---
_id: '7314'
abstract:
- lang: eng
text: 'The electrolyte is one of the greatest challenges facing the development
of the non‐aqueous Li–O2 battery. Although ether‐based electrolytes do from Li2O2
on the first discharge, it is shown by various techniques that they also decompose
and that decomposition increases while Li2O2 decreases on cycling (see picture).
Thus, these electrolytes are not suitable. '
article_processing_charge: No
article_type: original
author:
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Yuhui
full_name: Chen, Yuhui
last_name: Chen
- first_name: Nicholas E.
full_name: Drewett, Nicholas E.
last_name: Drewett
- first_name: Laurence J.
full_name: Hardwick, Laurence J.
last_name: Hardwick
- first_name: Fanny
full_name: Bardé, Fanny
last_name: Bardé
- first_name: Peter G.
full_name: Bruce, Peter G.
last_name: Bruce
citation:
ama: Freunberger SA, Chen Y, Drewett NE, Hardwick LJ, Bardé F, Bruce PG. The Lithium-Oxygen
battery with ether-based electrolytes. Angewandte Chemie International Edition.
2011;50(37):8609-8613. doi:10.1002/anie.201102357
apa: Freunberger, S. A., Chen, Y., Drewett, N. E., Hardwick, L. J., Bardé, F., &
Bruce, P. G. (2011). The Lithium-Oxygen battery with ether-based electrolytes.
Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.201102357
chicago: Freunberger, Stefan Alexander, Yuhui Chen, Nicholas E. Drewett, Laurence
J. Hardwick, Fanny Bardé, and Peter G. Bruce. “The Lithium-Oxygen Battery with
Ether-Based Electrolytes.” Angewandte Chemie International Edition. Wiley,
2011. https://doi.org/10.1002/anie.201102357.
ieee: S. A. Freunberger, Y. Chen, N. E. Drewett, L. J. Hardwick, F. Bardé, and P.
G. Bruce, “The Lithium-Oxygen battery with ether-based electrolytes,” Angewandte
Chemie International Edition, vol. 50, no. 37. Wiley, pp. 8609–8613, 2011.
ista: Freunberger SA, Chen Y, Drewett NE, Hardwick LJ, Bardé F, Bruce PG. 2011.
The Lithium-Oxygen battery with ether-based electrolytes. Angewandte Chemie International
Edition. 50(37), 8609–8613.
mla: Freunberger, Stefan Alexander, et al. “The Lithium-Oxygen Battery with Ether-Based
Electrolytes.” Angewandte Chemie International Edition, vol. 50, no. 37,
Wiley, 2011, pp. 8609–13, doi:10.1002/anie.201102357.
short: S.A. Freunberger, Y. Chen, N.E. Drewett, L.J. Hardwick, F. Bardé, P.G. Bruce,
Angewandte Chemie International Edition 50 (2011) 8609–8613.
date_created: 2020-01-15T12:20:19Z
date_published: 2011-09-05T00:00:00Z
date_updated: 2021-01-12T08:12:59Z
day: '05'
doi: 10.1002/anie.201102357
extern: '1'
intvolume: ' 50'
issue: '37'
language:
- iso: eng
month: '09'
oa_version: None
page: 8609-8613
publication: Angewandte Chemie International Edition
publication_identifier:
issn:
- 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: The Lithium-Oxygen battery with ether-based electrolytes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2011'
...
---
_id: '7317'
abstract:
- lang: eng
text: Lithium-metal oxides with a high formal Li2O content, such as Li5FeO4 (5Li2O•Fe2O3)
and a Li2MnO3•LiFeO2 composite ({Li2O•MnO2}•{Li2O•Fe2O3}) have been explored as
electrocatalysts for primary and rechargeable Li-O2 cells. Activation occurs predominantly
by Li2O removal, either electrochemically or chemically by acid-treatment. Superior
electrochemical behavior is obtained if activation occurs by acid-treatment; Li2MnO3•LiFeO2
catalysts provide 2516 mAh/g (carbon) corresponding to 931 mAh/g (electrocatalyst
+ carbon) during the initial discharge. The reaction is reasonably reversible
during the early cycles. The approach has implications for designing electrocatalysts
that participate through electrochemical Li2O extraction/reformation reactions,
offering exceptionally high capacities.
article_number: A64
article_processing_charge: No
article_type: original
author:
- first_name: L.
full_name: Trahey, L.
last_name: Trahey
- first_name: C. S.
full_name: Johnson, C. S.
last_name: Johnson
- first_name: J. T.
full_name: Vaughey, J. T.
last_name: Vaughey
- first_name: S.-H.
full_name: Kang, S.-H.
last_name: Kang
- first_name: L. J.
full_name: Hardwick, L. J.
last_name: Hardwick
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: P. G.
full_name: Bruce, P. G.
last_name: Bruce
- first_name: M. M.
full_name: Thackeray, M. M.
last_name: Thackeray
citation:
ama: Trahey L, Johnson CS, Vaughey JT, et al. Activated Lithium-Metal-Oxides as
catalytic electrodes for Li–O2 cells. Electrochemical and Solid-State Letters.
2011;14(5). doi:10.1149/1.3555366
apa: Trahey, L., Johnson, C. S., Vaughey, J. T., Kang, S.-H., Hardwick, L. J., Freunberger,
S. A., … Thackeray, M. M. (2011). Activated Lithium-Metal-Oxides as catalytic
electrodes for Li–O2 cells. Electrochemical and Solid-State Letters. The
Electrochemical Society. https://doi.org/10.1149/1.3555366
chicago: Trahey, L., C. S. Johnson, J. T. Vaughey, S.-H. Kang, L. J. Hardwick, Stefan
Alexander Freunberger, P. G. Bruce, and M. M. Thackeray. “Activated Lithium-Metal-Oxides
as Catalytic Electrodes for Li–O2 Cells.” Electrochemical and Solid-State Letters.
The Electrochemical Society, 2011. https://doi.org/10.1149/1.3555366.
ieee: L. Trahey et al., “Activated Lithium-Metal-Oxides as catalytic electrodes
for Li–O2 cells,” Electrochemical and Solid-State Letters, vol. 14, no.
5. The Electrochemical Society, 2011.
ista: Trahey L, Johnson CS, Vaughey JT, Kang S-H, Hardwick LJ, Freunberger SA, Bruce
PG, Thackeray MM. 2011. Activated Lithium-Metal-Oxides as catalytic electrodes
for Li–O2 cells. Electrochemical and Solid-State Letters. 14(5), A64.
mla: Trahey, L., et al. “Activated Lithium-Metal-Oxides as Catalytic Electrodes
for Li–O2 Cells.” Electrochemical and Solid-State Letters, vol. 14, no.
5, A64, The Electrochemical Society, 2011, doi:10.1149/1.3555366.
short: L. Trahey, C.S. Johnson, J.T. Vaughey, S.-H. Kang, L.J. Hardwick, S.A. Freunberger,
P.G. Bruce, M.M. Thackeray, Electrochemical and Solid-State Letters 14 (2011).
date_created: 2020-01-15T12:20:54Z
date_published: 2011-03-02T00:00:00Z
date_updated: 2021-01-12T08:13:00Z
day: '02'
doi: 10.1149/1.3555366
extern: '1'
intvolume: ' 14'
issue: '5'
language:
- iso: eng
month: '03'
oa_version: None
publication: Electrochemical and Solid-State Letters
publication_identifier:
issn:
- 1099-0062
publication_status: published
publisher: The Electrochemical Society
quality_controlled: '1'
status: public
title: Activated Lithium-Metal-Oxides as catalytic electrodes for Li–O2 cells
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2011'
...
---
_id: '7316'
abstract:
- lang: eng
text: The nonaqueous rechargeable lithium–O2 battery containing an alkyl carbonate
electrolyte discharges by formation of C3H6(OCO2Li)2, Li2CO3, HCO2Li, CH3CO2Li,
CO2, and H2O at the cathode, due to electrolyte decomposition. Charging involves
oxidation of C3H6(OCO2Li)2, Li2CO3, HCO2Li, CH3CO2Li accompanied by CO2 and H2O
evolution. Mechanisms are proposed for the reactions on discharge and charge.
The different pathways for discharge and charge are consistent with the widely
observed voltage gap in Li–O2 cells. Oxidation of C3H6(OCO2Li)2 involves terminal
carbonate groups leaving behind the OC3H6O moiety that reacts to form a thick
gel on the Li anode. Li2CO3, HCO2Li, CH3CO2Li, and C3H6(OCO2Li)2 accumulate in
the cathode on cycling correlating with capacity fading and cell failure. The
latter is compounded by continuous consumption of the electrolyte on each discharge.
article_processing_charge: No
article_type: original
author:
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Yuhui
full_name: Chen, Yuhui
last_name: Chen
- first_name: Zhangquan
full_name: Peng, Zhangquan
last_name: Peng
- first_name: John M.
full_name: Griffin, John M.
last_name: Griffin
- first_name: Laurence J.
full_name: Hardwick, Laurence J.
last_name: Hardwick
- first_name: Fanny
full_name: Bardé, Fanny
last_name: Bardé
- first_name: Petr
full_name: Novák, Petr
last_name: Novák
- first_name: Peter G.
full_name: Bruce, Peter G.
last_name: Bruce
citation:
ama: Freunberger SA, Chen Y, Peng Z, et al. Reactions in the rechargeable Lithium–O2
battery with alkyl carbonate electrolytes. Journal of the American Chemical
Society. 2011;133(20):8040-8047. doi:10.1021/ja2021747
apa: Freunberger, S. A., Chen, Y., Peng, Z., Griffin, J. M., Hardwick, L. J., Bardé,
F., … Bruce, P. G. (2011). Reactions in the rechargeable Lithium–O2 battery with
alkyl carbonate electrolytes. Journal of the American Chemical Society.
ACS. https://doi.org/10.1021/ja2021747
chicago: Freunberger, Stefan Alexander, Yuhui Chen, Zhangquan Peng, John M. Griffin,
Laurence J. Hardwick, Fanny Bardé, Petr Novák, and Peter G. Bruce. “Reactions
in the Rechargeable Lithium–O2 Battery with Alkyl Carbonate Electrolytes.” Journal
of the American Chemical Society. ACS, 2011. https://doi.org/10.1021/ja2021747.
ieee: S. A. Freunberger et al., “Reactions in the rechargeable Lithium–O2
battery with alkyl carbonate electrolytes,” Journal of the American Chemical
Society, vol. 133, no. 20. ACS, pp. 8040–8047, 2011.
ista: Freunberger SA, Chen Y, Peng Z, Griffin JM, Hardwick LJ, Bardé F, Novák
P, Bruce PG. 2011. Reactions in the rechargeable Lithium–O2 battery with alkyl
carbonate electrolytes. Journal of the American Chemical Society. 133(20), 8040–8047.
mla: Freunberger, Stefan Alexander, et al. “Reactions in the Rechargeable Lithium–O2
Battery with Alkyl Carbonate Electrolytes.” Journal of the American Chemical
Society, vol. 133, no. 20, ACS, 2011, pp. 8040–47, doi:10.1021/ja2021747.
short: S.A. Freunberger, Y. Chen, Z. Peng, J.M. Griffin, L.J. Hardwick, F. Bardé,
P. Novák, P.G. Bruce, Journal of the American Chemical Society 133 (2011) 8040–8047.
date_created: 2020-01-15T12:20:43Z
date_published: 2011-04-27T00:00:00Z
date_updated: 2021-01-12T08:13:00Z
day: '27'
doi: 10.1021/ja2021747
extern: '1'
intvolume: ' 133'
issue: '20'
language:
- iso: eng
month: '04'
oa_version: None
page: 8040-8047
publication: Journal of the American Chemical Society
publication_identifier:
issn:
- 0002-7863
- 1520-5126
publication_status: published
publisher: ACS
quality_controlled: '1'
status: public
title: Reactions in the rechargeable Lithium–O2 battery with alkyl carbonate electrolytes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 133
year: '2011'
...
---
_id: '7315'
abstract:
- lang: eng
text: 'Spectroscopic data (see picture) provide direct evidence that in non‐aqueous
Li+ electrolyte, O2 is reduced to O2−, which then forms LiO2 on the electrode
surface which disproportionates to Li2O2. On charging, Li2O2 decomposes directly,
in a one‐step reaction to evolve O2 and does not pass through LiO2 as an intermediate. '
article_processing_charge: No
article_type: original
author:
- first_name: Zhangquan
full_name: Peng, Zhangquan
last_name: Peng
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Laurence J.
full_name: Hardwick, Laurence J.
last_name: Hardwick
- first_name: Yuhui
full_name: Chen, Yuhui
last_name: Chen
- first_name: Vincent
full_name: Giordani, Vincent
last_name: Giordani
- first_name: Fanny
full_name: Bardé, Fanny
last_name: Bardé
- first_name: Petr
full_name: Novák, Petr
last_name: Novák
- first_name: Duncan
full_name: Graham, Duncan
last_name: Graham
- first_name: Jean-Marie
full_name: Tarascon, Jean-Marie
last_name: Tarascon
- first_name: Peter G.
full_name: Bruce, Peter G.
last_name: Bruce
citation:
ama: Peng Z, Freunberger SA, Hardwick LJ, et al. Oxygen reactions in a non-aqueous
Li+ electrolyte. Angewandte Chemie International Edition. 2011;50(28):6351-6355.
doi:10.1002/anie.201100879
apa: Peng, Z., Freunberger, S. A., Hardwick, L. J., Chen, Y., Giordani, V., Bardé,
F., … Bruce, P. G. (2011). Oxygen reactions in a non-aqueous Li+ electrolyte.
Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.201100879
chicago: Peng, Zhangquan, Stefan Alexander Freunberger, Laurence J. Hardwick, Yuhui
Chen, Vincent Giordani, Fanny Bardé, Petr Novák, Duncan Graham, Jean-Marie Tarascon,
and Peter G. Bruce. “Oxygen Reactions in a Non-Aqueous Li+ Electrolyte.” Angewandte
Chemie International Edition. Wiley, 2011. https://doi.org/10.1002/anie.201100879.
ieee: Z. Peng et al., “Oxygen reactions in a non-aqueous Li+ electrolyte,”
Angewandte Chemie International Edition, vol. 50, no. 28. Wiley, pp. 6351–6355,
2011.
ista: Peng Z, Freunberger SA, Hardwick LJ, Chen Y, Giordani V, Bardé F, Novák P,
Graham D, Tarascon J-M, Bruce PG. 2011. Oxygen reactions in a non-aqueous Li+
electrolyte. Angewandte Chemie International Edition. 50(28), 6351–6355.
mla: Peng, Zhangquan, et al. “Oxygen Reactions in a Non-Aqueous Li+ Electrolyte.”
Angewandte Chemie International Edition, vol. 50, no. 28, Wiley, 2011,
pp. 6351–55, doi:10.1002/anie.201100879.
short: Z. Peng, S.A. Freunberger, L.J. Hardwick, Y. Chen, V. Giordani, F. Bardé,
P. Novák, D. Graham, J.-M. Tarascon, P.G. Bruce, Angewandte Chemie International
Edition 50 (2011) 6351–6355.
date_created: 2020-01-15T12:20:31Z
date_published: 2011-07-04T00:00:00Z
date_updated: 2021-01-12T08:12:59Z
day: '04'
doi: 10.1002/anie.201100879
extern: '1'
intvolume: ' 50'
issue: '28'
language:
- iso: eng
month: '07'
oa_version: None
page: 6351-6355
publication: Angewandte Chemie International Edition
publication_identifier:
issn:
- 1433-7851
publication_status: published
publisher: Wiley
status: public
title: Oxygen reactions in a non-aqueous Li+ electrolyte
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2011'
...
---
_id: '757'
abstract:
- lang: eng
text: Synchronous distributed algorithms are easier to design and prove correct
than algorithms that tolerate asynchrony. Yet, in the real world, networks experience
asynchrony and other timing anomalies. In this paper, we address the question
of how to efficiently transform an algorithm that relies on synchronization into
an algorithm that tolerates asynchronous executions. We introduce a transformation
technique from synchronous algorithms to indulgent algorithms [1], which induces
only a constant overhead in terms of time complexity in well-behaved executions.
Our technique is based on a new abstraction we call an asynchrony detector, which
the participating processes implement collectively. The resulting transformation
works for a large class of colorless tasks, including consensus and set agreement.
Interestingly, we also show that our technique is relevant for colored tasks,
by applying it to the renaming problem, to obtain the first indulgent renaming
algorithm.
acknowledgement: "The authors would like to thank Prof. Hagit Attiya and Nikola\r\nKneˇ\r\nzevi
́\r\nc for their help on previous drafts of this paper, and the anonymous reviewers\r\nfor
their useful feedback."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Seth
full_name: Gilbert, Seth
last_name: Gilbert
- first_name: Rachid
full_name: Guerraoui, Rachid
last_name: Guerraoui
- first_name: Corentin
full_name: Travers, Corentin
last_name: Travers
citation:
ama: 'Alistarh D-A, Gilbert S, Guerraoui R, Travers C. Generating fast indulgent
algorithms. In: Vol 6522 LNCS. Springer; 2011:41-52. doi:10.1007/978-3-642-17679-1_4'
apa: 'Alistarh, D.-A., Gilbert, S., Guerraoui, R., & Travers, C. (2011). Generating
fast indulgent algorithms (Vol. 6522 LNCS, pp. 41–52). Presented at the ICDCN:
International Conference on Distributed Computing and Networking, Springer. https://doi.org/10.1007/978-3-642-17679-1_4'
chicago: Alistarh, Dan-Adrian, Seth Gilbert, Rachid Guerraoui, and Corentin Travers.
“Generating Fast Indulgent Algorithms,” 6522 LNCS:41–52. Springer, 2011. https://doi.org/10.1007/978-3-642-17679-1_4.
ieee: 'D.-A. Alistarh, S. Gilbert, R. Guerraoui, and C. Travers, “Generating fast
indulgent algorithms,” presented at the ICDCN: International Conference on Distributed
Computing and Networking, 2011, vol. 6522 LNCS, pp. 41–52.'
ista: 'Alistarh D-A, Gilbert S, Guerraoui R, Travers C. 2011. Generating fast indulgent
algorithms. ICDCN: International Conference on Distributed Computing and Networking,
LNCS, vol. 6522 LNCS, 41–52.'
mla: Alistarh, Dan-Adrian, et al. Generating Fast Indulgent Algorithms. Vol.
6522 LNCS, Springer, 2011, pp. 41–52, doi:10.1007/978-3-642-17679-1_4.
short: D.-A. Alistarh, S. Gilbert, R. Guerraoui, C. Travers, in:, Springer, 2011,
pp. 41–52.
conference:
name: 'ICDCN: International Conference on Distributed Computing and Networking'
date_created: 2018-12-11T11:48:20Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2023-02-23T13:11:09Z
day: '01'
doi: 10.1007/978-3-642-17679-1_4
extern: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 41 - 52
publication_status: published
publisher: Springer
publist_id: '6898'
status: public
title: Generating fast indulgent algorithms
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6522 LNCS
year: '2011'
...
---
_id: '759'
abstract:
- lang: eng
text: 'We study the complexity of renaming, a fundamental problem in distributed
computing in which a set of processes need to pick distinct names from a given
namespace. We prove an individual lower bound of Ω(k) process steps for deterministic
renaming into any namespace of size sub-exponential in k, where k is the number
of participants. This bound is tight: it draws an exponential separation between
deterministic and randomized solutions, and implies new tight bounds for deterministic
fetch-and-increment registers, queues and stacks. The proof of the bound is interesting
in its own right, for it relies on the first reduction from renaming to another
fundamental problem in distributed computing: mutual exclusion. We complement
our individual bound with a global lower bound of Ω(k log (k/c)) on the total
step complexity of renaming into a namespace of size ck, for any c ≥ 1. This applies
to randomized algorithms against a strong adversary, and helps derive new global
lower bounds for randomized approximate counter and fetch-and-increment implementations,
all tight within logarithmic factors.'
acknowledgement: "The authors would like to thank Hagit Attiya and Keren\r\nCensor-Hillel
\ for discussions and feedback on earlier versions of this paper, and
\ the anonymous reviewers for their\r\nvery useful suggestions."
article_processing_charge: No
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: James
full_name: Aspnes, James
last_name: Aspnes
- first_name: Seth
full_name: Gilbert, Seth
last_name: Gilbert
- first_name: Rachid
full_name: Guerraoui, Rachid
last_name: Guerraoui
citation:
ama: 'Alistarh D-A, Aspnes J, Gilbert S, Guerraoui R. The complexity of renaming.
In: IEEE; 2011:718-727. doi:10.1109/FOCS.2011.66'
apa: 'Alistarh, D.-A., Aspnes, J., Gilbert, S., & Guerraoui, R. (2011). The
complexity of renaming (pp. 718–727). Presented at the FOCS: Foundations of Computer
Science, IEEE. https://doi.org/10.1109/FOCS.2011.66'
chicago: Alistarh, Dan-Adrian, James Aspnes, Seth Gilbert, and Rachid Guerraoui.
“The Complexity of Renaming,” 718–27. IEEE, 2011. https://doi.org/10.1109/FOCS.2011.66.
ieee: 'D.-A. Alistarh, J. Aspnes, S. Gilbert, and R. Guerraoui, “The complexity
of renaming,” presented at the FOCS: Foundations of Computer Science, 2011, pp.
718–727.'
ista: 'Alistarh D-A, Aspnes J, Gilbert S, Guerraoui R. 2011. The complexity of renaming.
FOCS: Foundations of Computer Science, 718–727.'
mla: Alistarh, Dan-Adrian, et al. The Complexity of Renaming. IEEE, 2011,
pp. 718–27, doi:10.1109/FOCS.2011.66.
short: D.-A. Alistarh, J. Aspnes, S. Gilbert, R. Guerraoui, in:, IEEE, 2011, pp.
718–727.
conference:
name: 'FOCS: Foundations of Computer Science'
date_created: 2018-12-11T11:48:21Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2023-02-23T13:11:40Z
day: '01'
doi: 10.1109/FOCS.2011.66
extern: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 718 - 727
publication_status: published
publisher: IEEE
publist_id: '6895'
status: public
title: The complexity of renaming
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2011'
...
