:10.1104/pp.20.00178.
short: J. Wang, E. Mylle, A.J. Johnson, N. Besbrugge, G. De Jaeger, J. Friml, R.
Pleskot, D. van Damme, Plant Physiology 183 (2020) 986–997.
date_created: 2020-04-29T15:23:00Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2023-09-05T12:20:02Z
day: '01'
department:
- _id: JiFr
doi: 10.1104/pp.20.00178
external_id:
isi:
- '000550682000018'
pmid:
- '32321842'
intvolume: ' 183'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2020.02.13.948109
month: '07'
oa: 1
oa_version: Preprint
page: 986-997
pmid: 1
project:
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: Plant Physiology
publication_identifier:
eissn:
- 1532-2548
issn:
- 0032-0889
publication_status: published
publisher: American Society of Plant Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: High temporal resolution reveals simultaneous plasma membrane recruitment of
TPLATE complex subunits
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 183
year: '2020'
...
---
_id: '7697'
abstract:
- lang: eng
text: "* Morphogenesis and adaptive tropic growth in plants depend on gradients
of the phytohormone auxin, mediated by the membrane‐based PIN‐FORMED (PIN) auxin
transporters. PINs localize to a particular side of the plasma membrane (PM) or
to the endoplasmic reticulum (ER) to directionally transport auxin and maintain
intercellular and intracellular auxin homeostasis, respectively. However, the
molecular cues that confer their diverse cellular localizations remain largely
unknown.\r\n* In this study, we systematically swapped the domains between ER‐
and PM‐localized PIN proteins, as well as between apical and basal PM‐localized
PINs from Arabidopsis thaliana , to shed light on why PIN family members with
similar topological structures reside at different membrane compartments within
cells.\r\n* Our results show that not only do the N‐ and C‐terminal transmembrane
domains (TMDs) and central hydrophilic loop contribute to their differential subcellular
localizations and cellular polarity, but that the pairwise‐matched N‐ and C‐terminal
TMDs resulting from intramolecular domain–domain coevolution are also crucial
for their divergent patterns of localization.\r\n* These findings illustrate the
complexity of the evolutionary path of PIN proteins in acquiring their plethora
of developmental functions and adaptive growth in plants."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Yuzhou
full_name: Zhang, Yuzhou
id: 3B6137F2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
orcid: 0000-0003-2627-6956
- first_name: Corinna
full_name: Hartinger, Corinna
id: AEFB2266-8ABF-11EA-AA39-812C3623CBE4
last_name: Hartinger
orcid: 0000-0003-1618-2737
- first_name: Xiaojuan
full_name: Wang, Xiaojuan
last_name: Wang
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Zhang Y, Hartinger C, Wang X, Friml J. Directional auxin fluxes in plants by
intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist.
2020;227(5):1406-1416. doi:10.1111/nph.16629
apa: Zhang, Y., Hartinger, C., Wang, X., & Friml, J. (2020). Directional auxin
fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters.
New Phytologist. Wiley. https://doi.org/10.1111/nph.16629
chicago: Zhang, Yuzhou, Corinna Hartinger, Xiaojuan Wang, and Jiří Friml. “Directional
Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin
Transporters.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16629.
ieee: Y. Zhang, C. Hartinger, X. Wang, and J. Friml, “Directional auxin fluxes in
plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters,”
New Phytologist, vol. 227, no. 5. Wiley, pp. 1406–1416, 2020.
ista: Zhang Y, Hartinger C, Wang X, Friml J. 2020. Directional auxin fluxes in plants
by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist.
227(5), 1406–1416.
mla: Zhang, Yuzhou, et al. “Directional Auxin Fluxes in Plants by Intramolecular
Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist,
vol. 227, no. 5, Wiley, 2020, pp. 1406–16, doi:10.1111/nph.16629.
short: Y. Zhang, C. Hartinger, X. Wang, J. Friml, New Phytologist 227 (2020) 1406–1416.
date_created: 2020-04-30T08:43:29Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2023-09-05T15:46:04Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1111/nph.16629
ec_funded: 1
external_id:
isi:
- '000534092400001'
pmid:
- '32350870'
file:
- access_level: open_access
checksum: 8e8150dbbba8cb65b72f81d1f0864b8b
content_type: application/pdf
creator: dernst
date_created: 2020-11-24T12:19:38Z
date_updated: 2020-11-24T12:19:38Z
file_id: '8799'
file_name: 2020_09_NewPhytologist_Zhang.pdf
file_size: 3643395
relation: main_file
success: 1
file_date_updated: 2020-11-24T12:19:38Z
has_accepted_license: '1'
intvolume: ' 227'
isi: 1
issue: '5'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1406-1416
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
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: New Phytologist
publication_identifier:
eissn:
- 1469-8137
issn:
- 0028-646X
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution
of PIN auxin transporters
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: 227
year: '2020'
...
---
_id: '7707'
abstract:
- lang: eng
text: The growing sample size of genome-wide association studies has facilitated
the discovery of gene-environment interactions (GxE). Here we propose a maximum
likelihood method to estimate the contribution of GxE to continuous traits taking
into account all interacting environmental variables, without the need to measure
any. Extensive simulations demonstrate that our method provides unbiased interaction
estimates and excellent coverage. We also offer strategies to distinguish specific
GxE from general scale effects. Applying our method to 32 traits in the UK Biobank
reveals that while the genetic risk score (GRS) of 376 variants explains 5.2%
of body mass index (BMI) variance, GRSxE explains an additional 1.9%. Nevertheless,
this interaction holds for any variable with identical correlation to BMI as the
GRS, hence may not be GRS-specific. Still, we observe that the global contribution
of specific GRSxE to complex traits is substantial for nine obesity-related measures
(including leg impedance and trunk fat-free mass).
article_number: '1385'
article_processing_charge: No
article_type: original
author:
- first_name: Jonathan
full_name: Sulc, Jonathan
last_name: Sulc
- first_name: Ninon
full_name: Mounier, Ninon
last_name: Mounier
- first_name: Felix
full_name: Günther, Felix
last_name: Günther
- first_name: Thomas
full_name: Winkler, Thomas
last_name: Winkler
- first_name: Andrew R.
full_name: Wood, Andrew R.
last_name: Wood
- first_name: Timothy M.
full_name: Frayling, Timothy M.
last_name: Frayling
- first_name: Iris M.
full_name: Heid, Iris M.
last_name: Heid
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Zoltán
full_name: Kutalik, Zoltán
last_name: Kutalik
citation:
ama: Sulc J, Mounier N, Günther F, et al. Quantification of the overall contribution
of gene-environment interaction for obesity-related traits. Nature Communications.
2020;11. doi:10.1038/s41467-020-15107-0
apa: Sulc, J., Mounier, N., Günther, F., Winkler, T., Wood, A. R., Frayling, T.
M., … Kutalik, Z. (2020). Quantification of the overall contribution of gene-environment
interaction for obesity-related traits. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-020-15107-0
chicago: Sulc, Jonathan, Ninon Mounier, Felix Günther, Thomas Winkler, Andrew R.
Wood, Timothy M. Frayling, Iris M. Heid, Matthew Richard Robinson, and Zoltán
Kutalik. “Quantification of the Overall Contribution of Gene-Environment Interaction
for Obesity-Related Traits.” Nature Communications. Springer Nature, 2020.
https://doi.org/10.1038/s41467-020-15107-0.
ieee: J. Sulc et al., “Quantification of the overall contribution of gene-environment
interaction for obesity-related traits,” Nature Communications, vol. 11.
Springer Nature, 2020.
ista: Sulc J, Mounier N, Günther F, Winkler T, Wood AR, Frayling TM, Heid IM, Robinson
MR, Kutalik Z. 2020. Quantification of the overall contribution of gene-environment
interaction for obesity-related traits. Nature Communications. 11, 1385.
mla: Sulc, Jonathan, et al. “Quantification of the Overall Contribution of Gene-Environment
Interaction for Obesity-Related Traits.” Nature Communications, vol. 11,
1385, Springer Nature, 2020, doi:10.1038/s41467-020-15107-0.
short: J. Sulc, N. Mounier, F. Günther, T. Winkler, A.R. Wood, T.M. Frayling, I.M.
Heid, M.R. Robinson, Z. Kutalik, Nature Communications 11 (2020).
date_created: 2020-04-30T10:39:33Z
date_published: 2020-03-20T00:00:00Z
date_updated: 2021-01-12T08:14:59Z
day: '20'
doi: 10.1038/s41467-020-15107-0
extern: '1'
intvolume: ' 11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41467-020-15107-0
month: '03'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Quantification of the overall contribution of gene-environment interaction
for obesity-related traits
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2020'
...
---
_id: '7708'
abstract:
- lang: eng
text: We conducted DNA methylation association analyses using Illumina 450K data
from whole blood for an Australian amyotrophic lateral sclerosis (ALS) case–control
cohort (782 cases and 613 controls). Analyses used mixed linear models as implemented
in the OSCA software. We found a significantly higher proportion of neutrophils
in cases compared to controls which replicated in an independent cohort from the
Netherlands (1159 cases and 637 controls). The OSCA MOMENT linear mixed model
has been shown in simulations to best account for confounders. When combined in
a methylation profile score, the 25 most-associated probes identified by MOMENT
significantly classified case–control status in the Netherlands sample (area under
the curve, AUC = 0.65, CI95% = [0.62–0.68], p = 8.3 × 10−22). The maximum AUC
achieved was 0.69 (CI95% = [0.66–0.71], p = 4.3 × 10−34) when cell-type proportion
was included in the predictor.
article_number: '10'
article_processing_charge: No
article_type: original
author:
- first_name: Marta F.
full_name: Nabais, Marta F.
last_name: Nabais
- first_name: Tian
full_name: Lin, Tian
last_name: Lin
- first_name: Beben
full_name: Benyamin, Beben
last_name: Benyamin
- first_name: Kelly L.
full_name: Williams, Kelly L.
last_name: Williams
- first_name: Fleur C.
full_name: Garton, Fleur C.
last_name: Garton
- first_name: Anna A. E.
full_name: Vinkhuyzen, Anna A. E.
last_name: Vinkhuyzen
- first_name: Futao
full_name: Zhang, Futao
last_name: Zhang
- first_name: Costanza L.
full_name: Vallerga, Costanza L.
last_name: Vallerga
- first_name: Restuadi
full_name: Restuadi, Restuadi
last_name: Restuadi
- first_name: Anna
full_name: Freydenzon, Anna
last_name: Freydenzon
- first_name: Ramona A. J.
full_name: Zwamborn, Ramona A. J.
last_name: Zwamborn
- first_name: Paul J.
