---
_id: '715'
abstract:
- lang: eng
text: D-cycloserine ameliorates breathing abnormalities and survival rate in a mouse
model of Rett syndrome.
article_number: aao4218
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. More excitation for Rett syndrome. Science Translational Medicine.
2017;9(405). doi:10.1126/scitranslmed.aao4218
apa: Novarino, G. (2017). More excitation for Rett syndrome. Science Translational
Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.aao4218
chicago: Novarino, Gaia. “More Excitation for Rett Syndrome.” Science Translational
Medicine. American Association for the Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aao4218.
ieee: G. Novarino, “More excitation for Rett syndrome,” Science Translational
Medicine, vol. 9, no. 405. American Association for the Advancement of Science,
2017.
ista: Novarino G. 2017. More excitation for Rett syndrome. Science Translational
Medicine. 9(405), aao4218.
mla: Novarino, Gaia. “More Excitation for Rett Syndrome.” Science Translational
Medicine, vol. 9, no. 405, aao4218, American Association for the Advancement
of Science, 2017, doi:10.1126/scitranslmed.aao4218.
short: G. Novarino, Science Translational Medicine 9 (2017).
date_created: 2018-12-11T11:48:06Z
date_published: 2017-08-30T00:00:00Z
date_updated: 2021-01-12T08:12:04Z
day: '30'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aao4218
intvolume: ' 9'
issue: '405'
language:
- iso: eng
month: '08'
oa_version: None
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '6968'
quality_controlled: '1'
scopus_import: 1
status: public
title: More excitation for Rett syndrome
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '716'
abstract:
- lang: eng
text: 'Two-player games on graphs are central in many problems in formal verification
and program analysis, such as synthesis and verification of open systems. In this
work, we consider solving recursive game graphs (or pushdown game graphs) that
model the control flow of sequential programs with recursion.While pushdown games
have been studied before with qualitative objectives-such as reachability and
?-regular objectives- in this work, we study for the first time such games with
the most well-studied quantitative objective, the mean-payoff objective. In pushdown
games, two types of strategies are relevant: (1) global strategies, which depend
on the entire global history; and (2) modular strategies, which have only local
memory and thus do not depend on the context of invocation but rather only on
the history of the current invocation of the module. Our main results are as follows:
(1) One-player pushdown games with mean-payoff objectives under global strategies
are decidable in polynomial time. (2) Two-player pushdown games with mean-payoff
objectives under global strategies are undecidable. (3) One-player pushdown games
with mean-payoff objectives under modular strategies are NP-hard. (4) Two-player
pushdown games with mean-payoff objectives under modular strategies can be solved
in NP (i.e., both one-player and two-player pushdown games with mean-payoff objectives
under modular strategies are NP-complete). We also establish the optimal strategy
complexity by showing that global strategies for mean-payoff objectives require
infinite memory even in one-player pushdown games and memoryless modular strategies
are sufficient in two-player pushdown games. Finally, we also show that all the
problems have the same complexity if the stack boundedness condition is added,
where along with the mean-payoff objective the player must also ensure that the
stack height is bounded.'
article_type: original
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Yaron
full_name: Velner, Yaron
last_name: Velner
citation:
ama: Chatterjee K, Velner Y. The complexity of mean-payoff pushdown games. Journal
of the ACM. 2017;64(5):34. doi:10.1145/3121408
apa: Chatterjee, K., & Velner, Y. (2017). The complexity of mean-payoff pushdown
games. Journal of the ACM. ACM. https://doi.org/10.1145/3121408
chicago: Chatterjee, Krishnendu, and Yaron Velner. “The Complexity of Mean-Payoff
Pushdown Games.” Journal of the ACM. ACM, 2017. https://doi.org/10.1145/3121408.
ieee: K. Chatterjee and Y. Velner, “The complexity of mean-payoff pushdown games,”
Journal of the ACM, vol. 64, no. 5. ACM, p. 34, 2017.
ista: Chatterjee K, Velner Y. 2017. The complexity of mean-payoff pushdown games.
Journal of the ACM. 64(5), 34.
mla: Chatterjee, Krishnendu, and Yaron Velner. “The Complexity of Mean-Payoff Pushdown
Games.” Journal of the ACM, vol. 64, no. 5, ACM, 2017, p. 34, doi:10.1145/3121408.
short: K. Chatterjee, Y. Velner, Journal of the ACM 64 (2017) 34.
date_created: 2018-12-11T11:48:06Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:08Z
day: '01'
department:
- _id: KrCh
doi: 10.1145/3121408
ec_funded: 1
external_id:
arxiv:
- '1201.2829'
intvolume: ' 64'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1201.2829
month: '09'
oa: 1
oa_version: Preprint
page: '34'
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Journal of the ACM
publication_identifier:
issn:
- '00045411'
publication_status: published
publisher: ACM
publist_id: '6964'
quality_controlled: '1'
scopus_import: 1
status: public
title: The complexity of mean-payoff pushdown games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 64
year: '2017'
...
---
_id: '717'
abstract:
- lang: eng
text: 'We consider finite-state and recursive game graphs with multidimensional
mean-payoff objectives. In recursive games two types of strategies are relevant:
global strategies and modular strategies. Our contributions are: (1) We show that
finite-state multidimensional mean-payoff games can be solved in polynomial time
if the number of dimensions and the maximal absolute value of weights are fixed;
whereas for arbitrary dimensions the problem is coNP-complete. (2) We show that
one-player recursive games with multidimensional mean-payoff objectives can be
solved in polynomial time. Both above algorithms are based on hyperplane separation
technique. (3) For recursive games we show that under modular strategies the multidimensional
problem is undecidable. We show that if the number of modules, exits, and the
maximal absolute value of the weights are fixed, then one-dimensional recursive
mean-payoff games under modular strategies can be solved in polynomial time, whereas
for unbounded number of exits or modules the problem is NP-hard.'
acknowledgement: 'The research was supported by Austrian Science Fund (FWF) Grant
No. P 23499-N23, FWF NFN Grant No. S11407-N23 (RiSE), ERC Start grant (279307: Graph
Games), Microsoft faculty fellows award, the RICH Model Toolkit (ICT COST Action
IC0901), and was carried out in partial fulfillment of the requirements for the
Ph.D. degree of the second author.'
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Yaron
full_name: Velner, Yaron
last_name: Velner
citation:
ama: Chatterjee K, Velner Y. Hyperplane separation technique for multidimensional
mean-payoff games. Journal of Computer and System Sciences. 2017;88:236-259.
doi:10.1016/j.jcss.2017.04.005
apa: Chatterjee, K., & Velner, Y. (2017). Hyperplane separation technique for
multidimensional mean-payoff games. Journal of Computer and System Sciences.
Academic Press. https://doi.org/10.1016/j.jcss.2017.04.005
chicago: Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique
for Multidimensional Mean-Payoff Games.” Journal of Computer and System Sciences.
Academic Press, 2017. https://doi.org/10.1016/j.jcss.2017.04.005.
ieee: K. Chatterjee and Y. Velner, “Hyperplane separation technique for multidimensional
mean-payoff games,” Journal of Computer and System Sciences, vol. 88. Academic
Press, pp. 236–259, 2017.
ista: Chatterjee K, Velner Y. 2017. Hyperplane separation technique for multidimensional
mean-payoff games. Journal of Computer and System Sciences. 88, 236–259.
mla: Chatterjee, Krishnendu, and Yaron Velner. “Hyperplane Separation Technique
for Multidimensional Mean-Payoff Games.” Journal of Computer and System Sciences,
vol. 88, Academic Press, 2017, pp. 236–59, doi:10.1016/j.jcss.2017.04.005.
short: K. Chatterjee, Y. Velner, Journal of Computer and System Sciences 88 (2017)
236–259.
date_created: 2018-12-11T11:48:07Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2023-02-23T10:38:15Z
day: '01'
department:
- _id: KrCh
doi: 10.1016/j.jcss.2017.04.005
ec_funded: 1
intvolume: ' 88'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1210.3141
month: '09'
oa: 1
oa_version: Preprint
page: 236 - 259
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 2587B514-B435-11E9-9278-68D0E5697425
name: Microsoft Research Faculty Fellowship
publication: Journal of Computer and System Sciences
publication_status: published
publisher: Academic Press
publist_id: '6963'
quality_controlled: '1'
related_material:
record:
- id: '2329'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Hyperplane separation technique for multidimensional mean-payoff games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 88
year: '2017'
...
---
_id: '719'
abstract:
- lang: eng
text: 'The ubiquity of computation in modern machines and devices imposes a need
to assert the correctness of their behavior. Especially in the case of safety-critical
systems, their designers need to take measures that enforce their safe operation.
Formal methods has emerged as a research field that addresses this challenge:
by rigorously proving that all system executions adhere to their specifications,
the correctness of an implementation under concern can be assured. To achieve
this goal, a plethora of techniques are nowadays available, all of which are optimized
for different system types and application domains.'
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Rüdiger
full_name: Ehlers, Rüdiger
last_name: Ehlers
citation:
ama: 'Chatterjee K, Ehlers R. Special issue: Synthesis and SYNT 2014. Acta Informatica.
2017;54(6):543-544. doi:10.1007/s00236-017-0299-0'
apa: 'Chatterjee, K., & Ehlers, R. (2017). Special issue: Synthesis and SYNT
2014. Acta Informatica. Springer. https://doi.org/10.1007/s00236-017-0299-0'
chicago: 'Chatterjee, Krishnendu, and Rüdiger Ehlers. “Special Issue: Synthesis
and SYNT 2014.” Acta Informatica. Springer, 2017. https://doi.org/10.1007/s00236-017-0299-0.'
ieee: 'K. Chatterjee and R. Ehlers, “Special issue: Synthesis and SYNT 2014,” Acta
Informatica, vol. 54, no. 6. Springer, pp. 543–544, 2017.'
ista: 'Chatterjee K, Ehlers R. 2017. Special issue: Synthesis and SYNT 2014. Acta
Informatica. 54(6), 543–544.'
mla: 'Chatterjee, Krishnendu, and Rüdiger Ehlers. “Special Issue: Synthesis and
SYNT 2014.” Acta Informatica, vol. 54, no. 6, Springer, 2017, pp. 543–44,
doi:10.1007/s00236-017-0299-0.'
short: K. Chatterjee, R. Ehlers, Acta Informatica 54 (2017) 543–544.
date_created: 2018-12-11T11:48:07Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:18Z
day: '01'
department:
- _id: KrCh
doi: 10.1007/s00236-017-0299-0
intvolume: ' 54'
issue: '6'
language:
- iso: eng
month: '09'
oa_version: None
page: 543 - 544
publication: Acta Informatica
publication_identifier:
issn:
- '00015903'
publication_status: published
publisher: Springer
publist_id: '6961'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Special issue: Synthesis and SYNT 2014'
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2017'
...
---
_id: '720'
abstract:
- lang: eng
text: 'Advances in multi-unit recordings pave the way for statistical modeling of
activity patterns in large neural populations. Recent studies have shown that
the summed activity of all neurons strongly shapes the population response. A
separate recent finding has been that neural populations also exhibit criticality,
an anomalously large dynamic range for the probabilities of different population
activity patterns. Motivated by these two observations, we introduce a class of
probabilistic models which takes into account the prior knowledge that the neural
population could be globally coupled and close to critical. These models consist
of an energy function which parametrizes interactions between small groups of
neurons, and an arbitrary positive, strictly increasing, and twice differentiable
function which maps the energy of a population pattern to its probability. We
show that: 1) augmenting a pairwise Ising model with a nonlinearity yields an
accurate description of the activity of retinal ganglion cells which outperforms
previous models based on the summed activity of neurons; 2) prior knowledge that
the population is critical translates to prior expectations about the shape of
the nonlinearity; 3) the nonlinearity admits an interpretation in terms of a continuous
latent variable globally coupling the system whose distribution we can infer from
data. Our method is independent of the underlying system’s state space; hence,
it can be applied to other systems such as natural scenes or amino acid sequences
of proteins which are also known to exhibit criticality.'
article_number: e1005763
article_processing_charge: Yes
author:
- first_name: Jan
full_name: Humplik, Jan
id: 2E9627A8-F248-11E8-B48F-1D18A9856A87
last_name: Humplik
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
citation:
ama: Humplik J, Tkačik G. Probabilistic models for neural populations that naturally
capture global coupling and criticality. PLoS Computational Biology. 2017;13(9).
doi:10.1371/journal.pcbi.1005763
apa: Humplik, J., & Tkačik, G. (2017). Probabilistic models for neural populations
that naturally capture global coupling and criticality. PLoS Computational
Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005763
chicago: Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations
That Naturally Capture Global Coupling and Criticality.” PLoS Computational
Biology. Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005763.
ieee: J. Humplik and G. Tkačik, “Probabilistic models for neural populations that
naturally capture global coupling and criticality,” PLoS Computational Biology,
vol. 13, no. 9. Public Library of Science, 2017.
ista: Humplik J, Tkačik G. 2017. Probabilistic models for neural populations that
naturally capture global coupling and criticality. PLoS Computational Biology.
