---
_id: '14310'
article_processing_charge: No
author:
- first_name: Mahsa
full_name: Siavashpouri, Mahsa
last_name: Siavashpouri
- first_name: Christian
full_name: Wachauf, Christian
last_name: Wachauf
- first_name: Mark
full_name: Zakhary, Mark
last_name: Zakhary
- first_name: Florian M
full_name: Praetorius, Florian M
id: dfec9381-4341-11ee-8fd8-faa02bba7d62
last_name: Praetorius
- first_name: Hendrik
full_name: Dietz, Hendrik
last_name: Dietz
- first_name: Zvonimir
full_name: Dogic, Zvonimir
last_name: Dogic
citation:
ama: 'Siavashpouri M, Wachauf C, Zakhary M, Praetorius FM, Dietz H, Dogic Z. Molecular
engineering of colloidal liquid crystals using DNA origami. In: APS March Meeting
2017. APS; 2017.'
apa: Siavashpouri, M., Wachauf, C., Zakhary, M., Praetorius, F. M., Dietz, H., &
Dogic, Z. (2017). Molecular engineering of colloidal liquid crystals using DNA
origami. In APS March Meeting 2017. APS.
chicago: Siavashpouri, Mahsa, Christian Wachauf, Mark Zakhary, Florian M Praetorius,
Hendrik Dietz, and Zvonimir Dogic. “Molecular Engineering of Colloidal Liquid
Crystals Using DNA Origami.” In APS March Meeting 2017. APS, 2017.
ieee: M. Siavashpouri, C. Wachauf, M. Zakhary, F. M. Praetorius, H. Dietz, and Z.
Dogic, “Molecular engineering of colloidal liquid crystals using DNA origami,”
in APS March Meeting 2017, 2017.
ista: Siavashpouri M, Wachauf C, Zakhary M, Praetorius FM, Dietz H, Dogic Z. 2017.
Molecular engineering of colloidal liquid crystals using DNA origami. APS March
Meeting 2017. .
mla: Siavashpouri, Mahsa, et al. “Molecular Engineering of Colloidal Liquid Crystals
Using DNA Origami.” APS March Meeting 2017, APS, 2017.
short: M. Siavashpouri, C. Wachauf, M. Zakhary, F.M. Praetorius, H. Dietz, Z. Dogic,
in:, APS March Meeting 2017, APS, 2017.
date_created: 2023-09-06T13:40:20Z
date_published: 2017-03-01T00:00:00Z
date_updated: 2023-11-07T11:36:15Z
day: '01'
extern: '1'
language:
- iso: eng
month: '03'
oa_version: None
publication: APS March Meeting 2017
publication_status: published
publisher: APS
quality_controlled: '1'
status: public
title: Molecular engineering of colloidal liquid crystals using DNA origami
type: conference_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
OA_type: free access
_id: '1433'
abstract:
- lang: eng
text: Phat is an open-source C. ++ library for the computation of persistent homology
by matrix reduction, targeted towards developers of software for topological data
analysis. We aim for a simple generic design that decouples algorithms from data
structures without sacrificing efficiency or user-friendliness. We provide numerous
different reduction strategies as well as data types to store and manipulate the
boundary matrix. We compare the different combinations through extensive experimental
evaluation and identify optimization techniques that work well in practical situations.
We also compare our software with various other publicly available libraries for
persistent homology.
acknowledgement: Michael Kerber acknowledges support by the Max Planck Center for
Visual Computing and Communications (FKZ-01IMC01 and FKZ-01IM10001). Ulrich Bauer,
Jan Reininghaus, and Hubert Wagner acknowledge support by the EU Project TOPOSYS
(FP7-ICT-318493-STREP).
article_processing_charge: No
article_type: original
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
last_name: Bauer
- first_name: Michael
full_name: Kerber, Michael
last_name: Kerber
- first_name: Jan
full_name: Reininghaus, Jan
last_name: Reininghaus
- first_name: Hubert
full_name: Wagner, Hubert
id: 379CA8B8-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0009-0009-9111-8429
citation:
ama: Bauer U, Kerber M, Reininghaus J, Wagner H. Phat - Persistent homology algorithms
toolbox. Journal of Symbolic Computation. 2017;78:76-90. doi:10.1016/j.jsc.2016.03.008
apa: Bauer, U., Kerber, M., Reininghaus, J., & Wagner, H. (2017). Phat - Persistent
homology algorithms toolbox. Journal of Symbolic Computation. Academic
Press. https://doi.org/10.1016/j.jsc.2016.03.008
chicago: Bauer, Ulrich, Michael Kerber, Jan Reininghaus, and Hubert Wagner. “Phat
- Persistent Homology Algorithms Toolbox.” Journal of Symbolic Computation.
Academic Press, 2017. https://doi.org/10.1016/j.jsc.2016.03.008.
ieee: U. Bauer, M. Kerber, J. Reininghaus, and H. Wagner, “Phat - Persistent homology
algorithms toolbox,” Journal of Symbolic Computation, vol. 78. Academic
Press, pp. 76–90, 2017.
ista: Bauer U, Kerber M, Reininghaus J, Wagner H. 2017. Phat - Persistent homology
algorithms toolbox. Journal of Symbolic Computation. 78, 76–90.
mla: Bauer, Ulrich, et al. “Phat - Persistent Homology Algorithms Toolbox.” Journal
of Symbolic Computation, vol. 78, Academic Press, 2017, pp. 76–90, doi:10.1016/j.jsc.2016.03.008.
short: U. Bauer, M. Kerber, J. Reininghaus, H. Wagner, Journal of Symbolic Computation
78 (2017) 76–90.
corr_author: '1'
date_created: 2018-12-11T11:51:59Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2026-06-18T17:35:16Z
day: '01'
ddc:
- '500'
department:
- _id: HeEd
doi: 10.1016/j.jsc.2016.03.008
ec_funded: 1
external_id:
isi:
- '000384396000005'
intvolume: ' 78'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.jsc.2016.03.008
month: '01'
oa: 1
oa_version: Published Version
page: 76 - 90
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Journal of Symbolic Computation
publication_identifier:
issn:
- ' 0747-7171'
publication_status: published
publisher: Academic Press
publist_id: '5765'
quality_controlled: '1'
related_material:
record:
- id: '10894'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Phat - Persistent homology algorithms toolbox
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 78
year: '2017'
...
---
_id: '15154'
abstract:
- lang: eng
text: Biofilm formation is critical for the infection cycle of Vibrio cholerae.
Vibrio exopolysaccharides (VPS) and the matrix proteins RbmA, Bap1 and RbmC are
required for the development of biofilm architecture. We demonstrate that RbmA
binds VPS directly and uses a binary structural switch within its first fibronectin
type III (FnIII-1) domain to control RbmA structural dynamics and the formation
of VPS-dependent higher-order structures. The structural switch in FnIII-1 regulates
interactions in trans with the FnIII-2 domain, leading to open (monomeric) or
closed (dimeric) interfaces. The ability of RbmA to switch between open and closed
states is important for V. cholerae biofilm formation, as RbmA variants with switches
that are locked in either of the two states lead to biofilms with altered architecture
and structural integrity.
article_number: '26163'
article_processing_charge: Yes
article_type: original
author:
- first_name: Jiunn CN
full_name: Fong, Jiunn CN
last_name: Fong
- first_name: Andrew
full_name: Rogers, Andrew
last_name: Rogers
- first_name: Alicia Kathleen
full_name: Michael, Alicia Kathleen
id: 6437c950-2a03-11ee-914d-d6476dd7b75c
last_name: Michael
- first_name: Nicole C
full_name: Parsley, Nicole C
last_name: Parsley
- first_name: William-Cole
full_name: Cornell, William-Cole
last_name: Cornell
- first_name: Yu-Cheng
full_name: Lin, Yu-Cheng
last_name: Lin
- first_name: Praveen K
full_name: Singh, Praveen K
last_name: Singh
- first_name: Raimo
full_name: Hartmann, Raimo
last_name: Hartmann
- first_name: Knut
full_name: Drescher, Knut
last_name: Drescher
- first_name: Evgeny
full_name: Vinogradov, Evgeny
last_name: Vinogradov
- first_name: Lars EP
full_name: Dietrich, Lars EP
last_name: Dietrich
- first_name: Carrie L
full_name: Partch, Carrie L
last_name: Partch
- first_name: Fitnat H
full_name: Yildiz, Fitnat H
last_name: Yildiz
citation:
ama: Fong JC, Rogers A, Michael AK, et al. Structural dynamics of RbmA governs plasticity
of Vibrio cholerae biofilms. eLife. 2017;6. doi:10.7554/elife.26163
apa: Fong, J. C., Rogers, A., Michael, A. K., Parsley, N. C., Cornell, W.-C., Lin,
Y.-C., … Yildiz, F. H. (2017). Structural dynamics of RbmA governs plasticity
of Vibrio cholerae biofilms. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.26163
chicago: Fong, Jiunn CN, Andrew Rogers, Alicia K. Michael, Nicole C Parsley, William-Cole
Cornell, Yu-Cheng Lin, Praveen K Singh, et al. “Structural Dynamics of RbmA Governs
Plasticity of Vibrio Cholerae Biofilms.” ELife. eLife Sciences Publications,
2017. https://doi.org/10.7554/elife.26163.
ieee: J. C. Fong et al., “Structural dynamics of RbmA governs plasticity
of Vibrio cholerae biofilms,” eLife, vol. 6. eLife Sciences Publications,
2017.
ista: Fong JC, Rogers A, Michael AK, Parsley NC, Cornell W-C, Lin Y-C, Singh PK,
Hartmann R, Drescher K, Vinogradov E, Dietrich LE, Partch CL, Yildiz FH. 2017.
Structural dynamics of RbmA governs plasticity of Vibrio cholerae biofilms. eLife.
