---
_id: '1328'
abstract:
- lang: eng
text: Hole spins have gained considerable interest in the past few years due to
their potential for fast electrically controlled qubits. Here, we study holes
confined in Ge hut wires, a so-far unexplored type of nanostructure. Low-temperature
magnetotransport measurements reveal a large anisotropy between the in-plane and
out-of-plane g-factors of up to 18. Numerical simulations verify that this large
anisotropy originates from a confined wave function of heavy-hole character. A
light-hole admixture of less than 1% is estimated for the states of lowest energy,
leading to a surprisingly large reduction of the out-of-plane g-factors compared
with those for pure heavy holes. Given this tiny light-hole contribution, the
spin lifetimes are expected to be very long, even in isotopically nonpurified
samples.
acknowledgement: 'The work was supported by the EC FP7 ICT project SiSPIN no. 323841,
the EC FP7 ICT project PAMS no. 610446, the ERC Starting Grant no. 335497, the FWF-I-1190-N20
project, and the Swiss NSF. We acknowledge F. Schäffler for fruitful discussions
related to the hut wire growth and for giving us access to the molecular beam epitaxy
system, M. Schatzl for her support in electron beam lithography, and V. Jadris ̌ko
for helping us with the COMSOL simulations. Finally, we thank G. Bauer for his continuous
support. '
author:
- first_name: Hannes
full_name: Watzinger, Hannes
id: 35DF8E50-F248-11E8-B48F-1D18A9856A87
last_name: Watzinger
- first_name: Christoph
full_name: Kloeffel, Christoph
last_name: Kloeffel
- first_name: Lada
full_name: Vukusic, Lada
id: 31E9F056-F248-11E8-B48F-1D18A9856A87
last_name: Vukusic
orcid: 0000-0003-2424-8636
- first_name: Marta
full_name: Rossell, Marta
last_name: Rossell
- first_name: Violetta
full_name: Sessi, Violetta
last_name: Sessi
- first_name: Josip
full_name: Kukucka, Josip
id: 3F5D8856-F248-11E8-B48F-1D18A9856A87
last_name: Kukucka
- first_name: Raimund
full_name: Kirchschlager, Raimund
last_name: Kirchschlager
- first_name: Elisabeth
full_name: Lausecker, Elisabeth
id: 33662F76-F248-11E8-B48F-1D18A9856A87
last_name: Lausecker
- first_name: Alisha
full_name: Truhlar, Alisha
id: 49CBC780-F248-11E8-B48F-1D18A9856A87
last_name: Truhlar
- first_name: Martin
full_name: Glaser, Martin
last_name: Glaser
- first_name: Armando
full_name: Rastelli, Armando
last_name: Rastelli
- first_name: Andreas
full_name: Fuhrer, Andreas
last_name: Fuhrer
- first_name: Daniel
full_name: Loss, Daniel
last_name: Loss
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Watzinger H, Kloeffel C, Vukušić L, et al. Heavy-hole states in germanium hut
wires. Nano Letters. 2016;16(11):6879-6885. doi:10.1021/acs.nanolett.6b02715
apa: Watzinger, H., Kloeffel, C., Vukušić, L., Rossell, M., Sessi, V., Kukucka,
J., … Katsaros, G. (2016). Heavy-hole states in germanium hut wires. Nano Letters.
American Chemical Society. https://doi.org/10.1021/acs.nanolett.6b02715
chicago: Watzinger, Hannes, Christoph Kloeffel, Lada Vukušić, Marta Rossell, Violetta
Sessi, Josip Kukucka, Raimund Kirchschlager, et al. “Heavy-Hole States in Germanium
Hut Wires.” Nano Letters. American Chemical Society, 2016. https://doi.org/10.1021/acs.nanolett.6b02715.
ieee: H. Watzinger et al., “Heavy-hole states in germanium hut wires,” Nano
Letters, vol. 16, no. 11. American Chemical Society, pp. 6879–6885, 2016.
ista: Watzinger H, Kloeffel C, Vukušić L, Rossell M, Sessi V, Kukucka J, Kirchschlager
R, Lausecker E, Truhlar A, Glaser M, Rastelli A, Fuhrer A, Loss D, Katsaros G.
2016. Heavy-hole states in germanium hut wires. Nano Letters. 16(11), 6879–6885.
mla: Watzinger, Hannes, et al. “Heavy-Hole States in Germanium Hut Wires.” Nano
Letters, vol. 16, no. 11, American Chemical Society, 2016, pp. 6879–85, doi:10.1021/acs.nanolett.6b02715.
short: H. Watzinger, C. Kloeffel, L. Vukušić, M. Rossell, V. Sessi, J. Kukucka,
R. Kirchschlager, E. Lausecker, A. Truhlar, M. Glaser, A. Rastelli, A. Fuhrer,
D. Loss, G. Katsaros, Nano Letters 16 (2016) 6879–6885.
date_created: 2018-12-11T11:51:24Z
date_published: 2016-09-22T00:00:00Z
date_updated: 2023-09-07T13:15:02Z
day: '22'
ddc:
- '539'
department:
- _id: GeKa
doi: 10.1021/acs.nanolett.6b02715
ec_funded: 1
file:
- access_level: open_access
checksum: b63feece90d7b620ece49ca632e34ff3
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:04Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5053'
file_name: IST-2016-664-v1+1_acs.nanolett.6b02715.pdf
file_size: 535121
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 16'
issue: '11'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 6879 - 6885
project:
- _id: 25517E86-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '335497'
name: Towards Spin qubits and Majorana fermions in Germanium selfassembled hut-wires
publication: Nano Letters
publication_status: published
publisher: American Chemical Society
publist_id: '5941'
pubrep_id: '664'
quality_controlled: '1'
related_material:
record:
- id: '7977'
relation: popular_science
status: for_moderation
- id: '7996'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Heavy-hole states in germanium hut wires
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2016'
...
---
_id: '1329'
abstract:
- lang: eng
text: Daphnia species have become models for ecological genomics and exhibit interesting
features, such as high phenotypic plasticity and a densely packed genome with
many lineage-specific genes. They are also cyclic parthenogenetic, with alternating
asexual and sexual cycles and environmental sex determination. Here, we present
a de novo transcriptome assembly of over 32,000 D. galeata genes and use it to
investigate gene expression in females and spontaneously produced males of two
clonal lines derived from lakes in Germany and the Czech Republic. We find that
only a low percentage (18%) of genes shows sex-biased expression and that there
are many more female-biased gene (FBG) than male-biased gene (MBG). Furthermore,
FBGs tend to be more conserved between species than MBGs in both sequence and
expression. These patterns may be a consequence of cyclic parthenogenesis leading
to a relaxation of purifying selection on MBGs. The two clonal lines show considerable
differences in both number and identity of sex-biased genes, suggesting that they
may have reproductive strategies differing in their investment in sexual reproduction.
Orthologs of key genes in the sex determination and juvenile hormone pathways,
which are thought to be important for the transition from asexual to sexual reproduction,
are present in D. galeata and highly conserved among Daphnia species.
acknowledgement: This study was financially supported by individual grants from the
Volkswagen Stiftung (to M.C.), the Deutsche Forschungsgemeinschaft (grant PA 903/6
to J.P.) and the DAAD (to A.K.H.). The authors would like to thank I. Schrank, L.
Theodosiou, M. Kredler, C. Laforsch, J. Wolinska, J. Griebel, R. Jaenichen, and
K. Otte for providing the necessary resources and help for maintaining Daphnia cultures
in the laboratory. H. Lainer supported us for the molecular laboratory work. D.
Gilbert and J. K. Colbourne contributed ideas for the bioinformatics analysis, and
L. Hardulak did the orthology mapping including more insect species. This study
was financially supported by individual grants from the Volkswagen Stiftung (to
M.C.), the Deutsche Forschungsgemeinschaft (grant PA 903/6 to J.P.) and the DAAD
(to A.K.H.). This work benefits from and contributes to the Daphnia Genomics Consortium.
author:
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Alberto
full_name: López Ezquerra, Alberto
last_name: López Ezquerra
- first_name: John
full_name: Parsch, John
last_name: Parsch
- first_name: Mathilde
full_name: Cordellier, Mathilde
last_name: Cordellier
citation:
ama: Huylmans AK, López Ezquerra A, Parsch J, Cordellier M. De novo transcriptome
assembly and sex-biased gene expression in the cyclical parthenogenetic Daphnia
galeata. Genome Biology and Evolution. 2016;8(10):3120-3139. doi:10.1093/gbe/evw221
apa: Huylmans, A. K., López Ezquerra, A., Parsch, J., & Cordellier, M. (2016).
De novo transcriptome assembly and sex-biased gene expression in the cyclical
parthenogenetic Daphnia galeata. Genome Biology and Evolution. Oxford University
Press. https://doi.org/10.1093/gbe/evw221
chicago: Huylmans, Ann K, Alberto López Ezquerra, John Parsch, and Mathilde Cordellier.
“De Novo Transcriptome Assembly and Sex-Biased Gene Expression in the Cyclical
Parthenogenetic Daphnia Galeata.” Genome Biology and Evolution. Oxford
University Press, 2016. https://doi.org/10.1093/gbe/evw221.
ieee: A. K. Huylmans, A. López Ezquerra, J. Parsch, and M. Cordellier, “De novo
transcriptome assembly and sex-biased gene expression in the cyclical parthenogenetic
Daphnia galeata,” Genome Biology and Evolution, vol. 8, no. 10. Oxford
University Press, pp. 3120–3139, 2016.
ista: Huylmans AK, López Ezquerra A, Parsch J, Cordellier M. 2016. De novo transcriptome
assembly and sex-biased gene expression in the cyclical parthenogenetic Daphnia
galeata. Genome Biology and Evolution. 8(10), 3120–3139.
mla: Huylmans, Ann K., et al. “De Novo Transcriptome Assembly and Sex-Biased Gene
Expression in the Cyclical Parthenogenetic Daphnia Galeata.” Genome Biology
and Evolution, vol. 8, no. 10, Oxford University Press, 2016, pp. 3120–39,
doi:10.1093/gbe/evw221.
short: A.K. Huylmans, A. López Ezquerra, J. Parsch, M. Cordellier, Genome Biology
and Evolution 8 (2016) 3120–3139.
date_created: 2018-12-11T11:51:24Z
date_published: 2016-10-01T00:00:00Z
date_updated: 2021-01-12T06:49:55Z
day: '01'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.1093/gbe/evw221
file:
- access_level: open_access
checksum: 25c7adcb452d39d3b6343ff4b57a652d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:06Z
date_updated: 2020-07-14T12:44:44Z
file_id: '4924'
file_name: IST-2016-663-v1+1_Genome_Biol_Evol-2016-Huylmans-3120-39.pdf
file_size: 1406265
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 8'
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 3120 - 3139
publication: Genome Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '5940'
pubrep_id: '663'
quality_controlled: '1'
scopus_import: 1
status: public
title: De novo transcriptome assembly and sex-biased gene expression in the cyclical
parthenogenetic Daphnia galeata
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2016'
...