full_name: Hop, Paul J.
last_name: Hop
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Jacob
full_name: Gratten, Jacob
last_name: Gratten
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Eilis
full_name: Hannon, Eilis
last_name: Hannon
- first_name: Jonathan
full_name: Mill, Jonathan
last_name: Mill
- first_name: Matthew A.
full_name: Brown, Matthew A.
last_name: Brown
- first_name: Nigel G.
full_name: Laing, Nigel G.
last_name: Laing
- first_name: Karen A.
full_name: Mather, Karen A.
last_name: Mather
- first_name: Perminder S.
full_name: Sachdev, Perminder S.
last_name: Sachdev
- first_name: Shyuan T.
full_name: Ngo, Shyuan T.
last_name: Ngo
- first_name: Frederik J.
full_name: Steyn, Frederik J.
last_name: Steyn
- first_name: Leanne
full_name: Wallace, Leanne
last_name: Wallace
- first_name: Anjali K.
full_name: Henders, Anjali K.
last_name: Henders
- first_name: Merrilee
full_name: Needham, Merrilee
last_name: Needham
- first_name: Jan H.
full_name: Veldink, Jan H.
last_name: Veldink
- first_name: Susan
full_name: Mathers, Susan
last_name: Mathers
- first_name: Garth
full_name: Nicholson, Garth
last_name: Nicholson
- first_name: Dominic B.
full_name: Rowe, Dominic B.
last_name: Rowe
- first_name: Robert D.
full_name: Henderson, Robert D.
last_name: Henderson
- first_name: Pamela A.
full_name: McCombe, Pamela A.
last_name: McCombe
- first_name: Roger
full_name: Pamphlett, Roger
last_name: Pamphlett
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
- first_name: Ian P.
full_name: Blair, Ian P.
last_name: Blair
- first_name: Allan F.
full_name: McRae, Allan F.
last_name: McRae
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
citation:
ama: Nabais MF, Lin T, Benyamin B, et al. Significant out-of-sample classification
from methylation profile scoring for amyotrophic lateral sclerosis. npj Genomic
Medicine. 2020;5. doi:10.1038/s41525-020-0118-3
apa: Nabais, M. F., Lin, T., Benyamin, B., Williams, K. L., Garton, F. C., Vinkhuyzen,
A. A. E., … Wray, N. R. (2020). Significant out-of-sample classification from
methylation profile scoring for amyotrophic lateral sclerosis. Npj Genomic
Medicine. Springer Nature. https://doi.org/10.1038/s41525-020-0118-3
chicago: Nabais, Marta F., Tian Lin, Beben Benyamin, Kelly L. Williams, Fleur C.
Garton, Anna A. E. Vinkhuyzen, Futao Zhang, et al. “Significant Out-of-Sample
Classification from Methylation Profile Scoring for Amyotrophic Lateral Sclerosis.”
Npj Genomic Medicine. Springer Nature, 2020. https://doi.org/10.1038/s41525-020-0118-3.
ieee: M. F. Nabais et al., “Significant out-of-sample classification from
methylation profile scoring for amyotrophic lateral sclerosis,” npj Genomic
Medicine, vol. 5. Springer Nature, 2020.
ista: Nabais MF, Lin T, Benyamin B, Williams KL, Garton FC, Vinkhuyzen AAE, Zhang
F, Vallerga CL, Restuadi R, Freydenzon A, Zwamborn RAJ, Hop PJ, Robinson MR, Gratten
J, Visscher PM, Hannon E, Mill J, Brown MA, Laing NG, Mather KA, Sachdev PS, Ngo
ST, Steyn FJ, Wallace L, Henders AK, Needham M, Veldink JH, Mathers S, Nicholson
G, Rowe DB, Henderson RD, McCombe PA, Pamphlett R, Yang J, Blair IP, McRae AF,
Wray NR. 2020. Significant out-of-sample classification from methylation profile
scoring for amyotrophic lateral sclerosis. npj Genomic Medicine. 5, 10.
mla: Nabais, Marta F., et al. “Significant Out-of-Sample Classification from Methylation
Profile Scoring for Amyotrophic Lateral Sclerosis.” Npj Genomic Medicine,
vol. 5, 10, Springer Nature, 2020, doi:10.1038/s41525-020-0118-3.
short: M.F. Nabais, T. Lin, B. Benyamin, K.L. Williams, F.C. Garton, A.A.E. Vinkhuyzen,
F. Zhang, C.L. Vallerga, R. Restuadi, A. Freydenzon, R.A.J. Zwamborn, P.J. Hop,
M.R. Robinson, J. Gratten, P.M. Visscher, E. Hannon, J. Mill, M.A. Brown, N.G.
Laing, K.A. Mather, P.S. Sachdev, S.T. Ngo, F.J. Steyn, L. Wallace, A.K. Henders,
M. Needham, J.H. Veldink, S. Mathers, G. Nicholson, D.B. Rowe, R.D. Henderson,
P.A. McCombe, R. Pamphlett, J. Yang, I.P. Blair, A.F. McRae, N.R. Wray, Npj Genomic
Medicine 5 (2020).
date_created: 2020-04-30T10:39:54Z
date_published: 2020-02-27T00:00:00Z
date_updated: 2021-01-12T08:14:59Z
day: '27'
doi: 10.1038/s41525-020-0118-3
extern: '1'
intvolume: ' 5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41525-020-0118-3
month: '02'
oa: 1
oa_version: Published Version
publication: npj Genomic Medicine
publication_identifier:
issn:
- 2056-7944
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Significant out-of-sample classification from methylation profile scoring for
amyotrophic lateral sclerosis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2020'
...
---
_id: '7778'
abstract:
- lang: eng
text: Recent advances in synthetic posttranslational protein circuits are substantially
impacting the landscape of cellular engineering and offer several advantages compared
to traditional gene circuits. However, engineering dynamic phenomena such as oscillations
in protein-level circuits remains an outstanding challenge. Few examples of biological
posttranslational oscillators are known, necessitating theoretical progress to
determine realizable oscillators. We construct mathematical models for two posttranslational
oscillators, using few components that interact only through reversible binding
and phosphorylation/dephosphorylation reactions. Our designed oscillators rely
on the self-assembly of two protein species into multimeric functional enzymes
that respectively inhibit and enhance this self-assembly. We limit our analysis
to within experimental constraints, finding (i) significant portions of the restricted
parameter space yielding oscillations and (ii) that oscillation periods can be
tuned by several orders of magnitude using recent advances in computational protein
design. Our work paves the way for the rational design and realization of protein-based
dynamic systems.
article_number: eabc1939
article_processing_charge: No
article_type: original
author:
- first_name: Ofer
full_name: Kimchi, Ofer
last_name: Kimchi
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Alexis
full_name: Courbet, Alexis
last_name: Courbet
- first_name: Agnese I.
full_name: Curatolo, Agnese I.
last_name: Curatolo
- first_name: Nicholas B.
full_name: Woodall, Nicholas B.
last_name: Woodall
- first_name: David
full_name: Baker, David
last_name: Baker
- first_name: Michael P.
full_name: Brenner, Michael P.
last_name: Brenner
citation:
ama: Kimchi O, Goodrich CP, Courbet A, et al. Self-assembly-based posttranslational
protein oscillators. Science Advances. 2020;6(51). doi:10.1126/sciadv.abc1939
apa: Kimchi, O., Goodrich, C. P., Courbet, A., Curatolo, A. I., Woodall, N. B.,
Baker, D., & Brenner, M. P. (2020). Self-assembly-based posttranslational
protein oscillators. Science Advances. https://doi.org/10.1126/sciadv.abc1939
chicago: Kimchi, Ofer, Carl Peter Goodrich, Alexis Courbet, Agnese I. Curatolo,
Nicholas B. Woodall, David Baker, and Michael P. Brenner. “Self-Assembly-Based
Posttranslational Protein Oscillators.” Science Advances, 2020. https://doi.org/10.1126/sciadv.abc1939.
ieee: O. Kimchi et al., “Self-assembly-based posttranslational protein oscillators,”
Science Advances, vol. 6, no. 51. 2020.
ista: Kimchi O, Goodrich CP, Courbet A, Curatolo AI, Woodall NB, Baker D, Brenner
MP. 2020. Self-assembly-based posttranslational protein oscillators. Science Advances.
6(51), eabc1939.
mla: Kimchi, Ofer, et al. “Self-Assembly-Based Posttranslational Protein Oscillators.”
Science Advances, vol. 6, no. 51, eabc1939, 2020, doi:10.1126/sciadv.abc1939.
short: O. Kimchi, C.P. Goodrich, A. Courbet, A.I. Curatolo, N.B. Woodall, D. Baker,
M.P. Brenner, Science Advances 6 (2020).
date_created: 2020-04-30T12:07:55Z
date_published: 2020-12-16T00:00:00Z
date_updated: 2021-04-12T08:35:19Z
day: '16'
ddc:
- '570'
doi: 10.1126/sciadv.abc1939
extern: '1'
file:
- access_level: open_access
checksum: eb6d950b6a68ddc4a2fb31ec80a2a1bd
content_type: application/pdf
creator: dernst
date_created: 2021-04-12T08:33:23Z
date_updated: 2021-04-12T08:33:23Z
file_id: '9320'
file_name: 2020_ScienceAdv_Kimchi.pdf
file_size: 1259758
relation: main_file
success: 1
file_date_updated: 2021-04-12T08:33:23Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '51'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: Science Advances
publication_status: published
quality_controlled: '1'
status: public
title: Self-assembly-based posttranslational protein oscillators
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: 6
year: '2020'
...
---
_id: '7788'
abstract:
- lang: eng
text: Mutations in NDUFS4, which encodes an accessory subunit of mitochondrial oxidative
phosphorylation (OXPHOS) complex I (CI), induce Leigh syndrome (LS). LS is a poorly
understood pediatric disorder featuring brain-specific anomalies and early death.