13(9), e1005763.
mla: Humplik, Jan, and Gašper Tkačik. “Probabilistic Models for Neural Populations
That Naturally Capture Global Coupling and Criticality.” PLoS Computational
Biology, vol. 13, no. 9, e1005763, Public Library of Science, 2017, doi:10.1371/journal.pcbi.1005763.
short: J. Humplik, G. Tkačik, PLoS Computational Biology 13 (2017).
date_created: 2018-12-11T11:48:08Z
date_published: 2017-09-19T00:00:00Z
date_updated: 2021-01-12T08:12:21Z
day: '19'
ddc:
- '530'
- '571'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1005763
file:
- access_level: open_access
checksum: 81107096c19771c36ddbe6f0282a3acb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:30Z
date_updated: 2020-07-14T12:47:53Z
file_id: '5352'
file_name: IST-2017-884-v1+1_journal.pcbi.1005763.pdf
file_size: 14167050
relation: main_file
file_date_updated: 2020-07-14T12:47:53Z
has_accepted_license: '1'
intvolume: ' 13'
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 255008E4-B435-11E9-9278-68D0E5697425
grant_number: RGP0065/2012
name: Information processing and computation in fish groups
- _id: 254D1A94-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 25651-N26
name: Sensitivity to higher-order statistics in natural scenes
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553734X
publication_status: published
publisher: Public Library of Science
publist_id: '6960'
pubrep_id: '884'
quality_controlled: '1'
scopus_import: 1
status: public
title: Probabilistic models for neural populations that naturally capture global coupling
and criticality
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '721'
abstract:
- lang: eng
text: 'Let S be a positivity-preserving symmetric linear operator acting on bounded
functions. The nonlinear equation -1/m=z+Sm with a parameter z in the complex
upper half-plane ℍ has a unique solution m with values in ℍ. We show that the
z-dependence of this solution can be represented as the Stieltjes transforms of
a family of probability measures v on ℝ. Under suitable conditions on S, we show
that v has a real analytic density apart from finitely many algebraic singularities
of degree at most 3. Our motivation comes from large random matrices. The solution
m determines the density of eigenvalues of two prominent matrix ensembles: (i)
matrices with centered independent entries whose variances are given by S and
(ii) matrices with correlated entries with a translation-invariant correlation
structure. Our analysis shows that the limiting eigenvalue density has only square
root singularities or cubic root cusps; no other singularities occur.'
author:
- first_name: Oskari H
full_name: Ajanki, Oskari H
id: 36F2FB7E-F248-11E8-B48F-1D18A9856A87
last_name: Ajanki
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: Ajanki OH, Krüger TH, Erdös L. Singularities of solutions to quadratic vector
equations on the complex upper half plane. Communications on Pure and Applied
Mathematics. 2017;70(9):1672-1705. doi:10.1002/cpa.21639
apa: Ajanki, O. H., Krüger, T. H., & Erdös, L. (2017). Singularities of solutions
to quadratic vector equations on the complex upper half plane. Communications
on Pure and Applied Mathematics. Wiley-Blackwell. https://doi.org/10.1002/cpa.21639
chicago: Ajanki, Oskari H, Torben H Krüger, and László Erdös. “Singularities of
Solutions to Quadratic Vector Equations on the Complex Upper Half Plane.” Communications
on Pure and Applied Mathematics. Wiley-Blackwell, 2017. https://doi.org/10.1002/cpa.21639.
ieee: O. H. Ajanki, T. H. Krüger, and L. Erdös, “Singularities of solutions to quadratic
vector equations on the complex upper half plane,” Communications on Pure and
Applied Mathematics, vol. 70, no. 9. Wiley-Blackwell, pp. 1672–1705, 2017.
ista: Ajanki OH, Krüger TH, Erdös L. 2017. Singularities of solutions to quadratic
vector equations on the complex upper half plane. Communications on Pure and Applied
Mathematics. 70(9), 1672–1705.
mla: Ajanki, Oskari H., et al. “Singularities of Solutions to Quadratic Vector Equations
on the Complex Upper Half Plane.” Communications on Pure and Applied Mathematics,
vol. 70, no. 9, Wiley-Blackwell, 2017, pp. 1672–705, doi:10.1002/cpa.21639.
short: O.H. Ajanki, T.H. Krüger, L. Erdös, Communications on Pure and Applied Mathematics
70 (2017) 1672–1705.
date_created: 2018-12-11T11:48:08Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:12:24Z
day: '01'
department:
- _id: LaEr
doi: 10.1002/cpa.21639
ec_funded: 1
intvolume: ' 70'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1512.03703
month: '09'
oa: 1
oa_version: Submitted Version
page: 1672 - 1705
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Communications on Pure and Applied Mathematics
publication_identifier:
issn:
- '00103640'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6959'
quality_controlled: '1'
scopus_import: 1
status: public
title: Singularities of solutions to quadratic vector equations on the complex upper
half plane
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 70
year: '2017'
...
---
_id: '722'
abstract:
- lang: eng
text: Plants are sessile organisms rooted in one place. The soil resources that
plants require are often distributed in a highly heterogeneous pattern. To aid
foraging, plants have evolved roots whose growth and development are highly responsive
to soil signals. As a result, 3D root architecture is shaped by myriad environmental
signals to ensure resource capture is optimised and unfavourable environments
are avoided. The first signals sensed by newly germinating seeds — gravity and
light — direct root growth into the soil to aid seedling establishment. Heterogeneous
soil resources, such as water, nitrogen and phosphate, also act as signals that
shape 3D root growth to optimise uptake. Root architecture is also modified through
biotic interactions that include soil fungi and neighbouring plants. This developmental
plasticity results in a ‘custom-made’ 3D root system that is best adapted to forage
for resources in each soil environment that a plant colonises.
author:
- first_name: Emily
full_name: Morris, Emily
last_name: Morris
- first_name: Marcus
full_name: Griffiths, Marcus
last_name: Griffiths
- first_name: Agata
full_name: Golebiowska, Agata
last_name: Golebiowska
- first_name: Stefan
full_name: Mairhofer, Stefan
last_name: Mairhofer
- first_name: Jasmine
full_name: Burr Hersey, Jasmine
last_name: Burr Hersey
- first_name: Tatsuaki
full_name: Goh, Tatsuaki
last_name: Goh
- first_name: Daniel
full_name: Von Wangenheim, Daniel
id: 49E91952-F248-11E8-B48F-1D18A9856A87
last_name: Von Wangenheim
orcid: 0000-0002-6862-1247
- first_name: Brian
full_name: Atkinson, Brian
last_name: Atkinson
- first_name: Craig
full_name: Sturrock, Craig
last_name: Sturrock
- first_name: Jonathan
full_name: Lynch, Jonathan
last_name: Lynch
- first_name: Kris
full_name: Vissenberg, Kris
last_name: Vissenberg
- first_name: Karl
full_name: Ritz, Karl
last_name: Ritz
- first_name: Darren
full_name: Wells, Darren
last_name: Wells
- first_name: Sacha
full_name: Mooney, Sacha
last_name: Mooney
- first_name: Malcolm
full_name: Bennett, Malcolm
last_name: Bennett
citation:
ama: Morris E, Griffiths M, Golebiowska A, et al. Shaping 3D root system architecture.
Current Biology. 2017;27(17):R919-R930. doi:10.1016/j.cub.2017.06.043
apa: Morris, E., Griffiths, M., Golebiowska, A., Mairhofer, S., Burr Hersey, J.,
Goh, T., … Bennett, M. (2017). Shaping 3D root system architecture. Current
Biology. Cell Press. https://doi.org/10.1016/j.cub.2017.06.043
chicago: Morris, Emily, Marcus Griffiths, Agata Golebiowska, Stefan Mairhofer, Jasmine
Burr Hersey, Tatsuaki Goh, Daniel von Wangenheim, et al. “Shaping 3D Root System
Architecture.” Current Biology. Cell Press, 2017. https://doi.org/10.1016/j.cub.2017.06.043.
ieee: E. Morris et al., “Shaping 3D root system architecture,” Current
Biology, vol. 27, no. 17. Cell Press, pp. R919–R930, 2017.
ista: Morris E, Griffiths M, Golebiowska A, Mairhofer S, Burr Hersey J, Goh T, von
Wangenheim D, Atkinson B, Sturrock C, Lynch J, Vissenberg K, Ritz K, Wells D,
Mooney S, Bennett M. 2017. Shaping 3D root system architecture. Current Biology.
27(17), R919–R930.
mla: Morris, Emily, et al. “Shaping 3D Root System Architecture.” Current Biology,
vol. 27, no. 17, Cell Press, 2017, pp. R919–30, doi:10.1016/j.cub.2017.06.043.
short: E. Morris, M. Griffiths, A. Golebiowska, S. Mairhofer, J. Burr Hersey, T.
Goh, D. von Wangenheim, B. Atkinson, C. Sturrock, J. Lynch, K. Vissenberg, K.
Ritz, D. Wells, S. Mooney, M. Bennett, Current Biology 27 (2017) R919–R930.
date_created: 2018-12-11T11:48:08Z
date_published: 2017-09-11T00:00:00Z
date_updated: 2021-01-12T08:12:29Z
day: '11'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1016/j.cub.2017.06.043
ec_funded: 1
external_id:
pmid:
- '28898665'
file:
- access_level: open_access
checksum: e45588b21097b408da6276a3e5eedb2e
content_type: application/pdf
creator: dernst
date_created: 2019-04-17T07:46:40Z
date_updated: 2020-07-14T12:47:54Z
file_id: '6332'
file_name: 2017_CurrentBiology_Morris.pdf
file_size: 1576593
relation: main_file
file_date_updated: 2020-07-14T12:47:54Z
has_accepted_license: '1'
intvolume: ' 27'
issue: '17'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: R919 - R930
pmid: 1
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Current Biology
publication_identifier:
issn:
- '09609822'
publication_status: published
publisher: Cell Press
publist_id: '6956'
pubrep_id: '982'
quality_controlled: '1'
scopus_import: 1
status: public
title: Shaping 3D root system architecture
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 27
year: '2017'
...
---
_id: '725'
abstract:
- lang: eng
text: Individual computations and social interactions underlying collective behavior
in groups of animals are of great ethological, behavioral, and theoretical interest.
While complex individual behaviors have successfully been parsed into small dictionaries
of stereotyped behavioral modes, studies of collective behavior largely ignored
these findings; instead, their focus was on inferring single, mode-independent
social interaction rules that reproduced macroscopic and often qualitative features
of group behavior. Here, we bring these two approaches together to predict individual
swimming patterns of adult zebrafish in a group. We show that fish alternate between
an “active” mode, in which they are sensitive to the swimming patterns of conspecifics,
and a “passive” mode, where they ignore them. Using a model that accounts for
these two modes explicitly, we predict behaviors of individual fish with high
accuracy, outperforming previous approaches that assumed a single continuous computation
by individuals and simple metric or topological weighing of neighbors’ behavior.
At the group level, switching between active and passive modes is uncorrelated
among fish, but correlated directional swimming behavior still emerges. Our quantitative
approach for studying complex, multi-modal individual behavior jointly with emergent
group behavior is readily extensible to additional behavioral modes and their
neural correlates as well as to other species.
author:
- first_name: Roy
full_name: Harpaz, Roy
last_name: Harpaz
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Elad
full_name: Schneidman, Elad
last_name: Schneidman
citation:
ama: Harpaz R, Tkačik G, Schneidman E. Discrete modes of social information processing
predict individual behavior of fish in a group. PNAS. 2017;114(38):10149-10154.
doi:10.1073/pnas.1703817114
apa: Harpaz, R., Tkačik, G., & Schneidman, E. (2017). Discrete modes of social
information processing predict individual behavior of fish in a group. PNAS.