---
_id: '1330'
abstract:
- lang: eng
text: In this paper we investigate the existence of closed billiard trajectories
in not necessarily smooth convex bodies. In particular, we show that if a body
K ⊂ Rd has the property that the tangent cone of every non-smooth point q ∉ ∂K
is acute (in a certain sense), then there is a closed billiard trajectory in K.
acknowledgement: Supported by People Programme (Marie Curie Actions) of the European
Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement n°[291734].
Supported by the Russian Foundation for Basic Research grant 15-31-20403 (mol a
ved), by the Russian Foundation for Basic Research grant 15-01-99563 A, in part
by the Moebius Contest Foundation for Young Scientists, and in part by the Simons
Foundation.
author:
- first_name: Arseniy
full_name: Akopyan, Arseniy
id: 430D2C90-F248-11E8-B48F-1D18A9856A87
last_name: Akopyan
orcid: 0000-0002-2548-617X
- first_name: Alexey
full_name: Balitskiy, Alexey
last_name: Balitskiy
citation:
ama: Akopyan A, Balitskiy A. Billiards in convex bodies with acute angles. Israel
Journal of Mathematics. 2016;216(2):833-845. doi:10.1007/s11856-016-1429-z
apa: Akopyan, A., & Balitskiy, A. (2016). Billiards in convex bodies with acute
angles. Israel Journal of Mathematics. Springer. https://doi.org/10.1007/s11856-016-1429-z
chicago: Akopyan, Arseniy, and Alexey Balitskiy. “Billiards in Convex Bodies with
Acute Angles.” Israel Journal of Mathematics. Springer, 2016. https://doi.org/10.1007/s11856-016-1429-z.
ieee: A. Akopyan and A. Balitskiy, “Billiards in convex bodies with acute angles,”
Israel Journal of Mathematics, vol. 216, no. 2. Springer, pp. 833–845,
2016.
ista: Akopyan A, Balitskiy A. 2016. Billiards in convex bodies with acute angles.
Israel Journal of Mathematics. 216(2), 833–845.
mla: Akopyan, Arseniy, and Alexey Balitskiy. “Billiards in Convex Bodies with Acute
Angles.” Israel Journal of Mathematics, vol. 216, no. 2, Springer, 2016,
pp. 833–45, doi:10.1007/s11856-016-1429-z.
short: A. Akopyan, A. Balitskiy, Israel Journal of Mathematics 216 (2016) 833–845.
date_created: 2018-12-11T11:51:24Z
date_published: 2016-10-15T00:00:00Z
date_updated: 2021-01-12T06:49:56Z
day: '15'
department:
- _id: HeEd
doi: 10.1007/s11856-016-1429-z
ec_funded: 1
intvolume: ' 216'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1506.06014
month: '10'
oa: 1
oa_version: Preprint
page: 833 - 845
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Israel Journal of Mathematics
publication_status: published
publisher: Springer
publist_id: '5938'
quality_controlled: '1'
scopus_import: 1
status: public
title: Billiards in convex bodies with acute angles
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 216
year: '2016'
...
---
_id: '1331'
abstract:
- lang: eng
text: 'Cytokinin is a phytohormone that is well known for its roles in numerous
plant growth and developmental processes, yet it has also been linked to abiotic
stress response in a less defined manner. Arabidopsis (Arabidopsis thaliana) Cytokinin
Response Factor 6 (CRF6) is a cytokinin-responsive AP2/ERF-family transcription
factor that, through the cytokinin signaling pathway, plays a key role in the
inhibition of dark-induced senescence. CRF6 expression is also induced by oxidative
stress, and here we show a novel function for CRF6 in relation to oxidative stress
and identify downstream transcriptional targets of CRF6 that are repressed in
response to oxidative stress. Analysis of transcriptomic changes in wild-type
and crf6 mutant plants treated with H2O2 identified CRF6-dependent differentially
expressed transcripts, many of which were repressed rather than induced. Moreover,
many repressed genes also show decreased expression in 35S:CRF6 overexpressing
plants. Together, these findings suggest that CRF6 functions largely as a transcriptional
repressor. Interestingly, among the H2O2 repressed CRF6-dependent transcripts
was a set of five genes associated with cytokinin processes: (signaling) ARR6,
ARR9, ARR11, (biosynthesis) LOG7, and (transport) ABCG14. We have examined mutants
of these cytokinin-associated target genes to reveal novel connections to oxidative
stress. Further examination of CRF6-DNA interactions indicated that CRF6 may regulate
its targets both directly and indirectly. Together, this shows that CRF6 functions
during oxidative stress as a negative regulator to control this cytokinin-associated
module of CRF6- dependent genes and establishes a novel connection between cytokinin
and oxidative stress response.'
acknowledgement: "This work was financially supported by the following: The Alabama
Agricultural Experiment Station HATCH grants 370222-310010-2055 and 370225-310006-2055
for funding to P.J.Z., E.A.K, A.M.P., and A.M.R. P.J.Z. and E.A.K were supported
by an Auburn University Cellular and Molecular Biosciences Research Fellowship.
I.D.C. is a postdoctoral fellow of the Research Foundation Flanders (FWO) (FWO/PDO14/043)
and is also supported by FWO travel\r\ngrant 12N2415N. F.V.B. was supported by grants
from the Interuniversity Attraction Poles Programme (IUAP P7/29 MARS) initiated
by the Belgian Science Policy Office and Ghent University (Multidisciplinary Research
Partnership Biotechnology for a Sustainable Economy, grant 01MRB510W)."
article_processing_charge: No
article_type: original
author:
- first_name: Paul
full_name: Zwack, Paul
last_name: Zwack
- first_name: Inge
full_name: De Clercq, Inge
last_name: De Clercq
- first_name: Timothy
full_name: Howton, Timothy
last_name: Howton
- first_name: H Tucker
full_name: Hallmark, H Tucker
last_name: Hallmark
- first_name: Andrej
full_name: Hurny, Andrej
id: 4DC4AF46-F248-11E8-B48F-1D18A9856A87
last_name: Hurny
- first_name: Erika
full_name: Keshishian, Erika
last_name: Keshishian
- first_name: Alyssa
full_name: Parish, Alyssa
last_name: Parish
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: M Shahid
full_name: Mukhtar, M Shahid
last_name: Mukhtar
- first_name: Frank
full_name: Van Breusegem, Frank
last_name: Van Breusegem
- first_name: Aaron
full_name: Rashotte, Aaron
last_name: Rashotte
citation:
ama: Zwack P, De Clercq I, Howton T, et al. Cytokinin response factor 6 represses
cytokinin-associated genes during oxidative stress. Plant Physiology. 2016;172(2):1249-1258.
doi:10.1104/pp.16.00415
apa: Zwack, P., De Clercq, I., Howton, T., Hallmark, H. T., Hurny, A., Keshishian,
E., … Rashotte, A. (2016). Cytokinin response factor 6 represses cytokinin-associated
genes during oxidative stress. Plant Physiology. American Society of Plant
Biologists. https://doi.org/10.1104/pp.16.00415
chicago: Zwack, Paul, Inge De Clercq, Timothy Howton, H Tucker Hallmark, Andrej
Hurny, Erika Keshishian, Alyssa Parish, et al. “Cytokinin Response Factor 6 Represses
Cytokinin-Associated Genes during Oxidative Stress.” Plant Physiology.
American Society of Plant Biologists, 2016. https://doi.org/10.1104/pp.16.00415.
ieee: P. Zwack et al., “Cytokinin response factor 6 represses cytokinin-associated
genes during oxidative stress,” Plant Physiology, vol. 172, no. 2. American
Society of Plant Biologists, pp. 1249–1258, 2016.
ista: Zwack P, De Clercq I, Howton T, Hallmark HT, Hurny A, Keshishian E, Parish
A, Benková E, Mukhtar MS, Van Breusegem F, Rashotte A. 2016. Cytokinin response
factor 6 represses cytokinin-associated genes during oxidative stress. Plant Physiology.
172(2), 1249–1258.
mla: Zwack, Paul, et al. “Cytokinin Response Factor 6 Represses Cytokinin-Associated
Genes during Oxidative Stress.” Plant Physiology, vol. 172, no. 2, American
Society of Plant Biologists, 2016, pp. 1249–58, doi:10.1104/pp.16.00415.
short: P. Zwack, I. De Clercq, T. Howton, H.T. Hallmark, A. Hurny, E. Keshishian,
A. Parish, E. Benková, M.S. Mukhtar, F. Van Breusegem, A. Rashotte, Plant Physiology
172 (2016) 1249–1258.
date_created: 2018-12-11T11:51:25Z
date_published: 2016-10-02T00:00:00Z
date_updated: 2022-05-24T09:26:03Z
day: '02'
department:
- _id: EvBe
doi: 10.1104/pp.16.00415
intvolume: ' 172'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1104/pp.16.00415
month: '10'
oa: 1
oa_version: Published Version
page: 1249 - 1258
publication: Plant Physiology
publication_identifier:
eissn:
- 1532-2548
issn:
- 0032-0889
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '5937'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cytokinin response factor 6 represses cytokinin-associated genes during oxidative
stress
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 172
year: '2016'
...