To study the LS pathomechanism, we here compared OXPHOS proteomes between various
Ndufs4−/− mouse tissues. Ndufs4−/− animals displayed significantly lower CI subunit
levels in brain/diaphragm relative to other tissues (liver/heart/kidney/skeletal
muscle), whereas other OXPHOS subunit levels were not reduced. Absence of NDUFS4
induced near complete absence of the NDUFA12 accessory subunit, a 50% reduction
in other CI subunit levels, and an increase in specific CI assembly factors. Among
the latter, NDUFAF2 was most highly increased. Regarding NDUFS4, NDUFA12 and NDUFAF2,
identical results were obtained in Ndufs4−/− mouse embryonic fibroblasts (MEFs)
and NDUFS4-mutated LS patient cells. Ndufs4−/− MEFs contained active CI in situ
but blue-native-PAGE highlighted that NDUFAF2 attached to an inactive CI subcomplex
(CI-830) and inactive assemblies of higher MW. In NDUFA12-mutated LS patient cells,
NDUFA12 absence did not reduce NDUFS4 levels but triggered NDUFAF2 association
to active CI. BN-PAGE revealed no such association in LS patient fibroblasts with
mutations in other CI subunit-encoding genes where NDUFAF2 was attached to CI-830
(NDUFS1, NDUFV1 mutation) or not detected (NDUFS7 mutation). Supported by enzymological
and CI in silico structural analysis, we conclude that absence of NDUFS4 induces
near complete absence of NDUFA12 but not vice versa, and that NDUFAF2 stabilizes
active CI in Ndufs4−/− mice and LS patient cells, perhaps in concert with mitochondrial
inner membrane lipids.
article_number: '148213'
article_processing_charge: No
article_type: original
author:
- first_name: Merel J.W.
full_name: Adjobo-Hermans, Merel J.W.
last_name: Adjobo-Hermans
- first_name: Ria
full_name: De Haas, Ria
last_name: De Haas
- first_name: Peter H.G.M.
full_name: Willems, Peter H.G.M.
last_name: Willems
- first_name: Aleksandra
full_name: Wojtala, Aleksandra
last_name: Wojtala
- first_name: Sjenet E.
full_name: Van Emst-De Vries, Sjenet E.
last_name: Van Emst-De Vries
- first_name: Jori A.
full_name: Wagenaars, Jori A.
last_name: Wagenaars
- first_name: Mariel
full_name: Van Den Brand, Mariel
last_name: Van Den Brand
- first_name: Richard J.
full_name: Rodenburg, Richard J.
last_name: Rodenburg
- first_name: Jan A.M.
full_name: Smeitink, Jan A.M.
last_name: Smeitink
- first_name: Leo G.
full_name: Nijtmans, Leo G.
last_name: Nijtmans
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Mariusz R.
full_name: Wieckowski, Mariusz R.
last_name: Wieckowski
- first_name: Werner J.H.
full_name: Koopman, Werner J.H.
last_name: Koopman
citation:
ama: 'Adjobo-Hermans MJW, De Haas R, Willems PHGM, et al. NDUFS4 deletion triggers
loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role
for NDUFAF2. Biochimica et Biophysica Acta - Bioenergetics. 2020;1861(8).
doi:10.1016/j.bbabio.2020.148213'
apa: 'Adjobo-Hermans, M. J. W., De Haas, R., Willems, P. H. G. M., Wojtala, A.,
Van Emst-De Vries, S. E., Wagenaars, J. A., … Koopman, W. J. H. (2020). NDUFS4
deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients:
A stabilizing role for NDUFAF2. Biochimica et Biophysica Acta - Bioenergetics.
Elsevier. https://doi.org/10.1016/j.bbabio.2020.148213'
chicago: 'Adjobo-Hermans, Merel J.W., Ria De Haas, Peter H.G.M. Willems, Aleksandra
Wojtala, Sjenet E. Van Emst-De Vries, Jori A. Wagenaars, Mariel Van Den Brand,
et al. “NDUFS4 Deletion Triggers Loss of NDUFA12 in Ndufs4−/− Mice and Leigh Syndrome
Patients: A Stabilizing Role for NDUFAF2.” Biochimica et Biophysica Acta -
Bioenergetics. Elsevier, 2020. https://doi.org/10.1016/j.bbabio.2020.148213.'
ieee: 'M. J. W. Adjobo-Hermans et al., “NDUFS4 deletion triggers loss of
NDUFA12 in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for
NDUFAF2,” Biochimica et Biophysica Acta - Bioenergetics, vol. 1861, no.
8. Elsevier, 2020.'
ista: 'Adjobo-Hermans MJW, De Haas R, Willems PHGM, Wojtala A, Van Emst-De Vries
SE, Wagenaars JA, Van Den Brand M, Rodenburg RJ, Smeitink JAM, Nijtmans LG, Sazanov
LA, Wieckowski MR, Koopman WJH. 2020. NDUFS4 deletion triggers loss of NDUFA12
in Ndufs4−/− mice and Leigh syndrome patients: A stabilizing role for NDUFAF2.
Biochimica et Biophysica Acta - Bioenergetics. 1861(8), 148213.'
mla: 'Adjobo-Hermans, Merel J. W., et al. “NDUFS4 Deletion Triggers Loss of NDUFA12
in Ndufs4−/− Mice and Leigh Syndrome Patients: A Stabilizing Role for NDUFAF2.”
Biochimica et Biophysica Acta - Bioenergetics, vol. 1861, no. 8, 148213,
Elsevier, 2020, doi:10.1016/j.bbabio.2020.148213.'
short: M.J.W. Adjobo-Hermans, R. De Haas, P.H.G.M. Willems, A. Wojtala, S.E. Van
Emst-De Vries, J.A. Wagenaars, M. Van Den Brand, R.J. Rodenburg, J.A.M. Smeitink,
L.G. Nijtmans, L.A. Sazanov, M.R. Wieckowski, W.J.H. Koopman, Biochimica et Biophysica
Acta - Bioenergetics 1861 (2020).
date_created: 2020-05-03T22:00:47Z
date_published: 2020-08-01T00:00:00Z
date_updated: 2023-08-21T06:19:18Z
day: '01'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.1016/j.bbabio.2020.148213
external_id:
isi:
- '000540842000012'
pmid:
- '32335026'
file:
- access_level: open_access
checksum: a9b152381307cf45fe266a8dc5640388
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T12:25:19Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7798'
file_name: 2020_BBA_Adjobo_Hermans.pdf
file_size: 3826792
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 1861'
isi: 1
issue: '8'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: Biochimica et Biophysica Acta - Bioenergetics
publication_identifier:
eissn:
- '18792650'
issn:
- '00052728'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'NDUFS4 deletion triggers loss of NDUFA12 in Ndufs4−/− mice and Leigh syndrome
patients: A stabilizing role for NDUFAF2'
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: 1861
year: '2020'
...
---
_id: '7789'
abstract:
- lang: eng
text: During embryonic and postnatal development, organs and tissues grow steadily
to achieve their final size at the end of puberty. However, little is known about
the cellular dynamics that mediate postnatal growth. By combining in vivo clonal
lineage tracing, proliferation kinetics, single-cell transcriptomics, andin vitro
micro-pattern experiments, we resolved the cellular dynamics taking place during
postnatal skin epidermis expansion. Our data revealed that harmonious growth is
engineered by a single population of developmental progenitors presenting a fixed
fate imbalance of self-renewing divisions with an ever-decreasing proliferation
rate. Single-cell RNA sequencing revealed that epidermal developmental progenitors
form a more uniform population compared with adult stem and progenitor cells.
Finally, we found that the spatial pattern of cell division orientation is dictated
locally by the underlying collagen fiber orientation. Our results uncover a simple
design principle of organ growth where progenitors and differentiated cells expand
in harmony with their surrounding tissues.
article_processing_charge: No
article_type: original
author:
- first_name: Sophie
full_name: Dekoninck, Sophie
last_name: Dekoninck
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Alejandro
full_name: Sifrim, Alejandro
last_name: Sifrim
- first_name: Yekaterina A.
full_name: Miroshnikova, Yekaterina A.
last_name: Miroshnikova
- first_name: Mariaceleste
full_name: Aragona, Mariaceleste
last_name: Aragona
- first_name: Milan
full_name: Malfait, Milan
last_name: Malfait
- first_name: Souhir
full_name: Gargouri, Souhir
last_name: Gargouri
- first_name: Charlotte
full_name: De Neunheuser, Charlotte
last_name: De Neunheuser
- first_name: Christine
full_name: Dubois, Christine
last_name: Dubois
- first_name: Thierry
full_name: Voet, Thierry
last_name: Voet
- first_name: Sara A.
full_name: Wickström, Sara A.
last_name: Wickström
- first_name: Benjamin D.
full_name: Simons, Benjamin D.
last_name: Simons
- first_name: Cédric
full_name: Blanpain, Cédric
last_name: Blanpain
citation:
ama: Dekoninck S, Hannezo EB, Sifrim A, et al. Defining the design principles of
skin epidermis postnatal growth. Cell. 2020;181(3):604-620.e22. doi:10.1016/j.cell.2020.03.015
apa: Dekoninck, S., Hannezo, E. B., Sifrim, A., Miroshnikova, Y. A., Aragona, M.,
Malfait, M., … Blanpain, C. (2020). Defining the design principles of skin epidermis
postnatal growth. Cell. Elsevier. https://doi.org/10.1016/j.cell.2020.03.015
chicago: Dekoninck, Sophie, Edouard B Hannezo, Alejandro Sifrim, Yekaterina A. Miroshnikova,
Mariaceleste Aragona, Milan Malfait, Souhir Gargouri, et al. “Defining the Design
Principles of Skin Epidermis Postnatal Growth.” Cell. Elsevier, 2020. https://doi.org/10.1016/j.cell.2020.03.015.
ieee: S. Dekoninck et al., “Defining the design principles of skin epidermis
postnatal growth,” Cell, vol. 181, no. 3. Elsevier, p. 604–620.e22, 2020.
ista: Dekoninck S, Hannezo EB, Sifrim A, Miroshnikova YA, Aragona M, Malfait M,
Gargouri S, De Neunheuser C, Dubois C, Voet T, Wickström SA, Simons BD, Blanpain
C. 2020. Defining the design principles of skin epidermis postnatal growth. Cell.
181(3), 604–620.e22.
mla: Dekoninck, Sophie, et al. “Defining the Design Principles of Skin Epidermis
Postnatal Growth.” Cell, vol. 181, no. 3, Elsevier, 2020, p. 604–620.e22,
doi:10.1016/j.cell.2020.03.015.
short: S. Dekoninck, E.B. Hannezo, A. Sifrim, Y.A. Miroshnikova, M. Aragona, M.
Malfait, S. Gargouri, C. De Neunheuser, C. Dubois, T. Voet, S.A. Wickström, B.D.
Simons, C. Blanpain, Cell 181 (2020) 604–620.e22.
date_created: 2020-05-03T22:00:48Z
date_published: 2020-04-30T00:00:00Z
date_updated: 2023-08-21T06:17:43Z
day: '30'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1016/j.cell.2020.03.015
external_id:
isi:
- '000530708400016'
pmid:
- '32259486'
file:
- access_level: open_access
checksum: e2114902f4e9d75a752e9efb5ae06011
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T10:20:55Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7795'
file_name: 2020_Cell_Dekoninck.pdf
file_size: 17992888
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 181'
isi: 1
issue: '3'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '04'
oa: 1
oa_version: Published Version
page: 604-620.e22
pmid: 1
publication: Cell
publication_identifier:
eissn:
- '10974172'
issn:
- '00928674'
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Defining the design principles of skin epidermis postnatal growth
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 181
year: '2020'
...
