---
_id: '676'
abstract:
- lang: eng
text: The segregation of different cell types into distinct tissues is a fundamental
process in metazoan development. Differences in cell adhesion and cortex tension
are commonly thought to drive cell sorting by regulating tissue surface tension
(TST). However, the role that differential TST plays in cell segregation within
the developing embryo is as yet unclear. Here, we have analyzed the role of differential
TST for germ layer progenitor cell segregation during zebrafish gastrulation.
Contrary to previous observations that differential TST drives germ layer progenitor
cell segregation in vitro, we show that germ layers display indistinguishable
TST within the gastrulating embryo, arguing against differential TST driving germ
layer progenitor cell segregation in vivo. We further show that the osmolarity
of the interstitial fluid (IF) is an important factor that influences germ layer
TST in vivo, and that lower osmolarity of the IF compared with standard cell culture
medium can explain why germ layers display differential TST in culture but not
in vivo. Finally, we show that directed migration of mesendoderm progenitors is
required for germ layer progenitor cell segregation and germ layer formation.
article_processing_charge: No
article_type: original
author:
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Jim
full_name: Veldhuis, Jim
last_name: Veldhuis
- first_name: Vanessa
full_name: Barone, Vanessa
id: 419EECCC-F248-11E8-B48F-1D18A9856A87
last_name: Barone
orcid: 0000-0003-2676-3367
- first_name: Daniel
full_name: Capek, Daniel
id: 31C42484-F248-11E8-B48F-1D18A9856A87
last_name: Capek
orcid: 0000-0001-5199-9940
- first_name: Jean-Léon
full_name: Maître, Jean-Léon
id: 48F1E0D8-F248-11E8-B48F-1D18A9856A87
last_name: Maître
orcid: 0000-0002-3688-1474
- first_name: Wayne
full_name: Brodland, Wayne
last_name: Brodland
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Krens G, Veldhuis J, Barone V, et al. Interstitial fluid osmolarity modulates
the action of differential tissue surface tension in progenitor cell segregation
during gastrulation. Development. 2017;144(10):1798-1806. doi:10.1242/dev.144964
apa: Krens, G., Veldhuis, J., Barone, V., Capek, D., Maître, J.-L., Brodland, W.,
& Heisenberg, C.-P. J. (2017). Interstitial fluid osmolarity modulates the
action of differential tissue surface tension in progenitor cell segregation during
gastrulation. Development. Company of Biologists. https://doi.org/10.1242/dev.144964
chicago: Krens, Gabriel, Jim Veldhuis, Vanessa Barone, Daniel Capek, Jean-Léon Maître,
Wayne Brodland, and Carl-Philipp J Heisenberg. “Interstitial Fluid Osmolarity
Modulates the Action of Differential Tissue Surface Tension in Progenitor Cell
Segregation during Gastrulation.” Development. Company of Biologists, 2017.
https://doi.org/10.1242/dev.144964.
ieee: G. Krens et al., “Interstitial fluid osmolarity modulates the action
of differential tissue surface tension in progenitor cell segregation during gastrulation,”
Development, vol. 144, no. 10. Company of Biologists, pp. 1798–1806, 2017.
ista: Krens G, Veldhuis J, Barone V, Capek D, Maître J-L, Brodland W, Heisenberg
C-PJ. 2017. Interstitial fluid osmolarity modulates the action of differential
tissue surface tension in progenitor cell segregation during gastrulation. Development.
144(10), 1798–1806.
mla: Krens, Gabriel, et al. “Interstitial Fluid Osmolarity Modulates the Action
of Differential Tissue Surface Tension in Progenitor Cell Segregation during Gastrulation.”
Development, vol. 144, no. 10, Company of Biologists, 2017, pp. 1798–806,
doi:10.1242/dev.144964.
short: G. Krens, J. Veldhuis, V. Barone, D. Capek, J.-L. Maître, W. Brodland, C.-P.J.
Heisenberg, Development 144 (2017) 1798–1806.
date_created: 2018-12-11T11:47:52Z
date_published: 2017-05-15T00:00:00Z
date_updated: 2024-03-25T23:30:13Z
day: '15'
ddc:
- '570'
department:
- _id: Bio
- _id: CaHe
doi: 10.1242/dev.144964
external_id:
pmid:
- '28512197'
file:
- access_level: open_access
checksum: bc25125fb664706cdf180e061429f91d
content_type: application/pdf
creator: dernst
date_created: 2019-09-24T06:56:22Z
date_updated: 2020-07-14T12:47:39Z
file_id: '6905'
file_name: 2017_Development_Krens.pdf
file_size: 8194516
relation: main_file
file_date_updated: 2020-07-14T12:47:39Z
has_accepted_license: '1'
intvolume: ' 144'
issue: '10'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 1798 - 1806
pmid: 1
publication: Development
publication_identifier:
issn:
- '09501991'
publication_status: published
publisher: Company of Biologists
publist_id: '7047'
quality_controlled: '1'
related_material:
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relation: dissertation_contains
status: public
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relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Interstitial fluid osmolarity modulates the action of differential tissue surface
tension in progenitor cell segregation during gastrulation
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: 144
year: '2017'
...
---
_id: '677'
abstract:
- lang: eng
text: The INO80 complex (INO80-C) is an evolutionarily conserved nucleosome remodeler
that acts in transcription, replication, and genome stability. It is required
for resistance against genotoxic agents and is involved in the repair of DNA double-strand
breaks (DSBs) by homologous recombination (HR). However, the causes of the HR
defect in INO80-C mutant cells are controversial. Here, we unite previous findings
using a system to study HR with high spatial resolution in budding yeast. We find
that INO80-C has at least two distinct functions during HR—DNA end resection and
presynaptic filament formation. Importantly, the second function is linked to
the histone variant H2A.Z. In the absence of H2A.Z, presynaptic filament formation
and HR are restored in INO80-C-deficient mutants, suggesting that presynaptic
filament formation is the crucial INO80-C function during HR.
author:
- first_name: Claudio
full_name: Lademann, Claudio
last_name: Lademann
- first_name: Jörg
full_name: Renkawitz, Jörg
id: 3F0587C8-F248-11E8-B48F-1D18A9856A87
last_name: Renkawitz
orcid: 0000-0003-2856-3369
- first_name: Boris
full_name: Pfander, Boris
last_name: Pfander
- first_name: Stefan
full_name: Jentsch, Stefan
last_name: Jentsch
citation:
ama: Lademann C, Renkawitz J, Pfander B, Jentsch S. The INO80 complex removes H2A.Z
to promote presynaptic filament formation during homologous recombination. Cell
Reports. 2017;19(7):1294-1303. doi:10.1016/j.celrep.2017.04.051
apa: Lademann, C., Renkawitz, J., Pfander, B., & Jentsch, S. (2017). The INO80
complex removes H2A.Z to promote presynaptic filament formation during homologous
recombination. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2017.04.051
chicago: Lademann, Claudio, Jörg Renkawitz, Boris Pfander, and Stefan Jentsch. “The
INO80 Complex Removes H2A.Z to Promote Presynaptic Filament Formation during Homologous
Recombination.” Cell Reports. Cell Press, 2017. https://doi.org/10.1016/j.celrep.2017.04.051.
ieee: C. Lademann, J. Renkawitz, B. Pfander, and S. Jentsch, “The INO80 complex
removes H2A.Z to promote presynaptic filament formation during homologous recombination,”
Cell Reports, vol. 19, no. 7. Cell Press, pp. 1294–1303, 2017.
ista: Lademann C, Renkawitz J, Pfander B, Jentsch S. 2017. The INO80 complex removes
H2A.Z to promote presynaptic filament formation during homologous recombination.
Cell Reports. 19(7), 1294–1303.
mla: Lademann, Claudio, et al. “The INO80 Complex Removes H2A.Z to Promote Presynaptic
Filament Formation during Homologous Recombination.” Cell Reports, vol.
19, no. 7, Cell Press, 2017, pp. 1294–303, doi:10.1016/j.celrep.2017.04.051.
short: C. Lademann, J. Renkawitz, B. Pfander, S. Jentsch, Cell Reports 19 (2017)
1294–1303.
date_created: 2018-12-11T11:47:52Z
date_published: 2017-05-16T00:00:00Z
date_updated: 2021-01-12T08:08:57Z
day: '16'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1016/j.celrep.2017.04.051
file:
- access_level: open_access
checksum: efc7287d9c6354983cb151880e9ad72a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:48Z
date_updated: 2020-07-14T12:47:40Z
file_id: '5171'
file_name: IST-2017-899-v1+1_1-s2.0-S2211124717305454-main.pdf
file_size: 3005610
relation: main_file
file_date_updated: 2020-07-14T12:47:40Z
has_accepted_license: '1'
intvolume: ' 19'
issue: '7'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 1294 - 1303
publication: Cell Reports
publication_identifier:
issn:
- '22111247'
publication_status: published
publisher: Cell Press
publist_id: '7046'
pubrep_id: '899'
quality_controlled: '1'
scopus_import: 1
status: public
title: The INO80 complex removes H2A.Z to promote presynaptic filament formation during
homologous recombination
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2017'
...
---
_id: '678'
abstract:
- lang: eng
text: The seminal observation that mechanical signals can elicit changes in biochemical
signalling within cells, a process commonly termed mechanosensation and mechanotransduction,
has revolutionized our understanding of the role of cell mechanics in various
fundamental biological processes, such as cell motility, adhesion, proliferation
and differentiation. In this Review, we will discuss how the interplay and feedback
between mechanical and biochemical signals control tissue morphogenesis and cell
fate specification in embryonic development.
author:
- first_name: Nicoletta
full_name: Petridou, Nicoletta
id: 2A003F6C-F248-11E8-B48F-1D18A9856A87
last_name: Petridou
orcid: 0000-0002-8451-1195
- first_name: Zoltan P
full_name: Spiro, Zoltan P
id: 426AD026-F248-11E8-B48F-1D18A9856A87
last_name: Spiro
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Petridou N, Spiro ZP, Heisenberg C-PJ. Multiscale force sensing in development.