---
_id: '1332'
abstract:
- lang: eng
text: Antibiotic-sensitive and -resistant bacteria coexist in natural environments
with low, if detectable, antibiotic concentrations. Except possibly around localized
antibiotic sources, where resistance can provide a strong advantage, bacterial
fitness is dominated by stresses unaffected by resistance to the antibiotic. How
do such mixed and heterogeneous conditions influence the selective advantage or
disadvantage of antibiotic resistance? Here we find that sub-inhibitory levels
of tetracyclines potentiate selection for or against tetracycline resistance around
localized sources of almost any toxin or stress. Furthermore, certain stresses
generate alternating rings of selection for and against resistance around a localized
source of the antibiotic. In these conditions, localized antibiotic sources, even
at high strengths, can actually produce a net selection against resistance to
the antibiotic. Our results show that interactions between the effects of an antibiotic
and other stresses in inhomogeneous environments can generate pervasive, complex
patterns of selection both for and against antibiotic resistance.
acknowledgement: This work was partially supported by US National Institutes of Health
grant R01-GM081617, Israeli Centers of Research Excellence I-CORE Program ISF Grant
No. 152/11, and the European Research Council FP7 ERC Grant 281891.
article_number: '10333'
author:
- first_name: Remy P
full_name: Chait, Remy P
id: 3464AE84-F248-11E8-B48F-1D18A9856A87
last_name: Chait
orcid: 0000-0003-0876-3187
- first_name: Adam
full_name: Palmer, Adam
last_name: Palmer
- first_name: Idan
full_name: Yelin, Idan
last_name: Yelin
- first_name: Roy
full_name: Kishony, Roy
last_name: Kishony
citation:
ama: Chait RP, Palmer A, Yelin I, Kishony R. Pervasive selection for and against
antibiotic resistance in inhomogeneous multistress environments. Nature Communications.
2016;7. doi:10.1038/ncomms10333
apa: Chait, R. P., Palmer, A., Yelin, I., & Kishony, R. (2016). Pervasive selection
for and against antibiotic resistance in inhomogeneous multistress environments.
Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms10333
chicago: Chait, Remy P, Adam Palmer, Idan Yelin, and Roy Kishony. “Pervasive Selection
for and against Antibiotic Resistance in Inhomogeneous Multistress Environments.”
Nature Communications. Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms10333.
ieee: R. P. Chait, A. Palmer, I. Yelin, and R. Kishony, “Pervasive selection for
and against antibiotic resistance in inhomogeneous multistress environments,”
Nature Communications, vol. 7. Nature Publishing Group, 2016.
ista: Chait RP, Palmer A, Yelin I, Kishony R. 2016. Pervasive selection for and
against antibiotic resistance in inhomogeneous multistress environments. Nature
Communications. 7, 10333.
mla: Chait, Remy P., et al. “Pervasive Selection for and against Antibiotic Resistance
in Inhomogeneous Multistress Environments.” Nature Communications, vol.
7, 10333, Nature Publishing Group, 2016, doi:10.1038/ncomms10333.
short: R.P. Chait, A. Palmer, I. Yelin, R. Kishony, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:25Z
date_published: 2016-01-20T00:00:00Z
date_updated: 2021-01-12T06:49:57Z
day: '20'
ddc:
- '570'
- '579'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1038/ncomms10333
file:
- access_level: open_access
checksum: ef147bcbb8bd37e9079cf3ce06f5815d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:52Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5039'
file_name: IST-2016-662-v1+1_ncomms10333.pdf
file_size: 1844107
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5936'
pubrep_id: '662'
quality_controlled: '1'
scopus_import: 1
status: public
title: Pervasive selection for and against antibiotic resistance in inhomogeneous
multistress environments
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2016'
...
---
_id: '1333'
abstract:
- lang: eng
text: Social dilemmas force players to balance between personal and collective gain.
In many dilemmas, such as elected governments negotiating climate-change mitigation
measures, the decisions are made not by individual players but by their representatives.
However, the behaviour of representatives in social dilemmas has not been investigated
experimentally. Here inspired by the negotiations for greenhouse-gas emissions
reductions, we experimentally study a collective-risk social dilemma that involves
representatives deciding on behalf of their fellow group members. Representatives
can be re-elected or voted out after each consecutive collective-risk game. Selfish
players are preferentially elected and are hence found most frequently in the
"representatives" treatment. Across all treatments, we identify the
selfish players as extortioners. As predicted by our mathematical model, their
steadfast strategies enforce cooperation from fair players who finally compensate
almost completely the deficit caused by the extortionate co-players. Everybody
gains, but the extortionate representatives and their groups gain the most.
acknowledgement: We thank the students for participation; H.-J. Krambeck for writing
the software for the game; H. Arndt, T. Bakker, L. Becks, H. Brendelberger, S. Dobler
and T. Reusch for support; and the Max Planck Society for the Advancement of Science
for funding.
article_number: '10915'
author:
- first_name: Manfred
full_name: Milinski, Manfred
last_name: Milinski
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Dirk
full_name: Semmann, Dirk
last_name: Semmann
- first_name: Ralf
full_name: Sommerfeld, Ralf
last_name: Sommerfeld
- first_name: Jochem
full_name: Marotzke, Jochem
last_name: Marotzke
citation:
ama: Milinski M, Hilbe C, Semmann D, Sommerfeld R, Marotzke J. Humans choose representatives
who enforce cooperation in social dilemmas through extortion. Nature Communications.
2016;7. doi:10.1038/ncomms10915
apa: Milinski, M., Hilbe, C., Semmann, D., Sommerfeld, R., & Marotzke, J. (2016).
Humans choose representatives who enforce cooperation in social dilemmas through
extortion. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms10915
chicago: Milinski, Manfred, Christian Hilbe, Dirk Semmann, Ralf Sommerfeld, and
Jochem Marotzke. “Humans Choose Representatives Who Enforce Cooperation in Social
Dilemmas through Extortion.” Nature Communications. Nature Publishing Group,
2016. https://doi.org/10.1038/ncomms10915.
ieee: M. Milinski, C. Hilbe, D. Semmann, R. Sommerfeld, and J. Marotzke, “Humans
choose representatives who enforce cooperation in social dilemmas through extortion,”
Nature Communications, vol. 7. Nature Publishing Group, 2016.
ista: Milinski M, Hilbe C, Semmann D, Sommerfeld R, Marotzke J. 2016. Humans choose
representatives who enforce cooperation in social dilemmas through extortion.
Nature Communications. 7, 10915.
mla: Milinski, Manfred, et al. “Humans Choose Representatives Who Enforce Cooperation
in Social Dilemmas through Extortion.” Nature Communications, vol. 7, 10915,
Nature Publishing Group, 2016, doi:10.1038/ncomms10915.
short: M. Milinski, C. Hilbe, D. Semmann, R. Sommerfeld, J. Marotzke, Nature Communications
7 (2016).
date_created: 2018-12-11T11:51:25Z
date_published: 2016-03-07T00:00:00Z
date_updated: 2021-01-12T06:49:57Z
day: '07'
ddc:
- '519'
- '530'
- '599'
department:
- _id: KrCh
doi: 10.1038/ncomms10915
file:
- access_level: open_access
checksum: 9ea0d7ce59a555a1cb8353d5559407cb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:44Z
date_updated: 2020-07-14T12:44:44Z
file_id: '4834'
file_name: IST-2016-661-v1+1_ncomms10915.pdf
file_size: 1432577
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5935'
pubrep_id: '661'
quality_controlled: '1'
scopus_import: 1
status: public
title: Humans choose representatives who enforce cooperation in social dilemmas through
extortion
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2016'
...
---
_id: '1334'
abstract:
- lang: eng
text: Hippocampal neurons encode a cognitive map of space. These maps are thought
to be updated during learning and in response to changes in the environment through
activity-dependent synaptic plasticity. Here we examine how changes in activity
influence spatial coding in rats using halorhodopsin-mediated, spatially selective
optogenetic silencing. Halorhoposin stimulation leads to light-induced suppression
in many place cells and interneurons; some place cells increase their firing through
disinhibition, whereas some show no effect. We find that place fields of the unaffected
subpopulation remain stable. On the other hand, place fields of suppressed place
cells were unstable, showing remapping across sessions before and after optogenetic
inhibition. Disinhibited place cells had stable maps but sustained an elevated
firing rate. These findings suggest that place representation in the hippocampus
is constantly governed by activity-dependent processes, and that disinhibition
may provide a mechanism for rate remapping.
article_number: '11824'
author:
- first_name: Philipp
full_name: Schönenberger, Philipp
id: 3B9D816C-F248-11E8-B48F-1D18A9856A87
last_name: Schönenberger
- first_name: Joseph
full_name: O'Neill, Joseph
id: 426376DC-F248-11E8-B48F-1D18A9856A87
last_name: O'Neill
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
citation:
ama: Schönenberger P, O’Neill J, Csicsvari JL. Activity dependent plasticity of
hippocampal place maps. Nature Communications. 2016;7. doi:10.1038/ncomms11824
apa: Schönenberger, P., O’Neill, J., & Csicsvari, J. L. (2016). Activity dependent
plasticity of hippocampal place maps. Nature Communications. Nature Publishing
Group. https://doi.org/10.1038/ncomms11824
chicago: Schönenberger, Philipp, Joseph O’Neill, and Jozsef L Csicsvari. “Activity
Dependent Plasticity of Hippocampal Place Maps.” Nature Communications.
Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms11824.
ieee: P. Schönenberger, J. O’Neill, and J. L. Csicsvari, “Activity dependent plasticity
of hippocampal place maps,” Nature Communications, vol. 7. Nature Publishing
Group, 2016.
ista: Schönenberger P, O’Neill J, Csicsvari JL. 2016. Activity dependent plasticity
of hippocampal place maps. Nature Communications. 7, 11824.
mla: Schönenberger, Philipp, et al. “Activity Dependent Plasticity of Hippocampal
Place Maps.” Nature Communications, vol. 7, 11824, Nature Publishing Group,
2016, doi:10.1038/ncomms11824.
short: P. Schönenberger, J. O’Neill, J.L. Csicsvari, Nature Communications 7 (2016).
date_created: 2018-12-11T11:51:26Z
date_published: 2016-06-10T00:00:00Z
date_updated: 2021-01-12T06:49:57Z
day: '10'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1038/ncomms11824
ec_funded: 1
file:
- access_level: open_access
checksum: e43307754abe65b840a21939fe163618
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:10Z
date_updated: 2020-07-14T12:44:44Z
file_id: '5196'
file_name: IST-2016-660-v1+1_ncomms11824.pdf
file_size: 1793846
relation: main_file
file_date_updated: 2020-07-14T12:44:44Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 257A4776-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281511'
name: Memory-related information processing in neuronal circuits of the hippocampus
and entorhinal cortex
- _id: 257D4372-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I2072-B27
name: Interneuron plasticity during spatial learning
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5934'
pubrep_id: '660'
quality_controlled: '1'
scopus_import: 1
status: public
title: Activity dependent plasticity of hippocampal place maps
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2016'
...
---
_id: '1335'
abstract:
- lang: eng
text: In this paper we review various automata-theoretic formalisms for expressing
quantitative properties. We start with finite-state Boolean automata that express
the traditional regular properties. We then consider weighted ω-automata that
can measure the average density of events, which finite-state Boolean automata
cannot. However, even weighted ω-automata cannot express basic performance properties
like average response time. We finally consider two formalisms of weighted ω-automata
with monitors, where the monitors are either (a) counters or (b) weighted automata
themselves. We present a translation result to establish that these two formalisms
are equivalent. Weighted ω-automata with monitors generalize weighted ω-automata,
and can express average response time property. They present a natural, robust,
and expressive framework for quantitative specifications, with important decidable
properties.
alternative_title:
- LNCS
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Jan
full_name: Otop, Jan
id: 2FC5DA74-F248-11E8-B48F-1D18A9856A87
last_name: Otop
citation:
ama: 'Chatterjee K, Henzinger TA, Otop J. Quantitative monitor automata. In: Vol
9837. Springer; 2016:23-38. doi:10.1007/978-3-662-53413-7_2'
apa: 'Chatterjee, K., Henzinger, T. A., & Otop, J. (2016). Quantitative monitor
automata (Vol. 9837, pp. 23–38). Presented at the SAS: Static Analysis Symposium,
Edinburgh, United Kingdom: Springer. https://doi.org/10.1007/978-3-662-53413-7_2'
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Quantitative
Monitor Automata,” 9837:23–38. Springer, 2016. https://doi.org/10.1007/978-3-662-53413-7_2.
ieee: 'K. Chatterjee, T. A. Henzinger, and J. Otop, “Quantitative monitor automata,”
presented at the SAS: Static Analysis Symposium, Edinburgh, United Kingdom, 2016,
vol. 9837, pp. 23–38.'
ista: 'Chatterjee K, Henzinger TA, Otop J. 2016. Quantitative monitor automata.
SAS: Static Analysis Symposium, LNCS, vol. 9837, 23–38.'
mla: Chatterjee, Krishnendu, et al. Quantitative Monitor Automata. Vol. 9837,
Springer, 2016, pp. 23–38, doi:10.1007/978-3-662-53413-7_2.
short: K. Chatterjee, T.A. Henzinger, J. Otop, in:, Springer, 2016, pp. 23–38.
conference:
end_date: 2016-09-10
location: Edinburgh, United Kingdom
name: 'SAS: Static Analysis Symposium'
start_date: 2016-09-08
date_created: 2018-12-11T11:51:26Z
date_published: 2016-08-31T00:00:00Z
date_updated: 2021-01-12T06:49:58Z
day: '31'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1007/978-3-662-53413-7_2
ec_funded: 1
intvolume: ' 9837'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1604.06764
month: '08'
oa: 1
oa_version: Preprint
page: 23 - 38
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
publication_status: published
publisher: Springer
publist_id: '5932'
quality_controlled: '1'
scopus_import: 1
status: public
title: Quantitative monitor automata
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9837
year: '2016'
...
---
_id: '8094'
abstract:
- lang: eng
text: 'With the accelerated development of robot technologies, optimal control becomes
one of the central themes of research. In traditional approaches, the controller,
by its internal functionality, finds appropriate actions on the basis of the history
of sensor values, guided by the goals, intentions, objectives, learning schemes,
and so forth. The idea is that the controller controls the world---the body plus
its environment---as reliably as possible. This paper focuses on new lines of
self-organization for developmental robotics. We apply the recently developed
differential extrinsic synaptic plasticity to a muscle-tendon driven arm-shoulder
system from the Myorobotics toolkit. In the experiments, we observe a vast variety
of self-organized behavior patterns: when left alone, the arm realizes pseudo-random
sequences of different poses. By applying physical forces, the system can be entrained
into definite motion patterns like wiping a table. Most interestingly, after attaching
an object, the controller gets in a functional resonance with the object''s internal
dynamics, starting to shake spontaneously bottles half-filled with water or sensitively
driving an attached pendulum into a circular mode. When attached to the crank
of a wheel the neural system independently discovers how to rotate it. In this
way, the robot discovers affordances of objects its body is interacting with.'
article_processing_charge: No
author:
- first_name: Georg S
full_name: Martius, Georg S
id: 3A276B68-F248-11E8-B48F-1D18A9856A87
last_name: Martius
- first_name: Rafael
full_name: Hostettler, Rafael
last_name: Hostettler
- first_name: Alois
full_name: Knoll, Alois
last_name: Knoll
- first_name: Ralf
full_name: Der, Ralf
last_name: Der
citation:
ama: 'Martius GS, Hostettler R, Knoll A, Der R. Self-organized control of an tendon
driven arm by differential extrinsic plasticity. In: Proceedings of the Artificial
Life Conference 2016. Vol 28. MIT Press; 2016:142-143. doi:10.7551/978-0-262-33936-0-ch029'
apa: 'Martius, G. S., Hostettler, R., Knoll, A., & Der, R. (2016). Self-organized
control of an tendon driven arm by differential extrinsic plasticity. In Proceedings
of the Artificial Life Conference 2016 (Vol. 28, pp. 142–143). Cancun, Mexico:
MIT Press. https://doi.org/10.7551/978-0-262-33936-0-ch029'
chicago: Martius, Georg S, Rafael Hostettler, Alois Knoll, and Ralf Der. “Self-Organized
Control of an Tendon Driven Arm by Differential Extrinsic Plasticity.” In Proceedings
of the Artificial Life Conference 2016, 28:142–43. MIT Press, 2016. https://doi.org/10.7551/978-0-262-33936-0-ch029.
ieee: G. S. Martius, R. Hostettler, A. Knoll, and R. Der, “Self-organized control
of an tendon driven arm by differential extrinsic plasticity,” in Proceedings
of the Artificial Life Conference 2016, Cancun, Mexico, 2016, vol. 28, pp.
142–143.
ista: 'Martius GS, Hostettler R, Knoll A, Der R. 2016. Self-organized control of
an tendon driven arm by differential extrinsic plasticity. Proceedings of the
Artificial Life Conference 2016. ALIFE 2016: 15th International Conference on
the Synthesis and Simulation of Living Systems vol. 28, 142–143.'
mla: Martius, Georg S., et al. “Self-Organized Control of an Tendon Driven Arm by
Differential Extrinsic Plasticity.” Proceedings of the Artificial Life Conference
2016, vol. 28, MIT Press, 2016, pp. 142–43, doi:10.7551/978-0-262-33936-0-ch029.
short: G.S. Martius, R. Hostettler, A. Knoll, R. Der, in:, Proceedings of the Artificial
Life Conference 2016, MIT Press, 2016, pp. 142–143.
conference:
end_date: 2016-07-08
location: Cancun, Mexico
name: 'ALIFE 2016: 15th International Conference on the Synthesis and Simulation
of Living Systems'
start_date: 2016-07-04
date_created: 2020-07-05T22:00:47Z
date_published: 2016-09-01T00:00:00Z
date_updated: 2021-01-12T08:16:53Z
day: '01'
ddc:
- '610'
department:
- _id: ChLa
- _id: GaTk
doi: 10.7551/978-0-262-33936-0-ch029
ec_funded: 1
file:
- access_level: open_access
checksum: cff63e7a4b8ac466ba51a9c84153a940
content_type: application/pdf
creator: cziletti
date_created: 2020-07-06T12:59:09Z
date_updated: 2020-07-14T12:48:09Z
file_id: '8096'
file_name: 2016_ProcALIFE_Martius.pdf
file_size: 678670
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
intvolume: ' 28'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 142-143
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Proceedings of the Artificial Life Conference 2016
publication_identifier:
isbn:
- '9780262339360'
publication_status: published
publisher: MIT Press
quality_controlled: '1'
scopus_import: 1
status: public
title: Self-organized control of an tendon driven arm by differential extrinsic plasticity
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: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 28
year: '2016'
...
---
_id: '1479'
abstract:
- lang: eng
text: "Most entropy notions H(.) like Shannon or min-entropy satisfy a chain rule
stating that for random variables X,Z, and A we have H(X|Z,A)≥H(X|Z)−|A|. That
is, by conditioning on A the entropy of X can decrease by at most the bitlength
|A| of A. Such chain rules are known to hold for some computational entropy notions
like Yao’s and unpredictability-entropy. For HILL entropy, the computational analogue
of min-entropy, the chain rule is of special interest and has found many applications,
including leakage-resilient cryptography, deterministic encryption, and memory
delegation. These applications rely on restricted special cases of the chain rule.