---
_id: '7790'
abstract:
- lang: eng
text: "We prove a lower bound for the free energy (per unit volume) of the two-dimensional
Bose gas in the thermodynamic limit. We show that the free energy at density \U0001D70C
and inverse temperature \U0001D6FD differs from the one of the noninteracting
system by the correction term \U0001D70B\U0001D70C\U0001D70C\U0001D6FD\U0001D6FD
. Here, is the scattering length of the interaction potential, and \U0001D6FD
is the inverse Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity.
The result is valid in the dilute limit \U0001D70C and if \U0001D6FD\U0001D70C
."
article_number: e20
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Andreas
full_name: Deuchert, Andreas
id: 4DA65CD0-F248-11E8-B48F-1D18A9856A87
last_name: Deuchert
orcid: 0000-0003-3146-6746
- first_name: Simon
full_name: Mayer, Simon
id: 30C4630A-F248-11E8-B48F-1D18A9856A87
last_name: Mayer
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Deuchert A, Mayer S, Seiringer R. The free energy of the two-dimensional dilute
Bose gas. I. Lower bound. Forum of Mathematics, Sigma. 2020;8. doi:10.1017/fms.2020.17
apa: Deuchert, A., Mayer, S., & Seiringer, R. (2020). The free energy of the
two-dimensional dilute Bose gas. I. Lower bound. Forum of Mathematics, Sigma.
Cambridge University Press. https://doi.org/10.1017/fms.2020.17
chicago: Deuchert, Andreas, Simon Mayer, and Robert Seiringer. “The Free Energy
of the Two-Dimensional Dilute Bose Gas. I. Lower Bound.” Forum of Mathematics,
Sigma. Cambridge University Press, 2020. https://doi.org/10.1017/fms.2020.17.
ieee: A. Deuchert, S. Mayer, and R. Seiringer, “The free energy of the two-dimensional
dilute Bose gas. I. Lower bound,” Forum of Mathematics, Sigma, vol. 8.
Cambridge University Press, 2020.
ista: Deuchert A, Mayer S, Seiringer R. 2020. The free energy of the two-dimensional
dilute Bose gas. I. Lower bound. Forum of Mathematics, Sigma. 8, e20.
mla: Deuchert, Andreas, et al. “The Free Energy of the Two-Dimensional Dilute Bose
Gas. I. Lower Bound.” Forum of Mathematics, Sigma, vol. 8, e20, Cambridge
University Press, 2020, doi:10.1017/fms.2020.17.
short: A. Deuchert, S. Mayer, R. Seiringer, Forum of Mathematics, Sigma 8 (2020).
date_created: 2020-05-03T22:00:48Z
date_published: 2020-03-14T00:00:00Z
date_updated: 2023-08-21T06:18:49Z
day: '14'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1017/fms.2020.17
ec_funded: 1
external_id:
arxiv:
- '1910.03372'
isi:
- '000527342000001'
file:
- access_level: open_access
checksum: 8a64da99d107686997876d7cad8cfe1e
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T12:02:41Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7797'
file_name: 2020_ForumMath_Deuchert.pdf
file_size: 692530
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 8'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Forum of Mathematics, Sigma
publication_identifier:
eissn:
- '20505094'
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
related_material:
record:
- id: '7524'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: The free energy of the two-dimensional dilute Bose gas. I. Lower bound
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: 8
year: '2020'
...
---
_id: '7792'
abstract:
- lang: eng
text: Phonon polaritons—light coupled to lattice vibrations—in polar van der Waals
crystals are promising candidates for controlling the flow of energy on the nanoscale
due to their strong field confinement, anisotropic propagation and ultra-long
lifetime in the picosecond range1,2,3,4,5. However, the lack of tunability of
their narrow and material-specific spectral range—the Reststrahlen band—severely
limits their technological implementation. Here, we demonstrate that intercalation
of Na atoms in the van der Waals semiconductor α-V2O5 enables a broad spectral
shift of Reststrahlen bands, and that the phonon polaritons excited show ultra-low
losses (lifetime of 4 ± 1 ps), similar to phonon polaritons in a non-intercalated
crystal (lifetime of 6 ± 1 ps). We expect our intercalation method to be applicable
to other van der Waals crystals, opening the door for the use of phonon polaritons
in broad spectral bands in the mid-infrared domain.
acknowledgement: J.T.-G. and G.Á.-P. acknowledge support through the Severo Ochoa
Program from the Government of the Principality of Asturias (nos. PA-18-PF-BP17-126
and PA-20-PF-BP19-053, respectively). J.M.-S. acknowledges finantial support from
the Clarín Programme from the Government of the Principality of Asturias and a Marie
Curie-COFUND grant (PA-18-ACB17-29) and the Ramón y Cajal Program from the Government
of Spain (RYC2018-026196-I). K.C., X.P.A.G., H.V. and M.H.B. acknowledge the Air
Force Office of Scientific Research (AFOSR) grant no. FA 9550-18-1-0030 for funding
support. I.E. acknowledges financial support from the Spanish Ministry of Economy
and Competitiveness (grant no. FIS2016-76617-P). A.Y.N. acknowledges the Spanish
Ministry of Science, Innovation and Universities (national project no. MAT2017-88358-C3-3-R)
and the Basque Government (grant no. IT1164-19). Q.B. acknowledges the support from
Australian Research Council (grant nos. FT150100450, IH150100006 and CE170100039).
R.H. acknowledges support from the Spanish Ministry of Economy, Industry, and Competitiveness
(national project RTI2018-094830-B-100 and the Project MDM-2016-0618 of the María
de Maeztu Units of Excellence Program) and the Basque Goverment (grant no. IT1164-19).
P.A.-G. acknowledges support from the European Research Council under starting grant
no. 715496, 2DNANOPTICA.
article_processing_charge: No
article_type: original
author:
- first_name: Javier
full_name: Taboada-Gutiérrez, Javier
last_name: Taboada-Gutiérrez
- first_name: Gonzalo
full_name: Álvarez-Pérez, Gonzalo
last_name: Álvarez-Pérez
- first_name: Jiahua
full_name: Duan, Jiahua
last_name: Duan
- first_name: Weiliang
full_name: Ma, Weiliang
last_name: Ma
- first_name: Kyle
full_name: Crowley, Kyle
last_name: Crowley
- first_name: Ivan
full_name: Prieto Gonzalez, Ivan
id: 2A307FE2-F248-11E8-B48F-1D18A9856A87
last_name: Prieto Gonzalez
orcid: 0000-0002-7370-5357
- first_name: Andrei
full_name: Bylinkin, Andrei
last_name: Bylinkin
- first_name: Marta
full_name: Autore, Marta
last_name: Autore
- first_name: Halyna
full_name: Volkova, Halyna
last_name: Volkova
- first_name: Kenta
full_name: Kimura, Kenta
last_name: Kimura
- first_name: Tsuyoshi
full_name: Kimura, Tsuyoshi
last_name: Kimura
- first_name: M. H.
full_name: Berger, M. H.
last_name: Berger
- first_name: Shaojuan
full_name: Li, Shaojuan
last_name: Li
- first_name: Qiaoliang
full_name: Bao, Qiaoliang
last_name: Bao
- first_name: Xuan P.A.
full_name: Gao, Xuan P.A.
last_name: Gao
- first_name: Ion
full_name: Errea, Ion
last_name: Errea
- first_name: Alexey Y.
full_name: Nikitin, Alexey Y.
last_name: Nikitin
- first_name: Rainer
full_name: Hillenbrand, Rainer
last_name: Hillenbrand
- first_name: Javier
full_name: Martín-Sánchez, Javier
last_name: Martín-Sánchez
- first_name: Pablo
full_name: Alonso-González, Pablo
last_name: Alonso-González
citation:
ama: Taboada-Gutiérrez J, Álvarez-Pérez G, Duan J, et al. Broad spectral tuning
of ultra-low-loss polaritons in a van der Waals crystal by intercalation. Nature
Materials. 2020;19:964–968. doi:10.1038/s41563-020-0665-0
apa: Taboada-Gutiérrez, J., Álvarez-Pérez, G., Duan, J., Ma, W., Crowley, K., Prieto
Gonzalez, I., … Alonso-González, P. (2020). Broad spectral tuning of ultra-low-loss
polaritons in a van der Waals crystal by intercalation. Nature Materials.
Springer Nature. https://doi.org/10.1038/s41563-020-0665-0
chicago: Taboada-Gutiérrez, Javier, Gonzalo Álvarez-Pérez, Jiahua Duan, Weiliang
Ma, Kyle Crowley, Ivan Prieto Gonzalez, Andrei Bylinkin, et al. “Broad Spectral
Tuning of Ultra-Low-Loss Polaritons in a van Der Waals Crystal by Intercalation.”
Nature Materials. Springer Nature, 2020. https://doi.org/10.1038/s41563-020-0665-0.
ieee: J. Taboada-Gutiérrez et al., “Broad spectral tuning of ultra-low-loss
polaritons in a van der Waals crystal by intercalation,” Nature Materials,
vol. 19. Springer Nature, pp. 964–968, 2020.
ista: Taboada-Gutiérrez J, Álvarez-Pérez G, Duan J, Ma W, Crowley K, Prieto Gonzalez
I, Bylinkin A, Autore M, Volkova H, Kimura K, Kimura T, Berger MH, Li S, Bao Q,
Gao XPA, Errea I, Nikitin AY, Hillenbrand R, Martín-Sánchez J, Alonso-González
P. 2020. Broad spectral tuning of ultra-low-loss polaritons in a van der Waals
crystal by intercalation. Nature Materials. 19, 964–968.
mla: Taboada-Gutiérrez, Javier, et al. “Broad Spectral Tuning of Ultra-Low-Loss
Polaritons in a van Der Waals Crystal by Intercalation.” Nature Materials,
vol. 19, Springer Nature, 2020, pp. 964–968, doi:10.1038/s41563-020-0665-0.
short: J. Taboada-Gutiérrez, G. Álvarez-Pérez, J. Duan, W. Ma, K. Crowley, I. Prieto
Gonzalez, A. Bylinkin, M. Autore, H. Volkova, K. Kimura, T. Kimura, M.H. Berger,
S. Li, Q. Bao, X.P.A. Gao, I. Errea, A.Y. Nikitin, R. Hillenbrand, J. Martín-Sánchez,
P. Alonso-González, Nature Materials 19 (2020) 964–968.
date_created: 2020-05-03T22:00:49Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2023-08-21T06:18:20Z
day: '01'
department:
- _id: NanoFab
doi: 10.1038/s41563-020-0665-0
external_id:
isi:
- '000526218500004'
pmid:
- '32284598'
intvolume: ' 19'
isi: 1
language:
- iso: eng
month: '09'
oa_version: None
page: 964–968
pmid: 1
publication: Nature Materials
publication_identifier:
eissn:
- '14764660'
issn:
- '14761122'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Broad spectral tuning of ultra-low-loss polaritons in a van der Waals crystal
by intercalation
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 19
year: '2020'
...