---
_id: '761'
abstract:
- lang: eng
text: We give two new randomized algorithms for strong renaming, both of which work
against an adaptive adversary in asynchronous shared memory. The first uses repeated
sampling over a sequence of arrays of decreasing size to assign unique names to
each of n processes with step complexity O(log3 n). The second transforms any
sorting network into a strong adaptive renaming protocol, with an expected cost
equal to the depth of the sorting network. Using an AKS sorting network, this
gives a strong adaptive renaming algorithm with step complexity O(log k), where
k is the contention in the current execution. We show this to be optimal based
on a classic lower bound of Jayanti. We also show that any such strong renaming
protocol can be used to build a monotone-consistent counter with logarithmic step
complexity (at the cost of adding a max register) or a linearizable fetch-and-increment
register (at the cost of increasing the step complexity by a logarithmic factor).
acknowledgement: "We would like to thank Hagit Attiya, Rachid Guerraoui\r\nand Prasad
Jayanti for useful discussions and support. We\r\nwould also like to thank the
anonymous reviewers for many\r\nuseful comments."
article_processing_charge: No
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: James
full_name: Aspnes, James
last_name: Aspnes
- first_name: Keren
full_name: Censor Hillel, Keren
last_name: Censor Hillel
- first_name: Seth
full_name: Gilbert, Seth
last_name: Gilbert
- first_name: Morteza
full_name: Zadimoghaddam, Morteza
last_name: Zadimoghaddam
citation:
ama: 'Alistarh D-A, Aspnes J, Censor Hillel K, Gilbert S, Zadimoghaddam M. Optimal-time
adaptive strong renaming, with applications to counting. In: ACM; 2011:239-248.
doi:10.1145/1993806.1993850'
apa: 'Alistarh, D.-A., Aspnes, J., Censor Hillel, K., Gilbert, S., & Zadimoghaddam,
M. (2011). Optimal-time adaptive strong renaming, with applications to counting
(pp. 239–248). Presented at the PODC: Principles of Distributed Computing, ACM.
https://doi.org/10.1145/1993806.1993850'
chicago: Alistarh, Dan-Adrian, James Aspnes, Keren Censor Hillel, Seth Gilbert,
and Morteza Zadimoghaddam. “Optimal-Time Adaptive Strong Renaming, with Applications
to Counting,” 239–48. ACM, 2011. https://doi.org/10.1145/1993806.1993850.
ieee: 'D.-A. Alistarh, J. Aspnes, K. Censor Hillel, S. Gilbert, and M. Zadimoghaddam,
“Optimal-time adaptive strong renaming, with applications to counting,” presented
at the PODC: Principles of Distributed Computing, 2011, pp. 239–248.'
ista: 'Alistarh D-A, Aspnes J, Censor Hillel K, Gilbert S, Zadimoghaddam M. 2011.
Optimal-time adaptive strong renaming, with applications to counting. PODC: Principles
of Distributed Computing, 239–248.'
mla: Alistarh, Dan-Adrian, et al. Optimal-Time Adaptive Strong Renaming, with
Applications to Counting. ACM, 2011, pp. 239–48, doi:10.1145/1993806.1993850.
short: D.-A. Alistarh, J. Aspnes, K. Censor Hillel, S. Gilbert, M. Zadimoghaddam,
in:, ACM, 2011, pp. 239–248.
conference:
name: 'PODC: Principles of Distributed Computing'
date_created: 2018-12-11T11:48:22Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2023-02-23T13:12:17Z
day: '01'
doi: 10.1145/1993806.1993850
extern: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 239 - 248
publication_status: published
publisher: ACM
publist_id: '6897'
status: public
title: Optimal-time adaptive strong renaming, with applications to counting
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2011'
...
---
_id: '760'
abstract:
- lang: eng
text: A randomized implementation is given of a test-and-set register with O(log
log n) individual step complexity and O(n) total step complexity against an oblivious
adversary. The implementation is linearizable and multi-shot, and shows an exponential
complexity improvement over previous solutions designed to work against a strong
adversary.
acknowledgement: The work of Dan Alistarh was supported by the NCCR MICS Project.
The work of James Aspnes was supported in part by NSF grant CCF-0916389.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: James
full_name: Aspnes, James
last_name: Aspnes
citation:
ama: 'Alistarh D-A, Aspnes J. Sub-logarithmic test-and-set against a weak adversary.
In: Vol 6950 LNCS. Springer; 2011:97-109. doi:10.1007/978-3-642-24100-0_7'
apa: 'Alistarh, D.-A., & Aspnes, J. (2011). Sub-logarithmic test-and-set against
a weak adversary (Vol. 6950 LNCS, pp. 97–109). Presented at the DISC: Distributed
Computing, Springer. https://doi.org/10.1007/978-3-642-24100-0_7'
chicago: Alistarh, Dan-Adrian, and James Aspnes. “Sub-Logarithmic Test-and-Set against
a Weak Adversary,” 6950 LNCS:97–109. Springer, 2011. https://doi.org/10.1007/978-3-642-24100-0_7.
ieee: 'D.-A. Alistarh and J. Aspnes, “Sub-logarithmic test-and-set against a weak
adversary,” presented at the DISC: Distributed Computing, 2011, vol. 6950 LNCS,
pp. 97–109.'
ista: 'Alistarh D-A, Aspnes J. 2011. Sub-logarithmic test-and-set against a weak
adversary. DISC: Distributed Computing, LNCS, vol. 6950 LNCS, 97–109.'
mla: Alistarh, Dan-Adrian, and James Aspnes. Sub-Logarithmic Test-and-Set against
a Weak Adversary. Vol. 6950 LNCS, Springer, 2011, pp. 97–109, doi:10.1007/978-3-642-24100-0_7.
short: D.-A. Alistarh, J. Aspnes, in:, Springer, 2011, pp. 97–109.
conference:
name: 'DISC: Distributed Computing'
date_created: 2018-12-11T11:48:21Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2023-02-23T13:12:01Z
day: '01'
doi: 10.1007/978-3-642-24100-0_7
extern: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 97 - 109
publication_status: published
publisher: Springer
publist_id: '6896'
status: public
title: Sub-logarithmic test-and-set against a weak adversary
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6950 LNCS
year: '2011'
...
---
_id: '7750'
article_processing_charge: No
article_type: original
author:
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
citation:
ama: Robinson MR. Understanding intrasexual competition and sexual selection requires
an evolutionary ecology framework. Behavioral Ecology. 2011;22(6):1143-1144.
doi:10.1093/beheco/arr110
apa: Robinson, M. R. (2011). Understanding intrasexual competition and sexual selection
requires an evolutionary ecology framework. Behavioral Ecology. Oxford
University Press. https://doi.org/10.1093/beheco/arr110
chicago: Robinson, Matthew Richard. “Understanding Intrasexual Competition and Sexual
Selection Requires an Evolutionary Ecology Framework.” Behavioral Ecology.
Oxford University Press, 2011. https://doi.org/10.1093/beheco/arr110.
ieee: M. R. Robinson, “Understanding intrasexual competition and sexual selection
requires an evolutionary ecology framework,” Behavioral Ecology, vol. 22,
no. 6. Oxford University Press, pp. 1143–1144, 2011.
ista: Robinson MR. 2011. Understanding intrasexual competition and sexual selection
requires an evolutionary ecology framework. Behavioral Ecology. 22(6), 1143–1144.
mla: Robinson, Matthew Richard. “Understanding Intrasexual Competition and Sexual
Selection Requires an Evolutionary Ecology Framework.” Behavioral Ecology,
vol. 22, no. 6, Oxford University Press, 2011, pp. 1143–44, doi:10.1093/beheco/arr110.
short: M.R. Robinson, Behavioral Ecology 22 (2011) 1143–1144.
date_created: 2020-04-30T11:01:43Z
date_published: 2011-11-01T00:00:00Z
date_updated: 2021-01-12T08:15:16Z
day: '01'
doi: 10.1093/beheco/arr110
extern: '1'
intvolume: ' 22'
issue: '6'
language:
- iso: eng
month: '11'
oa_version: None
page: 1143-1144
publication: Behavioral Ecology
publication_identifier:
issn:
- 1465-7279
- 1045-2249
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Understanding intrasexual competition and sexual selection requires an evolutionary
ecology framework
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 22
year: '2011'
...
---
_id: '8025'
abstract:
- lang: eng
text: Chandelier (axoaxonic) cells (ChCs) are a distinct group of GABAergic interneurons
that innervate the axon initial segments of pyramidal cells. However, their circuit
role and the function of their clearly defined anatomical specificity remain unclear.
Recent work has demonstrated that chandelier cells can produce depolarizing GABAergic
PSPs, occasionally driving postsynaptic targets to spike. On the other hand, other
work suggests that ChCs are hyperpolarizing and may have an inhibitory role. These
disparate functional effects may reflect heterogeneity among ChCs. Here, using
brain slices from transgenic mouse strains, we first demonstrate that, across
different neocortical areas and genetic backgrounds, upper Layer 2/3 ChCs belong
to a single electrophysiologically and morphologically defined population, extensively
sampling Layer 1 inputs with asymmetric dendrites. Consistent with being a single
cell type, we find electrical coupling between ChCs. We then investigate the effect
of chandelier cell activation on pyramidal neuron spiking in several conditions,
ranging from the resting membrane potential to stimuli designed to approximate
in vivo membrane potential dynamics. We find that under quiescent conditions,
chandelier cells are capable of both promoting and inhibiting spike generation,
depending on the postsynaptic membrane potential. However, during in vivo-like
membrane potential fluctuations, the dominant postsynaptic effect was a strong
inhibition. Thus, neocortical chandelier cells, even from within a homogeneous
population, appear to play a dual role in the circuit, helping to activate quiescent
pyramidal neurons, while at the same time inhibiting active ones.
article_processing_charge: No
article_type: original
author:
- first_name: A. R.
full_name: Woodruff, A. R.
last_name: Woodruff
- first_name: L. M.
full_name: McGarry, L. M.
last_name: McGarry
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
- first_name: M.
full_name: Inan, M.
last_name: Inan
- first_name: S. A.
full_name: Anderson, S. A.
last_name: Anderson
- first_name: R.
full_name: Yuste, R.
last_name: Yuste
citation:
ama: Woodruff AR, McGarry LM, Vogels TP, Inan M, Anderson SA, Yuste R. State-dependent
function of neocortical chandelier cells. Journal of Neuroscience. 2011;31(49):17872-17886.
doi:10.1523/jneurosci.3894-11.2011
apa: Woodruff, A. R., McGarry, L. M., Vogels, T. P., Inan, M., Anderson, S. A.,
& Yuste, R. (2011). State-dependent function of neocortical chandelier cells.
Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/jneurosci.3894-11.2011
chicago: Woodruff, A. R., L. M. McGarry, Tim P Vogels, M. Inan, S. A. Anderson,
and R. Yuste. “State-Dependent Function of Neocortical Chandelier Cells.” Journal
of Neuroscience. Society for Neuroscience, 2011. https://doi.org/10.1523/jneurosci.3894-11.2011.
ieee: A. R. Woodruff, L. M. McGarry, T. P. Vogels, M. Inan, S. A. Anderson, and
R. Yuste, “State-dependent function of neocortical chandelier cells,” Journal
of Neuroscience, vol. 31, no. 49. Society for Neuroscience, pp. 17872–17886,
2011.
ista: Woodruff AR, McGarry LM, Vogels TP, Inan M, Anderson SA, Yuste R. 2011. State-dependent
function of neocortical chandelier cells. Journal of Neuroscience. 31(49), 17872–17886.
mla: Woodruff, A. R., et al. “State-Dependent Function of Neocortical Chandelier
Cells.” Journal of Neuroscience, vol. 31, no. 49, Society for Neuroscience,
2011, pp. 17872–86, doi:10.1523/jneurosci.3894-11.2011.
short: A.R. Woodruff, L.M. McGarry, T.P. Vogels, M. Inan, S.A. Anderson, R. Yuste,
Journal of Neuroscience 31 (2011) 17872–17886.
date_created: 2020-06-25T13:09:49Z
date_published: 2011-12-07T00:00:00Z
date_updated: 2021-01-12T08:16:36Z
day: '7'
doi: 10.1523/jneurosci.3894-11.2011
extern: '1'
external_id:
pmid:
- '22159102'
intvolume: ' 31'
issue: '49'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4071969/
month: '12'
oa: 1
oa_version: Published Version
page: 17872-17886
pmid: 1
publication: Journal of Neuroscience
publication_identifier:
issn:
- 0270-6474
- 1529-2401
publication_status: published
publisher: Society for Neuroscience
quality_controlled: '1'
status: public
title: State-dependent function of neocortical chandelier cells
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 31
year: '2011'
...
---
_id: '8074'
abstract:
- lang: eng
text: Cortical neurons receive balanced excitatory and inhibitory synaptic currents.
Such a balance could be established and maintained in an experience-dependent
manner by synaptic plasticity at inhibitory synapses. We show that this mechanism
provides an explanation for the sparse firing patterns observed in response to
natural stimuli and fits well with a recently observed interaction of excitatory
and inhibitory receptive field plasticity. The introduction of inhibitory plasticity
in suitable recurrent networks provides a homeostatic mechanism that leads to
asynchronous irregular network states. Further, it can accommodate synaptic memories
with activity patterns that become indiscernible from the background state but
can be reactivated by external stimuli. Our results suggest an essential role
of inhibitory plasticity in the formation and maintenance of functional cortical
circuitry.
article_processing_charge: No
article_type: original
author:
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
- first_name: H.
full_name: Sprekeler, H.
last_name: Sprekeler
- first_name: F.
full_name: Zenke, F.
last_name: Zenke
- first_name: C.
full_name: Clopath, C.
last_name: Clopath
- first_name: W.
full_name: Gerstner, W.
last_name: Gerstner
citation:
ama: Vogels TP, Sprekeler H, Zenke F, Clopath C, Gerstner W. Inhibitory plasticity
balances excitation and inhibition in sensory pathways and memory networks. Science.
2011;334(6062):1569-1573. doi:10.1126/science.1211095
apa: Vogels, T. P., Sprekeler, H., Zenke, F., Clopath, C., & Gerstner, W. (2011).
Inhibitory plasticity balances excitation and inhibition in sensory pathways and
memory networks. Science. American Association for the Advancement of Science.
https://doi.org/10.1126/science.1211095
chicago: Vogels, Tim P, H. Sprekeler, F. Zenke, C. Clopath, and W. Gerstner. “Inhibitory
Plasticity Balances Excitation and Inhibition in Sensory Pathways and Memory Networks.”
Science. American Association for the Advancement of Science, 2011. https://doi.org/10.1126/science.1211095.
ieee: T. P. Vogels, H. Sprekeler, F. Zenke, C. Clopath, and W. Gerstner, “Inhibitory
plasticity balances excitation and inhibition in sensory pathways and memory networks,”
Science, vol. 334, no. 6062. American Association for the Advancement of
Science, pp. 1569–1573, 2011.
ista: Vogels TP, Sprekeler H, Zenke F, Clopath C, Gerstner W. 2011. Inhibitory plasticity
balances excitation and inhibition in sensory pathways and memory networks. Science.
334(6062), 1569–1573.
mla: Vogels, Tim P., et al. “Inhibitory Plasticity Balances Excitation and Inhibition
in Sensory Pathways and Memory Networks.” Science, vol. 334, no. 6062,
American Association for the Advancement of Science, 2011, pp. 1569–73, doi:10.1126/science.1211095.
short: T.P. Vogels, H. Sprekeler, F. Zenke, C. Clopath, W. Gerstner, Science 334
(2011) 1569–1573.
date_created: 2020-06-30T13:26:17Z
date_published: 2011-12-16T00:00:00Z
date_updated: 2021-06-02T14:57:22Z
day: '16'
doi: 10.1126/science.1211095
extern: '1'
external_id:
pmid:
- '22075724'
intvolume: ' 334'
issue: '6062'
language:
- iso: eng
month: '12'
oa_version: None
page: 1569-1573
pmid: 1
publication: Science
publication_identifier:
issn:
- 0036-8075
- 1095-9203
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1126/science.336.6083.802-c
scopus_import: '1'
status: public
title: Inhibitory plasticity balances excitation and inhibition in sensory pathways
and memory networks
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 334
year: '2011'
...
---
_id: '8469'
abstract:
- lang: eng
text: The accurate experimental determination of dipolar-coupling constants for
one-bond heteronuclear dipolar couplings in solids is a key for the quantification
of the amplitudes of motional processes. Averaging of the dipolar coupling reports
on motions on time scales up to the inverse of the coupling constant, in our case
tens of microseconds. Combining dipolar-coupling derived order parameters that
characterize the amplitudes of the motion with relaxation data leads to a more
precise characterization of the dynamical parameters and helps to disentangle
the amplitudes and the time scales of the motional processes, which impact relaxation
rates in a highly correlated way. Here. we describe and characterize an improved
experimental protocol – based on REDOR – to measure these couplings in perdeuterated
proteins with a reduced sensitivity to experimental missettings. Because such
effects are presently the dominant source of systematic errors in experimental
dipolar-coupling measurements, these compensated experiments should help to significantly
improve the precision of such data. A detailed comparison with other commonly
used pulse sequences (T-MREV, phase-inverted CP,R18 5/2, and R18 7/1) is provided.
article_processing_charge: No
article_type: original
author:
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Beat H.
full_name: Meier, Beat H.
last_name: Meier
- first_name: Matthias
full_name: Ernst, Matthias
last_name: Ernst
citation:
ama: Schanda P, Meier BH, Ernst M. Accurate measurement of one-bond H–X heteronuclear
dipolar couplings in MAS solid-state NMR. Journal of Magnetic Resonance.
2011;210(2):246-259. doi:10.1016/j.jmr.2011.03.015
apa: Schanda, P., Meier, B. H., & Ernst, M. (2011). Accurate measurement of
one-bond H–X heteronuclear dipolar couplings in MAS solid-state NMR. Journal
of Magnetic Resonance. Elsevier. https://doi.org/10.1016/j.jmr.2011.03.015
chicago: Schanda, Paul, Beat H. Meier, and Matthias Ernst. “Accurate Measurement
of One-Bond H–X Heteronuclear Dipolar Couplings in MAS Solid-State NMR.” Journal
of Magnetic Resonance. Elsevier, 2011. https://doi.org/10.1016/j.jmr.2011.03.015.
ieee: P. Schanda, B. H. Meier, and M. Ernst, “Accurate measurement of one-bond H–X
heteronuclear dipolar couplings in MAS solid-state NMR,” Journal of Magnetic
Resonance, vol. 210, no. 2. Elsevier, pp. 246–259, 2011.
ista: Schanda P, Meier BH, Ernst M. 2011. Accurate measurement of one-bond H–X heteronuclear
dipolar couplings in MAS solid-state NMR. Journal of Magnetic Resonance. 210(2),
246–259.
mla: Schanda, Paul, et al. “Accurate Measurement of One-Bond H–X Heteronuclear Dipolar
Couplings in MAS Solid-State NMR.” Journal of Magnetic Resonance, vol.
210, no. 2, Elsevier, 2011, pp. 246–59, doi:10.1016/j.jmr.2011.03.015.
short: P. Schanda, B.H. Meier, M. Ernst, Journal of Magnetic Resonance 210 (2011)
246–259.
date_created: 2020-09-18T10:10:50Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2021-01-12T08:19:29Z
day: '01'
doi: 10.1016/j.jmr.2011.03.015
extern: '1'
intvolume: ' 210'
issue: '2'
keyword:
- Nuclear and High Energy Physics
- Biophysics
- Biochemistry
- Condensed Matter Physics
language:
- iso: eng
month: '06'
oa_version: None
page: 246-259
publication: Journal of Magnetic Resonance
publication_identifier:
issn:
- 1090-7807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Accurate measurement of one-bond H–X heteronuclear dipolar couplings in MAS
solid-state NMR
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 210
year: '2011'
...
---
_id: '8470'
abstract:
- lang: eng
text: 'Adding a new dimension: 4D or 3D proton‐detected spectra of perdeuterated
protein samples with 1H labelled amides and methyl groups permit collecting unambiguous
distance restraints with high sensitivity and determining protein structure by
solid‐state NMR (see picture).'
article_processing_charge: No
article_type: original
author:
- first_name: Matthias
full_name: Huber, Matthias
last_name: Huber
- first_name: Sebastian
full_name: Hiller, Sebastian
last_name: Hiller
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Matthias
full_name: Ernst, Matthias
last_name: Ernst
- first_name: Anja
full_name: Böckmann, Anja
last_name: Böckmann
- first_name: René
full_name: Verel, René
last_name: Verel
- first_name: Beat H.
full_name: Meier, Beat H.
last_name: Meier
citation:
ama: Huber M, Hiller S, Schanda P, et al. A proton-detected 4D solid-state NMR experiment
for protein structure determination. ChemPhysChem. 2011;12(5):915-918.
doi:10.1002/cphc.201100062
apa: Huber, M., Hiller, S., Schanda, P., Ernst, M., Böckmann, A., Verel, R., &
Meier, B. H. (2011). A proton-detected 4D solid-state NMR experiment for protein
structure determination. ChemPhysChem. Wiley. https://doi.org/10.1002/cphc.201100062
chicago: Huber, Matthias, Sebastian Hiller, Paul Schanda, Matthias Ernst, Anja Böckmann,
René Verel, and Beat H. Meier. “A Proton-Detected 4D Solid-State NMR Experiment
for Protein Structure Determination.” ChemPhysChem. Wiley, 2011. https://doi.org/10.1002/cphc.201100062.
ieee: M. Huber et al., “A proton-detected 4D solid-state NMR experiment for
protein structure determination,” ChemPhysChem, vol. 12, no. 5. Wiley,
pp. 915–918, 2011.
ista: Huber M, Hiller S, Schanda P, Ernst M, Böckmann A, Verel R, Meier BH. 2011.
A proton-detected 4D solid-state NMR experiment for protein structure determination.