6, 26163.
mla: Fong, Jiunn CN, et al. “Structural Dynamics of RbmA Governs Plasticity of Vibrio
Cholerae Biofilms.” ELife, vol. 6, 26163, eLife Sciences Publications,
2017, doi:10.7554/elife.26163.
short: J.C. Fong, A. Rogers, A.K. Michael, N.C. Parsley, W.-C. Cornell, Y.-C. Lin,
P.K. Singh, R. Hartmann, K. Drescher, E. Vinogradov, L.E. Dietrich, C.L. Partch,
F.H. Yildiz, ELife 6 (2017).
date_created: 2024-03-21T07:55:36Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2024-03-25T12:22:54Z
day: '01'
doi: 10.7554/elife.26163
extern: '1'
external_id:
pmid:
- '28762945'
intvolume: ' 6'
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Medicine
- General Neuroscience
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.7554/eLife.26163
month: '08'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structural dynamics of RbmA governs plasticity of Vibrio cholerae biofilms
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2017'
...
---
_id: '15155'
abstract:
- lang: eng
text: The C-terminal transactivation domain (TAD) of BMAL1 (brain and muscle ARNT-like
1) is a regulatory hub for transcriptional coactivators and repressors that compete
for binding and, consequently, contributes to period determination of the mammalian
circadian clock. Here, we report the discovery of two distinct conformational
states that slowly exchange within the dynamic TAD to control timing. This binary
switch results from cis/trans isomerization about a highly conserved Trp-Pro imide
bond in a region of the TAD that is required for normal circadian timekeeping.
Both cis and trans isomers interact with transcriptional regulators, suggesting
that isomerization could serve a role in assembling regulatory complexes in vivo.
Toward this end, we show that locking the switch into the trans isomer leads to
shortened circadian periods. Furthermore, isomerization is regulated by the cyclophilin
family of peptidyl-prolyl isomerases, highlighting the potential for regulation
of BMAL1 protein dynamics in period determination.
article_processing_charge: No
article_type: original
author:
- first_name: Chelsea L.
full_name: Gustafson, Chelsea L.
last_name: Gustafson
- first_name: Nicole C.
full_name: Parsley, Nicole C.
last_name: Parsley
- first_name: Hande
full_name: Asimgil, Hande
last_name: Asimgil
- first_name: Hsiau-Wei
full_name: Lee, Hsiau-Wei
last_name: Lee
- first_name: Christopher
full_name: Ahlbach, Christopher
last_name: Ahlbach
- first_name: Alicia Kathleen
full_name: Michael, Alicia Kathleen
id: 6437c950-2a03-11ee-914d-d6476dd7b75c
last_name: Michael
- first_name: Haiyan
full_name: Xu, Haiyan
last_name: Xu
- first_name: Owen L.
full_name: Williams, Owen L.
last_name: Williams
- first_name: Tara L.
full_name: Davis, Tara L.
last_name: Davis
- first_name: Andrew C.
full_name: Liu, Andrew C.
last_name: Liu
- first_name: Carrie L.
full_name: Partch, Carrie L.
last_name: Partch
citation:
ama: Gustafson CL, Parsley NC, Asimgil H, et al. A slow conformational switch in
the BMAL1 transactivation domain modulates circadian rhythms. Molecular Cell.
2017;66(4):447-457.e7. doi:10.1016/j.molcel.2017.04.011
apa: Gustafson, C. L., Parsley, N. C., Asimgil, H., Lee, H.-W., Ahlbach, C., Michael,
A. K., … Partch, C. L. (2017). A slow conformational switch in the BMAL1 transactivation
domain modulates circadian rhythms. Molecular Cell. Elsevier. https://doi.org/10.1016/j.molcel.2017.04.011
chicago: Gustafson, Chelsea L., Nicole C. Parsley, Hande Asimgil, Hsiau-Wei Lee,
Christopher Ahlbach, Alicia K. Michael, Haiyan Xu, et al. “A Slow Conformational
Switch in the BMAL1 Transactivation Domain Modulates Circadian Rhythms.” Molecular
Cell. Elsevier, 2017. https://doi.org/10.1016/j.molcel.2017.04.011.
ieee: C. L. Gustafson et al., “A slow conformational switch in the BMAL1
transactivation domain modulates circadian rhythms,” Molecular Cell, vol.
66, no. 4. Elsevier, p. 447–457.e7, 2017.
ista: Gustafson CL, Parsley NC, Asimgil H, Lee H-W, Ahlbach C, Michael AK, Xu H,
Williams OL, Davis TL, Liu AC, Partch CL. 2017. A slow conformational switch in
the BMAL1 transactivation domain modulates circadian rhythms. Molecular Cell.
66(4), 447–457.e7.
mla: Gustafson, Chelsea L., et al. “A Slow Conformational Switch in the BMAL1 Transactivation
Domain Modulates Circadian Rhythms.” Molecular Cell, vol. 66, no. 4, Elsevier,
2017, p. 447–457.e7, doi:10.1016/j.molcel.2017.04.011.
short: C.L. Gustafson, N.C. Parsley, H. Asimgil, H.-W. Lee, C. Ahlbach, A.K. Michael,
H. Xu, O.L. Williams, T.L. Davis, A.C. Liu, C.L. Partch, Molecular Cell 66 (2017)
447–457.e7.
date_created: 2024-03-21T07:56:01Z
date_published: 2017-05-18T00:00:00Z
date_updated: 2024-03-25T12:19:20Z
day: '18'
doi: 10.1016/j.molcel.2017.04.011
extern: '1'
intvolume: ' 66'
issue: '4'
keyword:
- Cell Biology
- Molecular Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.molcel.2017.04.011
month: '05'
oa: 1
oa_version: Published Version
page: 447-457.e7
publication: Molecular Cell
publication_identifier:
issn:
- 1097-2765
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: A slow conformational switch in the BMAL1 transactivation domain modulates
circadian rhythms
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 66
year: '2017'
...
---
_id: '15156'
abstract:
- lang: eng
text: Circadian clocks are ubiquitous timing systems that induce rhythms of biological
activities in synchrony with night and day. In cyanobacteria, timing is generated
by a posttranslational clock consisting of KaiA, KaiB, and KaiC proteins and a
set of output signaling proteins, SasA and CikA, which transduce this rhythm to
control gene expression. Here, we describe crystal and nuclear magnetic resonance
structures of KaiB-KaiC,KaiA-KaiB-KaiC, and CikA-KaiB complexes. They reveal how
the metamorphic properties of KaiB, a protein that adopts two distinct folds,
and the post–adenosine triphosphate hydrolysis state of KaiC create a hub around
which nighttime signaling events revolve, including inactivation of KaiA and reciprocal
regulation of the mutually antagonistic signaling proteins, SasA and CikA.
article_processing_charge: No
article_type: original
author:
- first_name: Roger
full_name: Tseng, Roger
last_name: Tseng
- first_name: Nicolette F.
full_name: Goularte, Nicolette F.
last_name: Goularte
- first_name: Archana
full_name: Chavan, Archana
last_name: Chavan
- first_name: Jansen
full_name: Luu, Jansen
last_name: Luu
- first_name: Susan E.
full_name: Cohen, Susan E.
last_name: Cohen
- first_name: Yong-Gang
full_name: Chang, Yong-Gang
last_name: Chang
- first_name: Joel
full_name: Heisler, Joel
last_name: Heisler
- first_name: Sheng
full_name: Li, Sheng
last_name: Li
- first_name: Alicia Kathleen
full_name: Michael, Alicia Kathleen
id: 6437c950-2a03-11ee-914d-d6476dd7b75c
last_name: Michael
- first_name: Sarvind
full_name: Tripathi, Sarvind
last_name: Tripathi
- first_name: Susan S.
full_name: Golden, Susan S.
last_name: Golden
- first_name: Andy
full_name: LiWang, Andy
last_name: LiWang
- first_name: Carrie L.
full_name: Partch, Carrie L.
last_name: Partch
citation:
ama: Tseng R, Goularte NF, Chavan A, et al. Structural basis of the day-night transition
in a bacterial circadian clock. Science. 2017;355(6330):1174-1180. doi:10.1126/science.aag2516
apa: Tseng, R., Goularte, N. F., Chavan, A., Luu, J., Cohen, S. E., Chang, Y.-G.,
… Partch, C. L. (2017). Structural basis of the day-night transition in a bacterial
circadian clock. Science. American Association for the Advancement of Science.
https://doi.org/10.1126/science.aag2516
chicago: Tseng, Roger, Nicolette F. Goularte, Archana Chavan, Jansen Luu, Susan
E. Cohen, Yong-Gang Chang, Joel Heisler, et al. “Structural Basis of the Day-Night
Transition in a Bacterial Circadian Clock.” Science. American Association
for the Advancement of Science, 2017. https://doi.org/10.1126/science.aag2516.
ieee: R. Tseng et al., “Structural basis of the day-night transition in a
bacterial circadian clock,” Science, vol. 355, no. 6330. American Association
for the Advancement of Science, pp. 1174–1180, 2017.
ista: Tseng R, Goularte NF, Chavan A, Luu J, Cohen SE, Chang Y-G, Heisler J, Li
S, Michael AK, Tripathi S, Golden SS, LiWang A, Partch CL. 2017. Structural basis
of the day-night transition in a bacterial circadian clock. Science. 355(6330),
1174–1180.
mla: Tseng, Roger, et al. “Structural Basis of the Day-Night Transition in a Bacterial
Circadian Clock.” Science, vol. 355, no. 6330, American Association for
the Advancement of Science, 2017, pp. 1174–80, doi:10.1126/science.aag2516.
short: R. Tseng, N.F. Goularte, A. Chavan, J. Luu, S.E. Cohen, Y.-G. Chang, J. Heisler,
S. Li, A.K. Michael, S. Tripathi, S.S. Golden, A. LiWang, C.L. Partch, Science
355 (2017) 1174–1180.
date_created: 2024-03-21T07:56:24Z
date_published: 2017-03-17T00:00:00Z
date_updated: 2024-03-25T12:16:44Z
day: '17'
doi: 10.1126/science.aag2516
extern: '1'
intvolume: ' 355'
issue: '6330'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '03'
oa_version: None
page: 1174-1180
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structural basis of the day-night transition in a bacterial circadian clock
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 355
year: '2017'
...