National Academy of Sciences. https://doi.org/10.1073/pnas.1703817114
chicago: Harpaz, Roy, Gašper Tkačik, and Elad Schneidman. “Discrete Modes of Social
Information Processing Predict Individual Behavior of Fish in a Group.” PNAS.
National Academy of Sciences, 2017. https://doi.org/10.1073/pnas.1703817114.
ieee: R. Harpaz, G. Tkačik, and E. Schneidman, “Discrete modes of social information
processing predict individual behavior of fish in a group,” PNAS, vol.
114, no. 38. National Academy of Sciences, pp. 10149–10154, 2017.
ista: Harpaz R, Tkačik G, Schneidman E. 2017. Discrete modes of social information
processing predict individual behavior of fish in a group. PNAS. 114(38), 10149–10154.
mla: Harpaz, Roy, et al. “Discrete Modes of Social Information Processing Predict
Individual Behavior of Fish in a Group.” PNAS, vol. 114, no. 38, National
Academy of Sciences, 2017, pp. 10149–54, doi:10.1073/pnas.1703817114.
short: R. Harpaz, G. Tkačik, E. Schneidman, PNAS 114 (2017) 10149–10154.
date_created: 2018-12-11T11:48:10Z
date_published: 2017-09-19T00:00:00Z
date_updated: 2021-01-12T08:12:36Z
day: '19'
department:
- _id: GaTk
doi: 10.1073/pnas.1703817114
external_id:
pmid:
- '28874581'
intvolume: ' 114'
issue: '38'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617265/
month: '09'
oa: 1
oa_version: Submitted Version
page: 10149 - 10154
pmid: 1
publication: PNAS
publication_identifier:
issn:
- '00278424'
publication_status: published
publisher: National Academy of Sciences
publist_id: '6953'
quality_controlled: '1'
scopus_import: 1
status: public
title: Discrete modes of social information processing predict individual behavior
of fish in a group
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '724'
abstract:
- lang: eng
text: We investigate the stationary and dynamical behavior of an Anderson localized
chain coupled to a single central bound state. Although this coupling partially
dilutes the Anderson localized peaks towards nearly resonant sites, the most weight
of the original peaks remains unchanged. This leads to multifractal wave functions
with a frozen spectrum of fractal dimensions, which is characteristic for localized
phases in models with power-law hopping. Using a perturbative approach we identify
two different dynamical regimes. At weak couplings to the central site, the transport
of particles and information is logarithmic in time, a feature usually attributed
to many-body localization. We connect such transport to the persistence of the
Poisson statistics of level spacings in parts of the spectrum. In contrast, at
stronger couplings the level repulsion is established in the entire spectrum,
the problem can be mapped to the Fano resonance, and the transport is ballistic.
acknowledgement: "We would like to thank Dmitry Abanin, Christophe De\r\nBeule,
\ Joel Moore, Romain Vasseur, and Norman Yao for\r\nmany stimulating discussions.
\ Financial support has been\r\nprovided by the Deutsche Forschungsgemeinschaft
\ (DFG)\r\nvia Grant No. TR950/8-1, SFB 1170 “ToCoTronics” and the\r\nENB Graduate
\ School on Topological Insulators. M.S. was\r\nsupported by Gordon and Betty
Moore Foundation’s EPiQS\r\nInitiative through Grant No. GBMF4307. F.P. acknowledges\r\nsupport
from the DFG Research Unit FOR 1807 through Grant\r\nNo. PO 1370/2-1."
article_number: '104203'
author:
- first_name: Daniel
full_name: Hetterich, Daniel
last_name: Hetterich
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Fernando
full_name: Domínguez, Fernando
last_name: Domínguez
- first_name: Frank
full_name: Pollmann, Frank
last_name: Pollmann
- first_name: Björn
full_name: Trauzettel, Björn
last_name: Trauzettel
citation:
ama: Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. Noninteracting
central site model localization and logarithmic entanglement growth. Physical
Review B. 2017;96(10). doi:10.1103/PhysRevB.96.104203
apa: Hetterich, D., Serbyn, M., Domínguez, F., Pollmann, F., & Trauzettel, B.
(2017). Noninteracting central site model localization and logarithmic entanglement
growth. Physical Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.96.104203
chicago: Hetterich, Daniel, Maksym Serbyn, Fernando Domínguez, Frank Pollmann, and
Björn Trauzettel. “Noninteracting Central Site Model Localization and Logarithmic
Entanglement Growth.” Physical Review B. American Physical Society, 2017.
https://doi.org/10.1103/PhysRevB.96.104203.
ieee: D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, and B. Trauzettel, “Noninteracting
central site model localization and logarithmic entanglement growth,” Physical
Review B, vol. 96, no. 10. American Physical Society, 2017.
ista: Hetterich D, Serbyn M, Domínguez F, Pollmann F, Trauzettel B. 2017. Noninteracting
central site model localization and logarithmic entanglement growth. Physical
Review B. 96(10), 104203.
mla: Hetterich, Daniel, et al. “Noninteracting Central Site Model Localization and
Logarithmic Entanglement Growth.” Physical Review B, vol. 96, no. 10, 104203,
American Physical Society, 2017, doi:10.1103/PhysRevB.96.104203.
short: D. Hetterich, M. Serbyn, F. Domínguez, F. Pollmann, B. Trauzettel, Physical
Review B 96 (2017).
date_created: 2018-12-11T11:48:09Z
date_published: 2017-09-13T00:00:00Z
date_updated: 2021-01-12T08:12:35Z
day: '13'
department:
- _id: MaSe
doi: 10.1103/PhysRevB.96.104203
intvolume: ' 96'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1701.02744
month: '09'
oa: 1
oa_version: Submitted Version
publication: Physical Review B
publication_identifier:
issn:
- '24699950'
publication_status: published
publisher: American Physical Society
publist_id: '6955'
quality_controlled: '1'
scopus_import: 1
status: public
title: Noninteracting central site model localization and logarithmic entanglement
growth
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 96
year: '2017'
...
---
_id: '7289'
abstract:
- lang: eng
text: Aprotic sodium–O2 batteries require the reversible formation/dissolution of
sodium superoxide (NaO2) on cycling. Poor cycle life has been associated with
parasitic chemistry caused by the reactivity of electrolyte and electrode with
NaO2, a strong nucleophile and base. Its reactivity can, however, not consistently
explain the side reactions and irreversibility. Herein we show that singlet oxygen
(1O2) forms at all stages of cycling and that it is a main driver for parasitic
chemistry. It was detected in‐ and ex‐situ via a 1O2 trap that selectively and
rapidly forms a stable adduct with 1O2. The 1O2 formation mechanism involves proton‐mediated
superoxide disproportionation on discharge, rest, and charge below ca. 3.3 V,
and direct electrochemical 1O2 evolution above ca. 3.3 V. Trace water, which is
needed for high capacities also drives parasitic chemistry. Controlling the highly
reactive singlet oxygen is thus crucial for achieving highly reversible cell operation.
article_processing_charge: No
article_type: original
author:
- first_name: Lukas
full_name: Schafzahl, Lukas
last_name: Schafzahl
- first_name: Nika
full_name: Mahne, Nika
last_name: Mahne
- first_name: Bettina
full_name: Schafzahl, Bettina
last_name: Schafzahl
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Christian
full_name: Slugovc, Christian
last_name: Slugovc
- first_name: Sergey M.
full_name: Borisov, Sergey M.
last_name: Borisov
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Schafzahl L, Mahne N, Schafzahl B, et al. Singlet oxygen during cycling of
the aprotic sodium-O2 battery. Angewandte Chemie International Edition.
2017;56(49):15728-15732. doi:10.1002/anie.201709351
apa: Schafzahl, L., Mahne, N., Schafzahl, B., Wilkening, M., Slugovc, C., Borisov,
S. M., & Freunberger, S. A. (2017). Singlet oxygen during cycling of the aprotic
sodium-O2 battery. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.201709351
chicago: Schafzahl, Lukas, Nika Mahne, Bettina Schafzahl, Martin Wilkening, Christian
Slugovc, Sergey M. Borisov, and Stefan Alexander Freunberger. “Singlet Oxygen
during Cycling of the Aprotic Sodium-O2 Battery.” Angewandte Chemie International
Edition. Wiley, 2017. https://doi.org/10.1002/anie.201709351.
ieee: L. Schafzahl et al., “Singlet oxygen during cycling of the aprotic
sodium-O2 battery,” Angewandte Chemie International Edition, vol. 56, no.
49. Wiley, pp. 15728–15732, 2017.
ista: Schafzahl L, Mahne N, Schafzahl B, Wilkening M, Slugovc C, Borisov SM, Freunberger
SA. 2017. Singlet oxygen during cycling of the aprotic sodium-O2 battery. Angewandte
Chemie International Edition. 56(49), 15728–15732.
mla: Schafzahl, Lukas, et al. “Singlet Oxygen during Cycling of the Aprotic Sodium-O2
Battery.” Angewandte Chemie International Edition, vol. 56, no. 49, Wiley,
2017, pp. 15728–32, doi:10.1002/anie.201709351.
short: L. Schafzahl, N. Mahne, B. Schafzahl, M. Wilkening, C. Slugovc, S.M. Borisov,
S.A. Freunberger, Angewandte Chemie International Edition 56 (2017) 15728–15732.
date_created: 2020-01-15T12:15:05Z
date_published: 2017-12-04T00:00:00Z
date_updated: 2021-01-12T08:12:47Z
day: '04'
ddc:
- '540'
doi: 10.1002/anie.201709351
extern: '1'
file:
- access_level: open_access
checksum: 3c5b1e51954554dffb13c7d58f69836c
content_type: application/pdf
creator: dernst
date_created: 2020-01-26T14:58:07Z
date_updated: 2020-07-14T12:47:55Z
file_id: '7362'
file_name: 2017_AngChemieInternat_Schafzahl.pdf
file_size: 1013492
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 56'
issue: '49'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '12'
oa: 1
oa_version: Published Version
page: 15728-15732
publication: Angewandte Chemie International Edition
publication_identifier:
issn:
- 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Singlet oxygen during cycling of the aprotic sodium-O2 battery
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 56
year: '2017'
...
---
_id: '7288'
abstract:
- lang: eng
text: Nowadays commercial supercapacitors are based on purely capacitive storage
at the porous carbons that are used for the electrodes. However, the limits that
capacitive storage imposes on energy density calls to investigate new materials
to improve the capacitance of the device. This new type of electrodes (e.g., RuO2,
MnO2…) involves pseudo-capacitive faradaic redox processes with the solid material.
Ion exchange with solid materials is, however, much slower than the adsorption
process in capacitive storage and inevitably leads to significant loss of power.
Faradaic process in the liquid state, in contrast can be similarly fast as capacitive
processes due to the fast ion transport. Designing new devices with liquid like
dynamics and improved specific capacitance is challenging. We present a new approach
to increase the specific capacitance using biredox ionic liquids, where redox
moieties are tethered to the electrolyte ions, allowing high redox concentrations
and significant pseudo-capacitive storage in the liquid state. Anions and cations
are functionalized with anthraquinone (AQ) and 2,2,6,6-tetramethylpiperidinyl-1-oxyl
(TEMPO) moieties, respectively. Glassy carbon, carbon-onion, and commercial activated
carbon electrodes that exhibit different double layer structures and thus different
diffusion dynamics were used to simultaneously study the electrochemical response
of biredox ionic liquids at the positive and negative electrode.
article_processing_charge: No
article_type: original
author:
- first_name: C.
full_name: Bodin, C.
last_name: Bodin
- first_name: E.
full_name: Mourad, E.
last_name: Mourad
- first_name: D.
full_name: Zigah, D.
last_name: Zigah
- first_name: S.
full_name: Le Vot, S.
last_name: Le Vot
- 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: F.
full_name: Favier, F.
last_name: Favier
- first_name: O.
full_name: Fontaine, O.
last_name: Fontaine
citation:
ama: 'Bodin C, Mourad E, Zigah D, et al. Biredox ionic liquids: New opportunities
toward high performance supercapacitors. Faraday Discussions. 2017;206:393-404.
doi:10.1039/c7fd00174f'
apa: 'Bodin, C., Mourad, E., Zigah, D., Le Vot, S., Freunberger, S. A., Favier,
F., & Fontaine, O. (2017). Biredox ionic liquids: New opportunities toward
high performance supercapacitors. Faraday Discussions. Royal Society of
Chemistry. https://doi.org/10.1039/c7fd00174f'
chicago: 'Bodin, C., E. Mourad, D. Zigah, S. Le Vot, Stefan Alexander Freunberger,
F. Favier, and O. Fontaine. “Biredox Ionic Liquids: New Opportunities toward High
Performance Supercapacitors.” Faraday Discussions. Royal Society of Chemistry,
2017. https://doi.org/10.1039/c7fd00174f.'
ieee: 'C. Bodin et al., “Biredox ionic liquids: New opportunities toward
high performance supercapacitors,” Faraday Discussions, vol. 206. Royal
Society of Chemistry, pp. 393–404, 2017.'
ista: 'Bodin C, Mourad E, Zigah D, Le Vot S, Freunberger SA, Favier F, Fontaine
O. 2017. Biredox ionic liquids: New opportunities toward high performance supercapacitors.
Faraday Discussions. 206, 393–404.'
mla: 'Bodin, C., et al. “Biredox Ionic Liquids: New Opportunities toward High Performance
Supercapacitors.” Faraday Discussions, vol. 206, Royal Society of Chemistry,
2017, pp. 393–404, doi:10.1039/c7fd00174f.'
short: C. Bodin, E. Mourad, D. Zigah, S. Le Vot, S.A. Freunberger, F. Favier, O.