ChemPhysChem. 12(5), 915–918.
mla: Huber, Matthias, et al. “A Proton-Detected 4D Solid-State NMR Experiment for
Protein Structure Determination.” ChemPhysChem, vol. 12, no. 5, Wiley,
2011, pp. 915–18, doi:10.1002/cphc.201100062.
short: M. Huber, S. Hiller, P. Schanda, M. Ernst, A. Böckmann, R. Verel, B.H. Meier,
ChemPhysChem 12 (2011) 915–918.
date_created: 2020-09-18T10:10:56Z
date_published: 2011-02-15T00:00:00Z
date_updated: 2021-01-12T08:19:30Z
day: '15'
doi: 10.1002/cphc.201100062
extern: '1'
intvolume: ' 12'
issue: '5'
keyword:
- Physical and Theoretical Chemistry
- Atomic and Molecular Physics
- and Optics
language:
- iso: eng
month: '02'
oa_version: None
page: 915-918
publication: ChemPhysChem
publication_identifier:
issn:
- 1439-4235
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: A proton-detected 4D solid-state NMR experiment for protein structure determination
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2011'
...
---
_id: '8464'
abstract:
- lang: eng
text: 'Nonsymmetric motion: Solid‐state NMR measurements of dipolar coupling tensors
provide insight into protein dynamics. The hitherto ignored asymmetry of the dipolar
coupling tensor contains valuable information about motional asymmetry, which
was used in the first direct site‐resolved measurement of such tensors. Important
motions such as rotamer jumps can now be directly detected in the solid state.'
article_processing_charge: No
article_type: original
author:
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Matthias
full_name: Huber, Matthias
last_name: Huber
- first_name: Jérôme
full_name: Boisbouvier, Jérôme
last_name: Boisbouvier
- first_name: Beat H.
full_name: Meier, Beat H.
last_name: Meier
- first_name: Matthias
full_name: Ernst, Matthias
last_name: Ernst
citation:
ama: Schanda P, Huber M, Boisbouvier J, Meier BH, Ernst M. Solid-state NMR measurements
of asymmetric dipolar couplings provide insight into protein side-chain motion.
Angewandte Chemie International Edition. 2011;50(46):11005-11009. doi:10.1002/anie.201103944
apa: Schanda, P., Huber, M., Boisbouvier, J., Meier, B. H., & Ernst, M. (2011).
Solid-state NMR measurements of asymmetric dipolar couplings provide insight into
protein side-chain motion. Angewandte Chemie International Edition. Wiley.
https://doi.org/10.1002/anie.201103944
chicago: Schanda, Paul, Matthias Huber, Jérôme Boisbouvier, Beat H. Meier, and Matthias
Ernst. “Solid-State NMR Measurements of Asymmetric Dipolar Couplings Provide Insight
into Protein Side-Chain Motion.” Angewandte Chemie International Edition.
Wiley, 2011. https://doi.org/10.1002/anie.201103944.
ieee: P. Schanda, M. Huber, J. Boisbouvier, B. H. Meier, and M. Ernst, “Solid-state
NMR measurements of asymmetric dipolar couplings provide insight into protein
side-chain motion,” Angewandte Chemie International Edition, vol. 50, no.
46. Wiley, pp. 11005–11009, 2011.
ista: Schanda P, Huber M, Boisbouvier J, Meier BH, Ernst M. 2011. Solid-state NMR
measurements of asymmetric dipolar couplings provide insight into protein side-chain
motion. Angewandte Chemie International Edition. 50(46), 11005–11009.
mla: Schanda, Paul, et al. “Solid-State NMR Measurements of Asymmetric Dipolar Couplings
Provide Insight into Protein Side-Chain Motion.” Angewandte Chemie International
Edition, vol. 50, no. 46, Wiley, 2011, pp. 11005–09, doi:10.1002/anie.201103944.
short: P. Schanda, M. Huber, J. Boisbouvier, B.H. Meier, M. Ernst, Angewandte Chemie
International Edition 50 (2011) 11005–11009.
date_created: 2020-09-18T10:09:40Z
date_published: 2011-09-14T00:00:00Z
date_updated: 2021-01-12T08:19:27Z
day: '14'
doi: 10.1002/anie.201103944
extern: '1'
intvolume: ' 50'
issue: '46'
language:
- iso: eng
month: '09'
oa_version: None
page: 11005-11009
publication: Angewandte Chemie International Edition
publication_identifier:
issn:
- 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1002/anie.201206663
status: public
title: Solid-state NMR measurements of asymmetric dipolar couplings provide insight
into protein side-chain motion
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2011'
...
---
_id: '8468'
article_processing_charge: No
article_type: original
author:
- first_name: Daniela
full_name: Lalli, Daniela
last_name: Lalli
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Anup
full_name: Chowdhury, Anup
last_name: Chowdhury
- first_name: Joren
full_name: Retel, Joren
last_name: Retel
- first_name: Matthias
full_name: Hiller, Matthias
last_name: Hiller
- first_name: Victoria A.
full_name: Higman, Victoria A.
last_name: Higman
- first_name: Lieselotte
full_name: Handel, Lieselotte
last_name: Handel
- first_name: Vipin
full_name: Agarwal, Vipin
last_name: Agarwal
- first_name: Bernd
full_name: Reif, Bernd
last_name: Reif
- first_name: Barth
full_name: van Rossum, Barth
last_name: van Rossum
- first_name: Ümit
full_name: Akbey, Ümit
last_name: Akbey
- first_name: Hartmut
full_name: Oschkinat, Hartmut
last_name: Oschkinat
citation:
ama: Lalli D, Schanda P, Chowdhury A, et al. Three-dimensional deuterium-carbon
correlation experiments for high-resolution solid-state MAS NMR spectroscopy of
large proteins. Journal of Biomolecular NMR. 2011;51(4):477-485. doi:10.1007/s10858-011-9578-1
apa: Lalli, D., Schanda, P., Chowdhury, A., Retel, J., Hiller, M., Higman, V. A.,
… Oschkinat, H. (2011). Three-dimensional deuterium-carbon correlation experiments
for high-resolution solid-state MAS NMR spectroscopy of large proteins. Journal
of Biomolecular NMR. Springer Nature. https://doi.org/10.1007/s10858-011-9578-1
chicago: Lalli, Daniela, Paul Schanda, Anup Chowdhury, Joren Retel, Matthias Hiller,
Victoria A. Higman, Lieselotte Handel, et al. “Three-Dimensional Deuterium-Carbon
Correlation Experiments for High-Resolution Solid-State MAS NMR Spectroscopy of
Large Proteins.” Journal of Biomolecular NMR. Springer Nature, 2011. https://doi.org/10.1007/s10858-011-9578-1.
ieee: D. Lalli et al., “Three-dimensional deuterium-carbon correlation experiments
for high-resolution solid-state MAS NMR spectroscopy of large proteins,” Journal
of Biomolecular NMR, vol. 51, no. 4. Springer Nature, pp. 477–485, 2011.
ista: Lalli D, Schanda P, Chowdhury A, Retel J, Hiller M, Higman VA, Handel L, Agarwal
V, Reif B, van Rossum B, Akbey Ü, Oschkinat H. 2011. Three-dimensional deuterium-carbon
correlation experiments for high-resolution solid-state MAS NMR spectroscopy of
large proteins. Journal of Biomolecular NMR. 51(4), 477–485.
mla: Lalli, Daniela, et al. “Three-Dimensional Deuterium-Carbon Correlation Experiments
for High-Resolution Solid-State MAS NMR Spectroscopy of Large Proteins.” Journal
of Biomolecular NMR, vol. 51, no. 4, Springer Nature, 2011, pp. 477–85, doi:10.1007/s10858-011-9578-1.
short: D. Lalli, P. Schanda, A. Chowdhury, J. Retel, M. Hiller, V.A. Higman, L.
Handel, V. Agarwal, B. Reif, B. van Rossum, Ü. Akbey, H. Oschkinat, Journal of
Biomolecular NMR 51 (2011) 477–485.
date_created: 2020-09-18T10:10:43Z
date_published: 2011-10-25T00:00:00Z
date_updated: 2021-01-12T08:19:29Z
day: '25'
doi: 10.1007/s10858-011-9578-1
extern: '1'
intvolume: ' 51'
issue: '4'
language:
- iso: eng
month: '10'
oa_version: None
page: 477-485
publication: Journal of Biomolecular NMR
publication_identifier:
issn:
- 0925-2738
- 1573-5001
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Three-dimensional deuterium-carbon correlation experiments for high-resolution
solid-state MAS NMR spectroscopy of large proteins
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 51
year: '2011'
...
---
_id: '890'
abstract:
- lang: eng
text: Recent discovery of the Large-billed Reed Warbler (Acrocephalus orinus) in
museums and in the wild significantly expanded our knowledge of its morphological
traits and genetic variability, and revealed new data on geographical distribution
of the breeding grounds, migration routes and wintering locations of this species.
It is now certain that A. orinus is breeding in Central Asia; however, the precise
area of distribution remains unclear. The difficulty in the further study of this
species lies in the small number of known specimens, with only 13 currently available
in museums, and in the relative uncertainty of the breeding area and habitat of
this species. Following morphological and genetic analyses from Svensson, et al,
we describe 14 new A. orinus specimens from collections of Zoological Museums
of the former USSR from the territory of Central Asian states. All of these specimens
were erroneously labeled as Blyth's Reed Warbler (A. dumetorum), which is thought
to be a breeding species in these areas. The 14 new A. orinus specimens were collected
during breeding season while most of the 85 A. dumetorum specimens from the same
area were collected during the migration period. Our data indicate that the Central
Asian territory previously attributed as breeding grounds of A. dumetorum is likely
to constitute the breeding territory of A. orinus. This rare case of a re-description
of the breeding territory of a lost species emphasizes the importance of maintenance
of museum collections around the world. If the present data on the breeding grounds
of A. orinus are confirmed with field observations and collections, the literature
on the biology of A. dumetorum from the southern part of its range may have to
be reconsidered.
acknowledgement: |
The work was supported by the Plan Nacional grant number BFU2009-09271 from the Spanish Ministry of Science and Innovation.
We extend our thanks to A.M. Peklo and I.V. Fadeev for granting us access to ornithological collections, to V.S. Shishkin, M.V. Kalyakin, R.D. Kashkarov, O.V. Belyalov and V.M. Loskot for valuable insights and to L. Svensson for extensive feedback on the manuscript. We thank E.I. Rogaev for access to ancient DNA facility.
author:
- first_name: Evgeniy
full_name: Koblik, Evgeniy A
last_name: Koblik
- first_name: Yaroslav
full_name: Red'Kin, Yaroslav A
last_name: Red'Kin
- first_name: Margarita
full_name: Meer, Margarita S
last_name: Meer
- first_name: Romain
full_name: Derelle, Romain
last_name: Derelle
- first_name: Sofia
full_name: Golenkina, Sofia A
last_name: Golenkina
- first_name: Fyodor
full_name: Fyodor Kondrashov
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
- first_name: Vladimir
full_name: Arkhipov, Vladimir Y
last_name: Arkhipov
citation:
ama: 'Koblik E, Red’Kin Y, Meer M, et al. Acrocephalus orinus: A case of Mistaken
identity. PLoS One. 2011;6(4). doi:10.1371/journal.pone.0017716'
apa: 'Koblik, E., Red’Kin, Y., Meer, M., Derelle, R., Golenkina, S., Kondrashov,
F., & Arkhipov, V. (2011). Acrocephalus orinus: A case of Mistaken identity.
PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0017716'
chicago: 'Koblik, Evgeniy, Yaroslav Red’Kin, Margarita Meer, Romain Derelle, Sofia
Golenkina, Fyodor Kondrashov, and Vladimir Arkhipov. “Acrocephalus Orinus: A Case
of Mistaken Identity.” PLoS One. Public Library of Science, 2011. https://doi.org/10.1371/journal.pone.0017716.'
ieee: 'E. Koblik et al., “Acrocephalus orinus: A case of Mistaken identity,”
PLoS One, vol. 6, no. 4. Public Library of Science, 2011.'
ista: 'Koblik E, Red’Kin Y, Meer M, Derelle R, Golenkina S, Kondrashov F, Arkhipov
V. 2011. Acrocephalus orinus: A case of Mistaken identity. PLoS One. 6(4).'
mla: 'Koblik, Evgeniy, et al. “Acrocephalus Orinus: A Case of Mistaken Identity.”
PLoS One, vol. 6, no. 4, Public Library of Science, 2011, doi:10.1371/journal.pone.0017716.'
short: E. Koblik, Y. Red’Kin, M. Meer, R. Derelle, S. Golenkina, F. Kondrashov,
V. Arkhipov, PLoS One 6 (2011).
date_created: 2018-12-11T11:49:02Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T08:21:18Z
day: '01'
doi: 10.1371/journal.pone.0017716
extern: 1
intvolume: ' 6'
issue: '4'
month: '01'
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '6760'
quality_controlled: 0
status: public
title: 'Acrocephalus orinus: A case of Mistaken identity'
type: journal_article
volume: 6
year: '2011'
...
---
_id: '90'
abstract:
- lang: eng
text: A popular method for generating micron-sized aerosols is to submerge ultrasonic
(ω ∼ MHz) piezoelectric oscillators in a water bath. The submerged oscillator
atomizes the fluid, creating droplets with radii proportional to the wavelength
of the standing wave at the fluid surface. Classical theory for the Faraday instability
predicts a parametric instability driving a capillary wave at the subharmonic
(ω / 2) frequency. For many applications it is desirable to reduce the size of
the droplets; however, using higher frequency oscillators becomes impractical
beyond a few MHz. Observations are presented that demonstrate that smaller droplets
may also be created by increasing the driving amplitude of the oscillator, and
that this effect becomes more pronounced for large driving frequencies. It is
shown that these observations are consistent with a transition from droplets associated
with subharmonic (ω/2) capillary waves to harmonic (ω) capillary waves induced
by larger driving frequencies and amplitudes, as predicted by a stability analysis
of the capillary waves.
author:
- first_name: Andrew P
full_name: Higginbotham, Andrew P
id: 4AD6785A-F248-11E8-B48F-1D18A9856A87
last_name: Higginbotham
orcid: 0000-0003-2607-2363
- first_name: A
full_name: Guillen, A
last_name: Guillen
- first_name: Nick
full_name: Jones, Nick
last_name: Jones
- first_name: Tom
full_name: Donnelly, Tom
last_name: Donnelly
- first_name: Andrew
full_name: Bernoff, Andrew
last_name: Bernoff
citation:
ama: Higginbotham AP, Guillen A, Jones N, Donnelly T, Bernoff A. Evidence of the
harmonic Faraday instability in ultrasonic atomization experiments with a deep,
inviscid fluid. Journal of the Acoustical Society of America. 2011;130(5):2694-2699.
doi:10.1121/1.3643816
apa: Higginbotham, A. P., Guillen, A., Jones, N., Donnelly, T., & Bernoff, A.
(2011). Evidence of the harmonic Faraday instability in ultrasonic atomization
experiments with a deep, inviscid fluid. Journal of the Acoustical Society
of America. Acoustical Society of America. https://doi.org/10.1121/1.3643816
chicago: Higginbotham, Andrew P, A Guillen, Nick Jones, Tom Donnelly, and Andrew
Bernoff. “Evidence of the Harmonic Faraday Instability in Ultrasonic Atomization
Experiments with a Deep, Inviscid Fluid.” Journal of the Acoustical Society
of America. Acoustical Society of America, 2011. https://doi.org/10.1121/1.3643816.
ieee: A. P. Higginbotham, A. Guillen, N. Jones, T. Donnelly, and A. Bernoff, “Evidence
of the harmonic Faraday instability in ultrasonic atomization experiments with
a deep, inviscid fluid,” Journal of the Acoustical Society of America,
vol. 130, no. 5. Acoustical Society of America, pp. 2694–2699, 2011.
ista: Higginbotham AP, Guillen A, Jones N, Donnelly T, Bernoff A. 2011. Evidence
of the harmonic Faraday instability in ultrasonic atomization experiments with
a deep, inviscid fluid. Journal of the Acoustical Society of America. 130(5),
2694–2699.
mla: Higginbotham, Andrew P., et al. “Evidence of the Harmonic Faraday Instability
in Ultrasonic Atomization Experiments with a Deep, Inviscid Fluid.” Journal
of the Acoustical Society of America, vol. 130, no. 5, Acoustical Society
of America, 2011, pp. 2694–99, doi:10.1121/1.3643816.
short: A.P. Higginbotham, A. Guillen, N. Jones, T. Donnelly, A. Bernoff, Journal
of the Acoustical Society of America 130 (2011) 2694–2699.
date_created: 2018-12-11T11:44:34Z
date_published: 2011-11-16T00:00:00Z
date_updated: 2021-01-12T08:21:44Z
day: '16'
doi: 10.1121/1.3643816
extern: '1'
external_id:
pmid:
- ' 22087897'
intvolume: ' 130'
issue: '5'
language:
- iso: eng
month: '11'
oa_version: None
page: 2694 - 2699
pmid: 1
publication: Journal of the Acoustical Society of America
publication_status: published
publisher: Acoustical Society of America
publist_id: '7964'
quality_controlled: '1'
status: public
title: Evidence of the harmonic Faraday instability in ultrasonic atomization experiments
with a deep, inviscid fluid
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 130
year: '2011'
...
---
_id: '9144'
abstract:
- lang: eng
text: "A cloud-resolving model is used to investigate the effect of warming on high
percentiles of precipitation (precipitation extremes) in the idealized setting
of radiative-convective equilibrium. While this idealized setting does not allow
for several factors that influence precipitation in the tropics, it does allow
for an evaluation of the response of precipitation extremes to warming in simulations
with resolved rather than parameterized convection. The methodology developed
should also be applicable to less idealized simulations.\r\n\r\nModeled precipitation
extremes are found to increase in magnitude in response to an increase in sea
surface temperature. A dry static energy budget is used to relate the changes
in precipitation extremes to changes in atmospheric temperature, vertical velocity,
and precipitation efficiency. To first order, the changes in precipitation extremes
are captured by changes in the mean temperature structure of the atmosphere. Changes
in vertical velocities play a secondary role and tend to weaken the strength of
precipitation extremes, despite an intensification of updraft velocities in the
upper troposphere. The influence of changes in condensate transports on precipitation
extremes is quantified in terms of a precipitation efficiency; it does not change
greatly with warming.\r\n\r\nTropical precipitation extremes have previously been
found to increase at a greater fractional rate than the amount of atmospheric
water vapor in observations of present-day variability and in some climate model
simulations with parameterized convection. But the fractional increases in precipitation
extremes in the cloud-resolving simulations are comparable in magnitude to those
in surface water vapor concentrations (owing to a partial cancellation between
dynamical and thermodynamical changes), and are substantially less than the fractional
increases in column water vapor."
article_processing_charge: No
article_type: original
author:
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: Paul A.
full_name: O’Gorman, Paul A.
last_name: O’Gorman
- first_name: Larissa E.
full_name: Back, Larissa E.
last_name: Back
citation:
ama: Muller CJ, O’Gorman PA, Back LE. Intensification of precipitation extremes
with warming in a cloud-resolving model. Journal of Climate. 2011;24(11):2784-2800.
doi:10.1175/2011jcli3876.1
apa: Muller, C. J., O’Gorman, P. A., & Back, L. E. (2011). Intensification of
precipitation extremes with warming in a cloud-resolving model. Journal of
Climate. American Meteorological Society. https://doi.org/10.1175/2011jcli3876.1
chicago: Muller, Caroline J, Paul A. O’Gorman, and Larissa E. Back. “Intensification
of Precipitation Extremes with Warming in a Cloud-Resolving Model.” Journal
of Climate. American Meteorological Society, 2011. https://doi.org/10.1175/2011jcli3876.1.
ieee: C. J. Muller, P. A. O’Gorman, and L. E. Back, “Intensification of precipitation
extremes with warming in a cloud-resolving model,” Journal of Climate,
vol. 24, no. 11. American Meteorological Society, pp. 2784–2800, 2011.
ista: Muller CJ, O’Gorman PA, Back LE. 2011. Intensification of precipitation extremes
with warming in a cloud-resolving model. Journal of Climate. 24(11), 2784–2800.
mla: Muller, Caroline J., et al. “Intensification of Precipitation Extremes with
Warming in a Cloud-Resolving Model.” Journal of Climate, vol. 24, no. 11,
American Meteorological Society, 2011, pp. 2784–800, doi:10.1175/2011jcli3876.1.
short: C.J. Muller, P.A. O’Gorman, L.E. Back, Journal of Climate 24 (2011) 2784–2800.
date_created: 2021-02-15T14:39:57Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2022-01-24T13:52:46Z
day: '01'
doi: 10.1175/2011jcli3876.1
extern: '1'
intvolume: ' 24'
issue: '11'
keyword:
- Atmospheric Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1175/2011JCLI3876.1
month: '06'
oa: 1
oa_version: Published Version
page: 2784-2800
publication: Journal of Climate
publication_identifier:
eissn:
- 1520-0442
issn:
- 0894-8755
publication_status: published
publisher: American Meteorological Society
quality_controlled: '1'
status: public
title: Intensification of precipitation extremes with warming in a cloud-resolving
model
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 24
year: '2011'
...
---
_id: '9143'
abstract:
- lang: eng
text: Understanding and predicting the response of the hydrological cycle to climate
change is a major challenge with important societal implications. Much progress
has been made in understanding the response of global average precipitation by
considering the energy balances of the atmosphere and the surface1,2,3,4,5,6.
This energetic perspective reveals that changes in temperature, greenhouse gases,
aerosols, solar forcing and cloud feedbacks can all affect the global average
rate of precipitation5,7,8,9,10,11. Local precipitation changes have conventionally
been analysed using the water vapour budget, but here we show that the energetic
approach can be extended to local changes in precipitation by including changes
in horizontal energy transport. In simulations of twenty-first century climate
change, this energy transport accounts for much of the spatial variability in
precipitation change. We show that changes in radiative and surface sensible heat
fluxes are a guide to the local precipitation response over land and at large
scales, but not at small scales over the ocean, where cloud and water vapour radiative
feedbacks dampen the response. The energetic approach described here helps bridge
the gap between our understanding of global and regional precipitation changes.