---
_id: '15157'
abstract:
- lang: eng
text: The basic helix–loop–helix PAS domain (bHLH-PAS) transcription factor CLOCK:BMAL1
(brain and muscle Arnt-like protein 1) sits at the core of the mammalian circadian
transcription/translation feedback loop. Precise control of CLOCK:BMAL1 activity
by coactivators and repressors establishes the ∼24-h periodicity of gene expression.
Formation of a repressive complex, defined by the core clock proteins cryptochrome
1 (CRY1):CLOCK:BMAL1, plays an important role controlling the switch from repression
to activation each day. Here we show that CRY1 binds directly to the PAS domain
core of CLOCK:BMAL1, driven primarily by interaction with the CLOCK PAS-B domain.
Integrative modeling and solution X-ray scattering studies unambiguously position
a key loop of the CLOCK PAS-B domain in the secondary pocket of CRY1, analogous
to the antenna chromophore-binding pocket of photolyase. CRY1 docks onto the transcription
factor alongside the PAS domains, extending above the DNA-binding bHLH domain.
Single point mutations at the interface on either CRY1 or CLOCK disrupt formation
of the ternary complex, highlighting the importance of this interface for direct
regulation of CLOCK:BMAL1 activity by CRY1.
article_processing_charge: No
article_type: original
author:
- first_name: Alicia Kathleen
full_name: Michael, Alicia Kathleen
id: 6437c950-2a03-11ee-914d-d6476dd7b75c
last_name: Michael
- first_name: Jennifer L.
full_name: Fribourgh, Jennifer L.
last_name: Fribourgh
- first_name: Yogarany
full_name: Chelliah, Yogarany
last_name: Chelliah
- first_name: Colby R.
full_name: Sandate, Colby R.
last_name: Sandate
- first_name: Greg L.
full_name: Hura, Greg L.
last_name: Hura
- first_name: Dina
full_name: Schneidman-Duhovny, Dina
last_name: Schneidman-Duhovny
- first_name: Sarvind M.
full_name: Tripathi, Sarvind M.
last_name: Tripathi
- first_name: Joseph S.
full_name: Takahashi, Joseph S.
last_name: Takahashi
- first_name: Carrie L.
full_name: Partch, Carrie L.
last_name: Partch
citation:
ama: Michael AK, Fribourgh JL, Chelliah Y, et al. Formation of a repressive complex
in the mammalian circadian clock is mediated by the secondary pocket of CRY1.
Proceedings of the National Academy of Sciences. 2017;114(7):1560-1565.
doi:10.1073/pnas.1615310114
apa: Michael, A. K., Fribourgh, J. L., Chelliah, Y., Sandate, C. R., Hura, G. L.,
Schneidman-Duhovny, D., … Partch, C. L. (2017). Formation of a repressive complex
in the mammalian circadian clock is mediated by the secondary pocket of CRY1.
Proceedings of the National Academy of Sciences. Proceedings of the National
Academy of Sciences. https://doi.org/10.1073/pnas.1615310114
chicago: Michael, Alicia K., Jennifer L. Fribourgh, Yogarany Chelliah, Colby R.
Sandate, Greg L. Hura, Dina Schneidman-Duhovny, Sarvind M. Tripathi, Joseph S.
Takahashi, and Carrie L. Partch. “Formation of a Repressive Complex in the Mammalian
Circadian Clock Is Mediated by the Secondary Pocket of CRY1.” Proceedings of
the National Academy of Sciences. Proceedings of the National Academy of Sciences,
2017. https://doi.org/10.1073/pnas.1615310114.
ieee: A. K. Michael et al., “Formation of a repressive complex in the mammalian
circadian clock is mediated by the secondary pocket of CRY1,” Proceedings of
the National Academy of Sciences, vol. 114, no. 7. Proceedings of the National
Academy of Sciences, pp. 1560–1565, 2017.
ista: Michael AK, Fribourgh JL, Chelliah Y, Sandate CR, Hura GL, Schneidman-Duhovny
D, Tripathi SM, Takahashi JS, Partch CL. 2017. Formation of a repressive complex
in the mammalian circadian clock is mediated by the secondary pocket of CRY1.
Proceedings of the National Academy of Sciences. 114(7), 1560–1565.
mla: Michael, Alicia K., et al. “Formation of a Repressive Complex in the Mammalian
Circadian Clock Is Mediated by the Secondary Pocket of CRY1.” Proceedings of
the National Academy of Sciences, vol. 114, no. 7, Proceedings of the National
Academy of Sciences, 2017, pp. 1560–65, doi:10.1073/pnas.1615310114.
short: A.K. Michael, J.L. Fribourgh, Y. Chelliah, C.R. Sandate, G.L. Hura, D. Schneidman-Duhovny,
S.M. Tripathi, J.S. Takahashi, C.L. Partch, Proceedings of the National Academy
of Sciences 114 (2017) 1560–1565.
date_created: 2024-03-21T07:56:50Z
date_published: 2017-01-31T00:00:00Z
date_updated: 2024-03-25T12:12:23Z
day: '31'
doi: 10.1073/pnas.1615310114
extern: '1'
external_id:
pmid:
- '28143926'
intvolume: ' 114'
issue: '7'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1615310114
month: '01'
oa: 1
oa_version: Published Version
page: 1560-1565
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Formation of a repressive complex in the mammalian circadian clock is mediated
by the secondary pocket of CRY1
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '15158'
abstract:
- lang: eng
text: 'Cryptochromes are evolutionarily related to the light‐dependent DNA repair
enzyme photolyase, serving as major regulators of circadian rhythms in insects
and vertebrate animals. There are two types of cryptochromes in the animal kingdom:
Drosophila‐like CRYs that act as nonvisual photopigments
linking circadian rhythms to the environmental light/dark cycle, and vertebrate‐like
CRYs that do not appear to sense light directly, but control the generation of
circadian rhythms by acting as transcriptional repressors. Some animals have both
types of CRYs, while others possess only one. Cryptochromes have two domains,
the photolyase homology region (PHR) and an extended, intrinsically disordered
C‐terminus. While all animal CRYs share a high degree of sequence and structural
homology in their PHR domains, the C‐termini are divergent in both length and
sequence identity. Recently, cryptochrome function has been shown to extend beyond
its pivotal role in circadian clocks, participating in regulation of the DNA damage
response, cancer progression and glucocorticoid signaling, as well as being implicated
as possible magnetoreceptors. In this review, we provide a historical perspective
on the discovery of animal cryptochromes, examine similarities and differences
of the two types of animal cryptochromes and explore some of the divergent roles
for this class of proteins.'
article_processing_charge: No
article_type: original
author:
- first_name: Alicia Kathleen
full_name: Michael, Alicia Kathleen
id: 6437c950-2a03-11ee-914d-d6476dd7b75c
last_name: Michael
- first_name: Jennifer L.
full_name: Fribourgh, Jennifer L.
last_name: Fribourgh
- first_name: Russell N.
full_name: Van Gelder, Russell N.
last_name: Van Gelder
- first_name: Carrie L.
full_name: Partch, Carrie L.
last_name: Partch
citation:
ama: 'Michael AK, Fribourgh JL, Van Gelder RN, Partch CL. Animal cryptochromes:
Divergent roles in light perception, circadian timekeeping and beyond. Photochemistry
and Photobiology. 2017;93(1):128-140. doi:10.1111/php.12677'
apa: 'Michael, A. K., Fribourgh, J. L., Van Gelder, R. N., & Partch, C. L. (2017).
Animal cryptochromes: Divergent roles in light perception, circadian timekeeping
and beyond. Photochemistry and Photobiology. Wiley. https://doi.org/10.1111/php.12677'
chicago: 'Michael, Alicia K., Jennifer L. Fribourgh, Russell N. Van Gelder, and
Carrie L. Partch. “Animal Cryptochromes: Divergent Roles in Light Perception,
Circadian Timekeeping and Beyond.” Photochemistry and Photobiology. Wiley,
2017. https://doi.org/10.1111/php.12677.'
ieee: 'A. K. Michael, J. L. Fribourgh, R. N. Van Gelder, and C. L. Partch, “Animal
cryptochromes: Divergent roles in light perception, circadian timekeeping and
beyond,” Photochemistry and Photobiology, vol. 93, no. 1. Wiley, pp. 128–140,
2017.'
ista: 'Michael AK, Fribourgh JL, Van Gelder RN, Partch CL. 2017. Animal cryptochromes:
Divergent roles in light perception, circadian timekeeping and beyond. Photochemistry
and Photobiology. 93(1), 128–140.'
mla: 'Michael, Alicia K., et al. “Animal Cryptochromes: Divergent Roles in Light
Perception, Circadian Timekeeping and Beyond.” Photochemistry and Photobiology,
vol. 93, no. 1, Wiley, 2017, pp. 128–40, doi:10.1111/php.12677.'
short: A.K. Michael, J.L. Fribourgh, R.N. Van Gelder, C.L. Partch, Photochemistry
and Photobiology 93 (2017) 128–140.
date_created: 2024-03-21T07:57:18Z
date_published: 2017-02-01T00:00:00Z
date_updated: 2024-03-25T12:09:21Z
day: '01'
doi: 10.1111/php.12677
extern: '1'
intvolume: ' 93'
issue: '1'
keyword:
- Physical and Theoretical Chemistry
- General Medicine
- Biochemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/php.12677
month: '02'
oa: 1
oa_version: Published Version
page: 128-140
publication: Photochemistry and Photobiology
publication_identifier:
eissn:
- 1751-1097
issn:
- 0031-8655
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Animal cryptochromes: Divergent roles in light perception, circadian timekeeping
and beyond'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2017'
...