Whether the chain rule for conditional HILL entropy holds in general was an open
problem for which we give a strong negative answer: we construct joint distributions
(X,Z,A), where A is a distribution over a single bit, such that the HILL entropy
H HILL (X|Z) is large but H HILL (X|Z,A) is basically zero.\r\n\r\nOur counterexample
just makes the minimal assumption that NP⊈P/poly. Under the stronger assumption
that injective one-way function exist, we can make all the distributions efficiently
samplable.\r\n\r\nFinally, we show that some more sophisticated cryptographic
objects like lossy functions can be used to sample a distribution constituting
a counterexample to the chain rule making only a single invocation to the underlying
object."
acknowledgement: "This work was partly funded by the European Research Council under
ERC Starting Grant 259668-PSPC and ERC Advanced Grant 321310-PERCY.\r\n"
author:
- first_name: Stephan
full_name: Krenn, Stephan
id: 329FCCF0-F248-11E8-B48F-1D18A9856A87
last_name: Krenn
orcid: 0000-0003-2835-9093
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
- first_name: Akshay
full_name: Wadia, Akshay
last_name: Wadia
- first_name: Daniel
full_name: Wichs, Daniel
last_name: Wichs
citation:
ama: Krenn S, Pietrzak KZ, Wadia A, Wichs D. A counterexample to the chain rule
for conditional HILL entropy. Computational Complexity. 2016;25(3):567-605.
doi:10.1007/s00037-015-0120-9
apa: Krenn, S., Pietrzak, K. Z., Wadia, A., & Wichs, D. (2016). A counterexample
to the chain rule for conditional HILL entropy. Computational Complexity.
Springer. https://doi.org/10.1007/s00037-015-0120-9
chicago: Krenn, Stephan, Krzysztof Z Pietrzak, Akshay Wadia, and Daniel Wichs. “A
Counterexample to the Chain Rule for Conditional HILL Entropy.” Computational
Complexity. Springer, 2016. https://doi.org/10.1007/s00037-015-0120-9.
ieee: S. Krenn, K. Z. Pietrzak, A. Wadia, and D. Wichs, “A counterexample to the
chain rule for conditional HILL entropy,” Computational Complexity, vol.
25, no. 3. Springer, pp. 567–605, 2016.
ista: Krenn S, Pietrzak KZ, Wadia A, Wichs D. 2016. A counterexample to the chain
rule for conditional HILL entropy. Computational Complexity. 25(3), 567–605.
mla: Krenn, Stephan, et al. “A Counterexample to the Chain Rule for Conditional
HILL Entropy.” Computational Complexity, vol. 25, no. 3, Springer, 2016,
pp. 567–605, doi:10.1007/s00037-015-0120-9.
short: S. Krenn, K.Z. Pietrzak, A. Wadia, D. Wichs, Computational Complexity 25
(2016) 567–605.
date_created: 2018-12-11T11:52:16Z
date_published: 2016-09-01T00:00:00Z
date_updated: 2023-02-23T11:05:09Z
day: '01'
ddc:
- '004'
department:
- _id: KrPi
doi: 10.1007/s00037-015-0120-9
ec_funded: 1
file:
- access_level: open_access
checksum: 7659296174fa75f5f0364f31f46f4bcf
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:29Z
date_updated: 2020-07-14T12:44:56Z
file_id: '5012'
file_name: IST-2017-766-v1+1_678.pdf
file_size: 483258
relation: main_file
file_date_updated: 2020-07-14T12:44:56Z
has_accepted_license: '1'
intvolume: ' 25'
issue: '3'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 567 - 605
project:
- _id: 258C570E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '259668'
name: Provable Security for Physical Cryptography
publication: Computational Complexity
publication_status: published
publisher: Springer
publist_id: '5715'
pubrep_id: '766'
quality_controlled: '1'
related_material:
record:
- id: '2940'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: A counterexample to the chain rule for conditional HILL entropy
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2016'
...
---
_id: '1480'
abstract:
- lang: eng
text: 'Exponential varieties arise from exponential families in statistics. These
real algebraic varieties have strong positivity and convexity properties, familiar
from toric varieties and their moment maps. Among them are varieties of inverses
of symmetric matrices satisfying linear constraints. This class includes Gaussian
graphical models. We develop a general theory of exponential varieties. These
are derived from hyperbolic polynomials and their integral representations. We
compare the multidegrees and ML degrees of the gradient map for hyperbolic polynomials. '
author:
- first_name: Mateusz
full_name: Michałek, Mateusz
last_name: Michałek
- first_name: Bernd
full_name: Sturmfels, Bernd
last_name: Sturmfels
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
- first_name: Piotr
full_name: Zwiernik, Piotr
last_name: Zwiernik
citation:
ama: Michałek M, Sturmfels B, Uhler C, Zwiernik P. Exponential varieties. Proceedings
of the London Mathematical Society. 2016;112(1):27-56. doi:10.1112/plms/pdv066
apa: Michałek, M., Sturmfels, B., Uhler, C., & Zwiernik, P. (2016). Exponential
varieties. Proceedings of the London Mathematical Society. Oxford University
Press. https://doi.org/10.1112/plms/pdv066
chicago: Michałek, Mateusz, Bernd Sturmfels, Caroline Uhler, and Piotr Zwiernik.
“Exponential Varieties.” Proceedings of the London Mathematical Society.
Oxford University Press, 2016. https://doi.org/10.1112/plms/pdv066.
ieee: M. Michałek, B. Sturmfels, C. Uhler, and P. Zwiernik, “Exponential varieties,”
Proceedings of the London Mathematical Society, vol. 112, no. 1. Oxford
University Press, pp. 27–56, 2016.
ista: Michałek M, Sturmfels B, Uhler C, Zwiernik P. 2016. Exponential varieties.
Proceedings of the London Mathematical Society. 112(1), 27–56.
mla: Michałek, Mateusz, et al. “Exponential Varieties.” Proceedings of the London
Mathematical Society, vol. 112, no. 1, Oxford University Press, 2016, pp.
27–56, doi:10.1112/plms/pdv066.
short: M. Michałek, B. Sturmfels, C. Uhler, P. Zwiernik, Proceedings of the London
Mathematical Society 112 (2016) 27–56.
date_created: 2018-12-11T11:52:16Z
date_published: 2016-01-07T00:00:00Z
date_updated: 2021-01-12T06:51:02Z
day: '07'
department:
- _id: CaUh
doi: 10.1112/plms/pdv066
intvolume: ' 112'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1412.6185
month: '01'
oa: 1
oa_version: Preprint
page: 27 - 56
publication: Proceedings of the London Mathematical Society
publication_status: published
publisher: Oxford University Press
publist_id: '5714'
quality_controlled: '1'
scopus_import: 1
status: public
title: Exponential varieties
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 112
year: '2016'
...
---
_id: '1482'
abstract:
- lang: eng
text: Plants have the ability to continously generate new organs by maintaining
populations of stem cells throught their lives. The shoot apical meristem (SAM)
provides a stable environment for the maintenance of stem cells. All cells inside
the SAM divide, yet boundaries and patterns are maintained. Experimental evidence
indicates that patterning is independent of cell lineage, thus a dynamic self-regulatory
mechanism is required. A pivotal role in the organization of the SAM is played
by the WUSCHEL gene (WUS). An important question in this regard is that how WUS
expression is positioned in the SAM via a cell-lineage independent signaling mechanism.
In this study we demonstrate via mathematical modeling that a combination of an
inhibitor of the Cytokinin (CK) receptor, Arabidopsis histidine kinase 4 (AHK4)
and two morphogens originating from the top cell layer, can plausibly account
for the cell lineage-independent centering of WUS expression within SAM. Furthermore,
our laser ablation and microsurgical experiments support the hypothesis that patterning
in SAM occurs at the level of CK reception and signaling. The model suggests that
the interplay between CK signaling, WUS/CLV feedback loop and boundary signals
can account for positioning of the WUS expression, and provides directions for
further experimental investigation.
acknowledgement: We thank J. Traas, B. Müller and V. Reddy for providing seed materials
and Y. Deb for advice regarding the laser ablation experiments. We specially thank
Thomas Laux for stimulating discussions and support in the initial phase of this
project.
article_number: e0147830
author:
- first_name: Milad
full_name: Adibi, Milad
last_name: Adibi
- first_name: Saiko
full_name: Yoshida, Saiko
id: 2E46069C-F248-11E8-B48F-1D18A9856A87
last_name: Yoshida
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Christian
full_name: Fleck, Christian
last_name: Fleck
citation:
ama: Adibi M, Yoshida S, Weijers D, Fleck C. Centering the organizing center in
the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling
and self-organization. PLoS One. 2016;11(2). doi:10.1371/journal.pone.0147830
apa: Adibi, M., Yoshida, S., Weijers, D., & Fleck, C. (2016). Centering the
organizing center in the Arabidopsis thaliana shoot apical meristem by a combination
of cytokinin signaling and self-organization. PLoS One. Public Library
of Science. https://doi.org/10.1371/journal.pone.0147830
chicago: Adibi, Milad, Saiko Yoshida, Dolf Weijers, and Christian Fleck. “Centering
the Organizing Center in the Arabidopsis Thaliana Shoot Apical Meristem by a Combination
of Cytokinin Signaling and Self-Organization.” PLoS One. Public Library
of Science, 2016. https://doi.org/10.1371/journal.pone.0147830.
ieee: M. Adibi, S. Yoshida, D. Weijers, and C. Fleck, “Centering the organizing
center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin
signaling and self-organization,” PLoS One, vol. 11, no. 2. Public Library
of Science, 2016.
ista: Adibi M, Yoshida S, Weijers D, Fleck C. 2016. Centering the organizing center
in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin
signaling and self-organization. PLoS One. 11(2), e0147830.
mla: Adibi, Milad, et al. “Centering the Organizing Center in the Arabidopsis Thaliana
Shoot Apical Meristem by a Combination of Cytokinin Signaling and Self-Organization.”
PLoS One, vol. 11, no. 2, e0147830, Public Library of Science, 2016, doi:10.1371/journal.pone.0147830.
short: M. Adibi, S. Yoshida, D. Weijers, C. Fleck, PLoS One 11 (2016).
date_created: 2018-12-11T11:52:17Z
date_published: 2016-02-01T00:00:00Z
date_updated: 2021-01-12T06:51:03Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1371/journal.pone.0147830
file:
- access_level: open_access
checksum: 6066146e527335030f83aa5924ab72a6
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:16Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5066'
file_name: IST-2016-521-v1+1_journal.pone.0147830.PDF
file_size: 4297148
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 11'
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '5711'
pubrep_id: '521'
quality_controlled: '1'
scopus_import: 1
status: public
title: Centering the organizing center in the Arabidopsis thaliana shoot apical meristem
by a combination of cytokinin signaling and self-organization
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2016'
...