Fontaine, Faraday Discussions 206 (2017) 393–404.
date_created: 2020-01-15T12:14:04Z
date_published: 2017-06-29T00:00:00Z
date_updated: 2021-06-10T06:17:17Z
day: '29'
doi: 10.1039/c7fd00174f
extern: '1'
intvolume: ' 206'
language:
- iso: eng
month: '06'
oa_version: None
page: 393-404
publication: Faraday Discussions
publication_identifier:
issn:
- 1359-6640
- 1364-5498
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
status: public
title: 'Biredox ionic liquids: New opportunities toward high performance supercapacitors'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 206
year: '2017'
...
---
_id: '7290'
abstract:
- lang: eng
text: 'We report a family of Pt and Pd benzoporphyrin dyes with versatile photophysical
properties and easy access from cheap and abundant chemicals. Attaching 4 or 8
alkylsulfone groups onto a meso-tetraphenyltetrabenzoporphyrin (TPTBP) macrocylcle
renders the dyes highly soluble in organic solvents, photostable, and electron-deficient
with the redox potential raised up to 0.65 V versus the parent porphyrin. The
new dyes intensively absorb in the blue (Soret band, 440–480 nm) and in the red
(Q-band, 620–650 nm) parts of the electromagnetic spectrum and show bright phosphorescence
at room-temperature in the NIR with quantum yields up to 30% in solution. The
small singlet–triplet energy gap yields unusually efficient thermally activated
delayed fluorescence (TADF) at elevated temperatures in solution and in polymeric
matrices with quantum yields as high as 27% at 120 °C, which is remarkable for
benzoporphyrins. Apart from oxygen sensing, these properties enable unprecedented
simultaneous, self-referenced oxygen and temperature sensing with a single indicator
dye: whereas oxygen can be determined either via the decay time of phosphorescence
or TADF, the temperature is accessed via the ratio of the two emissions. Moreover,
the dyes are efficient sensitizers for triplet–triplet annihilation (TTA)-based
upconversion making possible longer sensitization wavelength than the conventional
benzoporphyrin complexes. The Pt-octa-sulfone dye also features interesting semireversible
transformation in basic media, which generates new NIR absorbing species.'
article_processing_charge: No
article_type: original
author:
- first_name: Peter W.
full_name: Zach, Peter W.
last_name: Zach
- 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: Ingo
full_name: Klimant, Ingo
last_name: Klimant
- first_name: Sergey M.
full_name: Borisov, Sergey M.
last_name: Borisov
citation:
ama: 'Zach PW, Freunberger SA, Klimant I, Borisov SM. Electron-deficient near-infrared
Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and unusually efficient
thermally activated delayed fluorescence: First demonstration of simultaneous
oxygen and temperature sensing with a single emitter. ACS Applied Materials
& Interfaces. 2017;9(43):38008-38023. doi:10.1021/acsami.7b10669'
apa: 'Zach, P. W., Freunberger, S. A., Klimant, I., & Borisov, S. M. (2017).
Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence
and unusually efficient thermally activated delayed fluorescence: First demonstration
of simultaneous oxygen and temperature sensing with a single emitter. ACS Applied
Materials & Interfaces. ACS. https://doi.org/10.1021/acsami.7b10669'
chicago: 'Zach, Peter W., Stefan Alexander Freunberger, Ingo Klimant, and Sergey
M. Borisov. “Electron-Deficient near-Infrared Pt(II) and Pd(II) Benzoporphyrins
with Dual Phosphorescence and Unusually Efficient Thermally Activated Delayed
Fluorescence: First Demonstration of Simultaneous Oxygen and Temperature Sensing
with a Single Emitter.” ACS Applied Materials & Interfaces. ACS, 2017.
https://doi.org/10.1021/acsami.7b10669.'
ieee: 'P. W. Zach, S. A. Freunberger, I. Klimant, and S. M. Borisov, “Electron-deficient
near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and
unusually efficient thermally activated delayed fluorescence: First demonstration
of simultaneous oxygen and temperature sensing with a single emitter,” ACS
Applied Materials & Interfaces, vol. 9, no. 43. ACS, pp. 38008–38023,
2017.'
ista: 'Zach PW, Freunberger SA, Klimant I, Borisov SM. 2017. Electron-deficient
near-infrared Pt(II) and Pd(II) benzoporphyrins with dual phosphorescence and
unusually efficient thermally activated delayed fluorescence: First demonstration
of simultaneous oxygen and temperature sensing with a single emitter. ACS Applied
Materials & Interfaces. 9(43), 38008–38023.'
mla: 'Zach, Peter W., et al. “Electron-Deficient near-Infrared Pt(II) and Pd(II)
Benzoporphyrins with Dual Phosphorescence and Unusually Efficient Thermally Activated
Delayed Fluorescence: First Demonstration of Simultaneous Oxygen and Temperature
Sensing with a Single Emitter.” ACS Applied Materials & Interfaces,
vol. 9, no. 43, ACS, 2017, pp. 38008–23, doi:10.1021/acsami.7b10669.'
short: P.W. Zach, S.A. Freunberger, I. Klimant, S.M. Borisov, ACS Applied Materials
& Interfaces 9 (2017) 38008–38023.
date_created: 2020-01-15T12:15:16Z
date_published: 2017-10-10T00:00:00Z
date_updated: 2021-01-12T08:12:48Z
day: '10'
ddc:
- '540'
- '543'
doi: 10.1021/acsami.7b10669
extern: '1'
file:
- access_level: open_access
checksum: 0461c990eb910f19a70c6e5349ec35ed
content_type: application/pdf
creator: sfreunbe
date_created: 2020-06-29T14:49:32Z
date_updated: 2020-07-14T12:47:55Z
file_id: '8051'
file_name: Paper_Manuscript_submitted.pdf
file_size: 2072792
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '43'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 38008-38023
publication: ACS Applied Materials & Interfaces
publication_identifier:
eissn:
- 1944-8252
issn:
- 1944-8244
publication_status: published
publisher: ACS
quality_controlled: '1'
status: public
title: 'Electron-deficient near-infrared Pt(II) and Pd(II) benzoporphyrins with dual
phosphorescence and unusually efficient thermally activated delayed fluorescence:
First demonstration of simultaneous oxygen and temperature sensing with a single
emitter'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '7292'
abstract:
- lang: eng
text: 'Rechargeable Li–O2 batteries have amongst the highest formal energy and could
store significantly more energy than other rechargeable batteries in practice
if at least a large part of their promise could be realized. Realization, however,
still faces many challenges than can only be overcome by fundamental understanding
of the processes taking place. Here, we review recent advances in understanding
the chemistry of the Li–O2 cathode and provide a perspective on dominant research
needs. We put particular emphasis on issues that are often grossly misunderstood:
realistic performance metrics and their reporting as well as identifying reversibility
and quantitative measures to do so. Parasitic reactions are the prime obstacle
for reversible cell operation and have recently been identified to be predominantly
caused by singlet oxygen and not by reduced oxygen species as thought before.
We discuss the far reaching implications of this finding on electrolyte and cathode
stability, electrocatalysis, and future research needs.'
article_processing_charge: No
article_type: original
author:
- first_name: Nika
full_name: Mahne, Nika
last_name: Mahne
- first_name: Olivier
full_name: Fontaine, Olivier
last_name: Fontaine
- first_name: Musthafa Ottakam
full_name: Thotiyl, Musthafa Ottakam
last_name: Thotiyl
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Mahne N, Fontaine O, Thotiyl MO, Wilkening M, Freunberger SA. Mechanism and
performance of lithium–oxygen batteries – a perspective. Chemical Science.
2017;8(10):6716-6729. doi:10.1039/c7sc02519j
apa: Mahne, N., Fontaine, O., Thotiyl, M. O., Wilkening, M., & Freunberger,
S. A. (2017). Mechanism and performance of lithium–oxygen batteries – a perspective.
Chemical Science. RSC. https://doi.org/10.1039/c7sc02519j
chicago: Mahne, Nika, Olivier Fontaine, Musthafa Ottakam Thotiyl, Martin Wilkening,
and Stefan Alexander Freunberger. “Mechanism and Performance of Lithium–Oxygen
Batteries – a Perspective.” Chemical Science. RSC, 2017. https://doi.org/10.1039/c7sc02519j.
ieee: N. Mahne, O. Fontaine, M. O. Thotiyl, M. Wilkening, and S. A. Freunberger,
“Mechanism and performance of lithium–oxygen batteries – a perspective,” Chemical
Science, vol. 8, no. 10. RSC, pp. 6716–6729, 2017.
ista: Mahne N, Fontaine O, Thotiyl MO, Wilkening M, Freunberger SA. 2017. Mechanism
and performance of lithium–oxygen batteries – a perspective. Chemical Science.
8(10), 6716–6729.
mla: Mahne, Nika, et al. “Mechanism and Performance of Lithium–Oxygen Batteries
– a Perspective.” Chemical Science, vol. 8, no. 10, RSC, 2017, pp. 6716–29,
doi:10.1039/c7sc02519j.
short: N. Mahne, O. Fontaine, M.O. Thotiyl, M. Wilkening, S.A. Freunberger, Chemical
Science 8 (2017) 6716–6729.
date_created: 2020-01-15T12:15:42Z
date_published: 2017-07-31T00:00:00Z
date_updated: 2021-01-12T08:12:49Z
day: '31'
ddc:
- '540'
doi: 10.1039/c7sc02519j
extern: '1'
file:
- access_level: open_access
checksum: 70c7c2ce5430b6e8605ccbf0275f1e80
content_type: application/pdf
creator: dernst
date_created: 2020-01-26T15:04:44Z
date_updated: 2020-07-14T12:47:55Z
file_id: '7363'
file_name: 2017_ChemicalScience_Mahne.pdf
file_size: 992106
relation: main_file
file_date_updated: 2020-07-14T12:47:55Z
has_accepted_license: '1'
intvolume: ' 8'
issue: '10'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 6716-6729
publication: Chemical Science
publication_identifier:
eissn:
- 2041-6539
issn:
- 2041-6520
publication_status: published
publisher: RSC
quality_controlled: '1'
status: public
title: Mechanism and performance of lithium–oxygen batteries – a perspective
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: 8
year: '2017'
...
---
_id: '7291'
abstract:
- lang: eng
text: Na battery chemistries show poor passivation behavior of low voltage Na storage
compounds and Na metal with organic carbonate‐based electrolytes adopted from
Li‐ion batteries. Therefore, a suitable electrolyte remains a major challenge
for establishing Na batteries. Here we report highly concentrated sodium bis(fluorosulfonyl)imide
(NaFSI) in dimethoxyethane (DME) electrolytes and investigate them for Na metal
and hard carbon anodes and intercalation cathodes. For a DME/NaFSI ratio of 2,
a stable passivation of anode materials was found owing to the formation of a
stable solid electrolyte interface, which was characterized spectroscopically.