---
_id: '15239'
abstract:
- lang: eng
text: Using images from the Hubble Space Telescope Advanced Camera for Surveys,
we measure the rate of cooling of white dwarfs in the globular cluster 47 Tucanae
and compare it to modelled cooling curves. We examine the effects of the outer
convective envelope reaching the nearly isothermal degenerate core and the release
of latent heat during core crystallization on the white dwarf cooling rates. For
white dwarfs typical of 47 Tuc, the onset of these effects occur at similar times.
The latent heat released during crystallization is a small heat source. In contrast,
the heat reservoir of the degenerate core is substantially larger. When the convective
envelope reaches the nearly isothermal interior of the white dwarf, the star becomes
brighter than it would be in the absence of this effect. Our modelled cooling
curves that include this convective coupling closely match the observed luminosity
function of the white dwarfs in 47 Tuc.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alysa
full_name: Obertas, Alysa
last_name: Obertas
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: Jeremy
full_name: Heyl, Jeremy
last_name: Heyl
- first_name: Harvey
full_name: Richer, Harvey
last_name: Richer
- first_name: Jason
full_name: Kalirai, Jason
last_name: Kalirai
- first_name: Pier-Emmanuel
full_name: Tremblay, Pier-Emmanuel
last_name: Tremblay
citation:
ama: Obertas A, Caiazzo I, Heyl J, Richer H, Kalirai J, Tremblay P-E. The onset
of convective coupling and freezing in the white dwarfs of 47 Tucanae. Monthly
Notices of the Royal Astronomical Society. 2017;474(1):677-682. doi:10.1093/mnras/stx2759
apa: Obertas, A., Caiazzo, I., Heyl, J., Richer, H., Kalirai, J., & Tremblay,
P.-E. (2017). The onset of convective coupling and freezing in the white dwarfs
of 47 Tucanae. Monthly Notices of the Royal Astronomical Society. Oxford
University Press. https://doi.org/10.1093/mnras/stx2759
chicago: Obertas, Alysa, Ilaria Caiazzo, Jeremy Heyl, Harvey Richer, Jason Kalirai,
and Pier-Emmanuel Tremblay. “The Onset of Convective Coupling and Freezing in
the White Dwarfs of 47 Tucanae.” Monthly Notices of the Royal Astronomical
Society. Oxford University Press, 2017. https://doi.org/10.1093/mnras/stx2759.
ieee: A. Obertas, I. Caiazzo, J. Heyl, H. Richer, J. Kalirai, and P.-E. Tremblay,
“The onset of convective coupling and freezing in the white dwarfs of 47 Tucanae,”
Monthly Notices of the Royal Astronomical Society, vol. 474, no. 1. Oxford
University Press, pp. 677–682, 2017.
ista: Obertas A, Caiazzo I, Heyl J, Richer H, Kalirai J, Tremblay P-E. 2017. The
onset of convective coupling and freezing in the white dwarfs of 47 Tucanae. Monthly
Notices of the Royal Astronomical Society. 474(1), 677–682.
mla: Obertas, Alysa, et al. “The Onset of Convective Coupling and Freezing in the
White Dwarfs of 47 Tucanae.” Monthly Notices of the Royal Astronomical Society,
vol. 474, no. 1, Oxford University Press, 2017, pp. 677–82, doi:10.1093/mnras/stx2759.
short: A. Obertas, I. Caiazzo, J. Heyl, H. Richer, J. Kalirai, P.-E. Tremblay, Monthly
Notices of the Royal Astronomical Society 474 (2017) 677–682.
date_created: 2024-03-26T10:40:05Z
date_published: 2017-10-24T00:00:00Z
date_updated: 2024-04-08T07:04:10Z
day: '24'
doi: 10.1093/mnras/stx2759
extern: '1'
external_id:
arxiv:
- '1709.08097'
intvolume: ' 474'
issue: '1'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1709.08097
month: '10'
oa: 1
oa_version: Preprint
page: 677-682
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: The onset of convective coupling and freezing in the white dwarfs of 47 Tucanae
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 474
year: '2017'
...
---
_id: '15240'
abstract:
- lang: eng
text: "Multi-epoch observations with the Advanced Camera Survey and WFC3 on the
Hubble Space Telescope provide a unique and comprehensive probe of stellar dynamics
within 47 Tucanae. We confront analytic models of the globular cluster with the
observed stellar proper motions that probe along the main sequence from just above
0.8–0.1M⊙ as well as white dwarfs younger than 1 Gyr. One field lies just beyond
the half-light radius where dynamical models (e.g., lowered Maxwellian distributions)
make robust predictions for the stellar proper motions. The observed proper motions
in this outer field show evidence for anisotropy in the velocity distribution
as well as skewness; the latter is evidence of rotation. The measured velocity
dispersions and surface brightness distributions agree in detail with a rotating
anisotropic model of the stellar distribution function with mild dependence of
the proper-motion dispersion on mass. However, the best-fitting models underpredict
the rotation and skewness of the stellar velocities. In the second field, centered
on the core of the cluster, the mass segregation in proper motion is much stronger.
Nevertheless the model developed in the outer field can be extended inward by
taking this mass segregation into account in a heuristic fashion. The proper motions
of the main-sequence stars yield a mass estimate of the cluster of \r\n at a distance
of 4.7 kpc. By comparing the proper motions of a sample of giant and subgiant
stars with the observed radial velocities we estimate the distance to the cluster
kinematically to be 4.29 ± 0.47 kpc."
article_number: '186'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: J.
full_name: Heyl, J.
last_name: Heyl
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: H.
full_name: Richer, H.
last_name: Richer
- first_name: J.
full_name: Anderson, J.
last_name: Anderson
- first_name: J.
full_name: Kalirai, J.
last_name: Kalirai
- first_name: J.
full_name: Parada, J.
last_name: Parada
citation:
ama: 'Heyl J, Caiazzo I, Richer H, Anderson J, Kalirai J, Parada J. Deep HST imaging
in 47 Tucanae: A global dynamical model. The Astrophysical Journal. 2017;850(2).
doi:10.3847/1538-4357/aa974f'
apa: 'Heyl, J., Caiazzo, I., Richer, H., Anderson, J., Kalirai, J., & Parada,
J. (2017). Deep HST imaging in 47 Tucanae: A global dynamical model. The Astrophysical
Journal. American Astronomical Society. https://doi.org/10.3847/1538-4357/aa974f'
chicago: 'Heyl, J., Ilaria Caiazzo, H. Richer, J. Anderson, J. Kalirai, and J. Parada.
“Deep HST Imaging in 47 Tucanae: A Global Dynamical Model.” The Astrophysical
Journal. American Astronomical Society, 2017. https://doi.org/10.3847/1538-4357/aa974f.'
ieee: 'J. Heyl, I. Caiazzo, H. Richer, J. Anderson, J. Kalirai, and J. Parada, “Deep
HST imaging in 47 Tucanae: A global dynamical model,” The Astrophysical Journal,
vol. 850, no. 2. American Astronomical Society, 2017.'
ista: 'Heyl J, Caiazzo I, Richer H, Anderson J, Kalirai J, Parada J. 2017. Deep
HST imaging in 47 Tucanae: A global dynamical model. The Astrophysical Journal.
850(2), 186.'
mla: 'Heyl, J., et al. “Deep HST Imaging in 47 Tucanae: A Global Dynamical Model.”
The Astrophysical Journal, vol. 850, no. 2, 186, American Astronomical
Society, 2017, doi:10.3847/1538-4357/aa974f.'
short: J. Heyl, I. Caiazzo, H. Richer, J. Anderson, J. Kalirai, J. Parada, The Astrophysical
Journal 850 (2017).
date_created: 2024-03-26T10:40:23Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2024-04-08T07:04:35Z
day: '01'
doi: 10.3847/1538-4357/aa974f
extern: '1'
external_id:
arxiv:
- '1710.10666'
intvolume: ' 850'
issue: '2'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1710.10666
month: '12'
oa: 1
oa_version: Preprint
publication: The Astrophysical Journal
publication_identifier:
eissn:
- 1538-4357
issn:
- 0004-637X
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Deep HST imaging in 47 Tucanae: A global dynamical model'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 850
year: '2017'
...
---
_id: '15241'
abstract:
- lang: eng
text: We present a model to account for the observed debris discs around young white
dwarfs and the presence of metal lines in their spectra. Stellar evolution models
predict that the mass-loss on the AGB will be pulsed; furthermore, observations
indicate that the bulk of the mass-loss occurs on the AGB. In this case, if the
progenitors of the white dwarfs had remnants of planetary formation like the Sun’s
Oort cloud or the Kuiper Belt and a planet lying within that cloud or nearby,
we find that up to 2 per cent of the planetesimals will fall either into planet-crossing
orbits or into chaotic regions after the mass-loss, depending on the location
and mass of the planet (from Mars to Neptune). This yields a sufficient mass of
comets that can be scattered towards the star, form a debris disc and pollute
the atmosphere.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: Jeremy S.
full_name: Heyl, Jeremy S.
last_name: Heyl
citation:
ama: Caiazzo I, Heyl JS. Polluting white dwarfs with perturbed exo-comets. Monthly
Notices of the Royal Astronomical Society. 2017;469(3):2750-2759. doi:10.1093/mnras/stx1036
apa: Caiazzo, I., & Heyl, J. S. (2017). Polluting white dwarfs with perturbed
exo-comets. Monthly Notices of the Royal Astronomical Society. Oxford University
Press. https://doi.org/10.1093/mnras/stx1036
chicago: Caiazzo, Ilaria, and Jeremy S. Heyl. “Polluting White Dwarfs with Perturbed
Exo-Comets.” Monthly Notices of the Royal Astronomical Society. Oxford
University Press, 2017. https://doi.org/10.1093/mnras/stx1036.
ieee: I. Caiazzo and J. S. Heyl, “Polluting white dwarfs with perturbed exo-comets,”
Monthly Notices of the Royal Astronomical Society, vol. 469, no. 3. Oxford
University Press, pp. 2750–2759, 2017.
ista: Caiazzo I, Heyl JS. 2017. Polluting white dwarfs with perturbed exo-comets.