---
_id: '1484'
acknowledgement: We thank Maciek Adamowski for helpful discussions and Qiang Zhu and
Israel Ausin for critical reading of the manuscript. We sincerely apologize to colleagues
whose work we could not include owing to space limitations.
article_type: review
author:
- first_name: Xu
full_name: Chen, Xu
id: 4E5ADCAA-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Shuang
full_name: Wu, Shuang
last_name: Wu
- first_name: Zengyu
full_name: Liu, Zengyu
last_name: Liu
- first_name: Jiřĺ
full_name: Friml, Jiřĺ
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Chen X, Wu S, Liu Z, Friml J. Environmental and endogenous control of cortical
microtubule orientation. Trends in Cell Biology. 2016;26(6):409-419. doi:10.1016/j.tcb.2016.02.003
apa: Chen, X., Wu, S., Liu, Z., & Friml, J. (2016). Environmental and endogenous
control of cortical microtubule orientation. Trends in Cell Biology. Cell
Press. https://doi.org/10.1016/j.tcb.2016.02.003
chicago: Chen, Xu, Shuang Wu, Zengyu Liu, and Jiří Friml. “Environmental and Endogenous
Control of Cortical Microtubule Orientation.” Trends in Cell Biology. Cell
Press, 2016. https://doi.org/10.1016/j.tcb.2016.02.003.
ieee: X. Chen, S. Wu, Z. Liu, and J. Friml, “Environmental and endogenous control
of cortical microtubule orientation,” Trends in Cell Biology, vol. 26,
no. 6. Cell Press, pp. 409–419, 2016.
ista: Chen X, Wu S, Liu Z, Friml J. 2016. Environmental and endogenous control of
cortical microtubule orientation. Trends in Cell Biology. 26(6), 409–419.
mla: Chen, Xu, et al. “Environmental and Endogenous Control of Cortical Microtubule
Orientation.” Trends in Cell Biology, vol. 26, no. 6, Cell Press, 2016,
pp. 409–19, doi:10.1016/j.tcb.2016.02.003.
short: X. Chen, S. Wu, Z. Liu, J. Friml, Trends in Cell Biology 26 (2016) 409–419.
date_created: 2018-12-11T11:52:17Z
date_published: 2016-06-01T00:00:00Z
date_updated: 2021-01-12T06:51:04Z
day: '01'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1016/j.tcb.2016.02.003
file:
- access_level: open_access
checksum: b229e5bb4676ec3e27b7b9ea603b3a63
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:34Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5155'
file_name: IST-2018-1002-v1+1_Chen_TICB_2016_proofs.pdf
file_size: 2329117
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 26'
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 409 - 419
publication: Trends in Cell Biology
publication_status: published
publisher: Cell Press
publist_id: '5704'
pubrep_id: '1002'
quality_controlled: '1'
scopus_import: 1
status: public
title: Environmental and endogenous control of cortical microtubule orientation
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2016'
...
---
_id: '1485'
abstract:
- lang: eng
text: In this article the notion of metabolic turnover is revisited in the light
of recent results of out-of-equilibrium thermodynamics. By means of Monte Carlo
methods we perform an exact sampling of the enzymatic fluxes in a genome scale
metabolic network of E. Coli in stationary growth conditions from which we infer
the metabolites turnover times. However the latter are inferred from net fluxes,
and we argue that this approximation is not valid for enzymes working nearby thermodynamic
equilibrium. We recalculate turnover times from total fluxes by performing an
energy balance analysis of the network and recurring to the fluctuation theorem.
We find in many cases values one of order of magnitude lower, implying a faster
picture of intermediate metabolism.
article_number: '016003'
author:
- first_name: Daniele
full_name: De Martino, Daniele
id: 3FF5848A-F248-11E8-B48F-1D18A9856A87
last_name: De Martino
orcid: 0000-0002-5214-4706
citation:
ama: De Martino D. Genome-scale estimate of the metabolic turnover of E. Coli from
the energy balance analysis. Physical Biology. 2016;13(1). doi:10.1088/1478-3975/13/1/016003
apa: De Martino, D. (2016). Genome-scale estimate of the metabolic turnover of E.
Coli from the energy balance analysis. Physical Biology. IOP Publishing
Ltd. https://doi.org/10.1088/1478-3975/13/1/016003
chicago: De Martino, Daniele. “Genome-Scale Estimate of the Metabolic Turnover of
E. Coli from the Energy Balance Analysis.” Physical Biology. IOP Publishing
Ltd., 2016. https://doi.org/10.1088/1478-3975/13/1/016003.
ieee: D. De Martino, “Genome-scale estimate of the metabolic turnover of E. Coli
from the energy balance analysis,” Physical Biology, vol. 13, no. 1. IOP
Publishing Ltd., 2016.
ista: De Martino D. 2016. Genome-scale estimate of the metabolic turnover of E.
Coli from the energy balance analysis. Physical Biology. 13(1), 016003.
mla: De Martino, Daniele. “Genome-Scale Estimate of the Metabolic Turnover of E.
Coli from the Energy Balance Analysis.” Physical Biology, vol. 13, no.
1, 016003, IOP Publishing Ltd., 2016, doi:10.1088/1478-3975/13/1/016003.
short: D. De Martino, Physical Biology 13 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-01-29T00:00:00Z
date_updated: 2021-01-12T06:51:04Z
day: '29'
department:
- _id: GaTk
doi: 10.1088/1478-3975/13/1/016003
ec_funded: 1
intvolume: ' 13'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1505.04613
month: '01'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Biology
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '5702'
quality_controlled: '1'
scopus_import: 1
status: public
title: Genome-scale estimate of the metabolic turnover of E. Coli from the energy
balance analysis
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2016'
...
---
_id: '1486'
abstract:
- lang: eng
text: We review recent results concerning the mathematical properties of the Bardeen-Cooper-Schrieffer
(BCS) functional of superconductivity, which were obtained in a series of papers,
partly in collaboration with R. Frank, E. Hamza, S. Naboko, and J. P. Solovej.
Our discussion includes, in particular, an investigation of the critical temperature
for a general class of interaction potentials, as well as a study of its dependence
on external fields. We shall explain how the Ginzburg-Landau model can be derived
from the BCS theory in a suitable parameter regime.
article_number: '021101'
author:
- first_name: Christian
full_name: Hainzl, Christian
last_name: Hainzl
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Hainzl C, Seiringer R. The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties. Journal of Mathematical Physics. 2016;57(2).
doi:10.1063/1.4941723
apa: Hainzl, C., & Seiringer, R. (2016). The Bardeen–Cooper–Schrieffer functional
of superconductivity and its mathematical properties. Journal of Mathematical
Physics. American Institute of Physics. https://doi.org/10.1063/1.4941723
chicago: Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer
Functional of Superconductivity and Its Mathematical Properties.” Journal of
Mathematical Physics. American Institute of Physics, 2016. https://doi.org/10.1063/1.4941723.
ieee: C. Hainzl and R. Seiringer, “The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties,” Journal of Mathematical Physics, vol.
57, no. 2. American Institute of Physics, 2016.
ista: Hainzl C, Seiringer R. 2016. The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties. Journal of Mathematical Physics. 57(2), 021101.
mla: Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer Functional
of Superconductivity and Its Mathematical Properties.” Journal of Mathematical
Physics, vol. 57, no. 2, 021101, American Institute of Physics, 2016, doi:10.1063/1.4941723.
short: C. Hainzl, R. Seiringer, Journal of Mathematical Physics 57 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-02-24T00:00:00Z
date_updated: 2021-01-12T06:51:04Z
day: '24'
department:
- _id: RoSe
doi: 10.1063/1.4941723
intvolume: ' 57'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1511.01995
month: '02'
oa: 1
oa_version: Preprint
publication: Journal of Mathematical Physics
publication_status: published
publisher: American Institute of Physics
publist_id: '5701'
quality_controlled: '1'
scopus_import: 1
status: public
title: The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical
properties
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 57
year: '2016'
...
---
_id: '1487'
abstract:
- lang: eng
text: Rhythms with time scales of multiple cycles per second permeate the mammalian
brain, yet neuroscientists are not certain of their functional roles. One leading
idea is that coherent oscillation between two brain regions facilitates the exchange
of information between them. In rats, the hippocampus and the vibrissal sensorimotor
system both are characterized by rhythmic oscillation in the theta range, 5–12
Hz. Previous work has been divided as to whether the two rhythms are independent
or coherent. To resolve this question, we acquired three measures from rats—whisker
motion, hippocampal local field potential (LFP), and barrel cortex unit firing—during
a whisker-mediated texture discrimination task and during control conditions (not
engaged in a whisker-mediated memory task). Compared to control conditions, the
theta band of hippocampal LFP showed a marked increase in power as the rats approached
and then palpated the texture. Phase synchronization between whisking and hippocampal
LFP increased by almost 50% during approach and texture palpation. In addition,
a greater proportion of barrel cortex neurons showed firing that was phase-locked
to hippocampal theta while rats were engaged in the discrimination task. Consistent
with a behavioral consequence of phase synchronization, the rats identified the
texture more rapidly and with lower error likelihood on trials in which there
was an increase in theta-whisking coherence at the moment of texture palpation.