---
_id: '7793'
abstract:
- lang: eng
text: Hormonal signalling in animals often involves direct transcription factor-hormone
interactions that modulate gene expression. In contrast, plant hormone signalling
is most commonly based on de-repression via the degradation of transcriptional
repressors. Recently, we uncovered a non-canonical signalling mechanism for the
plant hormone auxin whereby auxin directly affects the activity of the atypical
auxin response factor (ARF), ETTIN towards target genes without the requirement
for protein degradation. Here we show that ETTIN directly binds auxin, leading
to dissociation from co-repressor proteins of the TOPLESS/TOPLESS-RELATED family
followed by histone acetylation and induction of gene expression. This mechanism
is reminiscent of animal hormone signalling as it affects the activity towards
regulation of target genes and provides the first example of a DNA-bound hormone
receptor in plants. Whilst auxin affects canonical ARFs indirectly by facilitating
degradation of Aux/IAA repressors, direct ETTIN-auxin interactions allow switching
between repressive and de-repressive chromatin states in an instantly-reversible
manner.
article_number: e51787
article_processing_charge: No
article_type: original
author:
- first_name: André
full_name: Kuhn, André
last_name: Kuhn
- first_name: Sigurd
full_name: Ramans Harborough, Sigurd
last_name: Ramans Harborough
- first_name: Heather M
full_name: McLaughlin, Heather M
last_name: McLaughlin
- first_name: Bhavani
full_name: Natarajan, Bhavani
last_name: Natarajan
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Stefan
full_name: Kepinski, Stefan
last_name: Kepinski
- first_name: Lars
full_name: Østergaard, Lars
last_name: Østergaard
citation:
ama: Kuhn A, Ramans Harborough S, McLaughlin HM, et al. Direct ETTIN-auxin interaction
controls chromatin states in gynoecium development. eLife. 2020;9. doi:10.7554/elife.51787
apa: Kuhn, A., Ramans Harborough, S., McLaughlin, H. M., Natarajan, B., Verstraeten,
I., Friml, J., … Østergaard, L. (2020). Direct ETTIN-auxin interaction controls
chromatin states in gynoecium development. ELife. eLife Sciences Publications.
https://doi.org/10.7554/elife.51787
chicago: Kuhn, André, Sigurd Ramans Harborough, Heather M McLaughlin, Bhavani Natarajan,
Inge Verstraeten, Jiří Friml, Stefan Kepinski, and Lars Østergaard. “Direct ETTIN-Auxin
Interaction Controls Chromatin States in Gynoecium Development.” ELife.
eLife Sciences Publications, 2020. https://doi.org/10.7554/elife.51787.
ieee: A. Kuhn et al., “Direct ETTIN-auxin interaction controls chromatin
states in gynoecium development,” eLife, vol. 9. eLife Sciences Publications,
2020.
ista: Kuhn A, Ramans Harborough S, McLaughlin HM, Natarajan B, Verstraeten I, Friml
J, Kepinski S, Østergaard L. 2020. Direct ETTIN-auxin interaction controls chromatin
states in gynoecium development. eLife. 9, e51787.
mla: Kuhn, André, et al. “Direct ETTIN-Auxin Interaction Controls Chromatin States
in Gynoecium Development.” ELife, vol. 9, e51787, eLife Sciences Publications,
2020, doi:10.7554/elife.51787.
short: A. Kuhn, S. Ramans Harborough, H.M. McLaughlin, B. Natarajan, I. Verstraeten,
J. Friml, S. Kepinski, L. Østergaard, ELife 9 (2020).
date_created: 2020-05-04T08:50:47Z
date_published: 2020-04-08T00:00:00Z
date_updated: 2023-08-21T06:17:12Z
day: '08'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.7554/elife.51787
external_id:
isi:
- '000527752200001'
pmid:
- '32267233'
file:
- access_level: open_access
checksum: 15d740de1a741fdcc6ec128c48eed017
content_type: application/pdf
creator: dernst
date_created: 2020-05-04T09:06:43Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7794'
file_name: 2020_eLife_Kuhn.pdf
file_size: 2893082
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Direct ETTIN-auxin interaction controls chromatin states in gynoecium development
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: '2020'
...
---
_id: '7800'
abstract:
- lang: eng
text: De novo loss of function mutations in the ubiquitin ligase-encoding gene Cullin3
(CUL3) lead to autism spectrum disorder (ASD). Here, we used Cul3 mouse models
to evaluate the consequences of Cul3 mutations in vivo. Our results show that
Cul3 haploinsufficient mice exhibit deficits in motor coordination as well as
ASD-relevant social and cognitive impairments. Cul3 mutant brain displays cortical
lamination abnormalities due to defective neuronal migration and reduced numbers
of excitatory and inhibitory neurons. In line with the observed abnormal columnar
organization, Cul3 haploinsufficiency is associated with decreased spontaneous
excitatory and inhibitory activity in the cortex. At the molecular level, employing
a quantitative proteomic approach, we show that Cul3 regulates cytoskeletal and
adhesion protein abundance in mouse embryos. Abnormal regulation of cytoskeletal
proteins in Cul3 mutant neuronal cells results in atypical organization of the
actin mesh at the cell leading edge, likely causing the observed migration deficits.
In contrast to these important functions early in development, Cul3 deficiency
appears less relevant at adult stages. In fact, induction of Cul3 haploinsufficiency
in adult mice does not result in the behavioral defects observed in constitutive
Cul3 haploinsufficient animals. Taken together, our data indicate that Cul3 has
a critical role in the regulation of cytoskeletal proteins and neuronal migration
and that ASD-associated defects and behavioral abnormalities are primarily due
to Cul3 functions at early developmental stages.
acknowledged_ssus:
- _id: PreCl
article_processing_charge: No
author:
- first_name: Jasmin
full_name: Morandell, Jasmin
id: 4739D480-F248-11E8-B48F-1D18A9856A87
last_name: Morandell
- first_name: Lena A
full_name: Schwarz, Lena A
id: 29A8453C-F248-11E8-B48F-1D18A9856A87
last_name: Schwarz
- first_name: Bernadette
full_name: Basilico, Bernadette
id: 36035796-5ACA-11E9-A75E-7AF2E5697425
last_name: Basilico
orcid: 0000-0003-1843-3173
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
- first_name: Armel
full_name: Nicolas, Armel
id: 2A103192-F248-11E8-B48F-1D18A9856A87
last_name: Nicolas
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Caroline
full_name: Kreuzinger, Caroline
id: 382077BA-F248-11E8-B48F-1D18A9856A87
last_name: Kreuzinger
- first_name: Lisa
full_name: Knaus, Lisa
id: 3B2ABCF4-F248-11E8-B48F-1D18A9856A87
last_name: Knaus
- first_name: Zoe
full_name: Dobler, Zoe
id: D23090A2-9057-11EA-883A-A8396FC7A38F
last_name: Dobler
- first_name: Emanuele
full_name: Cacci, Emanuele
last_name: Cacci
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Morandell J, Schwarz LA, Basilico B, et al. Cul3 regulates cytoskeleton protein
homeostasis and cell migration during a critical window of brain development.
bioRxiv. doi:10.1101/2020.01.10.902064
apa: Morandell, J., Schwarz, L. A., Basilico, B., Tasciyan, S., Nicolas, A., Sommer,
C. M., … Novarino, G. (n.d.). Cul3 regulates cytoskeleton protein homeostasis
and cell migration during a critical window of brain development. bioRxiv.
Cold Spring Harbor Laboratory. https://doi.org/10.1101/2020.01.10.902064
chicago: Morandell, Jasmin, Lena A Schwarz, Bernadette Basilico, Saren Tasciyan,
Armel Nicolas, Christoph M Sommer, Caroline Kreuzinger, et al. “Cul3 Regulates
Cytoskeleton Protein Homeostasis and Cell Migration during a Critical Window of
Brain Development.” BioRxiv. Cold Spring Harbor Laboratory, n.d. https://doi.org/10.1101/2020.01.10.902064 .
ieee: J. Morandell et al., “Cul3 regulates cytoskeleton protein homeostasis
and cell migration during a critical window of brain development,” bioRxiv.
Cold Spring Harbor Laboratory.
ista: Morandell J, Schwarz LA, Basilico B, Tasciyan S, Nicolas A, Sommer CM, Kreuzinger
C, Knaus L, Dobler Z, Cacci E, Danzl JG, Novarino G. Cul3 regulates cytoskeleton
protein homeostasis and cell migration during a critical window of brain development.
bioRxiv, 10.1101/2020.01.10.902064
.
mla: Morandell, Jasmin, et al. “Cul3 Regulates Cytoskeleton Protein Homeostasis
and Cell Migration during a Critical Window of Brain Development.” BioRxiv,
Cold Spring Harbor Laboratory, doi:10.1101/2020.01.10.902064 .
short: J. Morandell, L.A. Schwarz, B. Basilico, S. Tasciyan, A. Nicolas, C.M. Sommer,
C. Kreuzinger, L. Knaus, Z. Dobler, E. Cacci, J.G. Danzl, G. Novarino, BioRxiv
(n.d.).