Monthly Notices of the Royal Astronomical Society. 469(3), 2750–2759.
mla: Caiazzo, Ilaria, and Jeremy S. Heyl. “Polluting White Dwarfs with Perturbed
Exo-Comets.” Monthly Notices of the Royal Astronomical Society, vol. 469,
no. 3, Oxford University Press, 2017, pp. 2750–59, doi:10.1093/mnras/stx1036.
short: I. Caiazzo, J.S. Heyl, Monthly Notices of the Royal Astronomical Society
469 (2017) 2750–2759.
date_created: 2024-03-26T10:40:45Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2024-10-14T12:33:43Z
day: '01'
doi: 10.1093/mnras/stx1036
extern: '1'
external_id:
arxiv:
- '1702.07682'
intvolume: ' 469'
issue: '3'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1702.07682
month: '05'
oa: 1
oa_version: Preprint
page: 2750-2759
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Polluting white dwarfs with perturbed exo-comets
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 469
year: '2017'
...
---
_id: '15243'
abstract:
- lang: eng
text: High-energy (>250 keV) emission has been detected persisting for several tens
of seconds after the initial spike of magnetar giant flares (GFs). It has been
conjectured that this emission might arise via inverse Compton scattering in a
highly extended corona generated by super-Eddington outflows high up in the magnetosphere.
In this paper, we undertake a detailed examination of this model. We investigate
the properties of the required scatterers, and whether the mechanism is consistent
with the degree of pulsed emission observed in the tail of the GF. We conclude
that the mechanism is consistent with current data, although the origin of the
scattering population remains an open question. We propose an alternative picture
in which the emission is closer to that star and is dominated by synchrotron radiation.
The Reuven Ramaty High Energy Solar Spectroscopic Imager observations of the 2004
December flare modestly favour this latter picture. We assess the prospects for
the Fermi Gamma-ray Space Telescope to detect and characterize a similar high-energy
component in a future GF. Such a detection should help to resolve some of the
outstanding issues.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: C.
full_name: Elenbaas, C.
last_name: Elenbaas
- first_name: D.
full_name: Huppenkothen, D.
last_name: Huppenkothen
- first_name: C.
full_name: Omand, C.
last_name: Omand
- first_name: A. L.
full_name: Watts, A. L.
last_name: Watts
- first_name: E.
full_name: Bissaldi, E.
last_name: Bissaldi
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: J.
full_name: Heyl, J.
last_name: Heyl
citation:
ama: Elenbaas C, Huppenkothen D, Omand C, et al. Magnetar giant flare high-energy
emission. Monthly Notices of the Royal Astronomical Society. 2017;471(2):1856-1872.
doi:10.1093/mnras/stx1727
apa: Elenbaas, C., Huppenkothen, D., Omand, C., Watts, A. L., Bissaldi, E., Caiazzo,
I., & Heyl, J. (2017). Magnetar giant flare high-energy emission. Monthly
Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/stx1727
chicago: Elenbaas, C., D. Huppenkothen, C. Omand, A. L. Watts, E. Bissaldi, Ilaria
Caiazzo, and J. Heyl. “Magnetar Giant Flare High-Energy Emission.” Monthly
Notices of the Royal Astronomical Society. Oxford University Press, 2017.
https://doi.org/10.1093/mnras/stx1727.
ieee: C. Elenbaas et al., “Magnetar giant flare high-energy emission,” Monthly
Notices of the Royal Astronomical Society, vol. 471, no. 2. Oxford University
Press, pp. 1856–1872, 2017.
ista: Elenbaas C, Huppenkothen D, Omand C, Watts AL, Bissaldi E, Caiazzo I, Heyl
J. 2017. Magnetar giant flare high-energy emission. Monthly Notices of the Royal
Astronomical Society. 471(2), 1856–1872.
mla: Elenbaas, C., et al. “Magnetar Giant Flare High-Energy Emission.” Monthly
Notices of the Royal Astronomical Society, vol. 471, no. 2, Oxford University
Press, 2017, pp. 1856–72, doi:10.1093/mnras/stx1727.
short: C. Elenbaas, D. Huppenkothen, C. Omand, A.L. Watts, E. Bissaldi, I. Caiazzo,
J. Heyl, Monthly Notices of the Royal Astronomical Society 471 (2017) 1856–1872.
date_created: 2024-03-26T10:41:24Z
date_published: 2017-07-13T00:00:00Z
date_updated: 2024-04-08T07:05:47Z
day: '13'
doi: 10.1093/mnras/stx1727
extern: '1'
external_id:
arxiv:
- '1707.02922'
intvolume: ' 471'
issue: '2'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1707.02922
month: '07'
oa: 1
oa_version: Preprint
page: 1856-1872
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Magnetar giant flare high-energy emission
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 471
year: '2017'
...
---
_id: '1528'
abstract:
- lang: eng
text: 'We consider N×N Hermitian random matrices H consisting of blocks of size
M≥N6/7. The matrix elements are i.i.d. within the blocks, close to a Gaussian
in the four moment matching sense, but their distribution varies from block to
block to form a block-band structure, with an essential band width M. We show
that the entries of the Green’s function G(z)=(H−z)−1 satisfy the local semicircle
law with spectral parameter z=E+iη down to the real axis for any η≫N−1, using
a combination of the supersymmetry method inspired by Shcherbina (J Stat Phys
155(3): 466–499, 2014) and the Green’s function comparison strategy. Previous
estimates were valid only for η≫M−1. The new estimate also implies that the eigenvectors
in the middle of the spectrum are fully delocalized.'
acknowledgement: "Z. Bao was supported by ERC Advanced Grant RANMAT No. 338804; L.
Erdős was partially supported by ERC Advanced Grant RANMAT No. 338804.\r\nOpen access
funding provided by Institute of Science and Technology (IST Austria). The authors
are very grateful to the anonymous referees for careful reading and valuable comments,
which helped to improve the organization."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Zhigang
full_name: Bao, Zhigang
id: 442E6A6C-F248-11E8-B48F-1D18A9856A87
last_name: Bao
orcid: 0000-0003-3036-1475
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: Bao Z, Erdös L. Delocalization for a class of random block band matrices. Probability
Theory and Related Fields. 2017;167(3-4):673-776. doi:10.1007/s00440-015-0692-y
apa: Bao, Z., & Erdös, L. (2017). Delocalization for a class of random block
band matrices. Probability Theory and Related Fields. Springer. https://doi.org/10.1007/s00440-015-0692-y
chicago: Bao, Zhigang, and László Erdös. “Delocalization for a Class of Random Block
Band Matrices.” Probability Theory and Related Fields. Springer, 2017.
https://doi.org/10.1007/s00440-015-0692-y.
ieee: Z. Bao and L. Erdös, “Delocalization for a class of random block band matrices,”
Probability Theory and Related Fields, vol. 167, no. 3–4. Springer, pp.
673–776, 2017.
ista: Bao Z, Erdös L. 2017. Delocalization for a class of random block band matrices.
Probability Theory and Related Fields. 167(3–4), 673–776.
mla: Bao, Zhigang, and László Erdös. “Delocalization for a Class of Random Block
Band Matrices.” Probability Theory and Related Fields, vol. 167, no. 3–4,
Springer, 2017, pp. 673–776, doi:10.1007/s00440-015-0692-y.
short: Z. Bao, L. Erdös, Probability Theory and Related Fields 167 (2017) 673–776.
corr_author: '1'
date_created: 2018-12-11T11:52:32Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2026-04-16T09:55:56Z
day: '01'
ddc:
- '530'
department:
- _id: LaEr
doi: 10.1007/s00440-015-0692-y
ec_funded: 1
external_id:
isi:
- '000398842700004'
file:
- access_level: open_access
checksum: 67afa85ff1e220cbc1f9f477a828513c
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:05Z
date_updated: 2020-07-14T12:45:00Z
file_id: '4665'
file_name: IST-2016-489-v1+1_s00440-015-0692-y.pdf
file_size: 1615755
relation: main_file
file_date_updated: 2020-07-14T12:45:00Z
has_accepted_license: '1'
intvolume: ' 167'
isi: 1
issue: 3-4
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 673 - 776
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Probability Theory and Related Fields
publication_identifier:
issn:
- 0178-8051
publication_status: published
publisher: Springer
publist_id: '5644'
pubrep_id: '489'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Delocalization for a class of random block band matrices
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 167
year: '2017'
...
---
_id: '169'
abstract:
- lang: eng
text: We show that a twisted variant of Linnik’s conjecture on sums of Kloosterman
sums leads to an optimal covering exponent for S3.
article_processing_charge: No
arxiv: 1
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Vinay
full_name: Kumaraswamy, Vinay
last_name: Kumaraswamy
- first_name: Rapael
full_name: Steiner, Rapael
last_name: Steiner
citation:
ama: Browning TD, Kumaraswamy V, Steiner R. Twisted Linnik implies optimal covering
exponent for S3. International Mathematics Research Notices. 2017. doi:10.1093/imrn/rnx116
apa: Browning, T. D., Kumaraswamy, V., & Steiner, R. (2017). Twisted Linnik
implies optimal covering exponent for S3. International Mathematics Research
Notices. Oxford University Press. https://doi.org/10.1093/imrn/rnx116
chicago: Browning, Timothy D, Vinay Kumaraswamy, and Rapael Steiner. “Twisted Linnik
Implies Optimal Covering Exponent for S3.” International Mathematics Research
Notices. Oxford University Press, 2017. https://doi.org/10.1093/imrn/rnx116.
ieee: T. D. Browning, V. Kumaraswamy, and R. Steiner, “Twisted Linnik implies optimal
covering exponent for S3,” International Mathematics Research Notices.