This permitted non‐dentritic Na metal cycling with approximately 98 % coulombic
efficiency as shown for up to 300 cycles. The NaFSI/DME electrolyte may enable
Na‐metal anodes and allows for more reliable assessment of electrode materials
in Na‐ion half‐cells, as is demonstrated by comparing half‐cell cycling of hard
carbon anodes and Na3V2(PO4)3 cathodes with a widely used carbonate and the NaFSI/DME
electrolyte.
article_processing_charge: No
article_type: original
author:
- first_name: Lukas
full_name: Schafzahl, Lukas
last_name: Schafzahl
- first_name: Ilie
full_name: Hanzu, Ilie
last_name: Hanzu
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Schafzahl L, Hanzu I, Wilkening M, Freunberger SA. An electrolyte for reversible
cycling of sodium metal and intercalation compounds. ChemSusChem. 2017;10(2):401-408.
doi:10.1002/cssc.201601222
apa: Schafzahl, L., Hanzu, I., Wilkening, M., & Freunberger, S. A. (2017). An
electrolyte for reversible cycling of sodium metal and intercalation compounds.
ChemSusChem. Wiley. https://doi.org/10.1002/cssc.201601222
chicago: Schafzahl, Lukas, Ilie Hanzu, Martin Wilkening, and Stefan Alexander Freunberger.
“An Electrolyte for Reversible Cycling of Sodium Metal and Intercalation Compounds.”
ChemSusChem. Wiley, 2017. https://doi.org/10.1002/cssc.201601222.
ieee: L. Schafzahl, I. Hanzu, M. Wilkening, and S. A. Freunberger, “An electrolyte
for reversible cycling of sodium metal and intercalation compounds,” ChemSusChem,
vol. 10, no. 2. Wiley, pp. 401–408, 2017.
ista: Schafzahl L, Hanzu I, Wilkening M, Freunberger SA. 2017. An electrolyte for
reversible cycling of sodium metal and intercalation compounds. ChemSusChem. 10(2),
401–408.
mla: Schafzahl, Lukas, et al. “An Electrolyte for Reversible Cycling of Sodium Metal
and Intercalation Compounds.” ChemSusChem, vol. 10, no. 2, Wiley, 2017,
pp. 401–08, doi:10.1002/cssc.201601222.
short: L. Schafzahl, I. Hanzu, M. Wilkening, S.A. Freunberger, ChemSusChem 10 (2017)
401–408.
date_created: 2020-01-15T12:15:29Z
date_published: 2017-01-20T00:00:00Z
date_updated: 2021-01-12T08:12:48Z
day: '20'
doi: 10.1002/cssc.201601222
extern: '1'
intvolume: ' 10'
issue: '2'
language:
- iso: eng
month: '01'
oa_version: None
page: 401-408
publication: ChemSusChem
publication_identifier:
issn:
- 1864-5631
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: An electrolyte for reversible cycling of sodium metal and intercalation compounds
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10
year: '2017'
...
---
_id: '731'
abstract:
- lang: eng
text: Genetic variations in the oxytocin receptor gene affect patients with ASD
and ADHD differently.
article_number: eaap8168
author:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Novarino G. The science of love in ASD and ADHD. Science Translational Medicine.
2017;9(411). doi:10.1126/scitranslmed.aap8168
apa: Novarino, G. (2017). The science of love in ASD and ADHD. Science Translational
Medicine. American Association for the Advancement of Science. https://doi.org/10.1126/scitranslmed.aap8168
chicago: Novarino, Gaia. “The Science of Love in ASD and ADHD.” Science Translational
Medicine. American Association for the Advancement of Science, 2017. https://doi.org/10.1126/scitranslmed.aap8168.
ieee: G. Novarino, “The science of love in ASD and ADHD,” Science Translational
Medicine, vol. 9, no. 411. American Association for the Advancement of Science,
2017.
ista: Novarino G. 2017. The science of love in ASD and ADHD. Science Translational
Medicine. 9(411), eaap8168.
mla: Novarino, Gaia. “The Science of Love in ASD and ADHD.” Science Translational
Medicine, vol. 9, no. 411, eaap8168, American Association for the Advancement
of Science, 2017, doi:10.1126/scitranslmed.aap8168.
short: G. Novarino, Science Translational Medicine 9 (2017).
date_created: 2018-12-11T11:48:12Z
date_published: 2017-10-11T00:00:00Z
date_updated: 2021-01-12T08:12:57Z
day: '11'
department:
- _id: GaNo
doi: 10.1126/scitranslmed.aap8168
intvolume: ' 9'
issue: '411'
language:
- iso: eng
month: '10'
oa_version: None
publication: Science Translational Medicine
publication_identifier:
issn:
- '19466234'
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '6938'
quality_controlled: '1'
scopus_import: 1
status: public
title: The science of love in ASD and ADHD
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2017'
...
---
_id: '7360'
abstract:
- lang: eng
text: Inflammation, which is a highly regulated host response against danger signals,
may be harmful if it is excessive and deregulated. Ideally, anti-inflammatory
therapy should autonomously commence as soon as possible after the onset of inflammation,
should be controllable by a physician, and should not systemically block beneficial
immune response in the long term. We describe a genetically encoded anti-inflammatory
mammalian cell device based on a modular engineered genetic circuit comprising
a sensor, an amplifier, a “thresholder” to restrict activation of a positive-feedback
loop, a combination of advanced clinically used biopharmaceutical proteins, and
orthogonal regulatory elements that linked modules into the functional device.
This genetic circuit was autonomously activated by inflammatory signals, including
endogenous cecal ligation and puncture (CLP)-induced inflammation in mice and
serum from a systemic juvenile idiopathic arthritis (sIJA) patient, and could
be reset externally by a chemical signal. The microencapsulated anti-inflammatory
device significantly reduced the pathology in dextran sodium sulfate (DSS)-induced
acute murine colitis, demonstrating a synthetic immunological approach for autonomous
anti-inflammatory therapy.
article_processing_charge: No
article_type: original
author:
- first_name: Anže
full_name: Smole, Anže
last_name: Smole
- first_name: Duško
full_name: Lainšček, Duško
last_name: Lainšček
- first_name: Urban
full_name: Bezeljak, Urban
id: 2A58201A-F248-11E8-B48F-1D18A9856A87
last_name: Bezeljak
orcid: 0000-0003-1365-5631
- first_name: Simon
full_name: Horvat, Simon
last_name: Horvat
- first_name: Roman
full_name: Jerala, Roman
last_name: Jerala
citation:
ama: Smole A, Lainšček D, Bezeljak U, Horvat S, Jerala R. A synthetic mammalian
therapeutic gene circuit for sensing and suppressing inflammation. Molecular
Therapy. 2017;25(1):102-119. doi:10.1016/j.ymthe.2016.10.005
apa: Smole, A., Lainšček, D., Bezeljak, U., Horvat, S., & Jerala, R. (2017).
A synthetic mammalian therapeutic gene circuit for sensing and suppressing inflammation.
Molecular Therapy. Elsevier. https://doi.org/10.1016/j.ymthe.2016.10.005
chicago: Smole, Anže, Duško Lainšček, Urban Bezeljak, Simon Horvat, and Roman Jerala.
“A Synthetic Mammalian Therapeutic Gene Circuit for Sensing and Suppressing Inflammation.”
Molecular Therapy. Elsevier, 2017. https://doi.org/10.1016/j.ymthe.2016.10.005.
ieee: A. Smole, D. Lainšček, U. Bezeljak, S. Horvat, and R. Jerala, “A synthetic
mammalian therapeutic gene circuit for sensing and suppressing inflammation,”
Molecular Therapy, vol. 25, no. 1. Elsevier, pp. 102–119, 2017.
ista: Smole A, Lainšček D, Bezeljak U, Horvat S, Jerala R. 2017. A synthetic mammalian
therapeutic gene circuit for sensing and suppressing inflammation. Molecular Therapy.
25(1), 102–119.
mla: Smole, Anže, et al. “A Synthetic Mammalian Therapeutic Gene Circuit for Sensing
and Suppressing Inflammation.” Molecular Therapy, vol. 25, no. 1, Elsevier,
2017, pp. 102–19, doi:10.1016/j.ymthe.2016.10.005.
short: A. Smole, D. Lainšček, U. Bezeljak, S. Horvat, R. Jerala, Molecular Therapy
25 (2017) 102–119.
date_created: 2020-01-25T15:55:39Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T08:13:14Z
day: '01'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.ymthe.2016.10.005
external_id:
pmid:
- '28129106'
file:
- access_level: open_access
checksum: ea8b1b28606dd1edab7379ba4fa3641f
content_type: application/pdf
creator: dernst
date_created: 2020-03-03T10:55:13Z
date_updated: 2020-07-14T12:47:56Z
file_id: '7561'
file_name: 2017_MolecularTherapy_Smole.pdf
file_size: 3404806
relation: main_file
file_date_updated: 2020-07-14T12:47:56Z
has_accepted_license: '1'
intvolume: ' 25'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 102-119
pmid: 1
publication: Molecular Therapy
publication_identifier:
issn:
- 1525-0016
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: A synthetic mammalian therapeutic gene circuit for sensing and suppressing
inflammation
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2017'
...
---
_id: '748'
abstract:
- lang: eng
text: The essay focuses on individual and collective forms of liminality in John
Marlyn’s Under the Ribs of Death. Set in early twentieth-century Winnipeg, the
1957 immigrant novel explores liminal experiences related to ethnic identity,
male sexuality, social class, urban spaces and turbulent economic times. As the
son of a poor working-class family from Hungary, Sandor Hunyadi makes every effort
to become a true Canadian and a successful businessman, but, no matter how hard
he tries to overcome contemporary ethnic prejudices and economic hardships, his
personal and professional life remains in liminality. In other words, the protagonist
undergoes separation, fails at incorporation, and becomes stuck in transition.
alternative_title:
- Canadiana
author:
- first_name: Bernhard
full_name: Bernhard Wenzl
id: 479E9046-F248-11E8-B48F-1D18A9856A87
last_name: Wenzl
citation:
ama: 'Wenzl B. “...beyond the invisible barrier at Portage and Main”: Liminality
in John Marlyn’s Under the Ribs of Death. In: Brandt S, ed. In-Between - Liminal
Spaces in Canadian Literature and Culture. Peter Lang GmbH; 2017:91-100. doi:10.3726/b11899'
apa: 'Wenzl, B. (2017). “...beyond the invisible barrier at Portage and Main”: Liminality
in John Marlyn’s Under the Ribs of Death. In S. Brandt (Ed.), In-Between -
Liminal Spaces in Canadian Literature and Culture (pp. 91–100). Peter Lang
GmbH. https://doi.org/10.3726/b11899'
chicago: 'Wenzl, Bernhard. “‘...Beyond the Invisible Barrier at Portage and Main’:
Liminality in John Marlyn’s Under the Ribs of Death.” In In-Between - Liminal
Spaces in Canadian Literature and Culture, edited by Stefan Brandt, 91–100.
Peter Lang GmbH, 2017. https://doi.org/10.3726/b11899.'
ieee: 'B. Wenzl, “‘...beyond the invisible barrier at Portage and Main’: Liminality
in John Marlyn’s Under the Ribs of Death,” in In-Between - Liminal Spaces in
Canadian Literature and Culture, S. Brandt, Ed. Peter Lang GmbH, 2017, pp.
91–100.'
ista: 'Wenzl B. 2017.‘...beyond the invisible barrier at Portage and Main’: Liminality
in John Marlyn’s Under the Ribs of Death. In: In-Between - Liminal Spaces in Canadian
Literature and Culture. Canadiana, , 91–100.'
mla: 'Wenzl, Bernhard. “‘...Beyond the Invisible Barrier at Portage and Main’: Liminality
in John Marlyn’s Under the Ribs of Death.” In-Between - Liminal Spaces in Canadian
Literature and Culture, edited by Stefan Brandt, Peter Lang GmbH, 2017, pp.
91–100, doi:10.3726/b11899.'
short: B. Wenzl, in:, S. Brandt (Ed.), In-Between - Liminal Spaces in Canadian Literature
and Culture, Peter Lang GmbH, 2017, pp. 91–100.
date_created: 2018-12-11T11:48:18Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2021-01-12T08:13:49Z
day: '01'
doi: 10.3726/b11899
editor:
- first_name: Stefan
full_name: Brandt, Stefan L.
last_name: Brandt
extern: 1
month: '12'
page: 91 - 100
publication: In-Between - Liminal Spaces in Canadian Literature and Culture
publication_status: published
publisher: Peter Lang GmbH
publist_id: '6909'
quality_controlled: 0
status: public
title: '''...beyond the invisible barrier at Portage and Main'': Liminality in John
Marlyn''s Under the Ribs of Death'
type: book_chapter
year: '2017'
...