date_created: 2020-05-05T14:31:33Z
date_published: 2020-01-11T00:00:00Z
date_updated: 2024-09-10T12:04:26Z
day: '11'
ddc:
- '570'
department:
- _id: JoDa
- _id: GaNo
- _id: LifeSc
doi: '10.1101/2020.01.10.902064 '
file:
- access_level: open_access
checksum: c6799ab5daba80efe8e2ed63c15f8c81
content_type: application/pdf
creator: rsix
date_created: 2020-05-05T14:31:19Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7801'
file_name: 2020.01.10.902064v1.full.pdf
file_size: 2931370
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Preprint
project:
- _id: 265CB4D0-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03600
name: Optical control of synaptic function via adhesion molecules
- _id: 2548AE96-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: bioRxiv
publication_status: submitted
publisher: Cold Spring Harbor Laboratory
related_material:
record:
- id: '8620'
relation: dissertation_contains
status: public
- id: '9429'
relation: later_version
status: public
status: public
title: Cul3 regulates cytoskeleton protein homeostasis and cell migration during a
critical window of brain development
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: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7802'
abstract:
- lang: eng
text: "The Massively Parallel Computation (MPC) model is an emerging model which
distills core aspects of distributed and parallel computation. It has been developed
as a tool to solve (typically graph) problems in systems where the input is distributed
over many machines with limited space.\r\n\t\r\nRecent work has focused on the
regime in which machines have sublinear (in $n$, the number of nodes in the input
graph) space, with randomized algorithms presented for fundamental graph problems
of Maximal Matching and Maximal Independent Set. However, there have been no prior
corresponding deterministic algorithms.\r\n\t\r\n\tA major challenge underlying
the sublinear space setting is that the local space of each machine might be too
small to store all the edges incident to a single node. This poses a considerable
obstacle compared to the classical models in which each node is assumed to know
and have easy access to its incident edges. To overcome this barrier we introduce
a new graph sparsification technique that deterministically computes a low-degree
subgraph with additional desired properties. The degree of the nodes in this subgraph
is small in the sense that the edges of each node can be now stored on a single
machine. This low-degree subgraph also has the property that solving the problem
on this subgraph provides \\emph{significant} global progress, i.e., progress
towards solving the problem for the original input graph.\r\n\t\r\nUsing this
framework to derandomize the well-known randomized algorithm of Luby [SICOMP'86],
we obtain $O(\\log \\Delta+\\log\\log n)$-round deterministic MPC algorithms for
solving the fundamental problems of Maximal Matching and Maximal Independent Set
with $O(n^{\\epsilon})$ space on each machine for any constant $\\epsilon > 0$.
Based on the recent work of Ghaffari et al. [FOCS'18], this additive $O(\\log\\log
n)$ factor is conditionally essential. These algorithms can also be shown to run
in $O(\\log \\Delta)$ rounds in the closely related model of CONGESTED CLIQUE,
improving upon the state-of-the-art bound of $O(\\log^2 \\Delta)$ rounds by Censor-Hillel
et al. [DISC'17]."
article_processing_charge: No
arxiv: 1
author:
- first_name: Artur
full_name: Czumaj, Artur
last_name: Czumaj
orcid: 0000-0002-5646-9524
- first_name: Peter
full_name: Davies, Peter
id: 11396234-BB50-11E9-B24C-90FCE5697425
last_name: Davies
orcid: 0000-0002-5646-9524
- first_name: Merav
full_name: Parter, Merav
last_name: Parter
citation:
ama: 'Czumaj A, Davies P, Parter M. Graph sparsification for derandomizing massively
parallel computation with low space. In: Proceedings of the 32nd ACM Symposium
on Parallelism in Algorithms and Architectures (SPAA 2020). Association for
Computing Machinery; 2020:175-185. doi:10.1145/3350755.3400282'
apa: 'Czumaj, A., Davies, P., & Parter, M. (2020). Graph sparsification for
derandomizing massively parallel computation with low space. In Proceedings
of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA
2020) (pp. 175–185). Virtual Event, United States: Association for Computing
Machinery. https://doi.org/10.1145/3350755.3400282'
chicago: Czumaj, Artur, Peter Davies, and Merav Parter. “Graph Sparsification for
Derandomizing Massively Parallel Computation with Low Space.” In Proceedings
of the 32nd ACM Symposium on Parallelism in Algorithms and Architectures (SPAA
2020), 175–85. Association for Computing Machinery, 2020. https://doi.org/10.1145/3350755.3400282.
ieee: A. Czumaj, P. Davies, and M. Parter, “Graph sparsification for derandomizing
massively parallel computation with low space,” in Proceedings of the 32nd
ACM Symposium on Parallelism in Algorithms and Architectures (SPAA 2020),
Virtual Event, United States, 2020, no. 7, pp. 175–185.
ista: 'Czumaj A, Davies P, Parter M. 2020. Graph sparsification for derandomizing
massively parallel computation with low space. Proceedings of the 32nd ACM Symposium
on Parallelism in Algorithms and Architectures (SPAA 2020). SPAA: Symposium on
Parallelism in Algorithms and Architectures, 175–185.'
mla: Czumaj, Artur, et al. “Graph Sparsification for Derandomizing Massively Parallel
Computation with Low Space.” Proceedings of the 32nd ACM Symposium on Parallelism
in Algorithms and Architectures (SPAA 2020), no. 7, Association for Computing
Machinery, 2020, pp. 175–85, doi:10.1145/3350755.3400282.
short: A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 32nd ACM Symposium
on Parallelism in Algorithms and Architectures (SPAA 2020), Association for Computing
Machinery, 2020, pp. 175–185.
conference:
end_date: 2020-07-17
location: Virtual Event, United States
name: 'SPAA: Symposium on Parallelism in Algorithms and Architectures'
start_date: 2020-07-15
date_created: 2020-05-06T08:53:34Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2024-02-28T12:53:09Z
day: '01'
department:
- _id: DaAl
doi: 10.1145/3350755.3400282
ec_funded: 1
external_id:
arxiv:
- '1912.05390'
isi:
- '000744436200015'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1912.05390
month: '07'
oa: 1
oa_version: Preprint
page: 175-185
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Proceedings of the 32nd ACM Symposium on Parallelism in Algorithms and
Architectures (SPAA 2020)
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
related_material:
record:
- id: '9541'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Graph sparsification for derandomizing massively parallel computation with
low space
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
year: '2020'
...
---
_id: '7803'
abstract:
- lang: eng
text: "We settle the complexity of the (Δ+1)-coloring and (Δ+1)-list coloring problems
in the CONGESTED CLIQUE model by presenting a simple deterministic algorithm for
both problems running in a constant number of rounds. This matches the complexity
of the recent breakthrough randomized constant-round (Δ+1)-list coloring algorithm
due to Chang et al. (PODC'19), and significantly improves upon the state-of-the-art
O(logΔ)-round deterministic (Δ+1)-coloring bound of Parter (ICALP'18).\r\nA remarkable
property of our algorithm is its simplicity. Whereas the state-of-the-art randomized
algorithms for this problem are based on the quite involved local coloring algorithm
of Chang et al. (STOC'18), our algorithm can be described in just a few lines.
At a high level, it applies a careful derandomization of a recursive procedure
which partitions the nodes and their respective palettes into separate bins. We
show that after O(1) recursion steps, the remaining uncolored subgraph within
each bin has linear size, and thus can be solved locally by collecting it to a
single node. This algorithm can also be implemented in the Massively Parallel
Computation (MPC) model provided that each machine has linear (in n, the number
of nodes in the input graph) space.\r\nWe also show an extension of our algorithm
to the MPC regime in which machines have sublinear space: we present the first
deterministic (Δ+1)-list coloring algorithm designed for sublinear-space MPC,
which runs in O(logΔ+loglogn) rounds."
article_processing_charge: No
arxiv: 1
author:
- first_name: Artur
full_name: Czumaj, Artur
last_name: Czumaj
orcid: 0000-0002-5646-9524
- first_name: Peter
full_name: Davies, Peter
id: 11396234-BB50-11E9-B24C-90FCE5697425
last_name: Davies
orcid: 0000-0002-5646-9524
- first_name: Merav
full_name: Parter, Merav
last_name: Parter
citation:
ama: 'Czumaj A, Davies P, Parter M. Simple, deterministic, constant-round coloring
in the congested clique. In: Proceedings of the 2020 ACM Symposium on Principles
of Distributed Computing. Association for Computing Machinery; 2020:309-318.
doi:10.1145/3382734.3405751'
apa: 'Czumaj, A., Davies, P., & Parter, M. (2020). Simple, deterministic, constant-round
coloring in the congested clique. In Proceedings of the 2020 ACM Symposium
on Principles of Distributed Computing (pp. 309–318). Salerno, Italy: Association
for Computing Machinery. https://doi.org/10.1145/3382734.3405751'
chicago: Czumaj, Artur, Peter Davies, and Merav Parter. “Simple, Deterministic,
Constant-Round Coloring in the Congested Clique.” In Proceedings of the 2020
ACM Symposium on Principles of Distributed Computing, 309–18. Association
for Computing Machinery, 2020. https://doi.org/10.1145/3382734.3405751.
ieee: A. Czumaj, P. Davies, and M. Parter, “Simple, deterministic, constant-round
coloring in the congested clique,” in Proceedings of the 2020 ACM Symposium
on Principles of Distributed Computing, Salerno, Italy, 2020, pp. 309–318.
ista: 'Czumaj A, Davies P, Parter M. 2020. Simple, deterministic, constant-round
coloring in the congested clique. Proceedings of the 2020 ACM Symposium on Principles
of Distributed Computing. PODC: Symposium on Principles of Distributed Computing,
309–318.'
mla: Czumaj, Artur, et al. “Simple, Deterministic, Constant-Round Coloring in the
Congested Clique.” Proceedings of the 2020 ACM Symposium on Principles of Distributed
Computing, Association for Computing Machinery, 2020, pp. 309–18, doi:10.1145/3382734.3405751.
short: A. Czumaj, P. Davies, M. Parter, in:, Proceedings of the 2020 ACM Symposium
on Principles of Distributed Computing, Association for Computing Machinery, 2020,
pp. 309–318.
conference:
end_date: 2020-08-07
location: Salerno, Italy
name: 'PODC: Symposium on Principles of Distributed Computing'
start_date: 2020-08-03
date_created: 2020-05-06T09:02:14Z
date_published: 2020-07-01T00:00:00Z
date_updated: 2021-01-12T08:15:37Z
day: '01'
ddc:
- '000'
department:
- _id: DaAl
doi: 10.1145/3382734.3405751
ec_funded: 1
external_id:
arxiv:
- '2009.06043'
file:
- access_level: open_access
checksum: 46fe4fc58a64eb04068115573f631d4c
content_type: application/pdf
creator: pdavies
date_created: 2020-10-08T08:17:36Z
date_updated: 2020-10-08T08:17:36Z
file_id: '8624'
file_name: ColoringArxiv.pdf
file_size: 520051
relation: main_file
success: 1
file_date_updated: 2020-10-08T08:17:36Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
page: 309-318
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Proceedings of the 2020 ACM Symposium on Principles of Distributed Computing
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
status: public
title: Simple, deterministic, constant-round coloring in the congested clique
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7804'
abstract:
- lang: eng
text: Besides pro-inflammatory roles, the ancient cytokine interleukin-17 (IL-17)
modulates neural circuit function. We investigate IL-17 signaling in neurons,
and the extent it can alter organismal phenotypes. We combine immunoprecipitation
and mass spectrometry to biochemically characterize endogenous signaling complexes
that function downstream of IL-17 receptors in C. elegans neurons. We identify
the paracaspase MALT-1 as a critical output of the pathway. MALT1 mediates signaling
from many immune receptors in mammals, but was not previously implicated in IL-17
signaling or nervous system function. C. elegans MALT-1 forms a complex with homologs
of Act1 and IRAK and appears to function both as a scaffold and a protease. MALT-1
is expressed broadly in the C. elegans nervous system, and neuronal IL-17–MALT-1
signaling regulates multiple phenotypes, including escape behavior, associative
learning, immunity and longevity. Our data suggest MALT1 has an ancient role modulating
neural circuit function downstream of IL-17 to remodel physiology and behavior.