It could be applied to better understand the response of regional precipitation
to different radiative forcings, including geo-engineering schemes, as well as
to understand the differences between the fast and slow responses of regional
precipitation to such forcings.
article_processing_charge: No
article_type: original
author:
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: P. A.
full_name: O’Gorman, P. A.
last_name: O’Gorman
citation:
ama: Muller CJ, O’Gorman PA. An energetic perspective on the regional response of
precipitation to climate change. Nature Climate Change. 2011;1(5):266-271.
doi:10.1038/nclimate1169
apa: Muller, C. J., & O’Gorman, P. A. (2011). An energetic perspective on the
regional response of precipitation to climate change. Nature Climate Change.
Springer Nature. https://doi.org/10.1038/nclimate1169
chicago: Muller, Caroline J, and P. A. O’Gorman. “An Energetic Perspective on the
Regional Response of Precipitation to Climate Change.” Nature Climate Change.
Springer Nature, 2011. https://doi.org/10.1038/nclimate1169.
ieee: C. J. Muller and P. A. O’Gorman, “An energetic perspective on the regional
response of precipitation to climate change,” Nature Climate Change, vol.
1, no. 5. Springer Nature, pp. 266–271, 2011.
ista: Muller CJ, O’Gorman PA. 2011. An energetic perspective on the regional response
of precipitation to climate change. Nature Climate Change. 1(5), 266–271.
mla: Muller, Caroline J., and P. A. O’Gorman. “An Energetic Perspective on the Regional
Response of Precipitation to Climate Change.” Nature Climate Change, vol.
1, no. 5, Springer Nature, 2011, pp. 266–71, doi:10.1038/nclimate1169.
short: C.J. Muller, P.A. O’Gorman, Nature Climate Change 1 (2011) 266–271.
date_created: 2021-02-15T14:39:29Z
date_published: 2011-07-24T00:00:00Z
date_updated: 2022-01-24T13:52:11Z
day: '24'
doi: 10.1038/nclimate1169
extern: '1'
intvolume: ' 1'
issue: '5'
language:
- iso: eng
month: '07'
oa_version: None
page: 266-271
publication: Nature Climate Change
publication_identifier:
issn:
- 1758-678X
- 1758-6798
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: An energetic perspective on the regional response of precipitation to climate
change
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 1
year: '2011'
...
---
_id: '923'
abstract:
- lang: eng
text: The conserved role of Notch signaling in controlling intestinal cell fate
specification and homeostasis has been extensively studied. Nevertheless, the
precise identity of the cells in which Notch signaling is active and the role
of different Notch receptor paralogues in the intestine remain ambiguous, due
to the lack of reliable tools to investigate Notch expression and function in
vivo. We generated a new series of transgenic mice that allowed us, by lineage
analysis, to formally prove that Notch1 and Notch2 are specifically expressed
in crypt stem cells. In addition, a novel Notch reporter mouse, Hes1-EmGFP SAT,
demonstrated exclusive Notch activity in crypt stem cells and absorptive progenitors.
This roster of knock-in and reporter mice represents a valuable resource to functionally
explore the Notch pathway in vivo in virtually all tissues.
article_number: e25785
author:
- first_name: Silvia
full_name: Fré, Silvia
last_name: Fré
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Sanja
full_name: Šale, Sanja
last_name: Šale
- first_name: Mathilde
full_name: Huyghe, Mathilde
last_name: Huyghe
- first_name: Daniel
full_name: Lafkas, Daniel
last_name: Lafkas
- first_name: Holger
full_name: Kissel, Holger
last_name: Kissel
- first_name: Angeliki
full_name: Louvi, Angeliki
last_name: Louvi
- first_name: Jeffrey
full_name: Greve, Jeffrey
last_name: Greve
- first_name: Daniel
full_name: Louvard, Daniel
last_name: Louvard
- first_name: Spyros
full_name: Artavanis Tsakonas, Spyros
last_name: Artavanis Tsakonas
citation:
ama: Fré S, Hannezo EB, Šale S, et al. Notch lineages and activity in intestinal
stem cells determined by a new set of knock in mice. PLoS One. 2011;6(10).
doi:10.1371/journal.pone.0025785
apa: Fré, S., Hannezo, E. B., Šale, S., Huyghe, M., Lafkas, D., Kissel, H., … Artavanis
Tsakonas, S. (2011). Notch lineages and activity in intestinal stem cells determined
by a new set of knock in mice. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0025785
chicago: Fré, Silvia, Edouard B Hannezo, Sanja Šale, Mathilde Huyghe, Daniel Lafkas,
Holger Kissel, Angeliki Louvi, Jeffrey Greve, Daniel Louvard, and Spyros Artavanis
Tsakonas. “Notch Lineages and Activity in Intestinal Stem Cells Determined by
a New Set of Knock in Mice.” PLoS One. Public Library of Science, 2011.
https://doi.org/10.1371/journal.pone.0025785.
ieee: S. Fré et al., “Notch lineages and activity in intestinal stem cells
determined by a new set of knock in mice,” PLoS One, vol. 6, no. 10. Public
Library of Science, 2011.
ista: Fré S, Hannezo EB, Šale S, Huyghe M, Lafkas D, Kissel H, Louvi A, Greve J,
Louvard D, Artavanis Tsakonas S. 2011. Notch lineages and activity in intestinal
stem cells determined by a new set of knock in mice. PLoS One. 6(10), e25785.
mla: Fré, Silvia, et al. “Notch Lineages and Activity in Intestinal Stem Cells Determined
by a New Set of Knock in Mice.” PLoS One, vol. 6, no. 10, e25785, Public
Library of Science, 2011, doi:10.1371/journal.pone.0025785.
short: S. Fré, E.B. Hannezo, S. Šale, M. Huyghe, D. Lafkas, H. Kissel, A. Louvi,
J. Greve, D. Louvard, S. Artavanis Tsakonas, PLoS One 6 (2011).
date_created: 2018-12-11T11:49:13Z
date_published: 2011-10-03T00:00:00Z
date_updated: 2021-01-12T08:21:56Z
day: '03'
ddc:
- '570'
doi: 10.1371/journal.pone.0025785
extern: '1'
file:
- access_level: open_access
checksum: b4e864125dfcb9fa57a9e01688838081
content_type: application/pdf
creator: dernst
date_created: 2019-05-10T11:20:26Z
date_updated: 2020-07-14T12:48:15Z
file_id: '6401'
file_name: 2011_PLOS1_Fre.PDF
file_size: 2860615
relation: main_file
file_date_updated: 2020-07-14T12:48:15Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '6520'
quality_controlled: '1'
status: public
title: Notch lineages and activity in intestinal stem cells determined by a new set
of knock in mice
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2011'
...
---
_id: '9483'
abstract:
- lang: eng
text: Imprinted genes are expressed primarily or exclusively from either the maternal
or paternal allele, a phenomenon that occurs in flowering plants and mammals.
Flowering plant imprinted gene expression has been described primarily in endosperm,
a terminal nutritive tissue consumed by the embryo during seed development or
after germination. Imprinted expression in Arabidopsis thaliana endosperm is orchestrated
by differences in cytosine DNA methylation between the paternal and maternal genomes
as well as by Polycomb group proteins. Currently, only 11 imprinted A. thaliana
genes are known. Here, we use extensive sequencing of cDNA libraries to identify
9 paternally expressed and 34 maternally expressed imprinted genes in A. thaliana
endosperm that are regulated by the DNA-demethylating glycosylase DEMETER, the
DNA methyltransferase MET1, and/or the core Polycomb group protein FIE. These
genes encode transcription factors, proteins involved in hormone signaling, components
of the ubiquitin protein degradation pathway, regulators of histone and DNA methylation,
and small RNA pathway proteins. We also identify maternally expressed genes that
may be regulated by unknown mechanisms or deposited from maternal tissues. We
did not detect any imprinted genes in the embryo. Our results show that imprinted
gene expression is an extensive mechanistically complex phenomenon that likely
affects multiple aspects of seed development.
article_processing_charge: No
article_type: original
author:
- first_name: Tzung-Fu
full_name: Hsieh, Tzung-Fu
last_name: Hsieh
- first_name: Juhyun
full_name: Shin, Juhyun
last_name: Shin
- first_name: Rie
full_name: Uzawa, Rie
last_name: Uzawa
- first_name: Pedro
full_name: Silva, Pedro
last_name: Silva
- first_name: Stephanie
full_name: Cohen, Stephanie
last_name: Cohen
- first_name: Matthew J.
full_name: Bauer, Matthew J.
last_name: Bauer
- first_name: Meryl
full_name: Hashimoto, Meryl
last_name: Hashimoto
- first_name: Ryan C.
full_name: Kirkbride, Ryan C.
last_name: Kirkbride
- first_name: John J.
full_name: Harada, John J.
last_name: Harada
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Robert L.
full_name: Fischer, Robert L.
last_name: Fischer
citation:
ama: Hsieh T-F, Shin J, Uzawa R, et al. Regulation of imprinted gene expression
in Arabidopsis endosperm. Proceedings of the National Academy of Sciences.
2011;108(5):1755-1762. doi:10.1073/pnas.1019273108
apa: Hsieh, T.-F., Shin, J., Uzawa, R., Silva, P., Cohen, S., Bauer, M. J., … Fischer,
R. L. (2011). Regulation of imprinted gene expression in Arabidopsis endosperm.
Proceedings of the National Academy of Sciences. National Academy of Sciences.
https://doi.org/10.1073/pnas.1019273108
chicago: Hsieh, Tzung-Fu, Juhyun Shin, Rie Uzawa, Pedro Silva, Stephanie Cohen,
Matthew J. Bauer, Meryl Hashimoto, et al. “Regulation of Imprinted Gene Expression
in Arabidopsis Endosperm.” Proceedings of the National Academy of Sciences.
National Academy of Sciences, 2011. https://doi.org/10.1073/pnas.1019273108.
ieee: T.-F. Hsieh et al., “Regulation of imprinted gene expression in Arabidopsis
endosperm,” Proceedings of the National Academy of Sciences, vol. 108,
no. 5. National Academy of Sciences, pp. 1755–1762, 2011.
ista: Hsieh T-F, Shin J, Uzawa R, Silva P, Cohen S, Bauer MJ, Hashimoto M, Kirkbride
RC, Harada JJ, Zilberman D, Fischer RL. 2011. Regulation of imprinted gene expression
in Arabidopsis endosperm. Proceedings of the National Academy of Sciences. 108(5),
1755–1762.
mla: Hsieh, Tzung-Fu, et al. “Regulation of Imprinted Gene Expression in Arabidopsis
Endosperm.” Proceedings of the National Academy of Sciences, vol. 108,
no. 5, National Academy of Sciences, 2011, pp. 1755–62, doi:10.1073/pnas.1019273108.
short: T.-F. Hsieh, J. Shin, R. Uzawa, P. Silva, S. Cohen, M.J. Bauer, M. Hashimoto,
R.C. Kirkbride, J.J. Harada, D. Zilberman, R.L. Fischer, Proceedings of the National
Academy of Sciences 108 (2011) 1755–1762.
date_created: 2021-06-07T07:40:38Z
date_published: 2011-02-01T00:00:00Z
date_updated: 2021-12-14T08:33:49Z
day: '01'
department:
- _id: DaZi
doi: 10.1073/pnas.1019273108
extern: '1'
external_id:
pmid:
- '21257907'
intvolume: ' 108'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1019273108
month: '02'
oa: 1
oa_version: Published Version
page: 1755-1762
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Regulation of imprinted gene expression in Arabidopsis endosperm
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 108
year: '2011'
...
---
_id: '967'
abstract:
- lang: eng
text: Motivated by recent experiments on the material Ba3NiSb 2O9, we consider a
spin-one quantum antiferromagnet on a triangular lattice with the Heisenberg bilinear
and biquadratic exchange interactions and a single-ion anisotropy. Using a fermionic
"triplon" representation for spins, we study the phase diagram within
mean-field theory. In addition to a fully gapped spin-liquid ground state, we
find a state where one gapless triplon mode with a Fermi surface coexists with
d+id topological pairing of the other triplons. Despite the existence of a Fermi
surface, this ground state has fully gapped bulk spin excitations. Such a state
has linear in-temperature specific heat and constant in-plane spin susceptibility,
with an unusually high Wilson ratio.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Todadri
full_name: Senthil, Todadri S
last_name: Senthil
- first_name: Patrick
full_name: Lee, Patrick
last_name: Lee
citation:
ama: Serbyn M, Senthil T, Lee P. Exotic S=1 spin-liquid state with fermionic excitations
on the triangular lattice. Physical Review B - Condensed Matter and Materials
Physics. 2011;84(18). doi:10.1103/PhysRevB.84.180403
apa: Serbyn, M., Senthil, T., & Lee, P. (2011). Exotic S=1 spin-liquid state
with fermionic excitations on the triangular lattice. Physical Review B - Condensed
Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.84.180403
chicago: Serbyn, Maksym, Todadri Senthil, and Patrick Lee. “Exotic S=1 Spin-Liquid
State with Fermionic Excitations on the Triangular Lattice.” Physical Review
B - Condensed Matter and Materials Physics. American Physical Society, 2011.
https://doi.org/10.1103/PhysRevB.84.180403.
ieee: M. Serbyn, T. Senthil, and P. Lee, “Exotic S=1 spin-liquid state with fermionic
excitations on the triangular lattice,” Physical Review B - Condensed Matter
and Materials Physics, vol. 84, no. 18. American Physical Society, 2011.
ista: Serbyn M, Senthil T, Lee P. 2011. Exotic S=1 spin-liquid state with fermionic
excitations on the triangular lattice. Physical Review B - Condensed Matter and
Materials Physics. 84(18).
mla: Serbyn, Maksym, et al. “Exotic S=1 Spin-Liquid State with Fermionic Excitations
on the Triangular Lattice.” Physical Review B - Condensed Matter and Materials
Physics, vol. 84, no. 18, American Physical Society, 2011, doi:10.1103/PhysRevB.84.180403.
short: M. Serbyn, T. Senthil, P. Lee, Physical Review B - Condensed Matter and Materials
Physics 84 (2011).
date_created: 2018-12-11T11:49:27Z
date_published: 2011-11-03T00:00:00Z
date_updated: 2021-01-12T08:22:18Z
day: '03'
doi: 10.1103/PhysRevB.84.180403
extern: 1
intvolume: ' 84'
issue: '18'
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1108.3070
month: '11'
oa: 1
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '6432'
quality_controlled: 0
status: public
title: Exotic S=1 spin-liquid state with fermionic excitations on the triangular lattice
type: journal_article
volume: 84
year: '2011'
...
---
_id: '969'
abstract:
- lang: eng
text: We investigate the isotope effect on the London penetration depth of a superconductor
which measures n S/m*, the ratio of superfluid density to effective mass. We use
a simplified model of electrons weakly coupled to a single phonon frequency ω
E, but assume that the energy gap Δ does not have any isotope effect. Nevertheless,
we find an isotope effect for n S/m* which is significant if Δ is sufficiently
large that it becomes comparable to ω E, a regime of interest to high-T c cuprate
superconductors and possibly other families of unconventional superconductors
with relatively high T c. Our model is too simple to describe the cuprates and
it gives the wrong sign of the isotope effect when compared with experiment, but
it is a proof of principle that the isotope effect exists for n S/m* in materials
where the pairing gap and T c are not of phonon origin and have no isotope effect.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Patrick
full_name: Lee, Patrick
last_name: Lee
citation:
ama: Serbyn M, Lee P. Isotope effect on the superfluid density in conventional and
high-temperature superconductors. Physical Review B - Condensed Matter and
Materials Physics. 2011;83(2). doi:10.1103/PhysRevB.83.024506
apa: Serbyn, M., & Lee, P. (2011). Isotope effect on the superfluid density
in conventional and high-temperature superconductors. Physical Review B - Condensed
Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.83.024506
chicago: Serbyn, Maksym, and Patrick Lee. “Isotope Effect on the Superfluid Density
in Conventional and High-Temperature Superconductors.” Physical Review B -
Condensed Matter and Materials Physics. American Physical Society, 2011. https://doi.org/10.1103/PhysRevB.83.024506.
ieee: M. Serbyn and P. Lee, “Isotope effect on the superfluid density in conventional
and high-temperature superconductors,” Physical Review B - Condensed Matter
and Materials Physics, vol. 83, no. 2. American Physical Society, 2011.
ista: Serbyn M, Lee P. 2011. Isotope effect on the superfluid density in conventional
and high-temperature superconductors. Physical Review B - Condensed Matter and
Materials Physics. 83(2).
mla: Serbyn, Maksym, and Patrick Lee. “Isotope Effect on the Superfluid Density
in Conventional and High-Temperature Superconductors.” Physical Review B -
Condensed Matter and Materials Physics, vol. 83, no. 2, American Physical
Society, 2011, doi:10.1103/PhysRevB.83.024506.
short: M. Serbyn, P. Lee, Physical Review B - Condensed Matter and Materials Physics
83 (2011).
date_created: 2018-12-11T11:49:28Z
date_published: 2011-01-19T00:00:00Z
date_updated: 2021-01-12T08:22:19Z
day: '19'
doi: 10.1103/PhysRevB.83.024506
extern: 1
intvolume: ' 83'
issue: '2'
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1009.2429
month: '01'
oa: 1
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '6434'
quality_controlled: 0
status: public
title: Isotope effect on the superfluid density in conventional and high-temperature
superconductors
type: journal_article
volume: 83
year: '2011'
...
---
_id: '8471'
abstract:
- lang: eng
text: Despite the importance of protein fibrils in the context of conformational
diseases, information on their structure is still sparse. Hydrogen/deuterium exchange
measurements of backbone amide protons allow the identification hydrogen-bonding
patterns and reveal pertinent information on the amyloid β-sheet architecture.
However, they provide only little information on the identity of residues exposed
to solvent or buried inside the fibril core. NMR spectroscopy is a potent method
for identifying solvent-accessible residues in proteins via observation of polarization
transfer between chemically exchanging side-chain protons and water protons. We
show here that the combined use of highly deuterated samples and fast magic-angle
spinning greatly attenuates unwanted spin diffusion and allows identification
of polarization exchange with the solvent in a site-specific manner. We apply
this measurement protocol to HET-s(218–289) prion fibrils under different conditions
(including physiological pH, where protofibrils assemble together into thicker
fibrils) and demonstrate that each protofibril of HET-s(218–289), is surrounded
by water, thus excluding the existence of extended dry interfibril contacts. We
also show that exchangeable side-chain protons inside the hydrophobic core of
HET-s(218–289) do not exchange over time intervals of weeks to months. The experiments
proposed in this study can provide insight into the detailed structural features
of amyloid fibrils in general.
article_processing_charge: No
article_type: original
author:
- first_name: Hélène
full_name: Van Melckebeke, Hélène
last_name: Van Melckebeke
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Julia
full_name: Gath, Julia
last_name: Gath
- first_name: Christian
full_name: Wasmer, Christian
last_name: Wasmer
- first_name: René
full_name: Verel, René
last_name: Verel
- first_name: Adam
full_name: Lange, Adam
last_name: Lange
- first_name: Beat H.
full_name: Meier, Beat H.
last_name: Meier
- first_name: Anja
full_name: Böckmann, Anja
last_name: Böckmann
citation:
ama: Van Melckebeke H, Schanda P, Gath J, et al. Probing water accessibility in
HET-s(218–289) amyloid fibrils by solid-state NMR. Journal of Molecular Biology.
2011;405(3):765-772. doi:10.1016/j.jmb.2010.11.004
apa: Van Melckebeke, H., Schanda, P., Gath, J., Wasmer, C., Verel, R., Lange, A.,
… Böckmann, A. (2011). Probing water accessibility in HET-s(218–289) amyloid fibrils
by solid-state NMR. Journal of Molecular Biology. Elsevier. https://doi.org/10.1016/j.jmb.2010.11.004
chicago: Van Melckebeke, Hélène, Paul Schanda, Julia Gath, Christian Wasmer, René
Verel, Adam Lange, Beat H. Meier, and Anja Böckmann. “Probing Water Accessibility
in HET-s(218–289) Amyloid Fibrils by Solid-State NMR.” Journal of Molecular
Biology. Elsevier, 2011. https://doi.org/10.1016/j.jmb.2010.11.004.
ieee: H. Van Melckebeke et al., “Probing water accessibility in HET-s(218–289)
amyloid fibrils by solid-state NMR,” Journal of Molecular Biology, vol.
405, no. 3. Elsevier, pp. 765–772, 2011.
ista: Van Melckebeke H, Schanda P, Gath J, Wasmer C, Verel R, Lange A, Meier BH,
Böckmann A. 2011. Probing water accessibility in HET-s(218–289) amyloid fibrils
by solid-state NMR. Journal of Molecular Biology. 405(3), 765–772.
mla: Van Melckebeke, Hélène, et al. “Probing Water Accessibility in HET-s(218–289)
Amyloid Fibrils by Solid-State NMR.” Journal of Molecular Biology, vol.
405, no. 3, Elsevier, 2011, pp. 765–72, doi:10.1016/j.jmb.2010.11.004.
short: H. Van Melckebeke, P. Schanda, J. Gath, C. Wasmer, R. Verel, A. Lange, B.H.
Meier, A. Böckmann, Journal of Molecular Biology 405 (2011) 765–772.
date_created: 2020-09-18T10:11:03Z
date_published: 2011-01-21T00:00:00Z
date_updated: 2021-01-12T08:19:30Z
day: '21'
doi: 10.1016/j.jmb.2010.11.004
extern: '1'
intvolume: ' 405'
issue: '3'
language:
- iso: eng
month: '01'
oa_version: None
page: 765-772
publication: Journal of Molecular Biology
publication_identifier:
issn:
- 0022-2836
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Probing water accessibility in HET-s(218–289) amyloid fibrils by solid-state
NMR
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 405
year: '2011'
...
---
_id: '8505'
abstract:
- lang: eng
text: The classical principle of least action says that orbits of mechanical systems
extremize action; an important subclass are those orbits that minimize action.
In this paper we utilize this principle along with Aubry-Mather theory to construct
(Birkhoff) regions of instability for a certain three-body problem, given by a
Hamiltonian system of 2 degrees of freedom. We believe that these methods can
be applied to construct instability regions for a variety of Hamiltonian systems
with 2 degrees of freedom. The Hamiltonian model we consider describes dynamics
of a Sun-Jupiter-comet system, and under some simplifying assumptions, we show
the existence of instabilities for the orbit of the comet. In particular, we show
that a comet which starts close to an orbit in the shape of an ellipse of eccentricity
e=0.66 can increase in eccentricity up to e=0.96. In the sequels to this paper,
we extend the result to beyond e=1 and show the existence of ejection orbits.