---
_id: '750'
abstract:
- lang: eng
text: Modern communication technologies allow first responders to contact thousands
of potential volunteers simultaneously for support during a crisis or disaster
event. However, such volunteer efforts must be well coordinated and monitored,
in order to offer an effective relief to the professionals. In this paper we extend
earlier work on optimally assigning volunteers to selected landmark locations.
In particular, we emphasize the aspect that obtaining good assignments requires
not only advanced computational tools, but also a realistic measure of distance
between volunteers and landmarks. Specifically, we propose the use of the Open
Street Map (OSM) driving distance instead of he previously used flight distance.
We find the OSM driving distance to be better aligned with the interests of volunteers
and first responders. Furthermore, we show that relying on the flying distance
leads to a substantial underestimation of the number of required volunteers, causing
negative side effects in case of an actual crisis situation.
author:
- first_name: Jasmin
full_name: Pielorz, Jasmin
id: 49BC895A-F248-11E8-B48F-1D18A9856A87
last_name: Pielorz
- first_name: Matthias
full_name: Prandtstetter, Matthias
last_name: Prandtstetter
- first_name: Markus
full_name: Straub, Markus
last_name: Straub
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Pielorz J, Prandtstetter M, Straub M, Lampert C. Optimal geospatial volunteer
allocation needs realistic distances. In: 2017 IEEE International Conference
on Big Data. IEEE; 2017:3760-3763. doi:10.1109/BigData.2017.8258375'
apa: 'Pielorz, J., Prandtstetter, M., Straub, M., & Lampert, C. (2017). Optimal
geospatial volunteer allocation needs realistic distances. In 2017 IEEE International
Conference on Big Data (pp. 3760–3763). Boston, MA, United States: IEEE. https://doi.org/10.1109/BigData.2017.8258375'
chicago: Pielorz, Jasmin, Matthias Prandtstetter, Markus Straub, and Christoph Lampert.
“Optimal Geospatial Volunteer Allocation Needs Realistic Distances.” In 2017
IEEE International Conference on Big Data, 3760–63. IEEE, 2017. https://doi.org/10.1109/BigData.2017.8258375.
ieee: J. Pielorz, M. Prandtstetter, M. Straub, and C. Lampert, “Optimal geospatial
volunteer allocation needs realistic distances,” in 2017 IEEE International
Conference on Big Data, Boston, MA, United States, 2017, pp. 3760–3763.
ista: Pielorz J, Prandtstetter M, Straub M, Lampert C. 2017. Optimal geospatial
volunteer allocation needs realistic distances. 2017 IEEE International Conference
on Big Data. Big Data, 3760–3763.
mla: Pielorz, Jasmin, et al. “Optimal Geospatial Volunteer Allocation Needs Realistic
Distances.” 2017 IEEE International Conference on Big Data, IEEE, 2017,
pp. 3760–63, doi:10.1109/BigData.2017.8258375.
short: J. Pielorz, M. Prandtstetter, M. Straub, C. Lampert, in:, 2017 IEEE International
Conference on Big Data, IEEE, 2017, pp. 3760–3763.
conference:
end_date: 2017-12-14
location: Boston, MA, United States
name: Big Data
start_date: 2017-12-11
date_created: 2018-12-11T11:48:18Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2021-01-12T08:13:55Z
day: '01'
department:
- _id: ChLa
doi: 10.1109/BigData.2017.8258375
language:
- iso: eng
month: '12'
oa_version: None
page: 3760 - 3763
publication: 2017 IEEE International Conference on Big Data
publication_identifier:
isbn:
- 978-153862714-3
publication_status: published
publisher: IEEE
publist_id: '6906'
quality_controlled: '1'
scopus_import: 1
status: public
title: Optimal geospatial volunteer allocation needs realistic distances
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '7728'
abstract:
- lang: eng
text: 'Meta-analyses of genome-wide association studies, which dominate genetic
discovery, are based on data from diverse historical time periods and populations.
Genetic scores derived from genome-wide association studies explain only a fraction
of the heritability estimates obtained from whole-genome studies on single populations,
known as the ‘hidden heritability’ puzzle. Using seven sampling populations (n = 35,062),
we test whether hidden heritability is attributed to heterogeneity across sampling
populations and time, showing that estimates are substantially smaller across
populations compared with within populations. We show that the hidden heritability
varies substantially: from zero for height to 20% for body mass index, 37% for
education, 40% for age at first birth and up to 75% for number of children. Simulations
demonstrate that our results are more likely to reflect heterogeneity in phenotypic
measurement or gene–environment interactions than genetic heterogeneity. These
findings have substantial implications for genetic discovery, suggesting that
large homogenous datasets are required for behavioural phenotypes and that gene–environment
interaction may be a central challenge for genetic discovery.'
article_processing_charge: No
article_type: original
author:
- first_name: Felix C.
full_name: Tropf, Felix C.
last_name: Tropf
- first_name: S. Hong
full_name: Lee, S. Hong
last_name: Lee
- first_name: Renske M.
full_name: Verweij, Renske M.
last_name: Verweij
- first_name: Gert
full_name: Stulp, Gert
last_name: Stulp
- first_name: Peter J.
full_name: van der Most, Peter J.
last_name: van der Most
- first_name: Ronald
full_name: de Vlaming, Ronald
last_name: de Vlaming
- first_name: Andrew
full_name: Bakshi, Andrew
last_name: Bakshi
- first_name: Daniel A.
full_name: Briley, Daniel A.
last_name: Briley
- first_name: Charles
full_name: Rahal, Charles
last_name: Rahal
- first_name: Robert
full_name: Hellpap, Robert
last_name: Hellpap
- first_name: Anastasia N.
full_name: Iliadou, Anastasia N.
last_name: Iliadou
- first_name: Tõnu
full_name: Esko, Tõnu
last_name: Esko
- first_name: Andres
full_name: Metspalu, Andres
last_name: Metspalu
- first_name: Sarah E.
full_name: Medland, Sarah E.
last_name: Medland
- first_name: Nicholas G.
full_name: Martin, Nicholas G.
last_name: Martin
- first_name: Nicola
full_name: Barban, Nicola
last_name: Barban
- first_name: Harold
full_name: Snieder, Harold
last_name: Snieder
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Melinda C.
full_name: Mills, Melinda C.
last_name: Mills
citation:
ama: Tropf FC, Lee SH, Verweij RM, et al. Hidden heritability due to heterogeneity
across seven populations. Nature Human Behaviour. 2017;1(10):757-765. doi:10.1038/s41562-017-0195-1
apa: Tropf, F. C., Lee, S. H., Verweij, R. M., Stulp, G., van der Most, P. J., de
Vlaming, R., … Mills, M. C. (2017). Hidden heritability due to heterogeneity across
seven populations. Nature Human Behaviour. Springer Nature. https://doi.org/10.1038/s41562-017-0195-1
chicago: Tropf, Felix C., S. Hong Lee, Renske M. Verweij, Gert Stulp, Peter J. van
der Most, Ronald de Vlaming, Andrew Bakshi, et al. “Hidden Heritability Due to
Heterogeneity across Seven Populations.” Nature Human Behaviour. Springer
Nature, 2017. https://doi.org/10.1038/s41562-017-0195-1.
ieee: F. C. Tropf et al., “Hidden heritability due to heterogeneity across
seven populations,” Nature Human Behaviour, vol. 1, no. 10. Springer Nature,
pp. 757–765, 2017.
ista: Tropf FC, Lee SH, Verweij RM, Stulp G, van der Most PJ, de Vlaming R, Bakshi
A, Briley DA, Rahal C, Hellpap R, Iliadou AN, Esko T, Metspalu A, Medland SE,
Martin NG, Barban N, Snieder H, Robinson MR, Mills MC. 2017. Hidden heritability
due to heterogeneity across seven populations. Nature Human Behaviour. 1(10),
757–765.
mla: Tropf, Felix C., et al. “Hidden Heritability Due to Heterogeneity across Seven
Populations.” Nature Human Behaviour, vol. 1, no. 10, Springer Nature,
2017, pp. 757–65, doi:10.1038/s41562-017-0195-1.
short: F.C. Tropf, S.H. Lee, R.M. Verweij, G. Stulp, P.J. van der Most, R. de Vlaming,
A. Bakshi, D.A. Briley, C. Rahal, R. Hellpap, A.N. Iliadou, T. Esko, A. Metspalu,
S.E. Medland, N.G. Martin, N. Barban, H. Snieder, M.R. Robinson, M.C. Mills, Nature
Human Behaviour 1 (2017) 757–765.
date_created: 2020-04-30T10:47:02Z
date_published: 2017-09-11T00:00:00Z
date_updated: 2021-01-12T08:15:08Z
day: '11'
doi: 10.1038/s41562-017-0195-1
extern: '1'
intvolume: ' 1'
issue: '10'
language:
- iso: eng
month: '09'
oa_version: None
page: 757-765
publication: Nature Human Behaviour
publication_identifier:
issn:
- 2397-3374
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Hidden heritability due to heterogeneity across seven populations
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 1
year: '2017'
...
---
_id: '7727'
abstract:
- lang: eng
text: Genes of the major histocompatibility complex (MHC) have been shown to influence
social signalling and mate preferences in many species, including humans. First
observations suggest that MHC signalling may also affect female fertility. To
test this hypothesis, we exposed 191 female horses (Equus caballus) to either
an MHC-similar or an MHC-dissimilar stimulus male around the time of ovulation
and conception. A within-subject experimental design controlled for non-MHC-linked
male characteristics, and instrumental insemination with semen of other males
(n = 106) controlled for potential confounding effects of semen or embryo characteristics.
We found that females were more likely to become pregnant if exposed to an MHC-dissimilar
than to an MHC-similar male, while overall genetic distance to the stimulus males
(based on microsatellite markers on 20 chromosomes) had no effect. Our results
demonstrate that early pregnancy failures can be due to maternal life-history
decisions (cryptic female choice) influenced by MHC-linked social signalling.
article_number: '20171824'
article_processing_charge: No
article_type: original
author:
- first_name: D.
full_name: Burger, D.
last_name: Burger
- first_name: S.
full_name: Thomas, S.
last_name: Thomas
- first_name: H.
full_name: Aepli, H.
last_name: Aepli
- first_name: M.
full_name: Dreyer, M.
last_name: Dreyer
- first_name: G.
full_name: Fabre, G.
last_name: Fabre
- first_name: E.
full_name: Marti, E.
last_name: Marti
- first_name: H.
full_name: Sieme, H.
last_name: Sieme
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: C.
full_name: Wedekind, C.
last_name: Wedekind
citation:
ama: 'Burger D, Thomas S, Aepli H, et al. Major histocompatibility complex-linked
social signalling affects female fertility. Proceedings of the Royal Society
B: Biological Sciences. 2017;284(1868). doi:10.1098/rspb.2017.1824'
apa: 'Burger, D., Thomas, S., Aepli, H., Dreyer, M., Fabre, G., Marti, E., … Wedekind,
C. (2017). Major histocompatibility complex-linked social signalling affects female
fertility. Proceedings of the Royal Society B: Biological Sciences. The
Royal Society. https://doi.org/10.1098/rspb.2017.1824'
chicago: 'Burger, D., S. Thomas, H. Aepli, M. Dreyer, G. Fabre, E. Marti, H. Sieme,
Matthew Richard Robinson, and C. Wedekind. “Major Histocompatibility Complex-Linked
Social Signalling Affects Female Fertility.” Proceedings of the Royal Society
B: Biological Sciences. The Royal Society, 2017. https://doi.org/10.1098/rspb.2017.1824.'
ieee: 'D. Burger et al., “Major histocompatibility complex-linked social
signalling affects female fertility,” Proceedings of the Royal Society B: Biological
Sciences, vol. 284, no. 1868. The Royal Society, 2017.'
ista: 'Burger D, Thomas S, Aepli H, Dreyer M, Fabre G, Marti E, Sieme H, Robinson
MR, Wedekind C. 2017. Major histocompatibility complex-linked social signalling
affects female fertility. Proceedings of the Royal Society B: Biological Sciences.