Oxford University Press, 2017.
ista: Browning TD, Kumaraswamy V, Steiner R. 2017. Twisted Linnik implies optimal
covering exponent for S3. International Mathematics Research Notices.
mla: Browning, Timothy D., et al. “Twisted Linnik Implies Optimal Covering Exponent
for S3.” International Mathematics Research Notices, Oxford University
Press, 2017, doi:10.1093/imrn/rnx116.
short: T.D. Browning, V. Kumaraswamy, R. Steiner, International Mathematics Research
Notices (2017).
date_created: 2018-12-11T11:44:59Z
date_published: 2017-06-19T00:00:00Z
date_updated: 2021-01-12T06:52:32Z
day: '19'
doi: 10.1093/imrn/rnx116
extern: '1'
external_id:
arxiv:
- '1609.06097'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1609.06097
month: '06'
oa: 1
oa_version: None
publication: International Mathematics Research Notices
publication_status: published
publisher: Oxford University Press
publist_id: '7752'
quality_controlled: '1'
status: public
title: Twisted Linnik implies optimal covering exponent for S3
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '172'
abstract:
- lang: eng
text: We study strong approximation for some algebraic varieties over ℚ which are
defined using norm forms. This allows us to confirm a special case of a conjecture
due to Harpaz and Wittenberg.
article_processing_charge: No
arxiv: 1
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Damaris
full_name: Schindler, Damaris
last_name: Schindler
citation:
ama: Browning TD, Schindler D. Strong approximation and a conjecture of Harpaz and
Wittenberg. International Mathematics Research Notices. 2017. doi:10.1093/imrn/rnx252
apa: Browning, T. D., & Schindler, D. (2017). Strong approximation and a conjecture
of Harpaz and Wittenberg. International Mathematics Research Notices. Oxford
University Press. https://doi.org/10.1093/imrn/rnx252
chicago: Browning, Timothy D, and Damaris Schindler. “Strong Approximation and a
Conjecture of Harpaz and Wittenberg.” International Mathematics Research Notices.
Oxford University Press, 2017. https://doi.org/10.1093/imrn/rnx252.
ieee: T. D. Browning and D. Schindler, “Strong approximation and a conjecture of
Harpaz and Wittenberg,” International Mathematics Research Notices. Oxford
University Press, 2017.
ista: Browning TD, Schindler D. 2017. Strong approximation and a conjecture of Harpaz
and Wittenberg. International Mathematics Research Notices.
mla: Browning, Timothy D., and Damaris Schindler. “Strong Approximation and a Conjecture
of Harpaz and Wittenberg.” International Mathematics Research Notices,
Oxford University Press, 2017, doi:10.1093/imrn/rnx252.
short: T.D. Browning, D. Schindler, International Mathematics Research Notices (2017).
date_created: 2018-12-11T11:45:00Z
date_published: 2017-10-30T00:00:00Z
date_updated: 2021-01-12T06:52:45Z
day: '30'
doi: 10.1093/imrn/rnx252
extern: '1'
external_id:
arxiv:
- '1509.07744'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1509.07744
month: '10'
oa: 1
oa_version: None
publication: International Mathematics Research Notices
publication_status: published
publisher: Oxford University Press
publist_id: '7749'
quality_controlled: '1'
status: public
title: Strong approximation and a conjecture of Harpaz and Wittenberg
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
OA_place: repository
OA_type: green
_id: '19474'
abstract:
- lang: eng
text: The complex behaviors underlying reward seeking and consumption are integral
to organism survival. The hypothalamus and mesolimbic dopamine system are key
mediators of these behaviors, yet regulation of appetitive and consummatory behaviors
outside of these regions is poorly understood. The central nucleus of the amygdala
(CeA) has been implicated in feeding and reward, but the neurons and circuit mechanisms
that positively regulate these behaviors remain unclear. Here, we defined the
neuronal mechanisms by which CeA neurons promote food consumption. Using in vivo
activity manipulations and Ca2+ imaging in mice, we found that GABAergic serotonin
receptor 2a (Htr2a)-expressing CeA neurons modulate food consumption, promote
positive reinforcement and are active in vivo during eating. We demonstrated electrophysiologically,
anatomically and behaviorally that intra-CeA and long-range circuit mechanisms
underlie these behaviors. Finally, we showed that CeAHtr2a neurons receive inputs
from feeding-relevant brain regions. Our results illustrate how defined CeA neural
circuits positively regulate food consumption.
article_processing_charge: No
article_type: original
author:
- first_name: Amelia May Barnett
full_name: Douglass, Amelia May Barnett
id: de5f6fda-80fb-11ef-996f-a8c4ecd8e289
last_name: Douglass
orcid: 0000-0001-5398-6473
- first_name: Hakan
full_name: Kucukdereli, Hakan
last_name: Kucukdereli
- first_name: Marion
full_name: Ponserre, Marion
last_name: Ponserre
- first_name: Milica
full_name: Markovic, Milica
last_name: Markovic
- first_name: Jan
full_name: Gründemann, Jan
last_name: Gründemann
- first_name: Cornelia
full_name: Strobel, Cornelia
last_name: Strobel
- first_name: Pilar L
full_name: Alcala Morales, Pilar L
last_name: Alcala Morales
- first_name: Karl-Klaus
full_name: Conzelmann, Karl-Klaus
last_name: Conzelmann
- first_name: Andreas
full_name: Lüthi, Andreas
last_name: Lüthi
- first_name: Rüdiger
full_name: Klein, Rüdiger
last_name: Klein
citation:
ama: Douglass AM, Kucukdereli H, Ponserre M, et al. Central amygdala circuits modulate
food consumption through a positive-valence mechanism. Nature Neuroscience.
2017;20(10):1384-1394. doi:10.1038/nn.4623
apa: Douglass, A. M., Kucukdereli, H., Ponserre, M., Markovic, M., Gründemann, J.,
Strobel, C., … Klein, R. (2017). Central amygdala circuits modulate food consumption
through a positive-valence mechanism. Nature Neuroscience. Springer Nature.
https://doi.org/10.1038/nn.4623
chicago: Douglass, Amelia M., Hakan Kucukdereli, Marion Ponserre, Milica Markovic,
Jan Gründemann, Cornelia Strobel, Pilar L Alcala Morales, Karl-Klaus Conzelmann,
Andreas Lüthi, and Rüdiger Klein. “Central Amygdala Circuits Modulate Food Consumption
through a Positive-Valence Mechanism.” Nature Neuroscience. Springer Nature,
2017. https://doi.org/10.1038/nn.4623.
ieee: A. M. Douglass et al., “Central amygdala circuits modulate food consumption
through a positive-valence mechanism,” Nature Neuroscience, vol. 20, no.
10. Springer Nature, pp. 1384–1394, 2017.
ista: Douglass AM, Kucukdereli H, Ponserre M, Markovic M, Gründemann J, Strobel
C, Alcala Morales PL, Conzelmann K-K, Lüthi A, Klein R. 2017. Central amygdala
circuits modulate food consumption through a positive-valence mechanism. Nature
Neuroscience. 20(10), 1384–1394.
mla: Douglass, Amelia M., et al. “Central Amygdala Circuits Modulate Food Consumption
through a Positive-Valence Mechanism.” Nature Neuroscience, vol. 20, no.
10, Springer Nature, 2017, pp. 1384–94, doi:10.1038/nn.4623.
short: A.M. Douglass, H. Kucukdereli, M. Ponserre, M. Markovic, J. Gründemann, C.
Strobel, P.L. Alcala Morales, K.-K. Conzelmann, A. Lüthi, R. Klein, Nature Neuroscience
20 (2017) 1384–1394.
date_created: 2025-04-03T12:30:57Z
date_published: 2017-10-01T00:00:00Z
date_updated: 2025-07-10T11:51:42Z
day: '01'
doi: 10.1038/nn.4623
extern: '1'
external_id:
pmid:
- '28825719 '
intvolume: ' 20'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/145375
month: '10'
oa: 1
oa_version: Preprint
page: 1384-1394
pmid: 1
publication: Nature Neuroscience
publication_identifier:
eissn:
- 1546-1726
issn:
- 1097-6256
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Central amygdala circuits modulate food consumption through a positive-valence
mechanism
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2017'
...
---
_id: '443'
abstract:
- lang: eng
text: Pancreatic cancer has a five-year survival rate of ~8%, with characteristic
molecular heterogeneity and restricted treatment options. Targeting metabolism
has emerged as a potentially effective therapeutic strategy for cancers such as
pancreatic cancer, which are driven by genetic alterations that are not tractable
drug targets. Although somatic mitochondrial genome (mtDNA) mutations have been
observed in various tumors types, understanding of metabolic genotype-phenotype
relationships is limited.