Such orbits are initially well within the range of our solar system. This might
give an indication of why most objects rotating around the Sun in our solar system
have relatively low eccentricity.
article_processing_charge: No
article_type: original
author:
- first_name: Joseph
full_name: Galante, Joseph
last_name: Galante
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
citation:
ama: Galante J, Kaloshin V. Destruction of invariant curves in the restricted circular
planar three-body problem by using comparison of action. Duke Mathematical
Journal. 2011;159(2):275-327. doi:10.1215/00127094-1415878
apa: Galante, J., & Kaloshin, V. (2011). Destruction of invariant curves in
the restricted circular planar three-body problem by using comparison of action.
Duke Mathematical Journal. Duke University Press. https://doi.org/10.1215/00127094-1415878
chicago: Galante, Joseph, and Vadim Kaloshin. “Destruction of Invariant Curves in
the Restricted Circular Planar Three-Body Problem by Using Comparison of Action.”
Duke Mathematical Journal. Duke University Press, 2011. https://doi.org/10.1215/00127094-1415878.
ieee: J. Galante and V. Kaloshin, “Destruction of invariant curves in the restricted
circular planar three-body problem by using comparison of action,” Duke Mathematical
Journal, vol. 159, no. 2. Duke University Press, pp. 275–327, 2011.
ista: Galante J, Kaloshin V. 2011. Destruction of invariant curves in the restricted
circular planar three-body problem by using comparison of action. Duke Mathematical
Journal. 159(2), 275–327.
mla: Galante, Joseph, and Vadim Kaloshin. “Destruction of Invariant Curves in the
Restricted Circular Planar Three-Body Problem by Using Comparison of Action.”
Duke Mathematical Journal, vol. 159, no. 2, Duke University Press, 2011,
pp. 275–327, doi:10.1215/00127094-1415878.
short: J. Galante, V. Kaloshin, Duke Mathematical Journal 159 (2011) 275–327.
date_created: 2020-09-18T10:47:41Z
date_published: 2011-08-04T00:00:00Z
date_updated: 2021-01-12T08:19:45Z
day: '04'
doi: 10.1215/00127094-1415878
extern: '1'
intvolume: ' 159'
issue: '2'
keyword:
- General Mathematics
language:
- iso: eng
month: '08'
oa_version: None
page: 275-327
publication: Duke Mathematical Journal
publication_identifier:
issn:
- 0012-7094
publication_status: published
publisher: Duke University Press
quality_controlled: '1'
status: public
title: Destruction of invariant curves in the restricted circular planar three-body
problem by using comparison of action
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 159
year: '2011'
...
---
_id: '881'
author:
- first_name: Fyodor
full_name: Fyodor Kondrashov
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
citation:
ama: 'Kondrashov F. Gene Dosage and Duplication. In: Evolution after Gene Duplication.
Wiley-Blackwell; 2011:57-76. doi:10.1002/9780470619902.ch4'
apa: Kondrashov, F. (2011). Gene Dosage and Duplication. In Evolution after Gene
Duplication (pp. 57–76). Wiley-Blackwell. https://doi.org/10.1002/9780470619902.ch4
chicago: Kondrashov, Fyodor. “Gene Dosage and Duplication.” In Evolution after
Gene Duplication, 57–76. Wiley-Blackwell, 2011. https://doi.org/10.1002/9780470619902.ch4.
ieee: F. Kondrashov, “Gene Dosage and Duplication,” in Evolution after Gene Duplication,
Wiley-Blackwell, 2011, pp. 57–76.
ista: 'Kondrashov F. 2011.Gene Dosage and Duplication. In: Evolution after Gene
Duplication. , 57–76.'
mla: Kondrashov, Fyodor. “Gene Dosage and Duplication.” Evolution after Gene
Duplication, Wiley-Blackwell, 2011, pp. 57–76, doi:10.1002/9780470619902.ch4.
short: F. Kondrashov, in:, Evolution after Gene Duplication, Wiley-Blackwell, 2011,
pp. 57–76.
date_created: 2018-12-11T11:49:00Z
date_published: 2011-03-14T00:00:00Z
date_updated: 2021-01-12T08:21:08Z
day: '14'
doi: 10.1002/9780470619902.ch4
extern: 1
month: '03'
page: 57 - 76
publication: Evolution after Gene Duplication
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6766'
quality_controlled: 0
status: public
title: Gene Dosage and Duplication
type: book_chapter
year: '2011'
...
---
_id: '919'
abstract:
- lang: eng
text: Collective cell migration in tissues occurs throughout embryonic development,
during wound healing, and in cancerous tumor invasion, yet most detailed knowledge
of cell migration comes from single-cell studies. As single cells migrate, the
shape of the cell body fluctuates dramatically through cyclic processes of extension,
adhesion, and retraction, accompanied by erratic changes in migration direction.
Within confluent cell layers, such subcellular motions must be coupled between
neighbors, yet the influence of these subcellular motions on collective migration
is not known. Here we study motion within a confluent epithelial cell sheet, simultaneously
measuring collective migration and subcellular motions, covering a broad range
of length scales, time scales, and cell densities. At large length scales and
time scales collective migration slows as cell density rises, yet the fastest
cells move in large, multicell groups whose scale grows with increasing cell density.
This behavior has an intriguing analogy to dynamic heterogeneities found in particulate
systems as they become more crowded and approach a glass transition. In addition
we find a diminishing self-diffusivity of short-wavelength motions within the
cell layer, and growing peaks in the vibrational density of states associated
with cooperative cell-shape fluctuations. Both of these observations are also
intriguingly reminiscent of a glass transition. Thus, these results provide a
broad and suggestive analogy between cell motion within a confluent layer and
the dynamics of supercooled colloidal and molecular fluids approaching a glass
transition.
author:
- first_name: Thomas
full_name: Angelini, Thomas
last_name: Angelini
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Xavier
full_name: Trepatc, Xavier
last_name: Trepatc
- first_name: Manuel
full_name: Marquez, Manuel
last_name: Marquez
- first_name: Jeffrey
full_name: Fredberg, Jeffrey
last_name: Fredberg
- first_name: David
full_name: Weitz, David
last_name: Weitz
citation:
ama: Angelini T, Hannezo EB, Trepatc X, Marquez M, Fredberg J, Weitz D. Glass-like
dynamics of collective cell migration. Proceedings of the National Academy
of Sciences of the United States of America. 2011;108(12):4714-4719. doi:10.1073/pnas.1010059108
apa: Angelini, T., Hannezo, E. B., Trepatc, X., Marquez, M., Fredberg, J., &
Weitz, D. (2011). Glass-like dynamics of collective cell migration. Proceedings
of the National Academy of Sciences of the United States of America. PNAS.
https://doi.org/10.1073/pnas.1010059108
chicago: Angelini, Thomas, Edouard B Hannezo, Xavier Trepatc, Manuel Marquez, Jeffrey
Fredberg, and David Weitz. “Glass-like Dynamics of Collective Cell Migration.”
Proceedings of the National Academy of Sciences of the United States of America.
PNAS, 2011. https://doi.org/10.1073/pnas.1010059108.
ieee: T. Angelini, E. B. Hannezo, X. Trepatc, M. Marquez, J. Fredberg, and D. Weitz,
“Glass-like dynamics of collective cell migration,” Proceedings of the National
Academy of Sciences of the United States of America, vol. 108, no. 12. PNAS,
pp. 4714–4719, 2011.
ista: Angelini T, Hannezo EB, Trepatc X, Marquez M, Fredberg J, Weitz D. 2011. Glass-like
dynamics of collective cell migration. Proceedings of the National Academy of
Sciences of the United States of America. 108(12), 4714–4719.
mla: Angelini, Thomas, et al. “Glass-like Dynamics of Collective Cell Migration.”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 108, no. 12, PNAS, 2011, pp. 4714–19, doi:10.1073/pnas.1010059108.
short: T. Angelini, E.B. Hannezo, X. Trepatc, M. Marquez, J. Fredberg, D. Weitz,
Proceedings of the National Academy of Sciences of the United States of America
108 (2011) 4714–4719.
date_created: 2018-12-11T11:49:12Z
date_published: 2011-03-22T00:00:00Z
date_updated: 2021-01-12T08:21:54Z
day: '22'
doi: 10.1073/pnas.1010059108
extern: '1'
intvolume: ' 108'
issue: '12'
language:
- iso: eng
month: '03'
oa_version: None
page: 4714 - 4719
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_status: published
publisher: PNAS
publist_id: '6522'
quality_controlled: '1'
status: public
title: Glass-like dynamics of collective cell migration
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 108
year: '2011'
...
---
_id: '918'
abstract:
- lang: eng
text: We study theoretically the shapes of a dividing epithelial monolayer of cells
lying on top of an elastic stroma. The negative tension created by cell division
provokes a buckling instability at a finite wave vector leading to the formation
of periodic arrays of villi and crypts. The instability is similar to the buckling
of a metallic plate under compression. We use the results to rationalize the various
structures of the intestinal lining observed in vivo. Taking into account the
coupling between cell division and local curvature, we obtain different patterns
of villi and crypts, which could explain the different morphologies of the small
intestine and the colon.
acknowledgement: We thank S. Fre and M. Huygue for discussion and for showing us in
vivo samples and A. Bergès for help with the manuscript.
article_processing_charge: No
author:
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Jacques
full_name: Prost, Jacques
last_name: Prost
- first_name: Jean
full_name: Joanny, Jean
last_name: Joanny
citation:
ama: Hannezo EB, Prost J, Joanny J. Instabilities of monolayered epithelia Shape
and structure of villi and crypts. Physical Review Letters. 2011;107(7).
doi:10.1103/PhysRevLett.107.078104
apa: Hannezo, E. B., Prost, J., & Joanny, J. (2011). Instabilities of monolayered
epithelia Shape and structure of villi and crypts. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/PhysRevLett.107.078104
chicago: Hannezo, Edouard B, Jacques Prost, and Jean Joanny. “Instabilities of Monolayered
Epithelia Shape and Structure of Villi and Crypts.” Physical Review Letters.
American Physical Society, 2011. https://doi.org/10.1103/PhysRevLett.107.078104.
ieee: E. B. Hannezo, J. Prost, and J. Joanny, “Instabilities of monolayered epithelia
Shape and structure of villi and crypts,” Physical Review Letters, vol.
107, no. 7. American Physical Society, 2011.
ista: Hannezo EB, Prost J, Joanny J. 2011. Instabilities of monolayered epithelia
Shape and structure of villi and crypts. Physical Review Letters. 107(7).
mla: Hannezo, Edouard B., et al. “Instabilities of Monolayered Epithelia Shape and
Structure of Villi and Crypts.” Physical Review Letters, vol. 107, no.
7, American Physical Society, 2011, doi:10.1103/PhysRevLett.107.078104.
short: E.B. Hannezo, J. Prost, J. Joanny, Physical Review Letters 107 (2011).
date_created: 2018-12-11T11:49:11Z
date_published: 2011-08-11T00:00:00Z
date_updated: 2021-01-12T08:21:54Z
day: '11'
doi: 10.1103/PhysRevLett.107.078104
extern: '1'
intvolume: ' 107'
issue: '7'
language:
- iso: eng
month: '08'
oa_version: None
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6521'
status: public
title: Instabilities of monolayered epithelia Shape and structure of villi and crypts
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 107
year: '2011'
...
---
_id: '9522'
abstract:
- lang: eng
text: Little is known about chromatin remodeling events immediately after fertilization.
A recent report by Autran et al. (2011) in Cell now shows that chromatin regulatory
pathways that silence transposable elements are responsible for global delayed
activation of gene expression in the early Arabidopsis embryo.
article_processing_charge: No
author:
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Zilberman D. Balancing Parental Contributions in Plant Embryonic Gene Activation.
Vol 20. Elsevier; 2011:735-736. doi:10.1016/j.devcel.2011.05.018
apa: Zilberman, D. (2011). Balancing parental contributions in plant embryonic
gene activation. Developmental Cell (Vol. 20, pp. 735–736). Elsevier.
https://doi.org/10.1016/j.devcel.2011.05.018
chicago: Zilberman, Daniel. Balancing Parental Contributions in Plant Embryonic
Gene Activation. Developmental Cell. Vol. 20. Elsevier, 2011. https://doi.org/10.1016/j.devcel.2011.05.018.
ieee: D. Zilberman, Balancing parental contributions in plant embryonic gene
activation, vol. 20, no. 6. Elsevier, 2011, pp. 735–736.
ista: Zilberman D. 2011. Balancing parental contributions in plant embryonic gene
activation, Elsevier,p.
mla: Zilberman, Daniel. “Balancing Parental Contributions in Plant Embryonic Gene
Activation.” Developmental Cell, vol. 20, no. 6, Elsevier, 2011, pp. 735–36,
doi:10.1016/j.devcel.2011.05.018.
short: D. Zilberman, Balancing Parental Contributions in Plant Embryonic Gene Activation,
Elsevier, 2011.
date_created: 2021-06-08T06:23:39Z
date_published: 2011-06-14T00:00:00Z
date_updated: 2021-12-14T08:34:37Z
day: '14'
department:
- _id: DaZi
doi: 10.1016/j.devcel.2011.05.018
extern: '1'
external_id:
pmid:
- '21664571'
intvolume: ' 20'
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2011.05.018
month: '06'
oa: 1
oa_version: Published Version
page: 735-736
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Balancing parental contributions in plant embryonic gene activation
type: other_academic_publication
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 20
year: '2011'
...
---
_id: '9648'
abstract:
- lang: eng
text: In this paper, we establish a correspondence between the incremental algorithm
for computing AT-models [8,9] and the one for computing persistent homology [6,14,15].
We also present a decremental algorithm for computing AT-models that allows to
extend the persistence computation to a wider setting. Finally, we show how to
combine incremental and decremental techniques for persistent homology computation.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Rocio
full_name: Gonzalez-Diaz, Rocio
last_name: Gonzalez-Diaz
- first_name: Adrian
full_name: Ion, Adrian
id: 29F89302-F248-11E8-B48F-1D18A9856A87
last_name: Ion
- first_name: Maria Jose
full_name: Jimenez, Maria Jose
last_name: Jimenez
- first_name: Regina
full_name: Poyatos, Regina
last_name: Poyatos
citation:
ama: 'Gonzalez-Diaz R, Ion A, Jimenez MJ, Poyatos R. Incremental-decremental algorithm
for computing AT-models and persistent homology. In: Computer Analysis of Images
and Patterns. Vol 6854. Springer Nature; 2011:286-293. doi:10.1007/978-3-642-23672-3_35'
apa: 'Gonzalez-Diaz, R., Ion, A., Jimenez, M. J., & Poyatos, R. (2011). Incremental-decremental
algorithm for computing AT-models and persistent homology. In Computer Analysis
of Images and Patterns (Vol. 6854, pp. 286–293). Seville, Spain: Springer
Nature. https://doi.org/10.1007/978-3-642-23672-3_35'
chicago: Gonzalez-Diaz, Rocio, Adrian Ion, Maria Jose Jimenez, and Regina Poyatos.
“Incremental-Decremental Algorithm for Computing AT-Models and Persistent Homology.”
In Computer Analysis of Images and Patterns, 6854:286–93. Springer Nature,
2011. https://doi.org/10.1007/978-3-642-23672-3_35.
ieee: R. Gonzalez-Diaz, A. Ion, M. J. Jimenez, and R. Poyatos, “Incremental-decremental
algorithm for computing AT-models and persistent homology,” in Computer Analysis
of Images and Patterns, Seville, Spain, 2011, vol. 6854, pp. 286–293.
ista: 'Gonzalez-Diaz R, Ion A, Jimenez MJ, Poyatos R. 2011. Incremental-decremental
algorithm for computing AT-models and persistent homology. Computer Analysis of
Images and Patterns. CAIP: International Conference on Computer Analysis of Images
and Patterns, LNCS, vol. 6854, 286–293.'
mla: Gonzalez-Diaz, Rocio, et al. “Incremental-Decremental Algorithm for Computing
AT-Models and Persistent Homology.” Computer Analysis of Images and Patterns,
vol. 6854, Springer Nature, 2011, pp. 286–93, doi:10.1007/978-3-642-23672-3_35.
short: R. Gonzalez-Diaz, A. Ion, M.J. Jimenez, R. Poyatos, in:, Computer Analysis
of Images and Patterns, Springer Nature, 2011, pp. 286–293.
conference:
end_date: 2011-08-31
location: Seville, Spain
name: 'CAIP: International Conference on Computer Analysis of Images and Patterns'
start_date: 2011-08-29
date_created: 2021-07-11T22:01:19Z
date_published: 2011-08-01T00:00:00Z
date_updated: 2021-08-12T13:53:17Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/978-3-642-23672-3_35
intvolume: ' 6854'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://hdl.handle.net/11441/30766
month: '08'
oa: 1
oa_version: Published Version
page: 286-293
publication: Computer Analysis of Images and Patterns
publication_identifier:
eissn:
- '16113349'
isbn:
- '9783642236716'
issn:
- '03029743'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Incremental-decremental algorithm for computing AT-models and persistent homology
type: conference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 6854
year: '2011'
...
---
_id: '968'
abstract:
- lang: eng
text: A Reply to the Comment by Andrei Sergeev, M. Reizer, and V. Mitin.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Mikhail
full_name: Skvortsov, Mikhail A
last_name: Skvortsov
- first_name: Andrei
full_name: Varlamov, Andrei A
last_name: Varlamov
- first_name: Victor
full_name: Galitski, Victor M
last_name: Galitski
citation:
ama: 'Serbyn M, Skvortsov M, Varlamov A, Galitski V. Serbyn et al. Reply: Physical
Review Letters. 2011;106(13). doi:10.1103/PhysRevLett.106.139702'
apa: 'Serbyn, M., Skvortsov, M., Varlamov, A., & Galitski, V. (2011). Serbyn
et al. Reply: Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.106.139702'
chicago: Serbyn, Maksym, Mikhail Skvortsov, Andrei Varlamov, and Victor Galitski.
“Serbyn et Al. Reply:” Physical Review Letters. American Physical Society,
2011. https://doi.org/10.1103/PhysRevLett.106.139702.
ieee: M. Serbyn, M. Skvortsov, A. Varlamov, and V. Galitski, “Serbyn et al. Reply:,”
Physical Review Letters, vol. 106, no. 13. American Physical Society, 2011.
ista: 'Serbyn M, Skvortsov M, Varlamov A, Galitski V. 2011. Serbyn et al. Reply:
Physical Review Letters. 106(13).'
mla: Serbyn, Maksym, et al. “Serbyn et Al. Reply:” Physical Review Letters,
vol. 106, no. 13, American Physical Society, 2011, doi:10.1103/PhysRevLett.106.139702.
short: M. Serbyn, M. Skvortsov, A. Varlamov, V. Galitski, Physical Review Letters
106 (2011).
date_created: 2018-12-11T11:49:27Z
date_published: 2011-04-01T00:00:00Z
date_updated: 2021-01-12T08:22:19Z
day: '01'
doi: 10.1103/PhysRevLett.106.139702
extern: 1
intvolume: ' 106'
issue: '13'
month: '04'
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6433'
quality_controlled: 0
status: public
title: 'Serbyn et al. Reply:'
type: journal_article
volume: 106
year: '2011'
...
---
_id: '3395'
abstract:
- lang: eng
text: Defining population structure and genetic diversity levels is of the utmost
importance for developing efficient conservation strategies. Overfishing has caused
mean annual catches of the European spiny lobster (Palinurus elephas) to decrease
alarmingly along its distribution area. In this context, there is a need for comprehensive
studies aiming to evaluate the genetic health of the exploited populations. The
present study is based on a set of ten nuclear markers amplified in 331 individuals
from ten different localities covering most of P. elephas distribution area. Samples
from Atlantic and Mediterranean basins showed small but significant differences,
indicating that P. elephas populations do not behave as a single panmictic unit
but form two partially-overlapping groups. Despite intense overfishing, our dataset
did not recover a recent bottleneck signal, and instead showed a large and stable
historical effective size. This result could be accounted for by specific life-history
traits (reproduction and longevity) and the limitations of molecular markers in
covering recent timescales for nontemporal samples. The findings of the present
study emphasize the need to integrate information on effective population sizes
and life-history parameters when evaluating population connectivity levels from
genetic data.
acknowledgement: This work was supported by a pre-doctoral fellowship awarded by the
Autonomous Government of Catalonia to F.P. (2006FIC-00082). Research was funded
by projects FBBVA-BIOCON 08-187/09, CGL2006-13423, and CTM2007-66635. The authors
are part of the research group 2009SGR-636, 2009SGR-655, and 2009SGR-1364 of the
Generalitat de Catalunya. F.P. acknowledges EU-Synthesys grant (GB-TAF-4474).
article_processing_charge: No
author:
- first_name: Ferran
full_name: Palero, Ferran
id: 3F0E2A22-F248-11E8-B48F-1D18A9856A87
last_name: Palero
orcid: 0000-0002-0343-8329
- first_name: Pere
full_name: Abello, Pere
last_name: Abello
- first_name: Enrique
full_name: Macpherson, Enrique
last_name: Macpherson
- first_name: Mark
full_name: Beaumont, Mark
last_name: Beaumont
- first_name: Marta
full_name: Pascual, Marta
last_name: Pascual
citation:
ama: Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. Effect of oceanographic
barriers and overfishing on the population genetic structure of the European spiny
lobster Palinurus elephas. Biological Journal of the Linnean Society. 2011;104(2):407-418.
doi:10.1111/j.1095-8312.2011.01728.x
apa: Palero, F., Abello, P., Macpherson, E., Beaumont, M., & Pascual, M. (2011).