284(1868), 20171824.'
mla: 'Burger, D., et al. “Major Histocompatibility Complex-Linked Social Signalling
Affects Female Fertility.” Proceedings of the Royal Society B: Biological Sciences,
vol. 284, no. 1868, 20171824, The Royal Society, 2017, doi:10.1098/rspb.2017.1824.'
short: 'D. Burger, S. Thomas, H. Aepli, M. Dreyer, G. Fabre, E. Marti, H. Sieme,
M.R. Robinson, C. Wedekind, Proceedings of the Royal Society B: Biological Sciences
284 (2017).'
date_created: 2020-04-30T10:46:43Z
date_published: 2017-12-06T00:00:00Z
date_updated: 2021-01-12T08:15:08Z
day: '06'
doi: 10.1098/rspb.2017.1824
extern: '1'
external_id:
pmid:
- '29212724'
intvolume: ' 284'
issue: '1868'
language:
- iso: eng
month: '12'
oa_version: None
pmid: 1
publication: 'Proceedings of the Royal Society B: Biological Sciences'
publication_identifier:
issn:
- 0962-8452
- 1471-2954
publication_status: published
publisher: The Royal Society
quality_controlled: '1'
status: public
title: Major histocompatibility complex-linked social signalling affects female fertility
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 284
year: '2017'
...
---
_id: '7729'
abstract:
- lang: eng
text: Quantifying the effects of inbreeding is critical to characterizing the genetic
architecture of complex traits. This study highlights through theory and simulations
the strengths and shortcomings of three SNP-based inbreeding measures commonly
used to estimate inbreeding depression (ID). We demonstrate that heterogeneity
in linkage disequilibrium (LD) between causal variants and SNPs biases ID estimates,
and we develop an approach to correct this bias using LD and minor allele frequency
stratified inference (LDMS). We quantified ID in 25 traits measured in ∼140,000
participants of the UK Biobank, using LDMS, and confirmed previously published
ID for 4 traits. We find unique evidence of ID for handgrip strength, waist/hip
ratio, and visual and auditory acuity (ID between −2.3 and −5.2 phenotypic SDs
for complete inbreeding; P<0.001). Our results illustrate that a careful choice
of the measure of inbreeding combined with LDMS stratification improves both detection
and quantification of ID using SNP data.
article_processing_charge: No
article_type: original
author:
- first_name: Loic
full_name: Yengo, Loic
last_name: Yengo
- first_name: Zhihong
full_name: Zhu, Zhihong
last_name: Zhu
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Bruce S.
full_name: Weir, Bruce S.
last_name: Weir
- first_name: Jian
full_name: Yang, Jian
last_name: Yang
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
citation:
ama: Yengo L, Zhu Z, Wray NR, et al. Detection and quantification of inbreeding
depression for complex traits from SNP data. Proceedings of the National Academy
of Sciences. 2017;114(32):8602-8607. doi:10.1073/pnas.1621096114
apa: Yengo, L., Zhu, Z., Wray, N. R., Weir, B. S., Yang, J., Robinson, M. R., &
Visscher, P. M. (2017). Detection and quantification of inbreeding depression
for complex traits from SNP data. Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1621096114
chicago: Yengo, Loic, Zhihong Zhu, Naomi R. Wray, Bruce S. Weir, Jian Yang, Matthew
Richard Robinson, and Peter M. Visscher. “Detection and Quantification of Inbreeding
Depression for Complex Traits from SNP Data.” Proceedings of the National Academy
of Sciences. Proceedings of the National Academy of Sciences, 2017. https://doi.org/10.1073/pnas.1621096114.
ieee: L. Yengo et al., “Detection and quantification of inbreeding depression
for complex traits from SNP data,” Proceedings of the National Academy of Sciences,
vol. 114, no. 32. Proceedings of the National Academy of Sciences, pp. 8602–8607,
2017.
ista: Yengo L, Zhu Z, Wray NR, Weir BS, Yang J, Robinson MR, Visscher PM. 2017.
Detection and quantification of inbreeding depression for complex traits from
SNP data. Proceedings of the National Academy of Sciences. 114(32), 8602–8607.
mla: Yengo, Loic, et al. “Detection and Quantification of Inbreeding Depression
for Complex Traits from SNP Data.” Proceedings of the National Academy of Sciences,
vol. 114, no. 32, Proceedings of the National Academy of Sciences, 2017, pp. 8602–07,
doi:10.1073/pnas.1621096114.
short: L. Yengo, Z. Zhu, N.R. Wray, B.S. Weir, J. Yang, M.R. Robinson, P.M. Visscher,
Proceedings of the National Academy of Sciences 114 (2017) 8602–8607.
date_created: 2020-04-30T10:47:19Z
date_published: 2017-08-08T00:00:00Z
date_updated: 2021-01-12T08:15:09Z
day: '08'
doi: 10.1073/pnas.1621096114
extern: '1'
intvolume: ' 114'
issue: '32'
language:
- iso: eng
month: '08'
oa_version: None
page: 8602-8607
publication: Proceedings of the National Academy of Sciences
publication_identifier:
issn:
- 0027-8424
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- relation: other
url: https://doi.org/10.1073/pnas.1718598115
status: public
title: Detection and quantification of inbreeding depression for complex traits from
SNP data
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '7725'
abstract:
- lang: eng
text: Phenotypic plasticity is the ability of an individual genotype to alter aspects
of its phenotype depending on the current environment. It is central to the persistence,
resistance and resilience of populations facing variation in physical or biological
factors. Genetic variation in plasticity is pervasive, which suggests its local
adaptation is plausible. Existing studies on the adaptation of plasticity typically
focus on single traits and a few populations, while theory about interactions
among genes (for example, pleiotropy) suggests that a multi-trait, landscape scale
(for example, multiple populations) perspective is required. We present data from
a landscape scale, replicated, multi-trait experiment using a classic predator–prey
system centred on the water flea Daphnia pulex. We find predator regime-driven
differences in genetic variation of multivariate plasticity. These differences
are associated with strong divergent selection linked to a predation regime. Our
findings are evidence for local adaptation of plasticity, suggesting that responses
of populations to environmental variation depend on the conditions in which they
evolved in the past.
article_processing_charge: No
article_type: original
author:
- first_name: Julia
full_name: Reger, Julia
last_name: Reger
- first_name: Martin I.
full_name: Lind, Martin I.
last_name: Lind
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Andrew P.
full_name: Beckerman, Andrew P.
last_name: Beckerman
citation:
ama: Reger J, Lind MI, Robinson MR, Beckerman AP. Predation drives local adaptation
of phenotypic plasticity. Nature Ecology & Evolution. 2017;2:100-107.
doi:10.1038/s41559-017-0373-6
apa: Reger, J., Lind, M. I., Robinson, M. R., & Beckerman, A. P. (2017). Predation
drives local adaptation of phenotypic plasticity. Nature Ecology & Evolution.
Springer Nature. https://doi.org/10.1038/s41559-017-0373-6
chicago: Reger, Julia, Martin I. Lind, Matthew Richard Robinson, and Andrew P. Beckerman.
“Predation Drives Local Adaptation of Phenotypic Plasticity.” Nature Ecology
& Evolution. Springer Nature, 2017. https://doi.org/10.1038/s41559-017-0373-6.
ieee: J. Reger, M. I. Lind, M. R. Robinson, and A. P. Beckerman, “Predation drives
local adaptation of phenotypic plasticity,” Nature Ecology & Evolution,
vol. 2. Springer Nature, pp. 100–107, 2017.
ista: Reger J, Lind MI, Robinson MR, Beckerman AP. 2017. Predation drives local
adaptation of phenotypic plasticity. Nature Ecology & Evolution. 2, 100–107.
mla: Reger, Julia, et al. “Predation Drives Local Adaptation of Phenotypic Plasticity.”
Nature Ecology & Evolution, vol. 2, Springer Nature, 2017, pp. 100–07,
doi:10.1038/s41559-017-0373-6.
short: J. Reger, M.I. Lind, M.R. Robinson, A.P. Beckerman, Nature Ecology &
Evolution 2 (2017) 100–107.
date_created: 2020-04-30T10:46:02Z
date_published: 2017-11-27T00:00:00Z
date_updated: 2021-01-12T08:15:07Z
day: '27'
doi: 10.1038/s41559-017-0373-6
extern: '1'
intvolume: ' 2'
language:
- iso: eng
month: '11'
oa_version: None
page: 100-107
publication: Nature Ecology & Evolution
publication_identifier:
issn:
- 2397-334X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Predation drives local adaptation of phenotypic plasticity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2017'
...
---
_id: '7733'
abstract:
- lang: eng
text: "Sections\r\nPDFPDF\r\nTools\r\nShare\r\nAbstract\r\nBackground: Gene discovery
has provided remarkable biological insights into amyotrophic lateral sclerosis
(ALS). One challenge for clinical application of genetic testing is critical evaluation
of the significance of reported variants.\r\nMethods: We use whole exome sequencing
(WES) to develop a clinically relevant approach to identify a subset of ALS patients
harboring likely pathogenic mutations. In parallel, we assess if DNA methylation
can be used to screen for pathogenicity of novel variants since a methylation
signature has been shown to associate with the pathogenic C9orf72 expansion, but
has not been explored for other ALS mutations. Australian patients identified
with ALS‐relevant variants were cross‐checked with population databases and case
reports to critically assess whether they were “likely causal,” “uncertain significance,”
or “unlikely causal.”\r\nResults: Published ALS variants were identified in >10%
of patients; however, in only 3% of patients (4/120) could these be confidently
considered pathogenic (in SOD1 and TARDBP). We found no evidence for a differential
DNA methylation signature in these mutation carriers.\r\nConclusions: The use
of WES in a typical ALS clinic demonstrates a critical approach to variant assessment
with the capability to combine cohorts to enhance the largely unknown genetic
basis of ALS."
article_processing_charge: No
article_type: original
author:
- first_name: Fleur C.
full_name: Garton, Fleur C.
last_name: Garton
- first_name: Beben
full_name: Benyamin, Beben
last_name: Benyamin
- first_name: Qiongyi
full_name: Zhao, Qiongyi
last_name: Zhao
- first_name: Zhijun
full_name: Liu, Zhijun
last_name: Liu
- first_name: Jacob
full_name: Gratten, Jacob
last_name: Gratten
- first_name: Anjali K.
full_name: Henders, Anjali K.
last_name: Henders
- first_name: Zong-Hong
full_name: Zhang, Zong-Hong
last_name: Zhang
- first_name: Janette
full_name: Edson, Janette
last_name: Edson
- first_name: Sarah
full_name: Furlong, Sarah
last_name: Furlong
- first_name: Sarah
full_name: Morgan, Sarah
last_name: Morgan
- first_name: Susan
full_name: Heggie, Susan
last_name: Heggie
- first_name: Kathryn
full_name: Thorpe, Kathryn
last_name: Thorpe
- first_name: Casey
full_name: Pfluger, Casey
last_name: Pfluger
- first_name: Karen A.
full_name: Mather, Karen A.
last_name: Mather
- first_name: Perminder S.
full_name: Sachdev, Perminder S.
last_name: Sachdev
- first_name: Allan F.
full_name: McRae, Allan F.
last_name: McRae
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Sonia
full_name: Shah, Sonia
last_name: Shah
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
- first_name: Marie
full_name: Mangelsdorf, Marie
last_name: Mangelsdorf
- first_name: Robert D.
full_name: Henderson, Robert D.
last_name: Henderson
- first_name: Naomi R.
full_name: Wray, Naomi R.
last_name: Wray
- first_name: Pamela A.
full_name: McCombe, Pamela A.
last_name: McCombe
citation:
ama: Garton FC, Benyamin B, Zhao Q, et al. Whole exome sequencing and DNA methylation
analysis in a clinical amyotrophic lateral sclerosis cohort. Molecular Genetics
& Genomic Medicine. 2017;5(4):418-428. doi:10.1002/mgg3.302
apa: Garton, F. C., Benyamin, B., Zhao, Q., Liu, Z., Gratten, J., Henders, A. K.,
… McCombe, P. A. (2017). Whole exome sequencing and DNA methylation analysis in
a clinical amyotrophic lateral sclerosis cohort. Molecular Genetics & Genomic
Medicine. Wiley. https://doi.org/10.1002/mgg3.302
chicago: Garton, Fleur C., Beben Benyamin, Qiongyi Zhao, Zhijun Liu, Jacob Gratten,
Anjali K. Henders, Zong-Hong Zhang, et al. “Whole Exome Sequencing and DNA Methylation
Analysis in a Clinical Amyotrophic Lateral Sclerosis Cohort.” Molecular Genetics
& Genomic Medicine. Wiley, 2017. https://doi.org/10.1002/mgg3.302.
ieee: F. C. Garton et al., “Whole exome sequencing and DNA methylation analysis
in a clinical amyotrophic lateral sclerosis cohort,” Molecular Genetics &
Genomic Medicine, vol. 5, no. 4. Wiley, pp. 418–428, 2017.
ista: Garton FC, Benyamin B, Zhao Q, Liu Z, Gratten J, Henders AK, Zhang Z-H, Edson
J, Furlong S, Morgan S, Heggie S, Thorpe K, Pfluger C, Mather KA, Sachdev PS,
McRae AF, Robinson MR, Shah S, Visscher PM, Mangelsdorf M, Henderson RD, Wray
NR, McCombe PA. 2017. Whole exome sequencing and DNA methylation analysis in a
clinical amyotrophic lateral sclerosis cohort. Molecular Genetics & Genomic
Medicine. 5(4), 418–428.
mla: Garton, Fleur C., et al. “Whole Exome Sequencing and DNA Methylation Analysis
in a Clinical Amyotrophic Lateral Sclerosis Cohort.” Molecular Genetics &
Genomic Medicine, vol. 5, no. 4, Wiley, 2017, pp. 418–28, doi:10.1002/mgg3.302.
short: F.C. Garton, B. Benyamin, Q. Zhao, Z. Liu, J. Gratten, A.K. Henders, Z.-H.