Nature Cell Biology. 2017;19(6):581-588. doi:10.1038/ncb3524
apa: Petridou, N., Spiro, Z. P., & Heisenberg, C.-P. J. (2017). Multiscale force
sensing in development. Nature Cell Biology. Nature Publishing Group. https://doi.org/10.1038/ncb3524
chicago: Petridou, Nicoletta, Zoltan P Spiro, and Carl-Philipp J Heisenberg. “Multiscale
Force Sensing in Development.” Nature Cell Biology. Nature Publishing Group,
2017. https://doi.org/10.1038/ncb3524.
ieee: N. Petridou, Z. P. Spiro, and C.-P. J. Heisenberg, “Multiscale force sensing
in development,” Nature Cell Biology, vol. 19, no. 6. Nature Publishing
Group, pp. 581–588, 2017.
ista: Petridou N, Spiro ZP, Heisenberg C-PJ. 2017. Multiscale force sensing in development.
Nature Cell Biology. 19(6), 581–588.
mla: Petridou, Nicoletta, et al. “Multiscale Force Sensing in Development.” Nature
Cell Biology, vol. 19, no. 6, Nature Publishing Group, 2017, pp. 581–88, doi:10.1038/ncb3524.
short: N. Petridou, Z.P. Spiro, C.-P.J. Heisenberg, Nature Cell Biology 19 (2017)
581–588.
date_created: 2018-12-11T11:47:53Z
date_published: 2017-05-31T00:00:00Z
date_updated: 2021-01-12T08:08:59Z
day: '31'
department:
- _id: CaHe
doi: 10.1038/ncb3524
intvolume: ' 19'
issue: '6'
language:
- iso: eng
month: '05'
oa_version: None
page: 581 - 588
project:
- _id: 25236028-B435-11E9-9278-68D0E5697425
grant_number: ALTF534-2016
name: The generation and function of anisotropic tissue tension in zebrafish epiboly
(EMBO Fellowship)
publication: Nature Cell Biology
publication_identifier:
issn:
- '14657392'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7040'
quality_controlled: '1'
scopus_import: 1
status: public
title: Multiscale force sensing in development
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2017'
...
---
_id: '679'
abstract:
- lang: eng
text: Protective responses against pathogens require a rapid mobilization of resting
neutrophils and the timely removal of activated ones. Neutrophils are exceptionally
short-lived leukocytes, yet it remains unclear whether the lifespan of pathogen-engaged
neutrophils is regulated differently from that in the circulating steady-state
pool. Here, we have found that under homeostatic conditions, the mRNA-destabilizing
protein tristetraprolin (TTP) regulates apoptosis and the numbers of activated
infiltrating murine neutrophils but not neutrophil cellularity. Activated TTP-deficient
neutrophils exhibited decreased apoptosis and enhanced accumulation at the infection
site. In the context of myeloid-specific deletion of Ttp, the potentiation of
neutrophil deployment protected mice against lethal soft tissue infection with
Streptococcus pyogenes and prevented bacterial dissemination. Neutrophil transcriptome
analysis revealed that decreased apoptosis of TTP-deficient neutrophils was specifically
associated with elevated expression of myeloid cell leukemia 1 (Mcl1) but not
other antiapoptotic B cell leukemia/ lymphoma 2 (Bcl2) family members. Higher
Mcl1 expression resulted from stabilization of Mcl1 mRNA in the absence of TTP.
The low apoptosis rate of infiltrating TTP-deficient neutrophils was comparable
to that of transgenic Mcl1-overexpressing neutrophils. Our study demonstrates
that posttranscriptional gene regulation by TTP schedules the termination of the
antimicrobial engagement of neutrophils. The balancing role of TTP comes at the
cost of an increased risk of bacterial infections.
acknowledgement: This work was supported by grants from the Austrian Science Fund
(FWF) (P27538-B21, I1621-B22, and SFB 43, to PK); by funding from the European Union
Seventh Framework Programme Marie Curie Initial Training Networks (FP7-PEOPLE-2012-ITN)
for the project INBIONET (INfection BIOlogy Training NETwork under grant agreement
PITN-GA-2012-316682; and by a joint research cluster initiative of the University
of Vienna and the Medical University of Vienna.
author:
- first_name: Florian
full_name: Ebner, Florian
last_name: Ebner
- first_name: Vitaly
full_name: Sedlyarov, Vitaly
last_name: Sedlyarov
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
- first_name: Masa
full_name: Ivin, Masa
last_name: Ivin
- first_name: Franz
full_name: Kratochvill, Franz
last_name: Kratochvill
- first_name: Nina
full_name: Gratz, Nina
last_name: Gratz
- first_name: Lukas
full_name: Kenner, Lukas
last_name: Kenner
- first_name: Andreas
full_name: Villunger, Andreas
last_name: Villunger
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Pavel
full_name: Kovarik, Pavel
last_name: Kovarik
citation:
ama: Ebner F, Sedlyarov V, Tasciyan S, et al. The RNA-binding protein tristetraprolin
schedules apoptosis of pathogen-engaged neutrophils during bacterial infection.
The Journal of Clinical Investigation. 2017;127(6):2051-2065. doi:10.1172/JCI80631
apa: Ebner, F., Sedlyarov, V., Tasciyan, S., Ivin, M., Kratochvill, F., Gratz, N.,
… Kovarik, P. (2017). The RNA-binding protein tristetraprolin schedules apoptosis
of pathogen-engaged neutrophils during bacterial infection. The Journal of
Clinical Investigation. American Society for Clinical Investigation. https://doi.org/10.1172/JCI80631
chicago: Ebner, Florian, Vitaly Sedlyarov, Saren Tasciyan, Masa Ivin, Franz Kratochvill,
Nina Gratz, Lukas Kenner, Andreas Villunger, Michael K Sixt, and Pavel Kovarik.
“The RNA-Binding Protein Tristetraprolin Schedules Apoptosis of Pathogen-Engaged
Neutrophils during Bacterial Infection.” The Journal of Clinical Investigation.
American Society for Clinical Investigation, 2017. https://doi.org/10.1172/JCI80631.
ieee: F. Ebner et al., “The RNA-binding protein tristetraprolin schedules
apoptosis of pathogen-engaged neutrophils during bacterial infection,” The
Journal of Clinical Investigation, vol. 127, no. 6. American Society for Clinical
Investigation, pp. 2051–2065, 2017.
ista: Ebner F, Sedlyarov V, Tasciyan S, Ivin M, Kratochvill F, Gratz N, Kenner L,
Villunger A, Sixt MK, Kovarik P. 2017. The RNA-binding protein tristetraprolin
schedules apoptosis of pathogen-engaged neutrophils during bacterial infection.
The Journal of Clinical Investigation. 127(6), 2051–2065.
mla: Ebner, Florian, et al. “The RNA-Binding Protein Tristetraprolin Schedules Apoptosis
of Pathogen-Engaged Neutrophils during Bacterial Infection.” The Journal of
Clinical Investigation, vol. 127, no. 6, American Society for Clinical Investigation,
2017, pp. 2051–65, doi:10.1172/JCI80631.
short: F. Ebner, V. Sedlyarov, S. Tasciyan, M. Ivin, F. Kratochvill, N. Gratz, L.
Kenner, A. Villunger, M.K. Sixt, P. Kovarik, The Journal of Clinical Investigation
127 (2017) 2051–2065.
date_created: 2018-12-11T11:47:53Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2024-03-25T23:30:12Z
day: '01'
department:
- _id: MiSi
doi: 10.1172/JCI80631
external_id:
pmid:
- '28504646'
intvolume: ' 127'
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5451238/
month: '06'
oa: 1
oa_version: Submitted Version
page: 2051 - 2065
pmid: 1
project:
- _id: 25985A36-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T00817-B21
name: The biochemical basis of PAR polarization
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
publication: The Journal of Clinical Investigation
publication_identifier:
issn:
- '00219738'
publication_status: published
publisher: American Society for Clinical Investigation
publist_id: '7038'
quality_controlled: '1'
related_material:
record:
- id: '12401'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged
neutrophils during bacterial infection
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 127
year: '2017'
...
---
_id: '680'
abstract:
- lang: eng
text: In order to respond reliably to specific features of their environment, sensory
neurons need to integrate multiple incoming noisy signals. Crucially, they also
need to compete for the interpretation of those signals with other neurons representing
similar features. The form that this competition should take depends critically
on the noise corrupting these signals. In this study we show that for the type
of noise commonly observed in sensory systems, whose variance scales with the
mean signal, sensory neurons should selectively divide their input signals by
their predictions, suppressing ambiguous cues while amplifying others. Any change
in the stimulus context alters which inputs are suppressed, leading to a deep
dynamic reshaping of neural receptive fields going far beyond simple surround
suppression. Paradoxically, these highly variable receptive fields go alongside
and are in fact required for an invariant representation of external sensory features.
In addition to offering a normative account of context-dependent changes in sensory
responses, perceptual inference in the presence of signal-dependent noise accounts
for ubiquitous features of sensory neurons such as divisive normalization, gain
control and contrast dependent temporal dynamics.
article_number: e1005582
author:
- first_name: Matthew J
full_name: Chalk, Matthew J
id: 2BAAC544-F248-11E8-B48F-1D18A9856A87
last_name: Chalk
orcid: 0000-0001-7782-4436
- first_name: Paul
full_name: Masset, Paul
last_name: Masset
- first_name: Boris
full_name: Gutkin, Boris
last_name: Gutkin
- first_name: Sophie
full_name: Denève, Sophie
last_name: Denève
citation:
ama: Chalk MJ, Masset P, Gutkin B, Denève S. Sensory noise predicts divisive reshaping
of receptive fields. PLoS Computational Biology. 2017;13(6). doi:10.1371/journal.pcbi.1005582
apa: Chalk, M. J., Masset, P., Gutkin, B., & Denève, S. (2017). Sensory noise
predicts divisive reshaping of receptive fields. PLoS Computational Biology.
Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005582
chicago: Chalk, Matthew J, Paul Masset, Boris Gutkin, and Sophie Denève. “Sensory
Noise Predicts Divisive Reshaping of Receptive Fields.” PLoS Computational
Biology. Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005582.
ieee: M. J. Chalk, P. Masset, B. Gutkin, and S. Denève, “Sensory noise predicts
divisive reshaping of receptive fields,” PLoS Computational Biology, vol.
13, no. 6. Public Library of Science, 2017.
ista: Chalk MJ, Masset P, Gutkin B, Denève S. 2017. Sensory noise predicts divisive
reshaping of receptive fields. PLoS Computational Biology. 13(6), e1005582.
mla: Chalk, Matthew J., et al. “Sensory Noise Predicts Divisive Reshaping of Receptive
Fields.” PLoS Computational Biology, vol. 13, no. 6, e1005582, Public Library
of Science, 2017, doi:10.1371/journal.pcbi.1005582.
short: M.J. Chalk, P. Masset, B. Gutkin, S. Denève, PLoS Computational Biology 13
(2017).
date_created: 2018-12-11T11:47:53Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-02-23T14:10:54Z
day: '01'
ddc:
- '571'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1005582
file:
- access_level: open_access
checksum: 796a1026076af6f4405a47d985bc7b68
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:07:47Z
date_updated: 2020-07-14T12:47:40Z
file_id: '4645'
file_name: IST-2017-898-v1+1_journal.pcbi.1005582.pdf
file_size: 14555676
relation: main_file
file_date_updated: 2020-07-14T12:47:40Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553734X
publication_status: published
publisher: Public Library of Science
publist_id: '7035'
pubrep_id: '898'
quality_controlled: '1'
related_material:
record:
- id: '9855'
relation: research_data
status: public
scopus_import: 1
status: public
title: Sensory noise predicts divisive reshaping of receptive fields
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: 13
year: '2017'
...
---
_id: '681'
abstract:
- lang: eng
text: Two-player games on graphs provide the theoretical framework for many important
problems such as reactive synthesis. While the traditional study of two-player
zero-sum games has been extended to multi-player games with several notions of
equilibria, they are decidable only for perfect-information games, whereas several
applications require imperfect-information. In this paper we propose a new notion
of equilibria, called doomsday equilibria, which is a strategy profile where all
players satisfy their own objective, and if any coalition of players deviates
and violates even one of the players' objective, then the objective of every player
is violated. We present algorithms and complexity results for deciding the existence
of doomsday equilibria for various classes of ω-regular objectives, both for imperfect-information
games, and for perfect-information games. We provide optimal complexity bounds
for imperfect-information games, and in most cases for perfect-information games.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Laurent
full_name: Doyen, Laurent
last_name: Doyen
- first_name: Emmanuel
full_name: Filiot, Emmanuel
last_name: Filiot
- first_name: Jean
full_name: Raskin, Jean
last_name: Raskin
citation:
ama: Chatterjee K, Doyen L, Filiot E, Raskin J. Doomsday equilibria for omega-regular
games. Information and Computation. 2017;254:296-315. doi:10.1016/j.ic.2016.10.012
apa: Chatterjee, K., Doyen, L., Filiot, E., & Raskin, J. (2017). Doomsday equilibria
for omega-regular games. Information and Computation. Elsevier. https://doi.org/10.1016/j.ic.2016.10.012
chicago: Chatterjee, Krishnendu, Laurent Doyen, Emmanuel Filiot, and Jean Raskin.
“Doomsday Equilibria for Omega-Regular Games.” Information and Computation.
Elsevier, 2017. https://doi.org/10.1016/j.ic.2016.10.012.
ieee: K. Chatterjee, L. Doyen, E. Filiot, and J. Raskin, “Doomsday equilibria for
omega-regular games,” Information and Computation, vol. 254. Elsevier,
pp. 296–315, 2017.
ista: Chatterjee K, Doyen L, Filiot E, Raskin J. 2017. Doomsday equilibria for omega-regular
games. Information and Computation. 254, 296–315.
mla: Chatterjee, Krishnendu, et al. “Doomsday Equilibria for Omega-Regular Games.”
Information and Computation, vol. 254, Elsevier, 2017, pp. 296–315, doi:10.1016/j.ic.2016.10.012.
short: K. Chatterjee, L. Doyen, E. Filiot, J. Raskin, Information and Computation
254 (2017) 296–315.
date_created: 2018-12-11T11:47:53Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-02-21T16:06:02Z
day: '01'
department:
- _id: KrCh
doi: 10.1016/j.ic.2016.10.012
ec_funded: 1
external_id:
arxiv:
- '1311.3238'
intvolume: ' 254'
language:
- iso: eng
main_file_link:
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url: https://arxiv.org/abs/1311.3238
month: '06'
oa: 1
oa_version: Submitted Version
page: 296 - 315
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Information and Computation
publication_identifier:
issn:
- '08905401'
publication_status: published
publisher: Elsevier
publist_id: '7036'
quality_controlled: '1'
related_material:
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status: public
scopus_import: '1'
status: public
title: Doomsday equilibria for omega-regular games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 254
year: '2017'
...
---
_id: '682'
abstract:
- lang: eng
text: Left-right asymmetry is a fundamental feature of higher-order brain structure;
however, the molecular basis of brain asymmetry remains unclear. We recently identified
structural and functional asymmetries in mouse hippocampal circuitry that result
from the asymmetrical distribution of two distinct populations of pyramidal cell
synapses that differ in the density of the NMDA receptor subunit GluRε2 (also
known as NR2B, GRIN2B or GluN2B). By examining the synaptic distribution of ε2
subunits, we previously found that β2-microglobulin-deficient mice, which lack
cell surface expression of the vast majority of major histocompatibility complex
class I (MHCI) proteins, do not exhibit circuit asymmetry. In the present study,
we conducted electrophysiological and anatomical analyses on the hippocampal circuitry
of mice with a knockout of the paired immunoglobulin-like receptor B (PirB), an
MHCI receptor. As in β2-microglobulin-deficient mice, the PirB-deficient hippocampus
lacked circuit asymmetries. This finding that MHCI loss-of-function mice and PirB
knockout mice have identical phenotypes suggests that MHCI signals that produce
hippocampal asymmetries are transduced through PirB. Our results provide evidence
for a critical role of the MHCI/PirB signaling system in the generation of asymmetries
in hippocampal circuitry.
article_number: e0179377
article_type: original
author:
- first_name: Hikari
full_name: Ukai, Hikari
last_name: Ukai
- first_name: Aiko
full_name: Kawahara, Aiko
last_name: Kawahara
- first_name: Keiko
full_name: Hirayama, Keiko
last_name: Hirayama
- first_name: Matthew J
full_name: Case, Matthew J
id: 44B7CA5A-F248-11E8-B48F-1D18A9856A87
last_name: Case
- first_name: Shotaro
full_name: Aino, Shotaro
last_name: Aino
- first_name: Masahiro
full_name: Miyabe, Masahiro
last_name: Miyabe
- first_name: Ken
full_name: Wakita, Ken
last_name: Wakita
- first_name: Ryohei
full_name: Oogi, Ryohei
last_name: Oogi
- first_name: Michiyo
full_name: Kasayuki, Michiyo
last_name: Kasayuki
- first_name: Shihomi
full_name: Kawashima, Shihomi
last_name: Kawashima
- first_name: Shunichi
full_name: Sugimoto, Shunichi
last_name: Sugimoto
- first_name: Kanako
full_name: Chikamatsu, Kanako
last_name: Chikamatsu
- first_name: Noritaka
full_name: Nitta, Noritaka
last_name: Nitta
- first_name: Tsuneyuki
full_name: Koga, Tsuneyuki
last_name: Koga
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Toshiyuki
full_name: Takai, Toshiyuki
last_name: Takai
- first_name: Isao
full_name: Ito, Isao
last_name: Ito
citation:
ama: Ukai H, Kawahara A, Hirayama K, et al. PirB regulates asymmetries in hippocampal
circuitry. PLoS One. 2017;12(6). doi:10.1371/journal.pone.0179377
apa: Ukai, H., Kawahara, A., Hirayama, K., Case, M. J., Aino, S., Miyabe, M., …
Ito, I. (2017). PirB regulates asymmetries in hippocampal circuitry. PLoS One.
Public Library of Science. https://doi.org/10.1371/journal.pone.0179377
chicago: Ukai, Hikari, Aiko Kawahara, Keiko Hirayama, Matthew J Case, Shotaro Aino,
Masahiro Miyabe, Ken Wakita, et al. “PirB Regulates Asymmetries in Hippocampal
Circuitry.” PLoS One. Public Library of Science, 2017. https://doi.org/10.1371/journal.pone.0179377.
ieee: H. Ukai et al., “PirB regulates asymmetries in hippocampal circuitry,”
PLoS One, vol. 12, no. 6. Public Library of Science, 2017.
ista: Ukai H, Kawahara A, Hirayama K, Case MJ, Aino S, Miyabe M, Wakita K, Oogi
R, Kasayuki M, Kawashima S, Sugimoto S, Chikamatsu K, Nitta N, Koga T, Shigemoto
R, Takai T, Ito I. 2017. PirB regulates asymmetries in hippocampal circuitry.
PLoS One. 12(6), e0179377.
mla: Ukai, Hikari, et al. “PirB Regulates Asymmetries in Hippocampal Circuitry.”