Effect of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster Palinurus elephas. Biological Journal of the
Linnean Society. Wiley-Blackwell. https://doi.org/10.1111/j.1095-8312.2011.01728.x
chicago: Palero, Ferran, Pere Abello, Enrique Macpherson, Mark Beaumont, and Marta
Pascual. “Effect of Oceanographic Barriers and Overfishing on the Population Genetic
Structure of the European Spiny Lobster Palinurus Elephas.” Biological Journal
of the Linnean Society. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1095-8312.2011.01728.x.
ieee: F. Palero, P. Abello, E. Macpherson, M. Beaumont, and M. Pascual, “Effect
of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster Palinurus elephas,” Biological Journal of the
Linnean Society, vol. 104, no. 2. Wiley-Blackwell, pp. 407–418, 2011.
ista: Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. 2011. Effect of oceanographic
barriers and overfishing on the population genetic structure of the European spiny
lobster Palinurus elephas. Biological Journal of the Linnean Society. 104(2),
407–418.
mla: Palero, Ferran, et al. “Effect of Oceanographic Barriers and Overfishing on
the Population Genetic Structure of the European Spiny Lobster Palinurus Elephas.”
Biological Journal of the Linnean Society, vol. 104, no. 2, Wiley-Blackwell,
2011, pp. 407–18, doi:10.1111/j.1095-8312.2011.01728.x.
short: F. Palero, P. Abello, E. Macpherson, M. Beaumont, M. Pascual, Biological
Journal of the Linnean Society 104 (2011) 407–418.
date_created: 2018-12-11T12:03:06Z
date_published: 2011-09-14T00:00:00Z
date_updated: 2023-02-23T14:07:31Z
day: '14'
department:
- _id: NiBa
doi: 10.1111/j.1095-8312.2011.01728.x
intvolume: ' 104'
issue: '2'
language:
- iso: eng
month: '09'
oa_version: None
page: 407 - 418
publication: Biological Journal of the Linnean Society
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3212'
quality_controlled: '1'
related_material:
record:
- id: '9762'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Effect of oceanographic barriers and overfishing on the population genetic
structure of the European spiny lobster Palinurus elephas
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 104
year: '2011'
...
---
_id: '9762'
abstract:
- lang: eng
text: Defining population structure and genetic diversity levels is of the utmost
importance for developing efficient conservation strategies. Overfishing has caused
mean annual catches of the European spiny lobster (Palinurus elephas) to decrease
alarmingly along its distribution area. In this context, there is a need for comprehensive
studies to evaluate the genetic health of the exploited populations. The present
work is based on a set of 10 nuclear markers amplified in 331 individuals from
10 different localities covering most of P. elephas distribution area. Samples
from Atlantic and Mediterranean basins showed small but significant differences,
indicating that P. elephas populations do not behave as a single panmictic unit
but form two partially-overlapping groups. Despite intense overfishing, our dataset
did not recover a recent bottleneck signal, and showed a large and stable historical
effective size instead. This result could be accounted for by specific life history
traits (reproduction and longevity) and the limitations of molecular markers in
covering very recent timescales for non temporal samples. Our study emphasizes
the necessity of integrating information on effective population sizes and life
history parameters when evaluating population connectivity levels from genetic
data.
article_processing_charge: No
author:
- first_name: Ferran
full_name: Palero, Ferran
id: 3F0E2A22-F248-11E8-B48F-1D18A9856A87
last_name: Palero
orcid: 0000-0002-0343-8329
- first_name: Pere
full_name: Abello, Pere
last_name: Abello
- first_name: Enrique
full_name: Macpherson, Enrique
last_name: Macpherson
- first_name: Mark
full_name: Beaumont, Mark
last_name: Beaumont
- first_name: Marta
full_name: Pascual, Marta
last_name: Pascual
citation:
ama: 'Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. Data from: Effect
of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster (Palinurus elephas). 2011. doi:10.5061/dryad.299h8'
apa: 'Palero, F., Abello, P., Macpherson, E., Beaumont, M., & Pascual, M. (2011).
Data from: Effect of oceanographic barriers and overfishing on the population
genetic structure of the European spiny lobster (Palinurus elephas). IST Austria.
https://doi.org/10.5061/dryad.299h8'
chicago: 'Palero, Ferran, Pere Abello, Enrique Macpherson, Mark Beaumont, and Marta
Pascual. “Data from: Effect of Oceanographic Barriers and Overfishing on the Population
Genetic Structure of the European Spiny Lobster (Palinurus Elephas).” IST Austria,
2011. https://doi.org/10.5061/dryad.299h8.'
ieee: 'F. Palero, P. Abello, E. Macpherson, M. Beaumont, and M. Pascual, “Data from:
Effect of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster (Palinurus elephas).” IST Austria, 2011.'
ista: 'Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. 2011. Data from:
Effect of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster (Palinurus elephas), IST Austria, 10.5061/dryad.299h8.'
mla: 'Palero, Ferran, et al. Data from: Effect of Oceanographic Barriers and
Overfishing on the Population Genetic Structure of the European Spiny Lobster
(Palinurus Elephas). IST Austria, 2011, doi:10.5061/dryad.299h8.'
short: F. Palero, P. Abello, E. Macpherson, M. Beaumont, M. Pascual, (2011).
date_created: 2021-08-02T07:11:19Z
date_published: 2011-05-12T00:00:00Z
date_updated: 2023-02-23T11:25:25Z
day: '12'
department:
- _id: NiBa
doi: 10.5061/dryad.299h8
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.299h8
month: '05'
oa: 1
oa_version: Published Version
publisher: IST Austria
related_material:
record:
- id: '3395'
relation: used_in_publication
status: public
status: public
title: 'Data from: Effect of oceanographic barriers and overfishing on the population
genetic structure of the European spiny lobster (Palinurus elephas)'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2011'
...
---
_id: '9943'
abstract:
- lang: eng
text: Segmentation is the process of partitioning digital images into meaningful
regions. The analysis of biological high content images often requires segmentation
as a first step. We propose ilastik as an easy-to-use tool which allows the user
without expertise in image processing to perform segmentation and classification
in a unified way. ilastik learns from labels provided by the user through a convenient
mouse interface. Based on these labels, ilastik infers a problem specific segmentation.
A random forest classifier is used in the learning step, in which each pixel's
neighborhood is characterized by a set of generic (nonlinear) features. ilastik
supports up to three spatial plus one spectral dimension and makes use of all
dimensions in the feature calculation. ilastik provides realtime feedback that
enables the user to interactively refine the segmentation result and hence further
fine-tune the classifier. An uncertainty measure guides the user to ambiguous
regions in the images. Real time performance is achieved by multi-threading which
fully exploits the capabilities of modern multi-core machines. Once a classifier
has been trained on a set of representative images, it can be exported and used
to automatically process a very large number of images (e.g. using the CellProfiler
pipeline). ilastik is an open source project and released under the BSD license
at www.ilastik.org.
article_processing_charge: No
author:
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Christoph
full_name: Straehle, Christoph
last_name: Straehle
- first_name: Ullrich
full_name: Köthe, Ullrich
last_name: Köthe
- first_name: Fred A.
full_name: Hamprecht, Fred A.
last_name: Hamprecht
citation:
ama: 'Sommer CM, Straehle C, Köthe U, Hamprecht FA. Ilastik: Interactive learning
and segmentation toolkit. In: 2011 IEEE International Symposium on Biomedical
Imaging: From Nano to Micro. Institute of Electrical and Electronics Engineers;
2011. doi:10.1109/isbi.2011.5872394'
apa: 'Sommer, C. M., Straehle, C., Köthe, U., & Hamprecht, F. A. (2011). Ilastik:
Interactive learning and segmentation toolkit. In 2011 IEEE International Symposium
on Biomedical Imaging: from Nano to Micro. Chicago, Illinois, USA: Institute
of Electrical and Electronics Engineers. https://doi.org/10.1109/isbi.2011.5872394'
chicago: 'Sommer, Christoph M, Christoph Straehle, Ullrich Köthe, and Fred A. Hamprecht.
“Ilastik: Interactive Learning and Segmentation Toolkit.” In 2011 IEEE International
Symposium on Biomedical Imaging: From Nano to Micro. Institute of Electrical
and Electronics Engineers, 2011. https://doi.org/10.1109/isbi.2011.5872394.'
ieee: 'C. M. Sommer, C. Straehle, U. Köthe, and F. A. Hamprecht, “Ilastik: Interactive
learning and segmentation toolkit,” in 2011 IEEE International Symposium on
Biomedical Imaging: from Nano to Micro, Chicago, Illinois, USA, 2011.'
ista: 'Sommer CM, Straehle C, Köthe U, Hamprecht FA. 2011. Ilastik: Interactive
learning and segmentation toolkit. 2011 IEEE International Symposium on Biomedical
Imaging: from Nano to Micro. ISBI: International Symposium on Biomedical Imaging.'
mla: 'Sommer, Christoph M., et al. “Ilastik: Interactive Learning and Segmentation
Toolkit.” 2011 IEEE International Symposium on Biomedical Imaging: From Nano
to Micro, Institute of Electrical and Electronics Engineers, 2011, doi:10.1109/isbi.2011.5872394.'
short: 'C.M. Sommer, C. Straehle, U. Köthe, F.A. Hamprecht, in:, 2011 IEEE International
Symposium on Biomedical Imaging: From Nano to Micro, Institute of Electrical and
Electronics Engineers, 2011.'
conference:
end_date: 2011-04-02
location: Chicago, Illinois, USA
name: 'ISBI: International Symposium on Biomedical Imaging'
start_date: 2011-03-30
date_created: 2021-08-19T11:49:58Z
date_published: 2011-06-09T00:00:00Z
date_updated: 2023-02-23T14:13:38Z
day: '09'
department:
- _id: Bio
doi: 10.1109/isbi.2011.5872394
extern: '1'
keyword:
- image segmentation
- biomedical imaging
- three dimensional displays
- neurons
- retina
- observers
- image color analysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.researchgate.net/publication/224241106_Ilastik_Interactive_learning_and_segmentation_toolkit
month: '06'
oa: 1
oa_version: Preprint
publication: '2011 IEEE International Symposium on Biomedical Imaging: from Nano to
Micro'
publication_identifier:
eissn:
- 1945-8452
isbn:
- 978-1-4244-4127-3
issn:
- 1945-7928
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
status: public
title: 'Ilastik: Interactive learning and segmentation toolkit'
type: conference
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2011'
...
---
_id: '10907'
abstract:
- lang: eng
text: This paper presents a method to create a model of an articulated object using
the planar motion in an initialization video. The model consists of rigid parts
connected by points of articulation. The rigid parts are described by the positions
of salient feature-points tracked throughout the video. Following a filtering
step that identifies points that belong to different objects, rigid parts are
found by a grouping process in a graph pyramid. Valid articulation points are
selected by verifying multiple hypotheses for each pair of parts.
acknowledgement: This work has been partially supported by the Austrian Science Fund
under grants S9103-N13 and P18716-N13.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Nicole M.
full_name: Artner, Nicole M.
last_name: Artner
- first_name: Adrian
full_name: Ion, Adrian
id: 29F89302-F248-11E8-B48F-1D18A9856A87
last_name: Ion
- first_name: Walter G.
full_name: Kropatsch, Walter G.
last_name: Kropatsch
citation:
ama: 'Artner NM, Ion A, Kropatsch WG. Spatio-temporal extraction of articulated
models in a graph pyramid. In: Jiang X, Ferrer M, Torsello A, eds. Graph-Based
Representations in Pattern Recognition. Vol 6658. LNIP. Berlin, Heidelberg:
Springer; 2011:215-224. doi:10.1007/978-3-642-20844-7_22'
apa: 'Artner, N. M., Ion, A., & Kropatsch, W. G. (2011). Spatio-temporal extraction
of articulated models in a graph pyramid. In X. Jiang, M. Ferrer, & A. Torsello
(Eds.), Graph-Based Representations in Pattern Recognition (Vol. 6658,
pp. 215–224). Berlin, Heidelberg: Springer. https://doi.org/10.1007/978-3-642-20844-7_22'
chicago: 'Artner, Nicole M., Adrian Ion, and Walter G. Kropatsch. “Spatio-Temporal
Extraction of Articulated Models in a Graph Pyramid.” In Graph-Based Representations
in Pattern Recognition, edited by Xiaoyi Jiang, Miquel Ferrer, and Andrea
Torsello, 6658:215–24. LNIP. Berlin, Heidelberg: Springer, 2011. https://doi.org/10.1007/978-3-642-20844-7_22.'
ieee: N. M. Artner, A. Ion, and W. G. Kropatsch, “Spatio-temporal extraction of
articulated models in a graph pyramid,” in Graph-Based Representations in Pattern
Recognition, Münster, Germany, 2011, vol. 6658, pp. 215–224.
ista: 'Artner NM, Ion A, Kropatsch WG. 2011. Spatio-temporal extraction of articulated
models in a graph pyramid. Graph-Based Representations in Pattern Recognition.
GbRPR: Graph-based Representations in Pattern RecognitionLNIP, LNCS, vol. 6658,
215–224.'
mla: Artner, Nicole M., et al. “Spatio-Temporal Extraction of Articulated Models
in a Graph Pyramid.” Graph-Based Representations in Pattern Recognition,
edited by Xiaoyi Jiang et al., vol. 6658, Springer, 2011, pp. 215–24, doi:10.1007/978-3-642-20844-7_22.
short: N.M. Artner, A. Ion, W.G. Kropatsch, in:, X. Jiang, M. Ferrer, A. Torsello
(Eds.), Graph-Based Representations in Pattern Recognition, Springer, Berlin,
Heidelberg, 2011, pp. 215–224.
conference:
end_date: 2011-05-20
location: Münster, Germany
name: 'GbRPR: Graph-based Representations in Pattern Recognition'
start_date: 2011-05-18
date_created: 2022-03-21T08:08:35Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2023-09-05T14:10:15Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/978-3-642-20844-7_22
editor:
- first_name: Xiaoyi
full_name: Jiang, Xiaoyi
last_name: Jiang
- first_name: Miquel
full_name: Ferrer, Miquel
last_name: Ferrer
- first_name: Andrea
full_name: Torsello, Andrea
last_name: Torsello
intvolume: ' 6658'
language:
- iso: eng
month: '06'
oa_version: None
page: 215-224
place: Berlin, Heidelberg
publication: Graph-Based Representations in Pattern Recognition
publication_identifier:
eisbn:
- '9783642208447'
eissn:
- 1611-3349
isbn:
- '9783642208430'
issn:
- 0302-9743
publication_status: published
publisher: Springer
quality_controlled: '1'
scopus_import: '1'
series_title: LNIP
status: public
title: Spatio-temporal extraction of articulated models in a graph pyramid
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 6658
year: '2011'
...
---
_id: '3275'
abstract:
- lang: eng
text: 'Chemokines organize immune cell trafficking by inducing either directed (tactic)
or random (kinetic) migration and by activating integrins in order to support
surface adhesion (haptic). Beyond that the same chemokines can establish clearly
defined functional areas in secondary lymphoid organs. Until now it is unclear
how chemokines can fulfill such diverse functions. One decisive prerequisite to
explain these capacities is to know how chemokines are presented in tissue. In
theory chemokines could occur either soluble or immobilized, and could be distributed
either homogenously or as a concentration gradient. To dissect if and how the
presenting mode of chemokines influences immune cells, I tested the response of
dendritic cells (DCs) to differentially displayed chemokines. DCs are antigen
presenting cells that reside in the periphery and migrate into draining lymph
nodes (LNs) once exposed to inflammatory stimuli to activate naïve T cells. DCs
are guided to and within the LN by the chemokine receptor CCR7, which has two
ligands, the chemokines CCL19 and CCL21. Both CCR7 ligands are expressed by fibroblastic
reticular cells in the LN, but differ in their ability to bind to heparan sulfate
residues. CCL21 has a highly charged C-terminal extension, which mediates binding
to anionic surfaces, whereas CCL19 is lacking such residues and likely distributes
as a soluble molecule. This study shows that surface-bound CCL21 causes random,
haptokinetic DC motility, which is confined to the chemokine coated area by insideout
activation of β2 integrins that mediate cell binding to the surface. CCL19 on
the other hand forms concentration gradients which trigger directional, chemotactic
movement, but no surface adhesion. In addition DCs can actively manipulate this
system by recruiting and activating serine proteases on their surfaces, which
create - by proteolytically removing the adhesive C-terminus - a solubilized variant
of CCL21 that functionally resembles CCL19. By generating a CCL21 concentration
gradient DCs establish a positive feedback loop to recruit further DCs from the
periphery to the CCL21 coated region. In addition DCs can sense chemotactic gradients
as well as immobilized haptokinetic fields at the same time and integrate these
signals. The result is chemotactically biased haptokinesis - directional migration
confined to a chemokine coated track or area - which could explain the dynamic
but spatially tightly controlled swarming leukocyte locomotion patterns that have
been observed in lymphatic organs by intravital microscopists. The finding that
DCs can approach soluble cues in a non-adhesive manner while they attach to surfaces
coated with immobilized cues raises the question how these cells transmit intracellular
forces to the environment, especially in the non-adherent migration mode. In order
to migrate, cells have to generate and transmit force to the extracellular substrate.
Force transmission is the prerequisite to procure an expansion of the leading
edge and a forward motion of the whole cell body. In the current conceptions actin
polymerization at the leading edge is coupled to extracellular ligands via the
integrin family of transmembrane receptors, which allows the transmission of intracellular
force. Against the paradigm of force transmission during migration, leukocytes,
like DCs, are able to migrate in threedimensional environments without using integrin
transmembrane receptors (Lämmermann et al., 2008). This reflects the biological
function of leukocytes, as they can invade almost all tissues, whereby their migration
has to be independent from the extracellular environment. How the cells can achieve
this is unclear. For this study I examined DC migration in a defined threedimensional
environment and highlighted actin-dynamics with the probe Lifeact-GFP. The result
was that chemotactic DCs can switch between integrin-dependent and integrin- independent
locomotion and can thereby adapt to the adhesive properties of their environment.
If the cells are able to couple their actin cytoskeleton to the substrate, actin
polymerization is entirely converted into protrusion. Without coupling the actin
cortex undergoes slippage and retrograde actin flow can be observed. But retrograde
actin flow can be completely compensated by higher actin polymerization rate keeping
the migration velocity and the shape of the cells unaltered. Mesenchymal cells
like fibroblast cannot balance the loss of adhesive interaction, cannot protrude
into open space and, therefore, strictly depend on integrinmediated force coupling.
This leukocyte specific phenomenon of “adaptive force transmission” endows these
cells with the unique ability to transit and invade almost every type of tissue. '
acknowledgement: "I would like to express my sincere gratitude to the following people
who made with their continuous support and encouragement this thesis possible: First,
I want to thank Prof. Dr. Michael Sixt for his excellent supervision and mentoring,
especially for the nice, relaxed working atmosphere, a lot of brilliant ideas and
the freedom to work in my own way.\r\n\r\nProf. Dr. Reinhard Fässler for his constant
support of the Sixt lab and for providing excellent working conditions. \r\n\r\nProf.
Dr. Sanjiv Luther and Prof. Dr. Tobias Bollenbach for agreeing to be member of my
thesis committee and to evaluate my work.\r\n\r\nDr. Walther Göhring, Carmen Schmitz,
the Recombinant Protein Production core facility and the animal care takers for
providing the “infrastructure” for this thesis. \r\n\r\nProf. Dr. Daniel Legler,
Markus Bruckner and Dr. Julien Polleux for very fruitful collaborations and discussions.\r\n\r\nMy
labmates for their help, a lot of discussions and to make the Sixt lab to a convenient
place to work : Karin Hirsch, Tim Lämmeramnn, Holger Pflicke, Jörg Renkawitz, Michele
Weber and Alexander Eichner All members of the Department of Molecular Medicine
for their help. Especially I want to thank Sarah Schmidt, Karin Hirsch and Raphael
Ruppert for their friendship, nice chats and their uncensored point of view. "
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Kathrin
full_name: Schumann, Kathrin
id: F44D762E-4F9D-11E9-B64C-9EB26CEFFB5F
last_name: Schumann
citation:
ama: Schumann K. The role of chemotactic gradients in dendritic cell migration.
2011.
apa: Schumann, K. (2011). The role of chemotactic gradients in dendritic cell
migration. Institute of Science and Technology Austria.
chicago: Schumann, Kathrin. “The Role of Chemotactic Gradients in Dendritic Cell
Migration.” Institute of Science and Technology Austria, 2011.
ieee: K. Schumann, “The role of chemotactic gradients in dendritic cell migration,”
Institute of Science and Technology Austria, 2011.
ista: Schumann K. 2011. The role of chemotactic gradients in dendritic cell migration.
Institute of Science and Technology Austria.
mla: Schumann, Kathrin. The Role of Chemotactic Gradients in Dendritic Cell Migration.
Institute of Science and Technology Austria, 2011.
short: K. Schumann, The Role of Chemotactic Gradients in Dendritic Cell Migration,
Institute of Science and Technology Austria, 2011.
date_created: 2018-12-11T12:02:24Z
date_published: 2011-03-01T00:00:00Z
date_updated: 2023-09-07T11:31:48Z
day: '01'
ddc:
- '570'
- '579'
degree_awarded: PhD
department:
- _id: MiSi
file:
- access_level: closed
checksum: e69eee6252660f0b694a2ea8923ddc72
content_type: application/pdf
creator: dernst
date_created: 2019-03-26T08:12:21Z
date_updated: 2020-07-14T12:46:06Z
file_id: '6177'
file_name: 2011_Thesis_Kathrin_Schumann.pdf
file_size: 4487708
relation: main_file
- access_level: open_access
checksum: 71727d63f424b5b446f68f4b87ecadc0
content_type: application/pdf
creator: dernst
date_created: 2021-02-22T11:24:30Z
date_updated: 2021-02-22T11:24:30Z
file_id: '9175'
file_name: 2011_Thesis_Schumann_noS.pdf
file_size: 4313127
relation: main_file
success: 1
file_date_updated: 2021-02-22T11:24:30Z
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '141'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '3371'
pubrep_id: '11'
status: public
supervisor:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
title: The role of chemotactic gradients in dendritic cell migration
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2011'
...
---
_id: '3273'
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Jean-Léon
full_name: Maître, Jean-Léon
id: 48F1E0D8-F248-11E8-B48F-1D18A9856A87
last_name: Maître
orcid: 0000-0002-3688-1474
citation:
ama: Maître J-L. Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors.