article_number: '2099'
article_processing_charge: No
article_type: original
author:
- first_name: Sean M.
full_name: Flynn, Sean M.
last_name: Flynn
- first_name: Changchun
full_name: Chen, Changchun
last_name: Chen
- first_name: Murat
full_name: Artan, Murat
id: C407B586-6052-11E9-B3AE-7006E6697425
last_name: Artan
orcid: 0000-0001-8945-6992
- first_name: Stephen
full_name: Barratt, Stephen
last_name: Barratt
- first_name: Alastair
full_name: Crisp, Alastair
last_name: Crisp
- first_name: Geoffrey M.
full_name: Nelson, Geoffrey M.
last_name: Nelson
- first_name: Sew Yeu
full_name: Peak-Chew, Sew Yeu
last_name: Peak-Chew
- first_name: Farida
full_name: Begum, Farida
last_name: Begum
- first_name: Mark
full_name: Skehel, Mark
last_name: Skehel
- first_name: Mario
full_name: De Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: De Bono
orcid: 0000-0001-8347-0443
citation:
ama: Flynn SM, Chen C, Artan M, et al. MALT-1 mediates IL-17 neural signaling to
regulate C. elegans behavior, immunity and longevity. Nature Communications.
2020;11. doi:10.1038/s41467-020-15872-y
apa: Flynn, S. M., Chen, C., Artan, M., Barratt, S., Crisp, A., Nelson, G. M., …
de Bono, M. (2020). MALT-1 mediates IL-17 neural signaling to regulate C. elegans
behavior, immunity and longevity. Nature Communications. Springer Nature.
https://doi.org/10.1038/s41467-020-15872-y
chicago: Flynn, Sean M., Changchun Chen, Murat Artan, Stephen Barratt, Alastair
Crisp, Geoffrey M. Nelson, Sew Yeu Peak-Chew, Farida Begum, Mark Skehel, and Mario
de Bono. “MALT-1 Mediates IL-17 Neural Signaling to Regulate C. Elegans Behavior,
Immunity and Longevity.” Nature Communications. Springer Nature, 2020.
https://doi.org/10.1038/s41467-020-15872-y.
ieee: S. M. Flynn et al., “MALT-1 mediates IL-17 neural signaling to regulate C.
elegans behavior, immunity and longevity,” Nature Communications, vol.
11. Springer Nature, 2020.
ista: Flynn SM, Chen C, Artan M, Barratt S, Crisp A, Nelson GM, Peak-Chew SY, Begum
F, Skehel M, de Bono M. 2020. MALT-1 mediates IL-17 neural signaling to regulate C.
elegans behavior, immunity and longevity. Nature Communications. 11, 2099.
mla: Flynn, Sean M., et al. “MALT-1 Mediates IL-17 Neural Signaling to Regulate C.
Elegans Behavior, Immunity and Longevity.” Nature Communications, vol.
11, 2099, Springer Nature, 2020, doi:10.1038/s41467-020-15872-y.
short: S.M. Flynn, C. Chen, M. Artan, S. Barratt, A. Crisp, G.M. Nelson, S.Y. Peak-Chew,
F. Begum, M. Skehel, M. de Bono, Nature Communications 11 (2020).
date_created: 2020-05-10T22:00:47Z
date_published: 2020-04-29T00:00:00Z
date_updated: 2023-08-21T06:21:14Z
day: '29'
ddc:
- '570'
department:
- _id: MaDe
doi: 10.1038/s41467-020-15872-y
external_id:
isi:
- '000531855500029'
file:
- access_level: open_access
checksum: dce367abf2c1a1d15f58fe6f7de82893
content_type: application/pdf
creator: dernst
date_created: 2020-05-11T10:36:33Z
date_updated: 2020-07-14T12:48:03Z
file_id: '7817'
file_name: 2020_NatureComm_Flynn.pdf
file_size: 4609120
relation: main_file
file_date_updated: 2020-07-14T12:48:03Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
eissn:
- '20411723'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: MALT-1 mediates IL-17 neural signaling to regulate C. elegans behavior, immunity
and longevity
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: 11
year: '2020'
...
---
_id: '7805'
abstract:
- lang: eng
text: Plants as non-mobile organisms constantly integrate varying environmental
signals to flexibly adapt their growth and development. Local fluctuations in
water and nutrient availability, sudden changes in temperature or other abiotic
and biotic stresses can trigger changes in the growth of plant organs. Multiple
mutually interconnected hormonal signaling cascades act as essential endogenous
translators of these exogenous signals in the adaptive responses of plants. Although
the molecular backbones of hormone transduction pathways have been identified,
the mechanisms underlying their interactions are largely unknown. Here, using
genome wide transcriptome profiling we identify an auxin and cytokinin cross-talk
component; SYNERGISTIC ON AUXIN AND CYTOKININ 1 (SYAC1), whose expression in roots
is strictly dependent on both of these hormonal pathways. We show that SYAC1 is
a regulator of secretory pathway, whose enhanced activity interferes with deposition
of cell wall components and can fine-tune organ growth and sensitivity to soil
pathogens.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: We thank Daria Siekhaus, Jiri Friml and Alexander Johnson for critical
reading of the manuscript, Peter Pimpl, Christian Luschnig and Liwen Jiang for sharing
published material, Lesia Rodriguez Solovey for technical assistance. This work
was supported by the Austrian Science Fund (FWF01_I1774S) to A.H., K.Ö., and E.B.,
the German Research Foundation (DFG; He3424/6-1 to I.H.), by the People Programme
(Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013)
under REA grant agreement n° [291734] (to N.C.), by the EU in the framework of the
Marie-Curie FP7 COFUND People Programme through the award of an AgreenSkills+ fellowship
No. 609398 (to J.S.) and by the Scientific Service Units of IST-Austria through
resources provided by the Bioimaging Facility, the Life Science Facility. The IJPB
benefits from the support of Saclay Plant Sciences-SPS (ANR-17-EUR-0007).
article_number: '2170'
article_processing_charge: No
article_type: original
author:
- first_name: Andrej
full_name: Hurny, Andrej
id: 4DC4AF46-F248-11E8-B48F-1D18A9856A87
last_name: Hurny
orcid: 0000-0003-3638-1426
- first_name: Candela
full_name: Cuesta, Candela
id: 33A3C818-F248-11E8-B48F-1D18A9856A87
last_name: Cuesta
orcid: 0000-0003-1923-2410
- first_name: Nicola
full_name: Cavallari, Nicola
id: 457160E6-F248-11E8-B48F-1D18A9856A87
last_name: Cavallari
- first_name: Krisztina
full_name: Ötvös, Krisztina
id: 29B901B0-F248-11E8-B48F-1D18A9856A87
last_name: Ötvös
orcid: 0000-0002-5503-4983
- first_name: Jerome
full_name: Duclercq, Jerome
last_name: Duclercq
- first_name: Ladislav
full_name: Dokládal, Ladislav
last_name: Dokládal
- 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: Marçal
full_name: Gallemi, Marçal
id: 460C6802-F248-11E8-B48F-1D18A9856A87
last_name: Gallemi
orcid: 0000-0003-4675-6893
- first_name: Hana
full_name: Semeradova, Hana
id: 42FE702E-F248-11E8-B48F-1D18A9856A87
last_name: Semeradova
- first_name: Thomas
full_name: Rauter, Thomas
id: A0385D1A-9376-11EA-A47D-9862C5E3AB22
last_name: Rauter
- first_name: Irene
full_name: Stenzel, Irene
last_name: Stenzel
- first_name: Geert
full_name: Persiau, Geert
last_name: Persiau
- first_name: Freia
full_name: Benade, Freia
last_name: Benade
- first_name: Rishikesh
full_name: Bhalearo, Rishikesh
last_name: Bhalearo
- first_name: Eva
full_name: Sýkorová, Eva
last_name: Sýkorová
- first_name: András
full_name: Gorzsás, András
last_name: Gorzsás
- first_name: Julien
full_name: Sechet, Julien
last_name: Sechet
- first_name: Gregory
full_name: Mouille, Gregory
last_name: Mouille
- first_name: Ingo
full_name: Heilmann, Ingo
last_name: Heilmann
- first_name: Geert
full_name: De Jaeger, Geert
last_name: De Jaeger
- first_name: Jutta
full_name: Ludwig-Müller, Jutta
last_name: Ludwig-Müller
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Hurny A, Cuesta C, Cavallari N, et al. Synergistic on Auxin and Cytokinin 1
positively regulates growth and attenuates soil pathogen resistance. Nature
Communications. 2020;11. doi:10.1038/s41467-020-15895-5
apa: Hurny, A., Cuesta, C., Cavallari, N., Ötvös, K., Duclercq, J., Dokládal, L.,
… Benková, E. (2020). Synergistic on Auxin and Cytokinin 1 positively regulates
growth and attenuates soil pathogen resistance. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-020-15895-5
chicago: Hurny, Andrej, Candela Cuesta, Nicola Cavallari, Krisztina Ötvös, Jerome
Duclercq, Ladislav Dokládal, Juan C Montesinos López, et al. “Synergistic on Auxin
and Cytokinin 1 Positively Regulates Growth and Attenuates Soil Pathogen Resistance.”
Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-15895-5.
ieee: A. Hurny et al., “Synergistic on Auxin and Cytokinin 1 positively regulates
growth and attenuates soil pathogen resistance,” Nature Communications,
vol. 11. Springer Nature, 2020.
ista: Hurny A, Cuesta C, Cavallari N, Ötvös K, Duclercq J, Dokládal L, Montesinos
López JC, Gallemi M, Semerádová H, Rauter T, Stenzel I, Persiau G, Benade F, Bhalearo
R, Sýkorová E, Gorzsás A, Sechet J, Mouille G, Heilmann I, De Jaeger G, Ludwig-Müller
J, Benková E. 2020. Synergistic on Auxin and Cytokinin 1 positively regulates
growth and attenuates soil pathogen resistance. Nature Communications. 11, 2170.
mla: Hurny, Andrej, et al. “Synergistic on Auxin and Cytokinin 1 Positively Regulates
Growth and Attenuates Soil Pathogen Resistance.” Nature Communications,
vol. 11, 2170, Springer Nature, 2020, doi:10.1038/s41467-020-15895-5.
short: A. Hurny, C. Cuesta, N. Cavallari, K. Ötvös, J. Duclercq, L. Dokládal, J.C.