PLoS One, vol. 12, no. 6, e0179377, Public Library of Science, 2017, doi:10.1371/journal.pone.0179377.
short: H. Ukai, A. Kawahara, K. Hirayama, M.J. Case, S. Aino, M. Miyabe, K. Wakita,
R. Oogi, M. Kasayuki, S. Kawashima, S. Sugimoto, K. Chikamatsu, N. Nitta, T. Koga,
R. Shigemoto, T. Takai, I. Ito, PLoS One 12 (2017).
date_created: 2018-12-11T11:47:54Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2024-03-25T23:30:07Z
day: '01'
ddc:
- '571'
department:
- _id: RySh
doi: 10.1371/journal.pone.0179377
file:
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checksum: 24dd19c46fb1c761b0bcbbcd1025a3a8
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:16Z
date_updated: 2020-07-14T12:47:40Z
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month: '06'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_identifier:
issn:
- '19326203'
publication_status: published
publisher: Public Library of Science
publist_id: '7034'
pubrep_id: '897'
quality_controlled: '1'
related_material:
record:
- id: '51'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: PirB regulates asymmetries in hippocampal circuitry
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: 12
year: '2017'
...
---
_id: '683'
abstract:
- lang: eng
text: 'Given a triangulation of a point set in the plane, a flip deletes an edge
e whose removal leaves a convex quadrilateral, and replaces e by the opposite
diagonal of the quadrilateral. It is well known that any triangulation of a point
set can be reconfigured to any other triangulation by some sequence of flips.
We explore this question in the setting where each edge of a triangulation has
a label, and a flip transfers the label of the removed edge to the new edge. It
is not true that every labelled triangulation of a point set can be reconfigured
to every other labelled triangulation via a sequence of flips, but we characterize
when this is possible. There is an obvious necessary condition: for each label
l, if edge e has label l in the first triangulation and edge f has label l in
the second triangulation, then there must be some sequence of flips that moves
label l from e to f, ignoring all other labels. Bose, Lubiw, Pathak and Verdonschot
formulated the Orbit Conjecture, which states that this necessary condition is
also sufficient, i.e. that all labels can be simultaneously mapped to their destination
if and only if each label individually can be mapped to its destination. We prove
this conjecture. Furthermore, we give a polynomial-time algorithm to find a sequence
of flips to reconfigure one labelled triangulation to another, if such a sequence
exists, and we prove an upper bound of O(n7) on the length of the flip sequence.
Our proof uses the topological result that the sets of pairwise non-crossing edges
on a planar point set form a simplicial complex that is homeomorphic to a high-dimensional
ball (this follows from a result of Orden and Santos; we give a different proof
based on a shelling argument). The dual cell complex of this simplicial ball,
called the flip complex, has the usual flip graph as its 1-skeleton. We use properties
of the 2-skeleton of the flip complex to prove the Orbit Conjecture.'
alternative_title:
- LIPIcs
article_number: '49'
author:
- first_name: Anna
full_name: Lubiw, Anna
last_name: Lubiw
- first_name: Zuzana
full_name: Masárová, Zuzana
id: 45CFE238-F248-11E8-B48F-1D18A9856A87
last_name: Masárová
orcid: 0000-0002-6660-1322
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Lubiw A, Masárová Z, Wagner U. A proof of the orbit conjecture for flipping
edge labelled triangulations. In: Vol 77. Schloss Dagstuhl - Leibniz-Zentrum für
Informatik; 2017. doi:10.4230/LIPIcs.SoCG.2017.49'
apa: 'Lubiw, A., Masárová, Z., & Wagner, U. (2017). A proof of the orbit conjecture
for flipping edge labelled triangulations (Vol. 77). Presented at the SoCG: Symposium
on Computational Geometry, Brisbane, Australia: Schloss Dagstuhl - Leibniz-Zentrum
für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2017.49'
chicago: Lubiw, Anna, Zuzana Masárová, and Uli Wagner. “A Proof of the Orbit Conjecture
for Flipping Edge Labelled Triangulations,” Vol. 77. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2017. https://doi.org/10.4230/LIPIcs.SoCG.2017.49.
ieee: 'A. Lubiw, Z. Masárová, and U. Wagner, “A proof of the orbit conjecture for
flipping edge labelled triangulations,” presented at the SoCG: Symposium on Computational
Geometry, Brisbane, Australia, 2017, vol. 77.'
ista: 'Lubiw A, Masárová Z, Wagner U. 2017. A proof of the orbit conjecture for
flipping edge labelled triangulations. SoCG: Symposium on Computational Geometry,
LIPIcs, vol. 77, 49.'
mla: Lubiw, Anna, et al. A Proof of the Orbit Conjecture for Flipping Edge Labelled
Triangulations. Vol. 77, 49, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017, doi:10.4230/LIPIcs.SoCG.2017.49.
short: A. Lubiw, Z. Masárová, U. Wagner, in:, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2017.
conference:
end_date: 2017-07-07
location: Brisbane, Australia
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2017-07-04
date_created: 2018-12-11T11:47:54Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-09-05T15:01:43Z
day: '01'
ddc:
- '514'
- '516'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2017.49
file:
- access_level: open_access
checksum: 24fdde981cc513352a78dcf9b0660ae9
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:12Z
date_updated: 2020-07-14T12:47:41Z
file_id: '5265'
file_name: IST-2017-896-v1+1_LIPIcs-SoCG-2017-49.pdf
file_size: 710007
relation: main_file
file_date_updated: 2020-07-14T12:47:41Z
has_accepted_license: '1'
intvolume: ' 77'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7033'
pubrep_id: '896'
quality_controlled: '1'
related_material:
record:
- id: '5986'
relation: later_version
status: public
scopus_import: 1
status: public
title: A proof of the orbit conjecture for flipping edge labelled triangulations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 77
year: '2017'
...
---
_id: '684'
abstract:
- lang: eng
text: We generalize winning conditions in two-player games by adding a structural
acceptance condition called obligations. Obligations are orthogonal to the linear
winning conditions that define whether a play is winning. Obligations are a declaration
that player 0 can achieve a certain value from a configuration. If the obligation
is met, the value of that configuration for player 0 is 1. We define the value
in such games and show that obligation games are determined. For Markov chains
with Borel objectives and obligations, and finite turn-based stochastic parity
games with obligations we give an alternative and simpler characterization of
the value function. Based on this simpler definition we show that the decision
problem of winning finite turn-based stochastic parity games with obligations
is in NP∩co-NP. We also show that obligation games provide a game framework for
reasoning about p-automata. © 2017 The Association for Symbolic Logic.
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Nir
full_name: Piterman, Nir
last_name: Piterman
citation:
ama: Chatterjee K, Piterman N. Obligation blackwell games and p-automata. Journal
of Symbolic Logic. 2017;82(2):420-452. doi:10.1017/jsl.2016.71
apa: Chatterjee, K., & Piterman, N. (2017). Obligation blackwell games and p-automata.
Journal of Symbolic Logic. Cambridge University Press. https://doi.org/10.1017/jsl.2016.71
chicago: Chatterjee, Krishnendu, and Nir Piterman. “Obligation Blackwell Games and
P-Automata.” Journal of Symbolic Logic. Cambridge University Press, 2017.
https://doi.org/10.1017/jsl.2016.71.
ieee: K. Chatterjee and N. Piterman, “Obligation blackwell games and p-automata,”
Journal of Symbolic Logic, vol. 82, no. 2. Cambridge University Press,
pp. 420–452, 2017.
ista: Chatterjee K, Piterman N. 2017. Obligation blackwell games and p-automata.
Journal of Symbolic Logic. 82(2), 420–452.
mla: Chatterjee, Krishnendu, and Nir Piterman. “Obligation Blackwell Games and P-Automata.”
Journal of Symbolic Logic, vol. 82, no. 2, Cambridge University Press,
2017, pp. 420–52, doi:10.1017/jsl.2016.71.
short: K. Chatterjee, N. Piterman, Journal of Symbolic Logic 82 (2017) 420–452.
date_created: 2018-12-11T11:47:54Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-04-16T12:10:53Z
day: '01'
department:
- _id: KrCh
doi: 10.1017/jsl.2016.71
intvolume: ' 82'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1206.5174
month: '06'
oa: 1
oa_version: Submitted Version
page: 420 - 452
publication: Journal of Symbolic Logic
publication_identifier:
eissn:
- 1943-5886
issn:
- 0022-4812
publication_status: published
publisher: Cambridge University Press
publist_id: '7026'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Obligation blackwell games and p-automata
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 82
year: '2017'
...
---
_id: '6841'
abstract:
- lang: eng
text: In classical machine learning, regression is treated as a black box process
of identifying a suitable function from a hypothesis set without attempting to
gain insight into the mechanism connecting inputs and outputs. In the natural
sciences, however, finding an interpretable function for a phenomenon is the prime
goal as it allows to understand and generalize results. This paper proposes a
novel type of function learning network, called equation learner (EQL), that can
learn analytical expressions and is able to extrapolate to unseen domains. It
is implemented as an end-to-end differentiable feed-forward network and allows
for efficient gradient based training. Due to sparsity regularization concise
interpretable expressions can be obtained. Often the true underlying source expression
is identified.
arxiv: 1
author:
- first_name: Georg S
full_name: Martius, Georg S
id: 3A276B68-F248-11E8-B48F-1D18A9856A87
last_name: Martius
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Martius GS, Lampert C. Extrapolation and learning equations. In: 5th International
Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings.
International Conference on Learning Representations; 2017.'
apa: 'Martius, G. S., & Lampert, C. (2017). Extrapolation and learning equations.
In 5th International Conference on Learning Representations, ICLR 2017 - Workshop
Track Proceedings. Toulon, France: International Conference on Learning Representations.'
chicago: Martius, Georg S, and Christoph Lampert. “Extrapolation and Learning Equations.”