2011.
apa: Maître, J.-L. (2011). Mechanics of adhesion and de‐adhesion in zebrafish
germ layer progenitors. Institute of Science and Technology Austria.
chicago: Maître, Jean-Léon. “Mechanics of Adhesion and De‐adhesion in Zebrafish
Germ Layer Progenitors.” Institute of Science and Technology Austria, 2011.
ieee: J.-L. Maître, “Mechanics of adhesion and de‐adhesion in zebrafish germ layer
progenitors,” Institute of Science and Technology Austria, 2011.
ista: Maître J-L. 2011. Mechanics of adhesion and de‐adhesion in zebrafish germ
layer progenitors. Institute of Science and Technology Austria.
mla: Maître, Jean-Léon. Mechanics of Adhesion and De‐adhesion in Zebrafish Germ
Layer Progenitors. Institute of Science and Technology Austria, 2011.
short: J.-L. Maître, Mechanics of Adhesion and De‐adhesion in Zebrafish Germ Layer
Progenitors, Institute of Science and Technology Austria, 2011.
date_created: 2018-12-11T12:02:23Z
date_published: 2011-12-12T00:00:00Z
date_updated: 2023-09-07T11:30:16Z
day: '12'
degree_awarded: PhD
department:
- _id: CaHe
language:
- iso: eng
month: '12'
oa_version: None
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '3373'
status: public
supervisor:
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
title: Mechanics of adhesion and de‐adhesion in zebrafish germ layer progenitors
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2011'
...
---
_id: '3238'
abstract:
- lang: eng
text: We construct efficient authentication protocols and message-authentication
codes (MACs) whose security can be reduced to the learning parity with noise (LPN)
problem. Despite a large body of work - starting with the HB protocol of Hopper
and Blum in 2001 - until now it was not even known how to construct an efficient
authentication protocol from LPN which is secure against man-in-the-middle (MIM)
attacks. A MAC implies such a (two-round) protocol. © 2011 International Association
for Cryptologic Research
acknowledgement: The European Regional Development Fund (ERDF),Guardtime,Qualcomm,Swedbank
alternative_title:
- LNCS
author:
- first_name: Eike
full_name: Kiltz, Eike
last_name: Kiltz
- 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: David
full_name: Cash, David
last_name: Cash
- first_name: Abhishek
full_name: Jain, Abhishek
last_name: Jain
- first_name: Daniele
full_name: Venturi, Daniele
last_name: Venturi
citation:
ama: 'Kiltz E, Pietrzak KZ, Cash D, Jain A, Venturi D. Efficient authentication
from hard learning problems. In: Vol 6632. Springer; 2011:7-26. doi:10.1007/978-3-642-20465-4_3'
apa: 'Kiltz, E., Pietrzak, K. Z., Cash, D., Jain, A., & Venturi, D. (2011).
Efficient authentication from hard learning problems (Vol. 6632, pp. 7–26). Presented
at the EUROCRYPT: Theory and Applications of Cryptographic Techniques, Tallinn,
Estonia: Springer. https://doi.org/10.1007/978-3-642-20465-4_3'
chicago: Kiltz, Eike, Krzysztof Z Pietrzak, David Cash, Abhishek Jain, and Daniele
Venturi. “Efficient Authentication from Hard Learning Problems,” 6632:7–26. Springer,
2011. https://doi.org/10.1007/978-3-642-20465-4_3.
ieee: 'E. Kiltz, K. Z. Pietrzak, D. Cash, A. Jain, and D. Venturi, “Efficient authentication
from hard learning problems,” presented at the EUROCRYPT: Theory and Applications
of Cryptographic Techniques, Tallinn, Estonia, 2011, vol. 6632, pp. 7–26.'
ista: 'Kiltz E, Pietrzak KZ, Cash D, Jain A, Venturi D. 2011. Efficient authentication
from hard learning problems. EUROCRYPT: Theory and Applications of Cryptographic
Techniques, LNCS, vol. 6632, 7–26.'
mla: Kiltz, Eike, et al. Efficient Authentication from Hard Learning Problems.
Vol. 6632, Springer, 2011, pp. 7–26, doi:10.1007/978-3-642-20465-4_3.
short: E. Kiltz, K.Z. Pietrzak, D. Cash, A. Jain, D. Venturi, in:, Springer, 2011,
pp. 7–26.
conference:
end_date: 2011-05-19
location: Tallinn, Estonia
name: 'EUROCRYPT: Theory and Applications of Cryptographic Techniques'
start_date: 2011-05-15
date_created: 2018-12-11T12:02:11Z
date_published: 2011-05-01T00:00:00Z
date_updated: 2023-09-20T11:20:57Z
day: '01'
doi: 10.1007/978-3-642-20465-4_3
extern: '1'
intvolume: ' 6632'
language:
- iso: eng
month: '05'
oa_version: None
page: 7 - 26
publication_status: published
publisher: Springer
publist_id: '3442'
quality_controlled: '1'
related_material:
record:
- id: '1187'
relation: later_version
status: public
status: public
title: Efficient authentication from hard learning problems
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 6632
year: '2011'
...
---
_id: '3392'
abstract:
- lang: eng
text: Migrating lymphocytes acquire a polarized phenotype with a leading and a trailing
edge, or uropod. Although in vitro experiments in cell lines or activated primary
cell cultures have established that Rho-p160 coiled-coil kinase (ROCK)-myosin
II-mediated uropod contractility is required for integrin de-adhesion on two-dimensional
surfaces and nuclear propulsion through narrow pores in three-dimensional matrices,
less is known about the role of these two events during the recirculation of primary,
nonactivated lymphocytes. Using pharmacological antagonists of ROCK and myosin
II, we report that inhibition of uropod contractility blocked integrin-independent
mouse T cell migration through narrow, but not large, pores in vitro. T cell crawling
on chemokine-coated endothelial cells under shear was severely impaired by ROCK
inhibition, whereas transendothelial migration was only reduced through endothelial
cells with high, but not low, barrier properties. Using three-dimensional thick-tissue
imaging and dynamic two-photon microscopy of T cell motility in lymphoid tissue,
we demonstrated a significant role for uropod contractility in intraluminal crawling
and transendothelial migration through lymph node, but not bone marrow, endothelial
cells. Finally, we demonstrated that ICAM-1, but not anatomical constraints or
integrin-independent interactions, reduced parenchymal motility of inhibitor-treated
T cells within the dense lymphoid microenvironment, thus assigning context-dependent
roles for uropod contraction during lymphocyte recirculation.
article_processing_charge: No
article_type: original
author:
- first_name: Silvia
full_name: Soriano, Silvia
last_name: Soriano
- first_name: Miroslav
full_name: Hons, Miroslav
last_name: Hons
orcid: 0000-0002-6625-3348
- first_name: Kathrin
full_name: Schumann, Kathrin
last_name: Schumann
- first_name: Varsha
full_name: Kumar, Varsha
last_name: Kumar
- first_name: Timo
full_name: Dennier, Timo
last_name: Dennier
- first_name: Ruth
full_name: Lyck, Ruth
last_name: Lyck
- 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: Jens
full_name: Stein, Jens
last_name: Stein
citation:
ama: Soriano S, Hons M, Schumann K, et al. In vivo analysis of uropod function during
physiological T cell trafficking. Journal of Immunology. 2011;187(5):2356-2364.
doi:10.4049/jimmunol.1100935
apa: Soriano, S., Hons, M., Schumann, K., Kumar, V., Dennier, T., Lyck, R., … Stein,
J. (2011). In vivo analysis of uropod function during physiological T cell trafficking.
Journal of Immunology. American Association of Immunologists. https://doi.org/10.4049/jimmunol.1100935
chicago: Soriano, Silvia, Miroslav Hons, Kathrin Schumann, Varsha Kumar, Timo Dennier,
Ruth Lyck, Michael K Sixt, and Jens Stein. “In Vivo Analysis of Uropod Function
during Physiological T Cell Trafficking.” Journal of Immunology. American
Association of Immunologists, 2011. https://doi.org/10.4049/jimmunol.1100935.
ieee: S. Soriano et al., “In vivo analysis of uropod function during physiological
T cell trafficking,” Journal of Immunology, vol. 187, no. 5. American Association
of Immunologists, pp. 2356–2364, 2011.
ista: Soriano S, Hons M, Schumann K, Kumar V, Dennier T, Lyck R, Sixt MK, Stein
J. 2011. In vivo analysis of uropod function during physiological T cell trafficking.
Journal of Immunology. 187(5), 2356–2364.
mla: Soriano, Silvia, et al. “In Vivo Analysis of Uropod Function during Physiological
T Cell Trafficking.” Journal of Immunology, vol. 187, no. 5, American Association
of Immunologists, 2011, pp. 2356–64, doi:10.4049/jimmunol.1100935.
short: S. Soriano, M. Hons, K. Schumann, V. Kumar, T. Dennier, R. Lyck, M.K. Sixt,
J. Stein, Journal of Immunology 187 (2011) 2356–2364.
date_created: 2018-12-11T12:03:04Z
date_published: 2011-09-01T00:00:00Z
date_updated: 2023-10-10T13:14:59Z
day: '01'
department:
- _id: MiSi
doi: 10.4049/jimmunol.1100935
intvolume: ' 187'
issue: '5'
language:
- iso: eng
month: '09'
oa_version: None
page: 2356 - 2364
publication: Journal of Immunology
publication_identifier:
eissn:
- 1550-6606
issn:
- 0022-1767
publication_status: published
publisher: American Association of Immunologists
publist_id: '3215'
quality_controlled: '1'
scopus_import: '1'
status: public
title: In vivo analysis of uropod function during physiological T cell trafficking
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 187
year: '2011'
...
---
_id: '3163'
abstract:
- lang: eng
text: We study multi-label prediction for structured output sets, a problem that
occurs, for example, in object detection in images, secondary structure prediction
in computational biology, and graph matching with symmetries. Conventional multilabel
classification techniques are typically not applicable in this situation, because
they require explicit enumeration of the label set, which is infeasible in case
of structured outputs. Relying on techniques originally designed for single-label
structured prediction, in particular structured support vector machines, results
in reduced prediction accuracy, or leads to infeasible optimization problems.
In this work we derive a maximum-margin training formulation for multi-label structured
prediction that remains computationally tractable while achieving high prediction
accuracy. It also shares most beneficial properties with single-label maximum-margin
approaches, in particular formulation as a convex optimization problem, efficient
working set training, and PAC-Bayesian generalization bounds.
author:
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Lampert C. Maximum margin multi-label structured prediction. In: Neural Information
Processing Systems; 2011.'
apa: 'Lampert, C. (2011). Maximum margin multi-label structured prediction. Presented
at the NIPS: Neural Information Processing Systems, Granada, Spain: Neural Information
Processing Systems.'
chicago: Lampert, Christoph. “Maximum Margin Multi-Label Structured Prediction.”
Neural Information Processing Systems, 2011.
ieee: 'C. Lampert, “Maximum margin multi-label structured prediction,” presented
at the NIPS: Neural Information Processing Systems, Granada, Spain, 2011.'
ista: 'Lampert C. 2011. Maximum margin multi-label structured prediction. NIPS:
Neural Information Processing Systems.'
mla: Lampert, Christoph. Maximum Margin Multi-Label Structured Prediction.
Neural Information Processing Systems, 2011.
short: C. Lampert, in:, Neural Information Processing Systems, 2011.
conference:
end_date: 2011-12-14
location: Granada, Spain
name: 'NIPS: Neural Information Processing Systems'
start_date: 2011-12-12
date_created: 2018-12-11T12:01:45Z
date_published: 2011-12-01T00:00:00Z
date_updated: 2023-10-17T11:47:35Z
day: '01'
department:
- _id: ChLa
language:
- iso: eng
month: '12'
oa_version: None
publication_status: published
publisher: Neural Information Processing Systems
publist_id: '3522'
quality_controlled: '1'
related_material:
record:
- id: '3322'
relation: later_version
status: public
scopus_import: 1
status: public
title: Maximum margin multi-label structured prediction
type: conference
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2011'
...
---
_id: '3322'
abstract:
- lang: eng
text: We study multi-label prediction for structured output spaces, a problem that
occurs, for example, in object detection in images, secondary structure prediction
in computational biology, and graph matching with symmetries. Conventional multi-label
classification techniques are typically not applicable in this situation, because
they require explicit enumeration of the label space, which is infeasible in case
of structured outputs. Relying on techniques originally designed for single- label
structured prediction, in particular structured support vector machines, results
in reduced prediction accuracy, or leads to infeasible optimization problems.
In this work we derive a maximum-margin training formulation for multi-label structured
prediction that remains computationally tractable while achieving high prediction
accuracy. It also shares most beneficial properties with single-label maximum-margin
approaches, in particular a formulation as a convex optimization problem, efficient
working set training, and PAC-Bayesian generalization bounds.
article_processing_charge: No
author:
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: Lampert C. Maximum Margin Multi Label Structured Prediction. Neural
Information Processing Systems Foundation; 2011.
apa: 'Lampert, C. (2011). Maximum margin multi label structured prediction.
NIPS: Neural Information Processing Systems. Neural Information Processing
Systems Foundation.'
chicago: 'Lampert, Christoph. Maximum Margin Multi Label Structured Prediction.
NIPS: Neural Information Processing Systems. Neural Information Processing
Systems Foundation, 2011.'
ieee: C. Lampert, Maximum margin multi label structured prediction. Neural
Information Processing Systems Foundation, 2011.
ista: Lampert C. 2011. Maximum margin multi label structured prediction, Neural
Information Processing Systems Foundation,p.
mla: 'Lampert, Christoph. “Maximum Margin Multi Label Structured Prediction.” NIPS:
Neural Information Processing Systems, Neural Information Processing Systems
Foundation, 2011.'
short: C. Lampert, Maximum Margin Multi Label Structured Prediction, Neural Information
Processing Systems Foundation, 2011.
date_created: 2018-12-11T12:02:40Z
date_published: 2011-12-13T00:00:00Z
date_updated: 2023-10-17T11:47:36Z
day: '13'
department:
- _id: ChLa
language:
- iso: eng
month: '12'
oa_version: None
publication: 'NIPS: Neural Information Processing Systems'
publication_status: published
publisher: Neural Information Processing Systems Foundation
publist_id: '3313'
related_material:
record:
- id: '3163'
relation: earlier_version
status: public
status: public
title: Maximum margin multi label structured prediction
type: conference_poster
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2011'
...
---
_id: '3320'
abstract:
- lang: eng
text: Powerful statistical models that can be learned efficiently from large amounts
of data are currently revolutionizing computer vision. These models possess a
rich internal structure reflecting task-specific relations and constraints. This
monograph introduces the reader to the most popular classes of structured models
in computer vision. Our focus is discrete undirected graphical models which we
cover in detail together with a description of algorithms for both probabilistic
inference and maximum a posteriori inference. We discuss separately recently successful
techniques for prediction in general structured models. In the second part of
this monograph we describe methods for parameter learning where we distinguish
the classic maximum likelihood based methods from the more recent prediction-based
parameter learning methods. We highlight developments to enhance current models
and discuss kernelized models and latent variable models. To make the monograph
more practical and to provide links to further study we provide examples of successful
application of many methods in the computer vision literature.
article_processing_charge: No
article_type: original
author:
- first_name: Sebastian
full_name: Nowozin, Sebastian
last_name: Nowozin
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: Nowozin S, Lampert C. Structured learning and prediction in computer vision.
Foundations and Trends in Computer Graphics and Vision. 2011;6(3-4):185-365.
doi:10.1561/0600000033
apa: Nowozin, S., & Lampert, C. (2011). Structured learning and prediction in
computer vision. Foundations and Trends in Computer Graphics and Vision.
Now Publishers. https://doi.org/10.1561/0600000033
chicago: Nowozin, Sebastian, and Christoph Lampert. “Structured Learning and Prediction
in Computer Vision.” Foundations and Trends in Computer Graphics and Vision.
Now Publishers, 2011. https://doi.org/10.1561/0600000033.
ieee: S. Nowozin and C. Lampert, “Structured learning and prediction in computer
vision,” Foundations and Trends in Computer Graphics and Vision, vol. 6,
no. 3–4. Now Publishers, pp. 185–365, 2011.
ista: Nowozin S, Lampert C. 2011. Structured learning and prediction in computer
vision. Foundations and Trends in Computer Graphics and Vision. 6(3–4), 185–365.
mla: Nowozin, Sebastian, and Christoph Lampert. “Structured Learning and Prediction
in Computer Vision.” Foundations and Trends in Computer Graphics and Vision,
vol. 6, no. 3–4, Now Publishers, 2011, pp. 185–365, doi:10.1561/0600000033.
short: S. Nowozin, C. Lampert, Foundations and Trends in Computer Graphics and Vision
6 (2011) 185–365.
date_created: 2018-12-11T12:02:39Z
date_published: 2011-05-23T00:00:00Z
date_updated: 2023-10-17T11:52:46Z
day: '23'
ddc:
- '000'
department:
- _id: ChLa
doi: 10.1561/0600000033
file:
- access_level: open_access
checksum: f1043ef389f1558e2a226bb51568511f
content_type: application/pdf
creator: dernst
date_created: 2020-05-14T14:34:47Z
date_updated: 2020-07-14T12:46:07Z
file_id: '7837'
file_name: 2011_CompGraphicsVision_Nowozin.pdf
file_size: 3745064
relation: main_file
file_date_updated: 2020-07-14T12:46:07Z
has_accepted_license: '1'
intvolume: ' 6'
issue: 3-4
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 185 - 365
publication: Foundations and Trends in Computer Graphics and Vision
publication_status: published
publisher: Now Publishers
publist_id: '3315'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structured learning and prediction in computer vision
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2011'
...
---
_id: '3319'
abstract:
- lang: eng
text: We address the problem of metric learning for multi-view data, namely the
construction of embedding projections from data in different representations into
a shared feature space, such that the Euclidean distance in this space provides
a meaningful within-view as well as between-view similarity. Our motivation stems
from the problem of cross-media retrieval tasks, where the availability of a joint
Euclidean distance function is a pre-requisite to allow fast, in particular hashing-based,
nearest neighbor queries. We formulate an objective function that expresses the
intuitive concept that matching samples are mapped closely together in the output
space, whereas non-matching samples are pushed apart, no matter in which view
they are available. The resulting optimization problem is not convex, but it can
be decomposed explicitly into a convex and a concave part, thereby allowing efficient
optimization using the convex-concave procedure. Experiments on an image retrieval
task show that nearest-neighbor based cross-view retrieval is indeed possible,
and the proposed technique improves the retrieval accuracy over baseline techniques.
article_processing_charge: No
author:
- first_name: Novi
full_name: Quadrianto, Novi
last_name: Quadrianto
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Quadrianto N, Lampert C. Learning multi-view neighborhood preserving projections.
In: ML Research Press; 2011:425-432.'
apa: 'Quadrianto, N., & Lampert, C. (2011). Learning multi-view neighborhood
preserving projections (pp. 425–432). Presented at the ICML: International Conference
on Machine Learning, Bellevue, United States: ML Research Press.'
chicago: Quadrianto, Novi, and Christoph Lampert. “Learning Multi-View Neighborhood
Preserving Projections,” 425–32. ML Research Press, 2011.
ieee: 'N. Quadrianto and C. Lampert, “Learning multi-view neighborhood preserving
projections,” presented at the ICML: International Conference on Machine Learning,
Bellevue, United States, 2011, pp. 425–432.'
ista: 'Quadrianto N, Lampert C. 2011. Learning multi-view neighborhood preserving
projections. ICML: International Conference on Machine Learning, 425–432.'
mla: Quadrianto, Novi, and Christoph Lampert. Learning Multi-View Neighborhood
Preserving Projections. ML Research Press, 2011, pp. 425–32.
short: N. Quadrianto, C. Lampert, in:, ML Research Press, 2011, pp. 425–432.
conference:
end_date: 2011-07-02
location: Bellevue, United States
name: 'ICML: International Conference on Machine Learning'
start_date: 2011-06-28
date_created: 2018-12-11T12:02:39Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2023-10-17T11:59:50Z
day: '01'
department:
- _id: ChLa
language:
- iso: eng
month: '01'
oa_version: None
page: 425 - 432
publication_status: published
publisher: ML Research Press
publist_id: '3316'
scopus_import: '1'
status: public
title: Learning multi-view neighborhood preserving projections
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2011'
...
---
_id: '3373'
abstract:
- lang: eng
text: The use of optical traps to measure or apply forces on the molecular level
requires a precise knowledge of the trapping force field. Close to the trap center,
this field is typically approximated as linear in the displacement of the trapped
microsphere. However, applications demanding high forces at low laser intensities
can probe the light-microsphere interaction beyond the linear regime. Here, we
measured the full nonlinear force and displacement response of an optical trap
in two dimensions using a dual-beam optical trap setup with back-focal-plane photodetection.
We observed a substantial stiffening of the trap beyond the linear regime that
depends on microsphere size, in agreement with Mie theory calculations. Surprisingly,
we found that the linear detection range for forces exceeds the one for displacement
by far. Our approach allows for a complete calibration of an optical trap.
article_processing_charge: No
author:
- first_name: Marcus
full_name: Jahnel, Marcus
last_name: Jahnel
- first_name: Martin
full_name: Behrndt, Martin
id: 3ECECA3A-F248-11E8-B48F-1D18A9856A87
last_name: Behrndt
- first_name: Anita
full_name: Jannasch, Anita
last_name: Jannasch
- first_name: Erik
full_name: Schaeffer, Erik
last_name: Schaeffer
- first_name: Stephan
full_name: Grill, Stephan
last_name: Grill
citation:
ama: Jahnel M, Behrndt M, Jannasch A, Schaeffer E, Grill S. Measuring the complete
force field of an optical trap. Optics Letters. 2011;36(7):1260-1262. doi:10.1364/OL.36.001260
apa: Jahnel, M., Behrndt, M., Jannasch, A., Schaeffer, E., & Grill, S. (2011).
Measuring the complete force field of an optical trap. Optics Letters.
Optica Publishing Group. https://doi.org/10.1364/OL.36.001260
chicago: Jahnel, Marcus, Martin Behrndt, Anita Jannasch, Erik Schaeffer, and Stephan
Grill. “Measuring the Complete Force Field of an Optical Trap.” Optics Letters.