Montesinos López, M. Gallemi, H. Semerádová, T. Rauter, I. Stenzel, G. Persiau,
F. Benade, R. Bhalearo, E. Sýkorová, A. Gorzsás, J. Sechet, G. Mouille, I. Heilmann,
G. De Jaeger, J. Ludwig-Müller, E. Benková, Nature Communications 11 (2020).
date_created: 2020-05-10T22:00:48Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2023-08-21T06:21:56Z
day: '01'
ddc:
- '570'
department:
- _id: EvBe
doi: 10.1038/s41467-020-15895-5
ec_funded: 1
external_id:
isi:
- '000531425900012'
pmid:
- '32358503'
file:
- access_level: open_access
checksum: 2cba327c9e9416d75cb96be54b0fb441
content_type: application/pdf
creator: dernst
date_created: 2020-10-06T07:47:53Z
date_updated: 2020-10-06T07:47:53Z
file_id: '8614'
file_name: 2020_NatureComm_Hurny.pdf
file_size: 4743576
relation: main_file
success: 1
file_date_updated: 2020-10-06T07:47:53Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2542D156-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I 1774-B16
name: Hormone cross-talk drives nutrient dependent plant development
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Nature Communications
publication_identifier:
eissn:
- '20411723'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Synergistic on Auxin and Cytokinin 1 positively regulates growth and attenuates
soil pathogen resistance
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: 11
year: '2020'
...
---
_id: '7806'
abstract:
- lang: eng
text: "We consider the following decision problem EMBEDk→d in computational topology
(where k ≤ d are fixed positive integers): Given a finite simplicial complex K
of dimension k, does there exist a (piecewise-linear) embedding of K into ℝd?\r\nThe
special case EMBED1→2 is graph planarity, which is decidable in linear time, as
shown by Hopcroft and Tarjan. In higher dimensions, EMBED2→3 and EMBED3→3 are
known to be decidable (as well as NP-hard), and recent results of Čadek et al.
in computational homotopy theory, in combination with the classical Haefliger–Weber
theorem in geometric topology, imply that EMBEDk→d can be solved in polynomial
time for any fixed pair (k, d) of dimensions in the so-called metastable range
.\r\nHere, by contrast, we prove that EMBEDk→d is algorithmically undecidable
for almost all pairs of dimensions outside the metastable range, namely for .
This almost completely resolves the decidability vs. undecidability of EMBEDk→d
in higher dimensions and establishes a sharp dichotomy between polynomial-time
solvability and undecidability.\r\nOur result complements (and in a wide range
of dimensions strengthens) earlier results of Matoušek, Tancer, and the second
author, who showed that EMBEDk→d is undecidable for 4 ≤ k ϵ {d – 1, d}, and NP-hard
for all remaining pairs (k, d) outside the metastable range and satisfying d ≥
4."
article_processing_charge: No
author:
- first_name: Marek
full_name: Filakovský, Marek
id: 3E8AF77E-F248-11E8-B48F-1D18A9856A87
last_name: Filakovský
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
- first_name: Stephan Y
full_name: Zhechev, Stephan Y
id: 3AA52972-F248-11E8-B48F-1D18A9856A87
last_name: Zhechev
citation:
ama: 'Filakovský M, Wagner U, Zhechev SY. Embeddability of simplicial complexes
is undecidable. In: Proceedings of the Annual ACM-SIAM Symposium on Discrete
Algorithms. Vol 2020-January. SIAM; 2020:767-785. doi:10.1137/1.9781611975994.47'
apa: 'Filakovský, M., Wagner, U., & Zhechev, S. Y. (2020). Embeddability of
simplicial complexes is undecidable. In Proceedings of the Annual ACM-SIAM
Symposium on Discrete Algorithms (Vol. 2020–January, pp. 767–785). Salt Lake
City, UT, United States: SIAM. https://doi.org/10.1137/1.9781611975994.47'
chicago: Filakovský, Marek, Uli Wagner, and Stephan Y Zhechev. “Embeddability of
Simplicial Complexes Is Undecidable.” In Proceedings of the Annual ACM-SIAM
Symposium on Discrete Algorithms, 2020–January:767–85. SIAM, 2020. https://doi.org/10.1137/1.9781611975994.47.
ieee: M. Filakovský, U. Wagner, and S. Y. Zhechev, “Embeddability of simplicial
complexes is undecidable,” in Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms, Salt Lake City, UT, United States, 2020, vol. 2020–January,
pp. 767–785.
ista: 'Filakovský M, Wagner U, Zhechev SY. 2020. Embeddability of simplicial complexes
is undecidable. Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms.
SODA: Symposium on Discrete Algorithms vol. 2020–January, 767–785.'
mla: Filakovský, Marek, et al. “Embeddability of Simplicial Complexes Is Undecidable.”
Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms, vol.
2020–January, SIAM, 2020, pp. 767–85, doi:10.1137/1.9781611975994.47.
short: M. Filakovský, U. Wagner, S.Y. Zhechev, in:, Proceedings of the Annual ACM-SIAM
Symposium on Discrete Algorithms, SIAM, 2020, pp. 767–785.
conference:
end_date: 2020-01-08
location: Salt Lake City, UT, United States
name: 'SODA: Symposium on Discrete Algorithms'
start_date: 2020-01-05
date_created: 2020-05-10T22:00:48Z
date_published: 2020-01-01T00:00:00Z
date_updated: 2021-01-12T08:15:38Z
day: '01'
department:
- _id: UlWa
doi: 10.1137/1.9781611975994.47
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1137/1.9781611975994.47
month: '01'
oa: 1
oa_version: Published Version
page: 767-785
project:
- _id: 26611F5C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31312
name: Algorithms for Embeddings and Homotopy Theory
publication: Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms
publication_identifier:
isbn:
- '9781611975994'
publication_status: published
publisher: SIAM
quality_controlled: '1'
scopus_import: 1
status: public
title: Embeddability of simplicial complexes is undecidable
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2020-January
year: '2020'
...
---
_id: '7807'
abstract:
- lang: eng
text: "In a straight-line embedded triangulation of a point set P in the plane,
removing an inner edge and—provided the resulting quadrilateral is convex—adding
the other diagonal is called an edge flip. The (edge) flip graph has all triangulations
as vertices, and a pair of triangulations is adjacent if they can be obtained
from each other by an edge flip. The goal of this paper is to contribute to a
better understanding of the flip graph, with an emphasis on its connectivity.\r\nFor
sets in general position, it is known that every triangulation allows at least
edge flips (a tight bound) which gives the minimum degree of any flip graph for
n points. We show that for every point set P in general position, the flip graph
is at least -vertex connected. Somewhat more strongly, we show that the vertex
connectivity equals the minimum degree occurring in the flip graph, i.e. the minimum
number of flippable edges in any triangulation of P, provided P is large enough.
Finally, we exhibit some of the geometry of the flip graph by showing that the
flip graph can be covered by 1-skeletons of polytopes of dimension (products of
associahedra).\r\nA corresponding result ((n – 3)-vertex connectedness) can be
shown for the bistellar flip graph of partial triangulations, i.e. the set of
all triangulations of subsets of P which contain all extreme points of P. This
will be treated separately in a second part."
article_processing_charge: No
arxiv: 1
author:
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
- first_name: Emo
full_name: Welzl, Emo
last_name: Welzl
citation:
ama: 'Wagner U, Welzl E. Connectivity of triangulation flip graphs in the plane
(Part I: Edge flips). In: Proceedings of the Annual ACM-SIAM Symposium on Discrete
Algorithms. Vol 2020-January. SIAM; 2020:2823-2841. doi:10.1137/1.9781611975994.172'
apa: 'Wagner, U., & Welzl, E. (2020). Connectivity of triangulation flip graphs
in the plane (Part I: Edge flips). In Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms (Vol. 2020–January, pp. 2823–2841). Salt Lake City,
UT, United States: SIAM. https://doi.org/10.1137/1.9781611975994.172'
chicago: 'Wagner, Uli, and Emo Welzl. “Connectivity of Triangulation Flip Graphs
in the Plane (Part I: Edge Flips).” In Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms, 2020–January:2823–41. SIAM, 2020. https://doi.org/10.1137/1.9781611975994.172.'
ieee: 'U. Wagner and E. Welzl, “Connectivity of triangulation flip graphs in the
plane (Part I: Edge flips),” in Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms, Salt Lake City, UT, United States, 2020, vol. 2020–January,
pp. 2823–2841.'
ista: 'Wagner U, Welzl E. 2020. Connectivity of triangulation flip graphs in the
plane (Part I: Edge flips). Proceedings of the Annual ACM-SIAM Symposium on Discrete
Algorithms. SODA: Symposium on Discrete Algorithms vol. 2020–January, 2823–2841.'
mla: 'Wagner, Uli, and Emo Welzl. “Connectivity of Triangulation Flip Graphs in
the Plane (Part I: Edge Flips).” Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms, vol. 2020–January, SIAM, 2020, pp. 2823–41, doi:10.1137/1.9781611975994.172.'
short: U. Wagner, E. Welzl, in:, Proceedings of the Annual ACM-SIAM Symposium on
Discrete Algorithms, SIAM, 2020, pp. 2823–2841.
conference:
end_date: 2020-01-08
location: Salt Lake City, UT, United States
name: 'SODA: Symposium on Discrete Algorithms'
start_date: 2020-01-05
date_created: 2020-05-10T22:00:48Z
date_published: 2020-01-01T00:00:00Z
date_updated: 2023-08-04T08:51:07Z
day: '01'
department:
- _id: UlWa
doi: 10.1137/1.9781611975994.172
external_id:
arxiv:
- '2003.13557'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1137/1.9781611975994.172
month: '01'
oa: 1
oa_version: Submitted Version
page: 2823-2841
publication: Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms
publication_identifier:
isbn:
- '9781611975994'
publication_status: published
publisher: SIAM
quality_controlled: '1'
related_material:
record:
- id: '12129'
relation: later_version
status: public
scopus_import: 1
status: public
title: 'Connectivity of triangulation flip graphs in the plane (Part I: Edge flips)'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2020-January
year: '2020'
...