In 5th International Conference on Learning Representations, ICLR 2017 - Workshop
Track Proceedings. International Conference on Learning Representations, 2017.
ieee: G. S. Martius and C. Lampert, “Extrapolation and learning equations,” in 5th
International Conference on Learning Representations, ICLR 2017 - Workshop Track
Proceedings, Toulon, France, 2017.
ista: 'Martius GS, Lampert C. 2017. Extrapolation and learning equations. 5th International
Conference on Learning Representations, ICLR 2017 - Workshop Track Proceedings.
ICLR: International Conference on Learning Representations.'
mla: Martius, Georg S., and Christoph Lampert. “Extrapolation and Learning Equations.”
5th International Conference on Learning Representations, ICLR 2017 - Workshop
Track Proceedings, International Conference on Learning Representations, 2017.
short: G.S. Martius, C. Lampert, in:, 5th International Conference on Learning Representations,
ICLR 2017 - Workshop Track Proceedings, International Conference on Learning Representations,
2017.
conference:
end_date: 2017-04-26
location: Toulon, France
name: 'ICLR: International Conference on Learning Representations'
start_date: 2017-04-24
date_created: 2019-09-01T22:01:00Z
date_published: 2017-02-21T00:00:00Z
date_updated: 2021-01-12T08:09:17Z
day: '21'
department:
- _id: ChLa
ec_funded: 1
external_id:
arxiv:
- '1610.02995'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1610.02995
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '308036'
name: Lifelong Learning of Visual Scene Understanding
publication: 5th International Conference on Learning Representations, ICLR 2017 -
Workshop Track Proceedings
publication_status: published
publisher: International Conference on Learning Representations
quality_controlled: '1'
scopus_import: 1
status: public
title: Extrapolation and learning equations
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '685'
abstract:
- lang: eng
text: By applying methods and principles from the physical sciences to biological
problems, D'Arcy Thompson's On Growth and Form demonstrated how mathematical reasoning
reveals elegant, simple explanations for seemingly complex processes. This has
had a profound influence on subsequent generations of developmental biologists.
We discuss how this influence can be traced through twentieth century morphologists,
embryologists and theoreticians to current research that explores the molecular
and cellular mechanisms of tissue growth and patterning, including our own studies
of the vertebrate neural tube.
author:
- first_name: James
full_name: Briscoe, James
last_name: Briscoe
- first_name: Anna
full_name: Kicheva, Anna
id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
last_name: Kicheva
orcid: 0000-0003-4509-4998
citation:
ama: Briscoe J, Kicheva A. The physics of development 100 years after D’Arcy Thompson’s
“on growth and form.” Mechanisms of Development. 2017;145:26-31. doi:10.1016/j.mod.2017.03.005
apa: Briscoe, J., & Kicheva, A. (2017). The physics of development 100 years
after D’Arcy Thompson’s “on growth and form.” Mechanisms of Development.
Elsevier. https://doi.org/10.1016/j.mod.2017.03.005
chicago: Briscoe, James, and Anna Kicheva. “The Physics of Development 100 Years
after D’Arcy Thompson’s ‘on Growth and Form.’” Mechanisms of Development.
Elsevier, 2017. https://doi.org/10.1016/j.mod.2017.03.005.
ieee: J. Briscoe and A. Kicheva, “The physics of development 100 years after D’Arcy
Thompson’s ‘on growth and form,’” Mechanisms of Development, vol. 145.
Elsevier, pp. 26–31, 2017.
ista: Briscoe J, Kicheva A. 2017. The physics of development 100 years after D’Arcy
Thompson’s “on growth and form”. Mechanisms of Development. 145, 26–31.
mla: Briscoe, James, and Anna Kicheva. “The Physics of Development 100 Years after
D’Arcy Thompson’s ‘on Growth and Form.’” Mechanisms of Development, vol.
145, Elsevier, 2017, pp. 26–31, doi:10.1016/j.mod.2017.03.005.
short: J. Briscoe, A. Kicheva, Mechanisms of Development 145 (2017) 26–31.
date_created: 2018-12-11T11:47:55Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:09:20Z
day: '01'
ddc:
- '571'
department:
- _id: AnKi
doi: 10.1016/j.mod.2017.03.005
ec_funded: 1
external_id:
pmid:
- '28366718'
file:
- access_level: open_access
checksum: 727043d2e4199fbef6b3704e6d1ac105
content_type: application/pdf
creator: dernst
date_created: 2019-04-17T07:58:48Z
date_updated: 2020-07-14T12:47:42Z
file_id: '6335'
file_name: 2017_Briscoe_Kicheva_and_DArcy_accepted_version.pdf
file_size: 652313
relation: main_file
file_date_updated: 2020-07-14T12:47:42Z
has_accepted_license: '1'
intvolume: ' 145'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 26 - 31
pmid: 1
project:
- _id: B6FC0238-B512-11E9-945C-1524E6697425
call_identifier: H2020
grant_number: '680037'
name: Coordination of Patterning And Growth In the Spinal Cord
publication: Mechanisms of Development
publication_identifier:
issn:
- '09254773'
publication_status: published
publisher: Elsevier
publist_id: '7025'
pubrep_id: '985'
quality_controlled: '1'
scopus_import: 1
status: public
title: The physics of development 100 years after D'Arcy Thompson's “on growth and
form”
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 145
year: '2017'
...
---
_id: '686'
abstract:
- lang: eng
text: Tissues are thought to behave like fluids with a given surface tension. Differences
in tissue surface tension (TST) have been proposed to trigger cell sorting and
tissue envelopment. D'Arcy Thompson in his seminal book ‘On Growth and Form’ has
introduced this concept of differential TST as a key physical mechanism dictating
tissue formation and organization within the developing organism. Over the past
century, many studies have picked up the concept of differential TST and analyzed
the role and cell biological basis of TST in development, underlining the importance
and influence of this concept in developmental biology.
author:
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: 'Heisenberg C-PJ. D’Arcy Thompson’s ‘on growth and form’: From soap bubbles
to tissue self organization. Mechanisms of Development. 2017;145:32-37.
doi:10.1016/j.mod.2017.03.006'
apa: 'Heisenberg, C.-P. J. (2017). D’Arcy Thompson’s ‘on growth and form’: From
soap bubbles to tissue self organization. Mechanisms of Development. Elsevier.
https://doi.org/10.1016/j.mod.2017.03.006'
chicago: 'Heisenberg, Carl-Philipp J. “D’Arcy Thompson’s ‘on Growth and Form’: From
Soap Bubbles to Tissue Self Organization.” Mechanisms of Development. Elsevier,
2017. https://doi.org/10.1016/j.mod.2017.03.006.'
ieee: 'C.-P. J. Heisenberg, “D’Arcy Thompson’s ‘on growth and form’: From soap bubbles
to tissue self organization,” Mechanisms of Development, vol. 145. Elsevier,
pp. 32–37, 2017.'
ista: 'Heisenberg C-PJ. 2017. D’Arcy Thompson’s ‘on growth and form’: From soap
bubbles to tissue self organization. Mechanisms of Development. 145, 32–37.'
mla: 'Heisenberg, Carl-Philipp J. “D’Arcy Thompson’s ‘on Growth and Form’: From
Soap Bubbles to Tissue Self Organization.” Mechanisms of Development, vol.
145, Elsevier, 2017, pp. 32–37, doi:10.1016/j.mod.2017.03.006.'
short: C.-P.J. Heisenberg, Mechanisms of Development 145 (2017) 32–37.
date_created: 2018-12-11T11:47:55Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:09:23Z
day: '01'
department:
- _id: CaHe
doi: 10.1016/j.mod.2017.03.006
intvolume: ' 145'
language:
- iso: eng
month: '06'
oa_version: None
page: 32 - 37
publication: Mechanisms of Development
publication_identifier:
issn:
- '09254773'
publication_status: published
publisher: Elsevier
publist_id: '7024'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'D''Arcy Thompson''s ‘on growth and form’: From soap bubbles to tissue self
organization'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 145
year: '2017'
...
---
_id: '687'
abstract:
- lang: eng
text: Pursuing the similarity between the Kontsevich-Soibelman construction of the
cohomological Hall algebra (CoHA) of BPS states and Lusztig's construction of
canonical bases for quantum enveloping algebras, and the similarity between the
integrality conjecture for motivic Donaldson-Thomas invariants and the PBW theorem
for quantum enveloping algebras, we build a coproduct on the CoHA associated to
a quiver with potential. We also prove a cohomological dimensional reduction theorem,
further linking a special class of CoHAs with Yangians, and explaining how to
connect the study of character varieties with the study of CoHAs.
author:
- first_name: Ben
full_name: Davison, Ben
id: 4634AB1E-F248-11E8-B48F-1D18A9856A87
last_name: Davison
orcid: 0000-0002-8944-4390
citation:
ama: Davison B. The critical CoHA of a quiver with potential. Quarterly Journal
of Mathematics. 2017;68(2):635-703. doi:10.1093/qmath/haw053
apa: Davison, B. (2017). The critical CoHA of a quiver with potential. Quarterly
Journal of Mathematics. Oxford University Press. https://doi.org/10.1093/qmath/haw053
chicago: Davison, Ben. “The Critical CoHA of a Quiver with Potential.” Quarterly
Journal of Mathematics. Oxford University Press, 2017. https://doi.org/10.1093/qmath/haw053.
ieee: B. Davison, “The critical CoHA of a quiver with potential,” Quarterly Journal
of Mathematics, vol. 68, no. 2. Oxford University Press, pp. 635–703, 2017.
ista: Davison B. 2017. The critical CoHA of a quiver with potential. Quarterly Journal
of Mathematics. 68(2), 635–703.
mla: Davison, Ben. “The Critical CoHA of a Quiver with Potential.” Quarterly
Journal of Mathematics, vol. 68, no. 2, Oxford University Press, 2017, pp.