These results suggest that coherence between the whisking rhythm, barrel cortex
firing, and hippocampal LFP is augmented selectively during epochs in which the
rat collects sensory information and that such coherence enhances the efficiency
of integration of stimulus information into memory and decision-making centers.
acknowledgement: We thank Eric Maris, Demian Battaglia, and Rodrigo Quian Quiroga
for useful discussions. We are grateful to Fabrizio Manzino and Marco Gigante for
construction of the behavioral apparatus, Igor Perkon for developing custom whisker
tracking software and to Francesca Pulecchi for animal care and histological processing.
article_number: e1002384
author:
- first_name: Natalia
full_name: Grion, Natalia
last_name: Grion
- first_name: Athena
full_name: Akrami, Athena
last_name: Akrami
- first_name: Yangfang
full_name: Zuo, Yangfang
last_name: Zuo
- first_name: Federico
full_name: Stella, Federico
id: 39AF1E74-F248-11E8-B48F-1D18A9856A87
last_name: Stella
orcid: 0000-0001-9439-3148
- first_name: Mathew
full_name: Diamond, Mathew
last_name: Diamond
citation:
ama: Grion N, Akrami A, Zuo Y, Stella F, Diamond M. Coherence between rat sensorimotor
system and hippocampus is enhanced during tactile discrimination. PLoS Biology.
2016;14(2). doi:10.1371/journal.pbio.1002384
apa: Grion, N., Akrami, A., Zuo, Y., Stella, F., & Diamond, M. (2016). Coherence
between rat sensorimotor system and hippocampus is enhanced during tactile discrimination.
PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1002384
chicago: Grion, Natalia, Athena Akrami, Yangfang Zuo, Federico Stella, and Mathew
Diamond. “Coherence between Rat Sensorimotor System and Hippocampus Is Enhanced
during Tactile Discrimination.” PLoS Biology. Public Library of Science,
2016. https://doi.org/10.1371/journal.pbio.1002384.
ieee: N. Grion, A. Akrami, Y. Zuo, F. Stella, and M. Diamond, “Coherence between
rat sensorimotor system and hippocampus is enhanced during tactile discrimination,”
PLoS Biology, vol. 14, no. 2. Public Library of Science, 2016.
ista: Grion N, Akrami A, Zuo Y, Stella F, Diamond M. 2016. Coherence between rat
sensorimotor system and hippocampus is enhanced during tactile discrimination.
PLoS Biology. 14(2), e1002384.
mla: Grion, Natalia, et al. “Coherence between Rat Sensorimotor System and Hippocampus
Is Enhanced during Tactile Discrimination.” PLoS Biology, vol. 14, no.
2, e1002384, Public Library of Science, 2016, doi:10.1371/journal.pbio.1002384.
short: N. Grion, A. Akrami, Y. Zuo, F. Stella, M. Diamond, PLoS Biology 14 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-02-18T00:00:00Z
date_updated: 2021-01-12T06:51:05Z
day: '18'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.1371/journal.pbio.1002384
file:
- access_level: open_access
checksum: 3a5ce0d4e4e36bd6ceb4be761f85644a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:11Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5129'
file_name: IST-2016-518-v1+1_journal.pbio.1002384.PDF
file_size: 2879899
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 14'
issue: '2'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '5700'
pubrep_id: '518'
quality_controlled: '1'
scopus_import: 1
status: public
title: Coherence between rat sensorimotor system and hippocampus is enhanced during
tactile discrimination
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2016'
...
---
_id: '1488'
abstract:
- lang: eng
text: Branching morphogenesis of the epithelial ureteric bud forms the renal collecting
duct system and is critical for normal nephron number, while low nephron number
is implicated in hypertension and renal disease. Ureteric bud growth and branching
requires GDNF signaling from the surrounding mesenchyme to cells at the ureteric
bud tips, via the Ret receptor tyrosine kinase and coreceptor Gfrα1; Ret signaling
up-regulates transcription factors Etv4 and Etv5, which are also critical for
branching. Despite extensive knowledge of the genetic control of these events,
it is not understood, at the cellular level, how renal branching morphogenesis
is achieved or how Ret signaling influences epithelial cell behaviors to promote
this process. Analysis of chimeric embryos previously suggested a role for Ret
signaling in promoting cell rearrangements in the nephric duct, but this method
was unsuited to study individual cell behaviors during ureteric bud branching.
Here, we use Mosaic Analysis with Double Markers (MADM), combined with organ culture
and time-lapse imaging, to trace the movements and divisions of individual ureteric
bud tip cells. We first examine wild-type clones and then Ret or Etv4 mutant/wild-type
clones in which the mutant and wild-type sister cells are differentially and heritably
marked by green and red fluorescent proteins. We find that, in normal kidneys,
most individual tip cells behave as self-renewing progenitors, some of whose progeny
remain at the tips while others populate the growing UB trunks. In Ret or Etv4
MADM clones, the wild-type cells generated at a UB tip are much more likely to
remain at, or move to, the new tips during branching and elongation, while their
Ret−/− or Etv4−/− sister cells tend to lag behind and contribute only to the trunks.
By tracking successive mitoses in a cell lineage, we find that Ret signaling has
little effect on proliferation, in contrast to its effects on cell movement. Our
results show that Ret/Etv4 signaling promotes directed cell movements in the ureteric
bud tips, and suggest a model in which these cell movements mediate branching
morphogenesis.
acknowledgement: We thank Silvia Arber, Thomas Jessell, Kenneth M. Murphy, Carlton
Bates, Hideki Enomoto, Liqun Luo and Andrew McMahon for mouse strains; Thomas Jessell
for antibodies; and Laura Martinez Prat for experimental assistance.
article_number: e1002382
author:
- first_name: Paul
full_name: Riccio, Paul
last_name: Riccio
- first_name: Cristina
full_name: Cebrián, Cristina
last_name: Cebrián
- first_name: Hui
full_name: Zong, Hui
last_name: Zong
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Frank
full_name: Costantini, Frank
last_name: Costantini
citation:
ama: Riccio P, Cebrián C, Zong H, Hippenmeyer S, Costantini F. Ret and Etv4 promote
directed movements of progenitor cells during renal branching morphogenesis. PLoS
Biology. 2016;14(2). doi:10.1371/journal.pbio.1002382
apa: Riccio, P., Cebrián, C., Zong, H., Hippenmeyer, S., & Costantini, F. (2016).
Ret and Etv4 promote directed movements of progenitor cells during renal branching
morphogenesis. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1002382
chicago: Riccio, Paul, Cristina Cebrián, Hui Zong, Simon Hippenmeyer, and Frank
Costantini. “Ret and Etv4 Promote Directed Movements of Progenitor Cells during
Renal Branching Morphogenesis.” PLoS Biology. Public Library of Science,
2016. https://doi.org/10.1371/journal.pbio.1002382.
ieee: P. Riccio, C. Cebrián, H. Zong, S. Hippenmeyer, and F. Costantini, “Ret and
Etv4 promote directed movements of progenitor cells during renal branching morphogenesis,”
PLoS Biology, vol. 14, no. 2. Public Library of Science, 2016.
ista: Riccio P, Cebrián C, Zong H, Hippenmeyer S, Costantini F. 2016. Ret and Etv4
promote directed movements of progenitor cells during renal branching morphogenesis.
PLoS Biology. 14(2), e1002382.
mla: Riccio, Paul, et al. “Ret and Etv4 Promote Directed Movements of Progenitor
Cells during Renal Branching Morphogenesis.” PLoS Biology, vol. 14, no.
2, e1002382, Public Library of Science, 2016, doi:10.1371/journal.pbio.1002382.
short: P. Riccio, C. Cebrián, H. Zong, S. Hippenmeyer, F. Costantini, PLoS Biology
14 (2016).
date_created: 2018-12-11T11:52:19Z
date_published: 2016-02-19T00:00:00Z
date_updated: 2023-02-23T10:01:08Z
day: '19'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1371/journal.pbio.1002382
file:
- access_level: open_access
checksum: 7f8fa1b3a29f94c0a14dd4465278cdbc
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:42Z
date_updated: 2020-07-14T12:44:57Z
file_id: '5027'
file_name: IST-2016-517-v1+1_journal.pbio.1002382_1_.PDF
file_size: 5904773
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 14'
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- iso: eng
month: '02'
oa: 1
oa_version: Published Version
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '5699'
pubrep_id: '517'
quality_controlled: '1'
related_material:
record:
- id: '9703'
relation: research_data
status: deleted
scopus_import: 1
status: public
title: Ret and Etv4 promote directed movements of progenitor cells during renal branching
morphogenesis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2016'
...
---
_id: '1489'
abstract:
- lang: eng
text: 'We prove optimal local law, bulk universality and non-trivial decay for the
off-diagonal elements of the resolvent for a class of translation invariant Gaussian
random matrix ensembles with correlated entries. '
acknowledgement: Open access funding provided by Institute of Science and Technology
(IST Austria). Oskari H. Ajanki was Partially supported by ERC Advanced Grant RANMAT
No. 338804, and SFB-TR 12 Grant of the German Research Council. László Erdős was
Partially supported by ERC Advanced Grant RANMAT No. 338804. Torben Krüger was Partially
supported by ERC Advanced Grant RANMAT No. 338804, and SFB-TR 12 Grant of the German
Research Council.
article_processing_charge: Yes (via OA deal)
author:
- first_name: Oskari H
full_name: Ajanki, Oskari H
id: 36F2FB7E-F248-11E8-B48F-1D18A9856A87
last_name: Ajanki
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
citation:
ama: Ajanki OH, Erdös L, Krüger TH. Local spectral statistics of Gaussian matrices
with correlated entries. Journal of Statistical Physics. 2016;163(2):280-302.
doi:10.1007/s10955-016-1479-y
apa: Ajanki, O. H., Erdös, L., & Krüger, T. H. (2016). Local spectral statistics
of Gaussian matrices with correlated entries. Journal of Statistical Physics.
Springer. https://doi.org/10.1007/s10955-016-1479-y
chicago: Ajanki, Oskari H, László Erdös, and Torben H Krüger. “Local Spectral Statistics
of Gaussian Matrices with Correlated Entries.” Journal of Statistical Physics.
Springer, 2016. https://doi.org/10.1007/s10955-016-1479-y.
ieee: O. H. Ajanki, L. Erdös, and T. H. Krüger, “Local spectral statistics of Gaussian
matrices with correlated entries,” Journal of Statistical Physics, vol.