article_processing_charge: No
author:
- first_name: Rae
full_name: Hardie, Rae
last_name: Hardie
- first_name: Ellen
full_name: Van Dam, Ellen
last_name: Van Dam
- first_name: Mark
full_name: Cowley, Mark
last_name: Cowley
- first_name: Ting
full_name: Han, Ting
last_name: Han
- first_name: Seher
full_name: Balaban, Seher
last_name: Balaban
- first_name: Marina
full_name: Pajic, Marina
last_name: Pajic
- first_name: Mark
full_name: Pinese, Mark
last_name: Pinese
- first_name: Mary
full_name: Iconomou, Mary
last_name: Iconomou
- first_name: Robert
full_name: Shearer, Robert
last_name: Shearer
- first_name: Jessie
full_name: Mckenna, Jessie
last_name: Mckenna
- first_name: David
full_name: Miller, David
last_name: Miller
- first_name: Nicola
full_name: Waddell, Nicola
last_name: Waddell
- first_name: John
full_name: Pearson, John
last_name: Pearson
- first_name: Sean
full_name: Grimmond, Sean
last_name: Grimmond
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Andrew
full_name: Biankin, Andrew
last_name: Biankin
- first_name: Silas
full_name: Villas Boas, Silas
last_name: Villas Boas
- first_name: Andrew
full_name: Hoy, Andrew
last_name: Hoy
- first_name: Nigel
full_name: Turner, Nigel
last_name: Turner
- first_name: Darren
full_name: Saunders, Darren
last_name: Saunders
citation:
ama: Hardie R, Van Dam E, Cowley M, et al. Mitochondrial mutations and metabolic
adaptation in pancreatic cancer. Cancer & Metabolism. 2017;5(2). doi:10.1186/s40170-017-0164-1
apa: Hardie, R., Van Dam, E., Cowley, M., Han, T., Balaban, S., Pajic, M., … Saunders,
D. (2017). Mitochondrial mutations and metabolic adaptation in pancreatic cancer.
Cancer & Metabolism. BioMed Central. https://doi.org/10.1186/s40170-017-0164-1
chicago: Hardie, Rae, Ellen Van Dam, Mark Cowley, Ting Han, Seher Balaban, Marina
Pajic, Mark Pinese, et al. “Mitochondrial Mutations and Metabolic Adaptation in
Pancreatic Cancer.” Cancer & Metabolism. BioMed Central, 2017. https://doi.org/10.1186/s40170-017-0164-1.
ieee: R. Hardie et al., “Mitochondrial mutations and metabolic adaptation
in pancreatic cancer,” Cancer & Metabolism, vol. 5, no. 2. BioMed Central,
2017.
ista: Hardie R, Van Dam E, Cowley M, Han T, Balaban S, Pajic M, Pinese M, Iconomou
M, Shearer R, Mckenna J, Miller D, Waddell N, Pearson J, Grimmond S, Sazanov LA,
Biankin A, Villas Boas S, Hoy A, Turner N, Saunders D. 2017. Mitochondrial mutations
and metabolic adaptation in pancreatic cancer. Cancer & Metabolism. 5(2).
mla: Hardie, Rae, et al. “Mitochondrial Mutations and Metabolic Adaptation in Pancreatic
Cancer.” Cancer & Metabolism, vol. 5, no. 2, BioMed Central, 2017,
doi:10.1186/s40170-017-0164-1.
short: R. Hardie, E. Van Dam, M. Cowley, T. Han, S. Balaban, M. Pajic, M. Pinese,
M. Iconomou, R. Shearer, J. Mckenna, D. Miller, N. Waddell, J. Pearson, S. Grimmond,
L.A. Sazanov, A. Biankin, S. Villas Boas, A. Hoy, N. Turner, D. Saunders, Cancer
& Metabolism 5 (2017).
date_created: 2018-12-11T11:46:30Z
date_published: 2017-01-30T00:00:00Z
date_updated: 2025-09-18T10:03:47Z
day: '30'
ddc:
- '570'
doi: 10.1186/s40170-017-0164-1
extern: '1'
external_id:
isi:
- '000396463900001'
file:
- access_level: open_access
checksum: 337a65786875f64a1fe9fc0ac24767dc
content_type: application/pdf
creator: dernst
date_created: 2019-01-22T08:17:56Z
date_updated: 2020-07-14T12:46:29Z
file_id: '5868'
file_name: 2017_Cancer_Hardie.pdf
file_size: 1609174
relation: main_file
file_date_updated: 2020-07-14T12:46:29Z
has_accepted_license: '1'
intvolume: ' 5'
isi: 1
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Cancer & Metabolism
publication_status: published
publisher: BioMed Central
publist_id: '7380'
quality_controlled: '1'
status: public
title: Mitochondrial mutations and metabolic adaptation in pancreatic cancer
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 5
year: '2017'
...
---
_id: '444'
abstract:
- lang: eng
text: Complex I (NADH:ubiquinone oxidoreductase) plays a central role in cellular
energy generation, contributing to the proton motive force used to produce ATP.
It couples the transfer of two electrons between NADH and quinone to translocation
of four protons across the membrane. It is the largest protein assembly of bacterial
and mitochondrial respiratory chains, composed, in mammals, of up to 45 subunits
with a total molecular weight of ∼1 MDa. Bacterial enzyme is about half the size,
providing the important “minimal” model of complex I. The l-shaped complex consists
of a hydrophilic arm, where electron transfer occurs, and a membrane arm, where
proton translocation takes place. Previously, we have solved the crystal structures
of the hydrophilic domain of complex I from Thermus thermophilus and of the membrane
domain from Escherichia coli, followed by the atomic structure of intact, entire
complex I from T. thermophilus. Recently, we have solved by cryo-EM a first complete
atomic structure of mammalian (ovine) mitochondrial complex I. Core subunits are
well conserved from the bacterial version, whilst supernumerary subunits form
an interlinked, stabilizing shell around the core. Subunits containing additional
cofactors, including Zn ion, NADPH and phosphopantetheine, probably have regulatory
roles. Dysfunction of mitochondrial complex I is implicated in many human neurodegenerative
diseases. The structure of mammalian enzyme provides many insights into complex
I mechanism, assembly, maturation and dysfunction, allowing detailed molecular
analysis of disease-causing mutations.
author:
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: 'Sazanov LA. Structure of respiratory complex I: “Minimal” bacterial and “de
luxe” mammalian versions. In: Wikström M, ed. Mechanisms of Primary Energy
Transduction in Biology . Mechanisms of Primary Energy Transduction in Biology
. Royal Society of Chemistry; 2017:25-59. doi:10.1039/9781788010405-00025'
apa: 'Sazanov, L. A. (2017). Structure of respiratory complex I: “Minimal” bacterial
and “de luxe” mammalian versions. In M. Wikström (Ed.), Mechanisms of primary
energy transduction in biology (pp. 25–59). Royal Society of Chemistry. https://doi.org/10.1039/9781788010405-00025'
chicago: 'Sazanov, Leonid A. “Structure of Respiratory Complex I: ‘Minimal’ Bacterial
and ‘de Luxe’ Mammalian Versions.” In Mechanisms of Primary Energy Transduction
in Biology , edited by Mårten Wikström, 25–59. Mechanisms of Primary Energy
Transduction in Biology . Royal Society of Chemistry, 2017. https://doi.org/10.1039/9781788010405-00025.'
ieee: 'L. A. Sazanov, “Structure of respiratory complex I: ‘Minimal’ bacterial and
‘de luxe’ mammalian versions,” in Mechanisms of primary energy transduction
in biology , M. Wikström, Ed. Royal Society of Chemistry, 2017, pp. 25–59.'
ista: 'Sazanov LA. 2017.Structure of respiratory complex I: “Minimal” bacterial
and “de luxe” mammalian versions. In: Mechanisms of primary energy transduction
in biology . , 25–59.'
mla: 'Sazanov, Leonid A. “Structure of Respiratory Complex I: ‘Minimal’ Bacterial
and ‘de Luxe’ Mammalian Versions.” Mechanisms of Primary Energy Transduction
in Biology , edited by Mårten Wikström, Royal Society of Chemistry, 2017,
pp. 25–59, doi:10.1039/9781788010405-00025.'
short: L.A. Sazanov, in:, M. Wikström (Ed.), Mechanisms of Primary Energy Transduction
in Biology , Royal Society of Chemistry, 2017, pp. 25–59.
corr_author: '1'
date_created: 2018-12-11T11:46:30Z
date_published: 2017-11-29T00:00:00Z
date_updated: 2024-10-09T20:58:14Z
day: '29'
department:
- _id: LeSa
doi: 10.1039/9781788010405-00025
editor:
- first_name: Mårten
full_name: Wikström, Mårten
last_name: Wikström
language:
- iso: eng
month: '11'
oa_version: None
page: 25 - 59
publication: 'Mechanisms of primary energy transduction in biology '
publication_identifier:
isbn:
- 978-1-78262-865-1
publication_status: published
publisher: Royal Society of Chemistry
publist_id: '7379'
quality_controlled: '1'
series_title: 'Mechanisms of Primary Energy Transduction in Biology '
status: public
title: 'Structure of respiratory complex I: “Minimal” bacterial and “de luxe” mammalian
versions'
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '445'
abstract:
- lang: eng
text: The Loschmidt echo, defined as the overlap between quantum wave function evolved
with different Hamiltonians, quantifies the sensitivity of quantum dynamics to
perturbations and is often used as a probe of quantum chaos. In this work we consider
the behavior of the Loschmidt echo in the many-body localized phase, which is
characterized by emergent local integrals of motion and provides a generic example
of nonergodic dynamics. We demonstrate that the fluctuations of the Loschmidt
echo decay as a power law in time in the many-body localized phase, in contrast
to the exponential decay in few-body ergodic systems. We consider the spin-echo
generalization of the Loschmidt echo and argue that the corresponding correlation
function saturates to a finite value in localized systems. Slow, power-law decay
of fluctuations of such spin-echo-type overlap is related to the operator spreading
and is present only in the many-body localized phase, but not in a noninteracting
Anderson insulator. While most of the previously considered probes of dephasing
dynamics could be understood by approximating physical spin operators with local
integrals of motion, the Loschmidt echo and its generalizations crucially depend
on the full expansion of the physical operators via local integrals of motion
operators, as well as operators which flip local integrals of motion. Hence these
probes allow one to get insights into the relation between physical operators
and local integrals of motion and access the operator spreading in the many-body
localized phase.
acknowledgement: "This research was supported in part by the National\r\nScience Foundation
under Grant No. NSF PHY11-25915.\r\nM.S. was supported by Gordon and Betty Moore
Foundation’s\r\nEPiQS Initiative through Grant No. GBMF4307. D.A. also\r\nacknowledges
support by Swiss National Science Foundation."
article_processing_charge: No
arxiv: 1
author:
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Dimitry
full_name: Abanin, Dimitry
last_name: Abanin
citation:
ama: Serbyn M, Abanin D. Loschmidt echo in many body localized phases. Physical
Review B - Condensed Matter and Materials Physics. 2017;96(1). doi:10.1103/PhysRevB.96.014202
apa: Serbyn, M., & Abanin, D. (2017). Loschmidt echo in many body localized
phases. Physical Review B - Condensed Matter and Materials Physics. American
Physical Society. https://doi.org/10.1103/PhysRevB.96.014202
chicago: Serbyn, Maksym, and Dimitry Abanin. “Loschmidt Echo in Many Body Localized
Phases.” Physical Review B - Condensed Matter and Materials Physics. American
Physical Society, 2017. https://doi.org/10.1103/PhysRevB.96.014202.
ieee: M. Serbyn and D. Abanin, “Loschmidt echo in many body localized phases,” Physical
Review B - Condensed Matter and Materials Physics, vol. 96, no. 1. American
Physical Society, 2017.
ista: Serbyn M, Abanin D. 2017. Loschmidt echo in many body localized phases. Physical
Review B - Condensed Matter and Materials Physics. 96(1).
mla: Serbyn, Maksym, and Dimitry Abanin. “Loschmidt Echo in Many Body Localized
Phases.” Physical Review B - Condensed Matter and Materials Physics, vol.