635–703, doi:10.1093/qmath/haw053.
short: B. Davison, Quarterly Journal of Mathematics 68 (2017) 635–703.
date_created: 2018-12-11T11:47:55Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:09:24Z
day: '01'
department:
- _id: TaHa
doi: 10.1093/qmath/haw053
ec_funded: 1
intvolume: ' 68'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1311.7172
month: '06'
oa: 1
oa_version: Submitted Version
page: 635 - 703
project:
- _id: 25E549F4-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '320593'
name: Arithmetic and physics of Higgs moduli spaces
publication: Quarterly Journal of Mathematics
publication_identifier:
issn:
- '00335606'
publication_status: published
publisher: Oxford University Press
publist_id: '7022'
quality_controlled: '1'
scopus_import: 1
status: public
title: The critical CoHA of a quiver with potential
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2017'
...
---
_id: '688'
abstract:
- lang: eng
text: 'We show that the framework of topological data analysis can be extended from
metrics to general Bregman divergences, widening the scope of possible applications.
Examples are the Kullback - Leibler divergence, which is commonly used for comparing
text and images, and the Itakura - Saito divergence, popular for speech and sound.
In particular, we prove that appropriately generalized čech and Delaunay (alpha)
complexes capture the correct homotopy type, namely that of the corresponding
union of Bregman balls. Consequently, their filtrations give the correct persistence
diagram, namely the one generated by the uniformly growing Bregman balls. Moreover,
we show that unlike the metric setting, the filtration of Vietoris-Rips complexes
may fail to approximate the persistence diagram. We propose algorithms to compute
the thus generalized čech, Vietoris-Rips and Delaunay complexes and experimentally
test their efficiency. Lastly, we explain their surprisingly good performance
by making a connection with discrete Morse theory. '
alternative_title:
- LIPIcs
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Hubert
full_name: Wagner, Hubert
id: 379CA8B8-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
citation:
ama: 'Edelsbrunner H, Wagner H. Topological data analysis with Bregman divergences.
In: Vol 77. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2017:391-3916.
doi:10.4230/LIPIcs.SoCG.2017.39'
apa: 'Edelsbrunner, H., & Wagner, H. (2017). Topological data analysis with
Bregman divergences (Vol. 77, pp. 391–3916). Presented at the Symposium on Computational
Geometry, SoCG, Brisbane, Australia: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPIcs.SoCG.2017.39'
chicago: Edelsbrunner, Herbert, and Hubert Wagner. “Topological Data Analysis with
Bregman Divergences,” 77:391–3916. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017. https://doi.org/10.4230/LIPIcs.SoCG.2017.39.
ieee: H. Edelsbrunner and H. Wagner, “Topological data analysis with Bregman divergences,”
presented at the Symposium on Computational Geometry, SoCG, Brisbane, Australia,
2017, vol. 77, pp. 391–3916.
ista: Edelsbrunner H, Wagner H. 2017. Topological data analysis with Bregman divergences.
Symposium on Computational Geometry, SoCG, LIPIcs, vol. 77, 391–3916.
mla: Edelsbrunner, Herbert, and Hubert Wagner. Topological Data Analysis with
Bregman Divergences. Vol. 77, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017, pp. 391–3916, doi:10.4230/LIPIcs.SoCG.2017.39.
short: H. Edelsbrunner, H. Wagner, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2017, pp. 391–3916.
conference:
end_date: 2017-07-07
location: Brisbane, Australia
name: Symposium on Computational Geometry, SoCG
start_date: 2017-07-04
date_created: 2018-12-11T11:47:56Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:09:26Z
day: '01'
ddc:
- '514'
- '516'
department:
- _id: HeEd
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2017.39
file:
- access_level: open_access
checksum: 067ab0cb3f962bae6c3af6bf0094e0f3
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:03Z
date_updated: 2020-07-14T12:47:42Z
file_id: '4856'
file_name: IST-2017-895-v1+1_LIPIcs-SoCG-2017-39.pdf
file_size: 990546
relation: main_file
file_date_updated: 2020-07-14T12:47:42Z
has_accepted_license: '1'
intvolume: ' 77'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 391-3916
publication_identifier:
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7021'
pubrep_id: '895'
quality_controlled: '1'
scopus_import: 1
status: public
title: Topological data analysis with Bregman divergences
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 77
year: '2017'
...
---
_id: '689'
abstract:
- lang: eng
text: Rett syndrome modeling in monkey mirrors the human disorder.
article_number: eaan8196
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. Rett syndrome modeling goes simian. Science Translational Medicine.
2017;9(393). doi:10.1126/scitranslmed.aan8196
apa: Novarino, G. (2017). Rett syndrome modeling goes simian. Science Translational
Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.aan8196
chicago: Novarino, Gaia. “Rett Syndrome Modeling Goes Simian.” Science Translational
Medicine. American Association for the Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aan8196.
ieee: G. Novarino, “Rett syndrome modeling goes simian,” Science Translational
Medicine, vol. 9, no. 393. American Association for the Advancement of Science,
2017.
ista: Novarino G. 2017. Rett syndrome modeling goes simian. Science Translational
Medicine. 9(393), eaan8196.
mla: Novarino, Gaia. “Rett Syndrome Modeling Goes Simian.” Science Translational
Medicine, vol. 9, no. 393, eaan8196, American Association for the Advancement
of Science, 2017, doi:10.1126/scitranslmed.aan8196.
short: G. Novarino, Science Translational Medicine 9 (2017).
date_created: 2018-12-11T11:47:56Z
date_published: 2017-06-07T00:00:00Z
date_updated: 2021-01-12T08:09:29Z
day: '07'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aan8196
intvolume: ' 9'
issue: '393'
language:
- iso: eng
month: '06'
oa_version: None
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '7019'
quality_controlled: '1'
scopus_import: 1
status: public
title: Rett syndrome modeling goes simian
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '693'
abstract:
- lang: eng
text: 'Many central synapses contain a single presynaptic active zone and a single
postsynaptic density. Vesicular release statistics at such “simple synapses” indicate
that they contain a small complement of docking sites where vesicles repetitively
dock and fuse. In this work, we investigate functional and morphological aspects
of docking sites at simple synapses made between cerebellar parallel fibers and
molecular layer interneurons. Using immunogold labeling of SDS-treated freeze-fracture
replicas, we find that Cav2.1 channels form several clusters per active zone with
about nine channels per cluster. The mean value and range of intersynaptic variation
are similar for Cav2.1 cluster numbers and for functional estimates of docking-site
numbers obtained from the maximum numbers of released vesicles per action potential.
Both numbers grow in relation with synaptic size and decrease by a similar extent
with age between 2 wk and 4 wk postnatal. Thus, the mean docking-site numbers
were 3.15 at 2 wk (range: 1–10) and 2.03 at 4 wk (range: 1–4), whereas the mean
numbers of Cav2.1 clusters were 2.84 at 2 wk (range: 1–8) and 2.37 at 4 wk (range:
1–5). These changes were accompanied by decreases of miniature current amplitude
(from 93 pA to 56 pA), active-zone surface area (from 0.0427 μm2 to 0.0234 μm2),
and initial success rate (from 0.609 to 0.353), indicating a tightening of synaptic
transmission with development. Altogether, these results suggest a close correspondence
between the number of functionally defined vesicular docking sites and that of
clusters of voltage-gated calcium channels. '
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Takafumi
full_name: Miki, Takafumi
last_name: Miki
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Gerardo
full_name: Malagon, Gerardo
last_name: Malagon
- first_name: Laura
full_name: Gomez, Laura
last_name: Gomez
- first_name: Katsuhiko
full_name: Tabuchi, Katsuhiko
last_name: Tabuchi
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Alain
full_name: Marty, Alain
last_name: Marty
citation:
ama: Miki T, Kaufmann W, Malagon G, et al. Numbers of presynaptic Ca2+ channel clusters
match those of functionally defined vesicular docking sites in single central
synapses. PNAS. 2017;114(26):E5246-E5255. doi:10.1073/pnas.1704470114
apa: Miki, T., Kaufmann, W., Malagon, G., Gomez, L., Tabuchi, K., Watanabe, M.,
… Marty, A. (2017). Numbers of presynaptic Ca2+ channel clusters match those of
functionally defined vesicular docking sites in single central synapses. PNAS.
National Academy of Sciences. https://doi.org/10.1073/pnas.1704470114
chicago: Miki, Takafumi, Walter Kaufmann, Gerardo Malagon, Laura Gomez, Katsuhiko
Tabuchi, Masahiko Watanabe, Ryuichi Shigemoto, and Alain Marty. “Numbers of Presynaptic
Ca2+ Channel Clusters Match Those of Functionally Defined Vesicular Docking Sites
in Single Central Synapses.” PNAS. National Academy of Sciences, 2017.
https://doi.org/10.1073/pnas.1704470114.
ieee: T. Miki et al., “Numbers of presynaptic Ca2+ channel clusters match
those of functionally defined vesicular docking sites in single central synapses,”
PNAS, vol. 114, no. 26. National Academy of Sciences, pp. E5246–E5255,
2017.
ista: Miki T, Kaufmann W, Malagon G, Gomez L, Tabuchi K, Watanabe M, Shigemoto R,
Marty A. 2017. Numbers of presynaptic Ca2+ channel clusters match those of functionally
defined vesicular docking sites in single central synapses. PNAS. 114(26), E5246–E5255.
mla: Miki, Takafumi, et al. “Numbers of Presynaptic Ca2+ Channel Clusters Match
Those of Functionally Defined Vesicular Docking Sites in Single Central Synapses.”