163, no. 2. Springer, pp. 280–302, 2016.
ista: Ajanki OH, Erdös L, Krüger TH. 2016. Local spectral statistics of Gaussian
matrices with correlated entries. Journal of Statistical Physics. 163(2), 280–302.
mla: Ajanki, Oskari H., et al. “Local Spectral Statistics of Gaussian Matrices with
Correlated Entries.” Journal of Statistical Physics, vol. 163, no. 2, Springer,
2016, pp. 280–302, doi:10.1007/s10955-016-1479-y.
short: O.H. Ajanki, L. Erdös, T.H. Krüger, Journal of Statistical Physics 163 (2016)
280–302.
date_created: 2018-12-11T11:52:19Z
date_published: 2016-04-01T00:00:00Z
date_updated: 2021-01-12T06:51:05Z
day: '01'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1007/s10955-016-1479-y
ec_funded: 1
file:
- access_level: open_access
checksum: 7139598dcb1cafbe6866bd2bfd732b33
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:16Z
date_updated: 2020-07-14T12:44:57Z
file_id: '4869'
file_name: IST-2016-516-v1+1_s10955-016-1479-y.pdf
file_size: 660602
relation: main_file
file_date_updated: 2020-07-14T12:44:57Z
has_accepted_license: '1'
intvolume: ' 163'
issue: '2'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 280 - 302
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Journal of Statistical Physics
publication_status: published
publisher: Springer
publist_id: '5698'
pubrep_id: '516'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local spectral statistics of Gaussian matrices with correlated entries
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 163
year: '2016'
...
---
_id: '1490'
abstract:
- lang: eng
text: To induce adaptive immunity, dendritic cells (DCs) migrate through afferent
lymphatic vessels (LVs) to draining lymph nodes (dLNs). This process occurs in
several consecutive steps. Upon entry into lymphatic capillaries, DCs first actively
crawl into downstream collecting vessels. From there, they are next passively
and rapidly transported to the dLN by lymph flow. Here, we describe a role for
the chemokine CCL21 in intralymphatic DC crawling. Performing time-lapse imaging
in murine skin, we found that blockade of CCL21-but not the absence of lymph flow-completely
abolished DC migration from capillaries toward collecting vessels and reduced
the ability of intralymphatic DCs to emigrate from skin. Moreover, we found that
in vitro low laminar flow established a CCL21 gradient along lymphatic endothelial
monolayers, thereby inducing downstream-directed DC migration. These findings
reveal a role for intralymphatic CCL21 in promoting DC trafficking to dLNs, through
the formation of a flow-induced gradient.
author:
- first_name: Erica
full_name: Russo, Erica
last_name: Russo
- first_name: Alvaro
full_name: Teijeira, Alvaro
last_name: Teijeira
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
- first_name: Ann
full_name: Willrodt, Ann
last_name: Willrodt
- first_name: Joël
full_name: Bloch, Joël
last_name: Bloch
- first_name: Maximilian
full_name: Nitschké, Maximilian
last_name: Nitschké
- first_name: Laura
full_name: Santambrogio, Laura
last_name: Santambrogio
- first_name: Dontscho
full_name: Kerjaschki, Dontscho
last_name: Kerjaschki
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Cornelia
full_name: Halin, Cornelia
last_name: Halin
citation:
ama: Russo E, Teijeira A, Vaahtomeri K, et al. Intralymphatic CCL21 promotes tissue
egress of dendritic cells through afferent lymphatic vessels. Cell Reports.
2016;14(7):1723-1734. doi:10.1016/j.celrep.2016.01.048
apa: Russo, E., Teijeira, A., Vaahtomeri, K., Willrodt, A., Bloch, J., Nitschké,
M., … Halin, C. (2016). Intralymphatic CCL21 promotes tissue egress of dendritic
cells through afferent lymphatic vessels. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2016.01.048
chicago: Russo, Erica, Alvaro Teijeira, Kari Vaahtomeri, Ann Willrodt, Joël Bloch,
Maximilian Nitschké, Laura Santambrogio, Dontscho Kerjaschki, Michael K Sixt,
and Cornelia Halin. “Intralymphatic CCL21 Promotes Tissue Egress of Dendritic
Cells through Afferent Lymphatic Vessels.” Cell Reports. Cell Press, 2016.
https://doi.org/10.1016/j.celrep.2016.01.048.
ieee: E. Russo et al., “Intralymphatic CCL21 promotes tissue egress of dendritic
cells through afferent lymphatic vessels,” Cell Reports, vol. 14, no. 7.
Cell Press, pp. 1723–1734, 2016.
ista: Russo E, Teijeira A, Vaahtomeri K, Willrodt A, Bloch J, Nitschké M, Santambrogio
L, Kerjaschki D, Sixt MK, Halin C. 2016. Intralymphatic CCL21 promotes tissue
egress of dendritic cells through afferent lymphatic vessels. Cell Reports. 14(7),
1723–1734.
mla: Russo, Erica, et al. “Intralymphatic CCL21 Promotes Tissue Egress of Dendritic
Cells through Afferent Lymphatic Vessels.” Cell Reports, vol. 14, no. 7,
Cell Press, 2016, pp. 1723–34, doi:10.1016/j.celrep.2016.01.048.
short: E. Russo, A. Teijeira, K. Vaahtomeri, A. Willrodt, J. Bloch, M. Nitschké,
L. Santambrogio, D. Kerjaschki, M.K. Sixt, C. Halin, Cell Reports 14 (2016) 1723–1734.
date_created: 2018-12-11T11:52:19Z
date_published: 2016-02-23T00:00:00Z
date_updated: 2021-01-12T06:51:07Z
day: '23'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1016/j.celrep.2016.01.048
file:
- access_level: open_access
checksum: c98c1151d5f1e5ce1643a83d8d7f3c29
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:30Z
date_updated: 2020-07-14T12:44:58Z
file_id: '4948'
file_name: IST-2016-515-v1+1_1-s2.0-S2211124716300262-main.pdf
file_size: 5489897
relation: main_file
file_date_updated: 2020-07-14T12:44:58Z
has_accepted_license: '1'
intvolume: ' 14'
issue: '7'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '02'
oa: 1
oa_version: Published Version
page: 1723 - 1734
publication: Cell Reports
publication_status: published
publisher: Cell Press
publist_id: '5697'
pubrep_id: '515'
quality_controlled: '1'
scopus_import: 1
status: public
title: Intralymphatic CCL21 promotes tissue egress of dendritic cells through afferent
lymphatic vessels
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2016'
...
---
_id: '1491'
abstract:
- lang: eng
text: We study the ground state of a trapped Bose gas, starting from the full many-body
Schrödinger Hamiltonian, and derive the non-linear Schrödinger energy functional
in the limit of a large particle number, when the interaction potential converges
slowly to a Dirac delta function. Our method is based on quantitative estimates
on the discrepancy between the full many-body energy and its mean-field approximation
using Hartree states. These are proved using finite dimensional localization and
a quantitative version of the quantum de Finetti theorem. Our approach covers
the case of attractive interactions in the regime of stability. In particular,
our main new result is a derivation of the 2D attractive non-linear Schrödinger
ground state.
acknowledgement: The authors acknowledge financial support from the European Research
Council (FP7/2007-2013 Grant Agreement MNIQS 258023) and the ANR (Mathostaq project,
ANR-13-JS01-0005-01). The second and third authors have benefited from the hospitality
of the Institute for Mathematical Science of the National University of Singapore.
author:
- first_name: Mathieu
full_name: Lewin, Mathieu
last_name: Lewin
- first_name: Phan
full_name: Nam, Phan
id: 404092F4-F248-11E8-B48F-1D18A9856A87
last_name: Nam
- first_name: Nicolas
full_name: Rougerie, Nicolas
last_name: Rougerie
citation:
ama: Lewin M, Nam P, Rougerie N. The mean-field approximation and the non-linear
Schrödinger functional for trapped Bose gases. Transactions of the American
Mathematical Society. 2016;368(9):6131-6157. doi:10.1090/tran/6537
apa: Lewin, M., Nam, P., & Rougerie, N. (2016). The mean-field approximation
and the non-linear Schrödinger functional for trapped Bose gases. Transactions
of the American Mathematical Society. American Mathematical Society. https://doi.org/10.1090/tran/6537
chicago: Lewin, Mathieu, Phan Nam, and Nicolas Rougerie. “The Mean-Field Approximation
and the Non-Linear Schrödinger Functional for Trapped Bose Gases.” Transactions
of the American Mathematical Society. American Mathematical Society, 2016.
https://doi.org/10.1090/tran/6537.
ieee: M. Lewin, P. Nam, and N. Rougerie, “The mean-field approximation and the non-linear
Schrödinger functional for trapped Bose gases,” Transactions of the American
Mathematical Society, vol. 368, no. 9. American Mathematical Society, pp.
6131–6157, 2016.
ista: Lewin M, Nam P, Rougerie N. 2016. The mean-field approximation and the non-linear
Schrödinger functional for trapped Bose gases. Transactions of the American Mathematical
Society. 368(9), 6131–6157.
mla: Lewin, Mathieu, et al. “The Mean-Field Approximation and the Non-Linear Schrödinger
Functional for Trapped Bose Gases.” Transactions of the American Mathematical
Society, vol. 368, no. 9, American Mathematical Society, 2016, pp. 6131–57,
doi:10.1090/tran/6537.
short: M. Lewin, P. Nam, N. Rougerie, Transactions of the American Mathematical
Society 368 (2016) 6131–6157.
date_created: 2018-12-11T11:52:20Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2021-01-12T06:51:07Z
day: '01'
department:
- _id: RoSe
doi: 10.1090/tran/6537
intvolume: ' 368'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1405.3220
month: '01'
oa: 1
oa_version: Submitted Version
page: 6131 - 6157
publication: Transactions of the American Mathematical Society
publication_status: published
publisher: American Mathematical Society
publist_id: '5692'
quality_controlled: '1'
scopus_import: 1
status: public
title: The mean-field approximation and the non-linear Schrödinger functional for
trapped Bose gases
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 368
year: '2016'
...