96, no. 1, American Physical Society, 2017, doi:10.1103/PhysRevB.96.014202.
short: M. Serbyn, D. Abanin, Physical Review B - Condensed Matter and Materials
Physics 96 (2017).
date_created: 2018-12-11T11:46:31Z
date_published: 2017-07-12T00:00:00Z
date_updated: 2025-09-04T06:59:31Z
day: '12'
doi: 10.1103/PhysRevB.96.014202
extern: '1'
external_id:
arxiv:
- '1701.07772'
intvolume: ' 96'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1701.07772
month: '07'
oa: 1
oa_version: Preprint
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '7378'
status: public
title: Loschmidt echo in many body localized phases
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 96
year: '2017'
...
---
_id: '447'
abstract:
- lang: eng
text: We consider last passage percolation (LPP) models with exponentially distributed
random variables, which are linked to the totally asymmetric simple exclusion
process (TASEP). The competition interface for LPP was introduced and studied
in Ferrari and Pimentel (2005a) for cases where the corresponding exclusion process
had a rarefaction fan. Here we consider situations with a shock and determine
the law of the fluctuations of the competition interface around its deter- ministic
law of large number position. We also study the multipoint distribution of the
LPP around the shock, extending our one-point result of Ferrari and Nejjar (2015).
article_processing_charge: No
article_type: original
author:
- first_name: Patrik
full_name: Ferrari, Patrik
last_name: Ferrari
- first_name: Peter
full_name: Nejjar, Peter
id: 4BF426E2-F248-11E8-B48F-1D18A9856A87
last_name: Nejjar
citation:
ama: Ferrari P, Nejjar P. Fluctuations of the competition interface in presence
of shocks. Revista Latino-Americana de Probabilidade e Estatística. 2017;9:299-325.
doi:10.30757/ALEA.v14-17
apa: Ferrari, P., & Nejjar, P. (2017). Fluctuations of the competition interface
in presence of shocks. Revista Latino-Americana de Probabilidade e Estatística.
Instituto Nacional de Matematica Pura e Aplicada. https://doi.org/10.30757/ALEA.v14-17
chicago: Ferrari, Patrik, and Peter Nejjar. “Fluctuations of the Competition Interface
in Presence of Shocks.” Revista Latino-Americana de Probabilidade e Estatística.
Instituto Nacional de Matematica Pura e Aplicada, 2017. https://doi.org/10.30757/ALEA.v14-17.
ieee: P. Ferrari and P. Nejjar, “Fluctuations of the competition interface in presence
of shocks,” Revista Latino-Americana de Probabilidade e Estatística, vol.
9. Instituto Nacional de Matematica Pura e Aplicada, pp. 299–325, 2017.
ista: Ferrari P, Nejjar P. 2017. Fluctuations of the competition interface in presence
of shocks. Revista Latino-Americana de Probabilidade e Estatística. 9, 299–325.
mla: Ferrari, Patrik, and Peter Nejjar. “Fluctuations of the Competition Interface
in Presence of Shocks.” Revista Latino-Americana de Probabilidade e Estatística,
vol. 9, Instituto Nacional de Matematica Pura e Aplicada, 2017, pp. 299–325, doi:10.30757/ALEA.v14-17.
short: P. Ferrari, P. Nejjar, Revista Latino-Americana de Probabilidade e Estatística
9 (2017) 299–325.
corr_author: '1'
date_created: 2018-12-11T11:46:31Z
date_published: 2017-03-23T00:00:00Z
date_updated: 2025-09-18T10:02:36Z
day: '23'
department:
- _id: LaEr
- _id: JaMa
doi: 10.30757/ALEA.v14-17
ec_funded: 1
external_id:
isi:
- '000404011700017'
intvolume: ' 9'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://alea.impa.br/articles/v14/14-17.pdf
month: '03'
oa: 1
oa_version: Submitted Version
page: 299 - 325
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Revista Latino-Americana de Probabilidade e Estatística
publication_status: published
publisher: Instituto Nacional de Matematica Pura e Aplicada
publist_id: '7376'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fluctuations of the competition interface in presence of shocks
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 9
year: '2017'
...
---
_id: '452'
abstract:
- lang: eng
text: 'Spinning tops and yo-yos have long fascinated cultures around the world with
their unexpected, graceful motions that seemingly elude gravity. Yet, due to the
exceeding difficulty of creating stably spinning objects of asymmetric shape in
a manual trial-and-error process, there has been little departure from rotationally
symmetric designs. With modern 3D printing technologies, however, we can manufacture
shapes of almost unbounded complexity at the press of a button, shifting this
design complexity toward computation. In this article, we describe an algorithm
to generate designs for spinning objects by optimizing their mass distribution:
as input, the user provides a solid 3D model and a desired axis of rotation. Our
approach then modifies the interior mass distribution such that the principal
directions of the moment of inertia align with the target rotation frame. To create
voids inside the model, we represent its volume with an adaptive multiresolution
voxelization and optimize the discrete voxel fill values using a continuous, nonlinear
formulation. We further optimize for rotational stability by maximizing the dominant
principal moment. Our method is well-suited for a variety of 3D printed models,
ranging from characters to abstract shapes. We demonstrate tops and yo-yos that
spin surprisingly stably despite their asymmetric appearance.'
acknowledgement: "This project was supported in part by the ERC Starting Grant iModel
(StG-2012-306877). Emily Whiting was supported by the ETH Zurich/Marie Curie COFUND
Postdoctoral Fellowship. \r\nFirst and foremost, we would like to thank our editor
Steve Marschner for his invaluable feedback. We were fortunate to get further help
from Maurizio Nitti for model design, Romain Prévost for Make-It-Stand comparisons,
Alexander Sorkine-Hornung, Kaan Yücer, and Changil Kim for video and photo assistance,
Ronnie Gänsli for metal casting, Alec Jacobson for the posed Elephant and Armadillo
models, and Romain Prévost and Amit Bermano for print preparation. Model sources
include: Woven Ring: generated by “Sculpture Generator 1” by Carlo H. Séquin, UC
Berkeley; Elephant: De Espona model library, courtesy of Robert Sumner; T-Rex: TurboSquid;
Armadillo: Stanford Computer Graphics Laboratory; and Utah Teapot: Martin Newell,
University of Utah. "
article_processing_charge: No
article_type: original
author:
- first_name: Moritz
full_name: Bächer, Moritz
last_name: Bächer
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Emily
full_name: Whiting, Emily
last_name: Whiting
- first_name: Olga
full_name: Sorkine Hornung, Olga
last_name: Sorkine Hornung
citation:
ama: 'Bächer M, Bickel B, Whiting E, Sorkine Hornung O. Spin it: Optimizing moment
of inertia for spinnable objects. Communications of the ACM. 2017;60(8):92-99.
doi:10.1145/3068766'
apa: 'Bächer, M., Bickel, B., Whiting, E., & Sorkine Hornung, O. (2017). Spin
it: Optimizing moment of inertia for spinnable objects. Communications of the
ACM. ACM. https://doi.org/10.1145/3068766'
chicago: 'Bächer, Moritz, Bernd Bickel, Emily Whiting, and Olga Sorkine Hornung.
“Spin It: Optimizing Moment of Inertia for Spinnable Objects.” Communications
of the ACM. ACM, 2017. https://doi.org/10.1145/3068766.'
ieee: 'M. Bächer, B. Bickel, E. Whiting, and O. Sorkine Hornung, “Spin it: Optimizing
moment of inertia for spinnable objects,” Communications of the ACM, vol.
60, no. 8. ACM, pp. 92–99, 2017.'
ista: 'Bächer M, Bickel B, Whiting E, Sorkine Hornung O. 2017. Spin it: Optimizing
moment of inertia for spinnable objects. Communications of the ACM. 60(8), 92–99.'
mla: 'Bächer, Moritz, et al. “Spin It: Optimizing Moment of Inertia for Spinnable
Objects.” Communications of the ACM, vol. 60, no. 8, ACM, 2017, pp. 92–99,
doi:10.1145/3068766.'
short: M. Bächer, B. Bickel, E. Whiting, O. Sorkine Hornung, Communications of the
ACM 60 (2017) 92–99.
date_created: 2018-12-11T11:46:33Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2025-08-05T14:20:24Z
day: '01'
department:
- _id: BeBi
doi: 10.1145/3068766
intvolume: ' 60'
issue: '8'
language:
- iso: eng
month: '08'
oa_version: None
page: 92 - 99
publication: Communications of the ACM
publication_status: published
publisher: ACM
publist_id: '7370'
quality_controlled: '1'
related_material:
record:
- id: '2080'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: 'Spin it: Optimizing moment of inertia for spinnable objects'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 60
year: '2017'
...