PNAS, vol. 114, no. 26, National Academy of Sciences, 2017, pp. E5246–55,
doi:10.1073/pnas.1704470114.
short: T. Miki, W. Kaufmann, G. Malagon, L. Gomez, K. Tabuchi, M. Watanabe, R. Shigemoto,
A. Marty, PNAS 114 (2017) E5246–E5255.
date_created: 2018-12-11T11:47:57Z
date_published: 2017-06-27T00:00:00Z
date_updated: 2023-02-23T12:54:57Z
day: '27'
ddc:
- '570'
department:
- _id: EM-Fac
- _id: RySh
doi: 10.1073/pnas.1704470114
external_id:
pmid:
- '28607047'
file:
- access_level: open_access
checksum: 2ab75d554f3df4a34d20fa8040589b7e
content_type: application/pdf
creator: kschuh
date_created: 2020-01-03T13:27:29Z
date_updated: 2020-07-14T12:47:44Z
file_id: '7223'
file_name: 2017_PNAS_Miki.pdf
file_size: 2721544
relation: main_file
file_date_updated: 2020-07-14T12:47:44Z
has_accepted_license: '1'
intvolume: ' 114'
issue: '26'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: E5246 - E5255
pmid: 1
publication: PNAS
publication_identifier:
issn:
- '00278424'
publication_status: published
publisher: National Academy of Sciences
publist_id: '7013'
quality_controlled: '1'
scopus_import: 1
status: public
title: Numbers of presynaptic Ca2+ channel clusters match those of functionally defined
vesicular docking sites in single central synapses
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '6932'
abstract:
- lang: eng
text: "LCLs or locally checkable labelling problems (e.g. maximal independent set,
maximal matching, and vertex colouring) in the LOCAL model of computation are
very well-understood in cycles (toroidal 1-dimensional grids): every problem has
a complexity of O(1), Θ(log* n), or Θ(n), and the design of optimal algorithms
can be fully automated. This work develops the complexity theory of LCL problems
for toroidal 2-dimensional grids. The complexity classes are the same as in the
1-dimensional case: O(1), Θ(log* n), and Θ(n). However, given an LCL problem it
is undecidable whether its complexity is Θ(log* n) or Θ(n) in 2-dimensional grids.\r\nNevertheless,
if we correctly guess that the complexity of a problem is Θ(log* n), we can completely
automate the design of optimal algorithms. For any problem we can find an algorithm
that is of a normal form A' o Sk, where A' is a finite function, Sk is an algorithm
for finding a maximal independent set in kth power of the grid, and k is a constant.\r\nFinally,
partially with the help of automated design tools, we classify the complexity
of several concrete LCL problems related to colourings and orientations."
article_processing_charge: No
author:
- first_name: Sebastian
full_name: Brandt, Sebastian
last_name: Brandt
- first_name: Juho
full_name: Hirvonen, Juho
last_name: Hirvonen
- first_name: Janne H.
full_name: Korhonen, Janne H.
last_name: Korhonen
- first_name: Tuomo
full_name: Lempiäinen, Tuomo
last_name: Lempiäinen
- first_name: Patric R.J.
full_name: Östergård, Patric R.J.
last_name: Östergård
- first_name: Christopher
full_name: Purcell, Christopher
last_name: Purcell
- first_name: Joel
full_name: Rybicki, Joel
id: 334EFD2E-F248-11E8-B48F-1D18A9856A87
last_name: Rybicki
orcid: 0000-0002-6432-6646
- first_name: Jukka
full_name: Suomela, Jukka
last_name: Suomela
- first_name: Przemysław
full_name: Uznański, Przemysław
last_name: Uznański
citation:
ama: 'Brandt S, Hirvonen J, Korhonen JH, et al. LCL problems on grids. In: ACM Press;
2017:101-110. doi:10.1145/3087801.3087833'
apa: 'Brandt, S., Hirvonen, J., Korhonen, J. H., Lempiäinen, T., Östergård, P. R.
J., Purcell, C., … Uznański, P. (2017). LCL problems on grids (pp. 101–110). Presented
at the PODC: Principles of Distributed Computing, Washington, DC, United States:
ACM Press. https://doi.org/10.1145/3087801.3087833'
chicago: Brandt, Sebastian, Juho Hirvonen, Janne H. Korhonen, Tuomo Lempiäinen,
Patric R.J. Östergård, Christopher Purcell, Joel Rybicki, Jukka Suomela, and Przemysław
Uznański. “LCL Problems on Grids,” 101–10. ACM Press, 2017. https://doi.org/10.1145/3087801.3087833.
ieee: 'S. Brandt et al., “LCL problems on grids,” presented at the PODC:
Principles of Distributed Computing, Washington, DC, United States, 2017, pp.
101–110.'
ista: 'Brandt S, Hirvonen J, Korhonen JH, Lempiäinen T, Östergård PRJ, Purcell C,
Rybicki J, Suomela J, Uznański P. 2017. LCL problems on grids. PODC: Principles
of Distributed Computing, 101–110.'
mla: Brandt, Sebastian, et al. LCL Problems on Grids. ACM Press, 2017, pp.
101–10, doi:10.1145/3087801.3087833.
short: S. Brandt, J. Hirvonen, J.H. Korhonen, T. Lempiäinen, P.R.J. Östergård, C.
Purcell, J. Rybicki, J. Suomela, P. Uznański, in:, ACM Press, 2017, pp. 101–110.
conference:
end_date: 2017-07-27
location: Washington, DC, United States
name: 'PODC: Principles of Distributed Computing'
start_date: 2017-07-25
date_created: 2019-10-08T12:47:46Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:09:39Z
day: '01'
doi: 10.1145/3087801.3087833
extern: '1'
language:
- iso: eng
month: '07'
oa_version: None
page: 101-110
publication_identifier:
isbn:
- '9781450349925'
publication_status: published
publisher: ACM Press
quality_controlled: '1'
status: public
title: LCL problems on grids
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '694'
abstract:
- lang: eng
text: A change regarding the extent of adhesion - hereafter referred to as adhesion
plasticity - between adhesive and less-adhesive states of mammalian cells is important
for their behavior. To investigate adhesion plasticity, we have selected a stable
isogenic subpopulation of human MDA-MB-468 breast carcinoma cells growing in suspension.
These suspension cells are unable to re-adhere to various matrices or to contract
three-dimensional collagen lattices. By using transcriptome analysis, we identified
the focal adhesion protein tensin3 (Tns3) as a determinant of adhesion plasticity.
Tns3 is strongly reduced at mRNA and protein levels in suspension cells. Furthermore,
by transiently challenging breast cancer cells to grow under non-adherent conditions
markedly reduces Tns3 protein expression, which is regained upon re-adhesion.
Stable knockdown of Tns3 in parental MDA-MB-468 cells results in defective adhesion,
spreading and migration. Tns3-knockdown cells display impaired structure and dynamics
of focal adhesion complexes as determined by immunostaining. Restoration of Tns3
protein expression in suspension cells partially rescues adhesion and focal contact
composition. Our work identifies Tns3 as a crucial focal adhesion component regulated
by, and functionally contributing to, the switch between adhesive and non-adhesive
states in MDA-MB-468 cancer cells.
article_type: original
author:
- first_name: Astrid
full_name: Veß, Astrid
last_name: Veß
- first_name: Ulrich
full_name: Blache, Ulrich
last_name: Blache
- first_name: Laura
full_name: Leitner, Laura
last_name: Leitner
- first_name: Angela
full_name: Kurz, Angela
last_name: Kurz
- first_name: Anja
full_name: Ehrenpfordt, Anja
last_name: Ehrenpfordt
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Guido
full_name: Posern, Guido
last_name: Posern
citation:
ama: Veß A, Blache U, Leitner L, et al. A dual phenotype of MDA MB 468 cancer cells
reveals mutual regulation of tensin3 and adhesion plasticity. Journal of Cell
Science. 2017;130(13):2172-2184. doi:10.1242/jcs.200899
apa: Veß, A., Blache, U., Leitner, L., Kurz, A., Ehrenpfordt, A., Sixt, M. K., &
Posern, G. (2017). A dual phenotype of MDA MB 468 cancer cells reveals mutual
regulation of tensin3 and adhesion plasticity. Journal of Cell Science.
Company of Biologists. https://doi.org/10.1242/jcs.200899
chicago: Veß, Astrid, Ulrich Blache, Laura Leitner, Angela Kurz, Anja Ehrenpfordt,
Michael K Sixt, and Guido Posern. “A Dual Phenotype of MDA MB 468 Cancer Cells
Reveals Mutual Regulation of Tensin3 and Adhesion Plasticity.” Journal of Cell
Science. Company of Biologists, 2017. https://doi.org/10.1242/jcs.200899.
ieee: A. Veß et al., “A dual phenotype of MDA MB 468 cancer cells reveals
mutual regulation of tensin3 and adhesion plasticity,” Journal of Cell Science,
vol. 130, no. 13. Company of Biologists, pp. 2172–2184, 2017.
ista: Veß A, Blache U, Leitner L, Kurz A, Ehrenpfordt A, Sixt MK, Posern G. 2017.
A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3
and adhesion plasticity. Journal of Cell Science. 130(13), 2172–2184.
mla: Veß, Astrid, et al. “A Dual Phenotype of MDA MB 468 Cancer Cells Reveals Mutual
Regulation of Tensin3 and Adhesion Plasticity.” Journal of Cell Science,
vol. 130, no. 13, Company of Biologists, 2017, pp. 2172–84, doi:10.1242/jcs.200899.
short: A. Veß, U. Blache, L. Leitner, A. Kurz, A. Ehrenpfordt, M.K. Sixt, G. Posern,
Journal of Cell Science 130 (2017) 2172–2184.
date_created: 2018-12-11T11:47:58Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:09:41Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1242/jcs.200899
external_id:
pmid:
- '28515231'
file:
- access_level: open_access
checksum: 42c81a0a4fc3128883b391c3af3f74bc
content_type: application/pdf
creator: dernst
date_created: 2019-10-24T09:43:56Z
date_updated: 2020-07-14T12:47:45Z
file_id: '6966'
file_name: 2017_CellScience_Vess.pdf
file_size: 10847596
relation: main_file
file_date_updated: 2020-07-14T12:47:45Z
has_accepted_license: '1'
intvolume: ' 130'
issue: '13'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 2172 - 2184
pmid: 1
publication: Journal of Cell Science
publication_identifier:
issn:
- '00219533'
publication_status: published
publisher: Company of Biologists
publist_id: '7008'
quality_controlled: '1'
scopus_import: 1
status: public
title: A dual phenotype of MDA MB 468 cancer cells reveals mutual regulation of tensin3
and adhesion plasticity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 130
year: '2017'
...