Optica Publishing Group, 2011. https://doi.org/10.1364/OL.36.001260.
ieee: M. Jahnel, M. Behrndt, A. Jannasch, E. Schaeffer, and S. Grill, “Measuring
the complete force field of an optical trap,” Optics Letters, vol. 36,
no. 7. Optica Publishing Group, pp. 1260–1262, 2011.
ista: Jahnel M, Behrndt M, Jannasch A, Schaeffer E, Grill S. 2011. Measuring the
complete force field of an optical trap. Optics Letters. 36(7), 1260–1262.
mla: Jahnel, Marcus, et al. “Measuring the Complete Force Field of an Optical Trap.”
Optics Letters, vol. 36, no. 7, Optica Publishing Group, 2011, pp. 1260–62,
doi:10.1364/OL.36.001260.
short: M. Jahnel, M. Behrndt, A. Jannasch, E. Schaeffer, S. Grill, Optics Letters
36 (2011) 1260–1262.
date_created: 2018-12-11T12:02:58Z
date_published: 2011-03-30T00:00:00Z
date_updated: 2023-10-17T12:16:58Z
day: '30'
department:
- _id: CaHe
doi: 10.1364/OL.36.001260
intvolume: ' 36'
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.osapublishing.org/ol/abstract.cfm?uri=ol-36-7-1260
month: '03'
oa: 1
oa_version: Published Version
page: 1260 - 1262
publication: Optics Letters
publication_status: published
publisher: Optica Publishing Group
publist_id: '3234'
quality_controlled: '1'
related_material:
record:
- id: '1403'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Measuring the complete force field of an optical trap
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 36
year: '2011'
...
---
_id: '3375'
abstract:
- lang: eng
text: 'By exploiting an analogy between population genetics and statistical mechanics,
we study the evolution of a polygenic trait under stabilizing selection, mutation
and genetic drift. This requires us to track only four macroscopic variables,
instead of the distribution of all the allele frequencies that influence the trait.
These macroscopic variables are the expectations of: the trait mean and its square,
the genetic variance, and of a measure of heterozygosity, and are derived from
a generating function that is in turn derived by maximizing an entropy measure.
These four macroscopics are enough to accurately describe the dynamics of the
trait mean and of its genetic variance (and in principle of any other quantity).
Unlike previous approaches that were based on an infinite series of moments or
cumulants, which had to be truncated arbitrarily, our calculations provide a well-defined
approximation procedure. We apply the framework to abrupt and gradual changes
in the optimum, as well as to changes in the strength of stabilizing selection.
Our approximations are surprisingly accurate, even for systems with as few as
five loci. We find that when the effects of drift are included, the expected genetic
variance is hardly altered by directional selection, even though it fluctuates
in any particular instance. We also find hysteresis, showing that even after averaging
over the microscopic variables, the macroscopic trajectories retain a memory of
the underlying genetic states.'
article_processing_charge: No
article_type: original
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: de Vladar H, Barton NH. The statistical mechanics of a polygenic character
under stabilizing selection mutation and drift. Journal of the Royal Society
Interface. 2011;8(58):720-739. doi:10.1098/rsif.2010.0438
apa: de Vladar, H., & Barton, N. H. (2011). The statistical mechanics of a polygenic
character under stabilizing selection mutation and drift. Journal of the Royal
Society Interface. The Royal Society. https://doi.org/10.1098/rsif.2010.0438
chicago: Vladar, Harold de, and Nicholas H Barton. “The Statistical Mechanics of
a Polygenic Character under Stabilizing Selection Mutation and Drift.” Journal
of the Royal Society Interface. The Royal Society, 2011. https://doi.org/10.1098/rsif.2010.0438.
ieee: H. de Vladar and N. H. Barton, “The statistical mechanics of a polygenic character
under stabilizing selection mutation and drift,” Journal of the Royal Society
Interface, vol. 8, no. 58. The Royal Society, pp. 720–739, 2011.
ista: de Vladar H, Barton NH. 2011. The statistical mechanics of a polygenic character
under stabilizing selection mutation and drift. Journal of the Royal Society Interface.
8(58), 720–739.
mla: de Vladar, Harold, and Nicholas H. Barton. “The Statistical Mechanics of a
Polygenic Character under Stabilizing Selection Mutation and Drift.” Journal
of the Royal Society Interface, vol. 8, no. 58, The Royal Society, 2011, pp.
720–39, doi:10.1098/rsif.2010.0438.
short: H. de Vladar, N.H. Barton, Journal of the Royal Society Interface 8 (2011)
720–739.
date_created: 2018-12-11T12:02:58Z
date_published: 2011-05-01T00:00:00Z
date_updated: 2023-10-18T06:39:05Z
day: '01'
department:
- _id: NiBa
doi: 10.1098/rsif.2010.0438
ec_funded: 1
external_id:
pmid:
- '21084341'
intvolume: ' 8'
issue: '58'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3061091/
month: '05'
oa: 1
oa_version: Submitted Version
page: 720 - 739
pmid: 1
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Journal of the Royal Society Interface
publication_status: published
publisher: The Royal Society
publist_id: '3232'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The statistical mechanics of a polygenic character under stabilizing selection
mutation and drift
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2011'
...
---
_id: '3393'
abstract:
- lang: eng
text: 'Unlike unconditionally advantageous “Fisherian” variants that tend to spread
throughout a species range once introduced anywhere, “bistable” variants, such
as chromosome translocations, have two alternative stable frequencies, absence
and (near) fixation. Analogous to populations with Allee effects, bistable variants
tend to increase locally only once they become sufficiently common, and their
spread depends on their rate of increase averaged over all frequencies. Several
proposed manipulations of insect populations, such as using Wolbachia or “engineered
underdominance” to suppress vector-borne diseases, produce bistable rather than
Fisherian dynamics. We synthesize and extend theoretical analyses concerning three
features of their spatial behavior: rate of spread, conditions to initiate spread
from a localized introduction, and wave stopping caused by variation in population
densities or dispersal rates. Unlike Fisherian variants, bistable variants tend
to spread spatially only for particular parameter combinations and initial conditions.
Wave initiation requires introduction over an extended region, while subsequent
spatial spread is slower than for Fisherian waves and can easily be halted by
local spatial inhomogeneities. We present several new results, including robust
sufficient conditions to initiate (and stop) spread, using a one-parameter cubic
approximation applicable to several models. The results have both basic and applied
implications.'
article_processing_charge: No
article_type: original
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Michael
full_name: Turelli, Michael
last_name: Turelli
citation:
ama: 'Barton NH, Turelli M. Spatial waves of advance with bistable dynamics: Cytoplasmic
and genetic analogues of Allee effects. American Naturalist. 2011;178(3):E48-E75.
doi:10.1086/661246'
apa: 'Barton, N. H., & Turelli, M. (2011). Spatial waves of advance with bistable
dynamics: Cytoplasmic and genetic analogues of Allee effects. American Naturalist.
The University of Chicago Press. https://doi.org/10.1086/661246'
chicago: 'Barton, Nicholas H, and Michael Turelli. “Spatial Waves of Advance with
Bistable Dynamics: Cytoplasmic and Genetic Analogues of Allee Effects.” American
Naturalist. The University of Chicago Press, 2011. https://doi.org/10.1086/661246.'
ieee: 'N. H. Barton and M. Turelli, “Spatial waves of advance with bistable dynamics:
Cytoplasmic and genetic analogues of Allee effects,” American Naturalist,
vol. 178, no. 3. The University of Chicago Press, pp. E48–E75, 2011.'
ista: 'Barton NH, Turelli M. 2011. Spatial waves of advance with bistable dynamics:
Cytoplasmic and genetic analogues of Allee effects. American Naturalist. 178(3),
E48–E75.'
mla: 'Barton, Nicholas H., and Michael Turelli. “Spatial Waves of Advance with Bistable
Dynamics: Cytoplasmic and Genetic Analogues of Allee Effects.” American Naturalist,
vol. 178, no. 3, The University of Chicago Press, 2011, pp. E48–75, doi:10.1086/661246.'
short: N.H. Barton, M. Turelli, American Naturalist 178 (2011) E48–E75.
date_created: 2018-12-11T12:03:05Z
date_published: 2011-09-01T00:00:00Z
date_updated: 2023-10-18T08:01:43Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1086/661246
file:
- access_level: open_access
checksum: 7fd22a2ef3321a6fca6a439b3be5d8f4
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:31Z
date_updated: 2020-07-14T12:46:11Z
file_id: '4692'
file_name: IST-2016-554-v1+1_BartonTurelli2011_copy.pdf
file_size: 629130
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 178'
issue: '3'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: E48 - E75
publication: American Naturalist
publication_identifier:
eissn:
- 1537-5323
issn:
- 0003-0147
publication_status: published
publisher: The University of Chicago Press
publist_id: '3214'
pubrep_id: '554'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues
of Allee effects'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 178
year: '2011'
...
---
_id: '14305'
abstract:
- lang: eng
text: Understanding the mechanism of protein folding requires a detailed knowledge
of the structural properties of the barriers separating unfolded from native conformations.
The S-peptide from ribonuclease S forms its α-helical structure only upon binding
to the folded S-protein. We characterized the transition state for this binding-induced
folding reaction at high resolution by determining the effect of site-specific
backbone thioxylation and side-chain modifications on the kinetics and thermodynamics
of the reaction, which allows us to monitor formation of backbone hydrogen bonds
and side-chain interactions in the transition state. The experiments reveal that
α-helical structure in the S-peptide is absent in the transition state of binding.
Recognition between the unfolded S-peptide and the S-protein is mediated by loosely
packed hydrophobic side-chain interactions in two well defined regions on the
S-peptide. Close packing and helix formation occurs rapidly after binding. Introducing
hydrophobic residues at positions outside the recognition region can drastically
slow down association.
article_processing_charge: No
article_type: original
author:
- first_name: Annett
full_name: Bachmann, Annett
last_name: Bachmann
- first_name: Dirk
full_name: Wildemann, Dirk
last_name: Wildemann
- first_name: Florian M
full_name: Praetorius, Florian M
id: dfec9381-4341-11ee-8fd8-faa02bba7d62
last_name: Praetorius
- first_name: Gunter
full_name: Fischer, Gunter
last_name: Fischer
- first_name: Thomas
full_name: Kiefhaber, Thomas
last_name: Kiefhaber
citation:
ama: Bachmann A, Wildemann D, Praetorius FM, Fischer G, Kiefhaber T. Mapping backbone
and side-chain interactions in the transition state of a coupled protein folding
and binding reaction. PNAS. 2011;108(10):3952-3957. doi:10.1073/pnas.1012668108
apa: Bachmann, A., Wildemann, D., Praetorius, F. M., Fischer, G., & Kiefhaber,
T. (2011). Mapping backbone and side-chain interactions in the transition state
of a coupled protein folding and binding reaction. PNAS. Proceedings of
the National Academy of Sciences. https://doi.org/10.1073/pnas.1012668108
chicago: Bachmann, Annett, Dirk Wildemann, Florian M Praetorius, Gunter Fischer,
and Thomas Kiefhaber. “Mapping Backbone and Side-Chain Interactions in the Transition
State of a Coupled Protein Folding and Binding Reaction.” PNAS. Proceedings
of the National Academy of Sciences, 2011. https://doi.org/10.1073/pnas.1012668108.
ieee: A. Bachmann, D. Wildemann, F. M. Praetorius, G. Fischer, and T. Kiefhaber,
“Mapping backbone and side-chain interactions in the transition state of a coupled
protein folding and binding reaction,” PNAS, vol. 108, no. 10. Proceedings
of the National Academy of Sciences, pp. 3952–3957, 2011.
ista: Bachmann A, Wildemann D, Praetorius FM, Fischer G, Kiefhaber T. 2011. Mapping
backbone and side-chain interactions in the transition state of a coupled protein
folding and binding reaction. PNAS. 108(10), 3952–3957.
mla: Bachmann, Annett, et al. “Mapping Backbone and Side-Chain Interactions in the
Transition State of a Coupled Protein Folding and Binding Reaction.” PNAS,
vol. 108, no. 10, Proceedings of the National Academy of Sciences, 2011, pp. 3952–57,
doi:10.1073/pnas.1012668108.
short: A. Bachmann, D. Wildemann, F.M. Praetorius, G. Fischer, T. Kiefhaber, PNAS
108 (2011) 3952–3957.
date_created: 2023-09-06T12:54:36Z
date_published: 2011-01-12T00:00:00Z
date_updated: 2023-11-07T11:50:29Z
day: '12'
doi: 10.1073/pnas.1012668108
extern: '1'
external_id:
pmid:
- '21325613'
intvolume: ' 108'
issue: '10'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1012668108
month: '01'
oa: 1
oa_version: Published Version
page: 3952-3957
pmid: 1
publication: PNAS
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: Mapping backbone and side-chain interactions in the transition state of a coupled
protein folding and binding reaction
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 108
year: '2011'
...
---
_id: '7701'
abstract:
- lang: eng
text: During assembly of the Drosophila olfactory circuit, projection neuron (PN)
dendrites prepattern the developing antennal lobe before the arrival of axons
from their presynaptic partners, the adult olfactory receptor neurons (ORNs).
We previously found that levels of transmembrane Semaphorin-1a, which acts as
a receptor, instruct PN dendrite targeting along the dorsolateral-ventromedial
axis. Here we show that two secreted semaphorins, Sema-2a and Sema-2b, provide
spatial cues for PN dendrite targeting. Sema-2a and Sema-2b proteins are distributed
in gradients opposing the Sema-1a protein gradient, and Sema-1a binds to Sema-2a-expressing
cells. In Sema-2a and Sema-2b double mutants, PN dendrites that normally target
dorsolaterally in the antennal lobe mistarget ventromedially, phenocopying cell-autonomous
Sema-1a removal from these PNs. Cell ablation, cell-specific knockdown, and rescue
experiments indicate that secreted semaphorins from degenerating larval ORN axons
direct dendrite targeting. Thus, a degenerating brain structure instructs the
wiring of a developing circuit through the repulsive action of secreted semaphorins.
article_processing_charge: No
article_type: original
author:
- first_name: Lora Beatrice Jaeger
full_name: Sweeney, Lora Beatrice Jaeger
id: 56BE8254-C4F0-11E9-8E45-0B23E6697425
last_name: Sweeney
orcid: 0000-0001-9242-5601
- first_name: Ya-Hui
full_name: Chou, Ya-Hui
last_name: Chou
- first_name: Zhuhao
full_name: Wu, Zhuhao
last_name: Wu
- first_name: William
full_name: Joo, William
last_name: Joo
- first_name: Takaki
full_name: Komiyama, Takaki
last_name: Komiyama
- first_name: Christopher J.
full_name: Potter, Christopher J.
last_name: Potter
- first_name: Alex L.
full_name: Kolodkin, Alex L.
last_name: Kolodkin
- first_name: K. Christopher
full_name: Garcia, K. Christopher
last_name: Garcia
- first_name: Liqun
full_name: Luo, Liqun
last_name: Luo
citation:
ama: Sweeney LB, Chou Y-H, Wu Z, et al. Secreted semaphorins from degenerating larval
ORN axons direct adult projection neuron dendrite targeting. Neuron. 2011;72(5):734-747.
doi:10.1016/j.neuron.2011.09.026
apa: Sweeney, L. B., Chou, Y.-H., Wu, Z., Joo, W., Komiyama, T., Potter, C. J.,
… Luo, L. (2011). Secreted semaphorins from degenerating larval ORN axons direct
adult projection neuron dendrite targeting. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2011.09.026
chicago: Sweeney, Lora B., Ya-Hui Chou, Zhuhao Wu, William Joo, Takaki Komiyama,
Christopher J. Potter, Alex L. Kolodkin, K. Christopher Garcia, and Liqun Luo.
“Secreted Semaphorins from Degenerating Larval ORN Axons Direct Adult Projection
Neuron Dendrite Targeting.” Neuron. Elsevier, 2011. https://doi.org/10.1016/j.neuron.2011.09.026.
ieee: L. B. Sweeney et al., “Secreted semaphorins from degenerating larval
ORN axons direct adult projection neuron dendrite targeting,” Neuron, vol.
72, no. 5. Elsevier, pp. 734–747, 2011.
ista: Sweeney LB, Chou Y-H, Wu Z, Joo W, Komiyama T, Potter CJ, Kolodkin AL, Garcia
KC, Luo L. 2011. Secreted semaphorins from degenerating larval ORN axons direct
adult projection neuron dendrite targeting. Neuron. 72(5), 734–747.
mla: Sweeney, Lora B., et al. “Secreted Semaphorins from Degenerating Larval ORN
Axons Direct Adult Projection Neuron Dendrite Targeting.” Neuron, vol.
72, no. 5, Elsevier, 2011, pp. 734–47, doi:10.1016/j.neuron.2011.09.026.
short: L.B. Sweeney, Y.-H. Chou, Z. Wu, W. Joo, T. Komiyama, C.J. Potter, A.L. Kolodkin,
K.C. Garcia, L. Luo, Neuron 72 (2011) 734–747.
date_created: 2020-04-30T10:36:12Z
date_published: 2011-12-08T00:00:00Z
date_updated: 2024-01-31T10:13:39Z
day: '08'
doi: 10.1016/j.neuron.2011.09.026
extern: '1'
intvolume: ' 72'
issue: '5'
language:
- iso: eng
month: '12'
oa_version: None
page: 734-747
publication: Neuron
publication_identifier:
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Secreted semaphorins from degenerating larval ORN axons direct adult projection
neuron dendrite targeting
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 72
year: '2011'
...
---
_id: '7702'
abstract:
- lang: eng
text: Longitudinal axon fascicles within the Drosophila embryonic CNS provide connections
between body segments and are required for coordinated neural signaling along
the anterior-posterior axis. We show here that establishment of select CNS longitudinal
tracts and formation of precise mechanosensory afferent innervation to the same
CNS region are coordinately regulated by the secreted semaphorins Sema-2a and
Sema-2b. Both Sema-2a and Sema-2b utilize the same neuronal receptor, plexin B
(PlexB), but serve distinct guidance functions. Localized Sema-2b attraction promotes
the initial assembly of a subset of CNS longitudinal projections and subsequent
targeting of chordotonal sensory afferent axons to these same longitudinal connectives,
whereas broader Sema-2a repulsion serves to prevent aberrant innervation. In the
absence of Sema-2b or PlexB, chordotonal afferent connectivity within the CNS
is severely disrupted, resulting in specific larval behavioral deficits. These
results reveal that distinct semaphorin-mediated guidance functions converge at
PlexB and are critical for functional neural circuit assembly.
article_processing_charge: No
article_type: original
author:
- first_name: Zhuhao
full_name: Wu, Zhuhao
last_name: Wu
- first_name: Lora Beatrice Jaeger
full_name: Sweeney, Lora Beatrice Jaeger
id: 56BE8254-C4F0-11E9-8E45-0B23E6697425
last_name: Sweeney
orcid: 0000-0001-9242-5601
- first_name: Joseph C.
full_name: Ayoob, Joseph C.
last_name: Ayoob
- first_name: Kayam
full_name: Chak, Kayam
last_name: Chak
- first_name: Benjamin J.
full_name: Andreone, Benjamin J.
last_name: Andreone
- first_name: Tomoko
full_name: Ohyama, Tomoko
last_name: Ohyama
- first_name: Rex
full_name: Kerr, Rex
last_name: Kerr
- first_name: Liqun
full_name: Luo, Liqun
last_name: Luo
- first_name: Marta
full_name: Zlatic, Marta
last_name: Zlatic
- first_name: Alex L.
full_name: Kolodkin, Alex L.
last_name: Kolodkin
citation:
ama: Wu Z, Sweeney LB, Ayoob JC, et al. A combinatorial semaphorin code instructs
the initial steps of sensory circuit assembly in the Drosophila CNS. Neuron.
2011;70(2):281-298. doi:10.1016/j.neuron.2011.02.050
apa: Wu, Z., Sweeney, L. B., Ayoob, J. C., Chak, K., Andreone, B. J., Ohyama, T.,
… Kolodkin, A. L. (2011). A combinatorial semaphorin code instructs the initial
steps of sensory circuit assembly in the Drosophila CNS. Neuron. Elsevier.
https://doi.org/10.1016/j.neuron.2011.02.050
chicago: Wu, Zhuhao, Lora B. Sweeney, Joseph C. Ayoob, Kayam Chak, Benjamin J. Andreone,
Tomoko Ohyama, Rex Kerr, Liqun Luo, Marta Zlatic, and Alex L. Kolodkin. “A Combinatorial
Semaphorin Code Instructs the Initial Steps of Sensory Circuit Assembly in the
Drosophila CNS.” Neuron. Elsevier, 2011. https://doi.org/10.1016/j.neuron.2011.02.050.
ieee: Z. Wu et al., “A combinatorial semaphorin code instructs the initial
steps of sensory circuit assembly in the Drosophila CNS,” Neuron, vol.
70, no. 2. Elsevier, pp. 281–298, 2011.
ista: Wu Z, Sweeney LB, Ayoob JC, Chak K, Andreone BJ, Ohyama T, Kerr R, Luo L,
Zlatic M, Kolodkin AL. 2011. A combinatorial semaphorin code instructs the initial
steps of sensory circuit assembly in the Drosophila CNS. Neuron. 70(2), 281–298.
mla: Wu, Zhuhao, et al. “A Combinatorial Semaphorin Code Instructs the Initial Steps
of Sensory Circuit Assembly in the Drosophila CNS.” Neuron, vol. 70, no.
2, Elsevier, 2011, pp. 281–98, doi:10.1016/j.neuron.2011.02.050.
short: Z. Wu, L.B. Sweeney, J.C. Ayoob, K. Chak, B.J. Andreone, T. Ohyama, R. Kerr,
L. Luo, M. Zlatic, A.L. Kolodkin, Neuron 70 (2011) 281–298.
date_created: 2020-04-30T10:36:30Z
date_published: 2011-04-28T00:00:00Z
date_updated: 2024-01-31T10:14:29Z
day: '28'
doi: 10.1016/j.neuron.2011.02.050
extern: '1'
intvolume: ' 70'
issue: '2'
language:
- iso: eng
month: '04'
oa_version: None
page: 281-298
publication: Neuron
publication_identifier:
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: A combinatorial semaphorin code instructs the initial steps of sensory circuit
assembly in the Drosophila CNS
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 70
year: '2011'
...