---
_id: '695'
abstract:
- lang: eng
text: It has been known since Stefan Vogel's observations in 1969 that solitary
female oil bees collect fatty floral oils from specialized oil-secreting plants
with the aid of hairy patches on either their legs or abdomen, a reward used as
food for their larvae and/or to line their brood cells. Similar adaptations are
also known from male oil bees, although the purpose of their oil-collecting behavior
has not yet been clarified. Here, we describe a novel pollination system involving
male Paratetrapedia oil bees and the tropical herb Anthurium acutifolium. We present
ultrastructural morphological details of bee and plant structures involved in
this interaction and the composition of floral scents likely mediating pollinator
attraction. Inflorescences of A. acutifolium were visited almost exclusively by
male P. chocoensis oil bees. The bees mopped with a hairy patch of their abdominal
sterna 3 across the inflorescence surface. During this activity on both staminate
and pistillate stage inflorescences, bees’ abdomens and legs became loaded with
pollen and contacted receptive stigmas. In contrast to what has been observed
in other angiosperms visited for the collection of fatty floral oils, the inflorescences/flowers
of A. acutifolium do not have structures specialized in oil secretion, i.e., elaiophores.
These inflorescences, nonetheless, were strongly scented during the time interval
they were visited by the bees. Gas chromatography/mass spectrometry (GC/MS) analyses
of dynamic headspace floral samples revealed that inflorescences of both anthetic
phases emitted scent bouquets consisting mainly of aliphatic esters, indole and
uncommmon terpenoids (megastigmanes). Interestingly enough, our data suggest that
the unusual floral scent of A. acutifolium is a perfume reward collected by male
P. chocoensis oil bees. This pollination system thus bears a remarkable resemblence
with the interactions between perfume-collecting male euglossine bees and their
preferred flowers, discovered by Stefan Vogel half a century ago.
author:
- first_name: Florian
full_name: Etl, Florian
last_name: Etl
- first_name: Anna
full_name: Franschitz, Anna
id: 480826C8-F248-11E8-B48F-1D18A9856A87
last_name: Franschitz
- first_name: Antonio
full_name: Aguiar, Antonio
last_name: Aguiar
- first_name: Jürg
full_name: Schönenberger, Jürg
last_name: Schönenberger
- first_name: Stefan
full_name: Dötterl, Stefan
last_name: Dötterl
citation:
ama: 'Etl F, Franschitz A, Aguiar A, Schönenberger J, Dötterl S. A perfume collecting
male oil bee? Evidences of a novel pollination system involving Anthurium acutifolium
Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini. Flora: Morphology,
Distribution, Functional Ecology of Plants. 2017;232:7-15. doi:10.1016/j.flora.2017.02.020'
apa: 'Etl, F., Franschitz, A., Aguiar, A., Schönenberger, J., & Dötterl, S.
(2017). A perfume collecting male oil bee? Evidences of a novel pollination system
involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini.
Flora: Morphology, Distribution, Functional Ecology of Plants. Elsevier.
https://doi.org/10.1016/j.flora.2017.02.020'
chicago: 'Etl, Florian, Anna Franschitz, Antonio Aguiar, Jürg Schönenberger, and
Stefan Dötterl. “A Perfume Collecting Male Oil Bee? Evidences of a Novel Pollination
System Involving Anthurium Acutifolium Araceae and Paratetrapedia Chocoensis Apidae
Tapinotaspidini.” Flora: Morphology, Distribution, Functional Ecology of Plants.
Elsevier, 2017. https://doi.org/10.1016/j.flora.2017.02.020.'
ieee: 'F. Etl, A. Franschitz, A. Aguiar, J. Schönenberger, and S. Dötterl, “A perfume
collecting male oil bee? Evidences of a novel pollination system involving Anthurium
acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini,” Flora:
Morphology, Distribution, Functional Ecology of Plants, vol. 232. Elsevier,
pp. 7–15, 2017.'
ista: 'Etl F, Franschitz A, Aguiar A, Schönenberger J, Dötterl S. 2017. A perfume
collecting male oil bee? Evidences of a novel pollination system involving Anthurium
acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini. Flora:
Morphology, Distribution, Functional Ecology of Plants. 232, 7–15.'
mla: 'Etl, Florian, et al. “A Perfume Collecting Male Oil Bee? Evidences of a Novel
Pollination System Involving Anthurium Acutifolium Araceae and Paratetrapedia
Chocoensis Apidae Tapinotaspidini.” Flora: Morphology, Distribution, Functional
Ecology of Plants, vol. 232, Elsevier, 2017, pp. 7–15, doi:10.1016/j.flora.2017.02.020.'
short: 'F. Etl, A. Franschitz, A. Aguiar, J. Schönenberger, S. Dötterl, Flora: Morphology,
Distribution, Functional Ecology of Plants 232 (2017) 7–15.'
date_created: 2018-12-11T11:47:58Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:09:44Z
day: '01'
doi: 10.1016/j.flora.2017.02.020
extern: '1'
intvolume: ' 232'
language:
- iso: eng
month: '07'
oa_version: None
page: 7 - 15
publication: 'Flora: Morphology, Distribution, Functional Ecology of Plants'
publication_identifier:
issn:
- '03672530'
publication_status: published
publisher: Elsevier
publist_id: '7007'
quality_controlled: '1'
status: public
title: A perfume collecting male oil bee? Evidences of a novel pollination system
involving Anthurium acutifolium Araceae and Paratetrapedia chocoensis Apidae Tapinotaspidini
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 232
year: '2017'
...
---
_id: '696'
abstract:
- lang: eng
text: Mutator strains are expected to evolve when the availability and effect of
beneficial mutations are high enough to counteract the disadvantage from deleterious
mutations that will inevitably accumulate. As the population becomes more adapted
to its environment, both availability and effect of beneficial mutations necessarily
decrease and mutation rates are predicted to decrease. It has been shown that
certain molecular mechanisms can lead to increased mutation rates when the organism
finds itself in a stressful environment. While this may be a correlated response
to other functions, it could also be an adaptive mechanism, raising mutation rates
only when it is most advantageous. Here, we use a mathematical model to investigate
the plausibility of the adaptive hypothesis. We show that such a mechanism can
be mantained if the population is subjected to diverse stresses. By simulating
various antibiotic treatment schemes, we find that combination treatments can
reduce the effectiveness of second-order selection on stress-induced mutagenesis.
We discuss the implications of our results to strategies of antibiotic therapy.
article_number: e1005609
article_type: original
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
orcid: 0000-0002-2519-824X
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
citation:
ama: 'Lukacisinova M, Novak S, Paixao T. Stress induced mutagenesis: Stress diversity
facilitates the persistence of mutator genes. PLoS Computational Biology.
2017;13(7). doi:10.1371/journal.pcbi.1005609'
apa: 'Lukacisinova, M., Novak, S., & Paixao, T. (2017). Stress induced mutagenesis:
Stress diversity facilitates the persistence of mutator genes. PLoS Computational
Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005609'
chicago: 'Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Stress Induced
Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.” PLoS
Computational Biology. Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005609.'
ieee: 'M. Lukacisinova, S. Novak, and T. Paixao, “Stress induced mutagenesis: Stress
diversity facilitates the persistence of mutator genes,” PLoS Computational
Biology, vol. 13, no. 7. Public Library of Science, 2017.'
ista: 'Lukacisinova M, Novak S, Paixao T. 2017. Stress induced mutagenesis: Stress
diversity facilitates the persistence of mutator genes. PLoS Computational Biology.
13(7), e1005609.'
mla: 'Lukacisinova, Marta, et al. “Stress Induced Mutagenesis: Stress Diversity
Facilitates the Persistence of Mutator Genes.” PLoS Computational Biology,
vol. 13, no. 7, e1005609, Public Library of Science, 2017, doi:10.1371/journal.pcbi.1005609.'
short: M. Lukacisinova, S. Novak, T. Paixao, PLoS Computational Biology 13 (2017).
date_created: 2018-12-11T11:47:58Z
date_published: 2017-07-18T00:00:00Z
date_updated: 2024-03-25T23:30:14Z
day: '18'
ddc:
- '576'
department:
- _id: ToBo
- _id: NiBa
- _id: CaGu
doi: 10.1371/journal.pcbi.1005609
ec_funded: 1
file:
- access_level: open_access
checksum: 9143c290fa6458ed2563bff4b295554a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:01Z
date_updated: 2020-07-14T12:47:46Z
file_id: '5117'
file_name: IST-2017-894-v1+1_journal.pcbi.1005609.pdf
file_size: 3775716
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 25B1EC9E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618091'
name: Speed of Adaptation in Population Genetics and Evolutionary Computation
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553734X
publication_status: published
publisher: Public Library of Science
publist_id: '7004'
pubrep_id: '894'
quality_controlled: '1'
related_material:
record:
- id: '9849'
relation: research_data
status: public
- id: '9850'
relation: research_data
status: public
- id: '9851'
relation: research_data
status: public
- id: '9852'
relation: research_data
status: public
- id: '6263'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: 'Stress induced mutagenesis: Stress diversity facilitates the persistence of
mutator genes'
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: 13
year: '2017'
...