Zhang, J. Edson, S. Furlong, S. Morgan, S. Heggie, K. Thorpe, C. Pfluger, K.A.
Mather, P.S. Sachdev, A.F. McRae, M.R. Robinson, S. Shah, P.M. Visscher, M. Mangelsdorf,
R.D. Henderson, N.R. Wray, P.A. McCombe, Molecular Genetics & Genomic Medicine
5 (2017) 418–428.
date_created: 2020-04-30T10:48:25Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:15:10Z
day: '01'
doi: 10.1002/mgg3.302
extern: '1'
intvolume: ' 5'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/mgg3.302
month: '07'
oa: 1
oa_version: Published Version
page: 418-428
publication: Molecular Genetics & Genomic Medicine
publication_identifier:
issn:
- 2324-9269
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Whole exome sequencing and DNA methylation analysis in a clinical amyotrophic
lateral sclerosis cohort
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2017'
...
---
_id: '7731'
abstract:
- lang: eng
text: 'Genetic association studies in admixed populations are underrepresented in
the genomics literature, with a key concern for researchers being the adequate
control of spurious associations due to population structure. Linear mixed models
(LMMs) are well suited for genome-wide association studies (GWAS) because they
account for both population stratification and cryptic relatedness and achieve
increased statistical power by jointly modeling all genotyped markers. Additionally,
Bayesian LMMs allow for more flexible assumptions about the underlying distribution
of genetic effects, and can concurrently estimate the proportion of phenotypic
variance explained by genetic markers. Using three recently published Bayesian
LMMs, Bayes R, BSLMM, and BOLT-LMM, we investigate an existing data set on eye
(n = 625) and skin (n = 684) color from Cape Verde, an island nation off West
Africa that is home to individuals with a broad range of phenotypic values for
eye and skin color due to the mix of West African and European ancestry. We use
simulations to demonstrate the utility of Bayesian LMMs for mapping loci and studying
the genetic architecture of quantitative traits in admixed populations. The Bayesian
LMMs provide evidence for two new pigmentation loci: one for eye color (AHRR)
and one for skin color (DDB1).'
article_processing_charge: No
article_type: original
author:
- first_name: Luke R.
full_name: Lloyd-Jones, Luke R.
last_name: Lloyd-Jones
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
- first_name: Gerhard
full_name: Moser, Gerhard
last_name: Moser
- first_name: Jian
full_name: Zeng, Jian
last_name: Zeng
- first_name: Sandra
full_name: Beleza, Sandra
last_name: Beleza
- first_name: Gregory S.
full_name: Barsh, Gregory S.
last_name: Barsh
- first_name: Hua
full_name: Tang, Hua
last_name: Tang
- first_name: Peter M.
full_name: Visscher, Peter M.
last_name: Visscher
citation:
ama: Lloyd-Jones LR, Robinson MR, Moser G, et al. Inference on the genetic basis
of eye and skin color in an admixed population via Bayesian linear mixed models.
Genetics. 2017;206(2):1113-1126. doi:10.1534/genetics.116.193383
apa: Lloyd-Jones, L. R., Robinson, M. R., Moser, G., Zeng, J., Beleza, S., Barsh,
G. S., … Visscher, P. M. (2017). Inference on the genetic basis of eye and skin
color in an admixed population via Bayesian linear mixed models. Genetics.
Genetics Society of America. https://doi.org/10.1534/genetics.116.193383
chicago: Lloyd-Jones, Luke R., Matthew Richard Robinson, Gerhard Moser, Jian Zeng,
Sandra Beleza, Gregory S. Barsh, Hua Tang, and Peter M. Visscher. “Inference on
the Genetic Basis of Eye and Skin Color in an Admixed Population via Bayesian
Linear Mixed Models.” Genetics. Genetics Society of America, 2017. https://doi.org/10.1534/genetics.116.193383.
ieee: L. R. Lloyd-Jones et al., “Inference on the genetic basis of eye and
skin color in an admixed population via Bayesian linear mixed models,” Genetics,
vol. 206, no. 2. Genetics Society of America, pp. 1113–1126, 2017.
ista: Lloyd-Jones LR, Robinson MR, Moser G, Zeng J, Beleza S, Barsh GS, Tang H,
Visscher PM. 2017. Inference on the genetic basis of eye and skin color in an
admixed population via Bayesian linear mixed models. Genetics. 206(2), 1113–1126.
mla: Lloyd-Jones, Luke R., et al. “Inference on the Genetic Basis of Eye and Skin
Color in an Admixed Population via Bayesian Linear Mixed Models.” Genetics,
vol. 206, no. 2, Genetics Society of America, 2017, pp. 1113–26, doi:10.1534/genetics.116.193383.
short: L.R. Lloyd-Jones, M.R. Robinson, G. Moser, J. Zeng, S. Beleza, G.S. Barsh,
H. Tang, P.M. Visscher, Genetics 206 (2017) 1113–1126.
date_created: 2020-04-30T10:47:50Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:15:10Z
day: '01'
doi: 10.1534/genetics.116.193383
extern: '1'
intvolume: ' 206'
issue: '2'
language:
- iso: eng
month: '06'
oa_version: None
page: 1113-1126
publication: Genetics
publication_identifier:
issn:
- 0016-6731
- 1943-2631
publication_status: published
publisher: Genetics Society of America
quality_controlled: '1'
status: public
title: Inference on the genetic basis of eye and skin color in an admixed population
via Bayesian linear mixed models
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 206
year: '2017'
...
---
_id: '7755'
abstract:
- lang: eng
text: We give a bird's-eye view of the plastic deformation of crystals aimed at
the statistical physics community, as well as a broad introduction to the statistical
theories of forced rigid systems aimed at the plasticity community. Memory effects
in magnets, spin glasses, charge density waves, and dilute colloidal suspensions
are discussed in relation to the onset of plastic yielding in crystals. Dislocation
avalanches and complex dislocation tangles are discussed via a brief introduction
to the renormalization group and scaling. Analogies to emergent scale invariance
in fracture, jamming, coarsening, and a variety of depinning transitions are explored.
Dislocation dynamics in crystals challenge nonequilibrium statistical physics.
Statistical physics provides both cautionary tales of subtle memory effects in
nonequilibrium systems and systematic tools designed to address complex scale-invariant
behavior on multiple length scales and timescales.
article_processing_charge: No
article_type: original
author:
- first_name: James P.
full_name: Sethna, James P.
last_name: Sethna
- first_name: Matthew K.
full_name: Bierbaum, Matthew K.
last_name: Bierbaum
- first_name: Karin A.
full_name: Dahmen, Karin A.
last_name: Dahmen
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Julia R.
full_name: Greer, Julia R.
last_name: Greer
- first_name: Lorien X.
full_name: Hayden, Lorien X.
last_name: Hayden
- first_name: Jaron P.
full_name: Kent-Dobias, Jaron P.
last_name: Kent-Dobias
- first_name: Edward D.
full_name: Lee, Edward D.
last_name: Lee
- first_name: Danilo B.
full_name: Liarte, Danilo B.
last_name: Liarte
- first_name: Xiaoyue
full_name: Ni, Xiaoyue
last_name: Ni
- first_name: Katherine N.
full_name: Quinn, Katherine N.
last_name: Quinn
- first_name: Archishman
full_name: Raju, Archishman
last_name: Raju
- first_name: D. Zeb
full_name: Rocklin, D. Zeb
last_name: Rocklin
- first_name: Ashivni
full_name: Shekhawat, Ashivni
last_name: Shekhawat
- first_name: Stefano
full_name: Zapperi, Stefano
last_name: Zapperi
citation:
ama: 'Sethna JP, Bierbaum MK, Dahmen KA, et al. Deformation of crystals: Connections
with statistical physics. Annual Review of Materials Research. 2017;47:217-246.
doi:10.1146/annurev-matsci-070115-032036'
apa: 'Sethna, J. P., Bierbaum, M. K., Dahmen, K. A., Goodrich, C. P., Greer, J.
R., Hayden, L. X., … Zapperi, S. (2017). Deformation of crystals: Connections
with statistical physics. Annual Review of Materials Research. Annual Reviews.
https://doi.org/10.1146/annurev-matsci-070115-032036'
chicago: 'Sethna, James P., Matthew K. Bierbaum, Karin A. Dahmen, Carl Peter Goodrich,
Julia R. Greer, Lorien X. Hayden, Jaron P. Kent-Dobias, et al. “Deformation of
Crystals: Connections with Statistical Physics.” Annual Review of Materials
Research. Annual Reviews, 2017. https://doi.org/10.1146/annurev-matsci-070115-032036.'
ieee: 'J. P. Sethna et al., “Deformation of crystals: Connections with statistical
physics,” Annual Review of Materials Research, vol. 47. Annual Reviews,
pp. 217–246, 2017.'
ista: 'Sethna JP, Bierbaum MK, Dahmen KA, Goodrich CP, Greer JR, Hayden LX, Kent-Dobias
JP, Lee ED, Liarte DB, Ni X, Quinn KN, Raju A, Rocklin DZ, Shekhawat A, Zapperi
S. 2017. Deformation of crystals: Connections with statistical physics. Annual
Review of Materials Research. 47, 217–246.'
mla: 'Sethna, James P., et al. “Deformation of Crystals: Connections with Statistical
Physics.” Annual Review of Materials Research, vol. 47, Annual Reviews,
2017, pp. 217–46, doi:10.1146/annurev-matsci-070115-032036.'
short: J.P. Sethna, M.K. Bierbaum, K.A. Dahmen, C.P. Goodrich, J.R. Greer, L.X.
Hayden, J.P. Kent-Dobias, E.D. Lee, D.B. Liarte, X. Ni, K.N. Quinn, A. Raju, D.Z.
Rocklin, A. Shekhawat, S. Zapperi, Annual Review of Materials Research 47 (2017)
217–246.
date_created: 2020-04-30T11:38:24Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:15:18Z
day: '01'
doi: 10.1146/annurev-matsci-070115-032036
extern: '1'
intvolume: ' 47'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1146/annurev-matsci-070115-032036
month: '07'
oa: 1
oa_version: Published Version
page: 217-246
publication: Annual Review of Materials Research
publication_identifier:
issn:
- 1531-7331
- 1545-4118
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
status: public
title: 'Deformation of crystals: Connections with statistical physics'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 47
year: '2017'
...
---
_id: '7757'
abstract:
- lang: eng
text: Recent advances in designing metamaterials have demonstrated that global mechanical
properties of disordered spring networks can be tuned by selectively modifying
only a small subset of bonds. Here, using a computationally efficient approach,
we extend this idea to tune more general properties of networks. With nearly complete
success, we are able to produce a strain between any two target nodes in a network
in response to an applied source strain on any other pair of nodes by removing
only ∼1% of the bonds. We are also able to control multiple pairs of target nodes,
each with a different individual response, from a single source, and to tune multiple
independent source/target responses simultaneously into a network. We have fabricated
physical networks in macroscopic 2D and 3D systems that exhibit these responses.
This work is inspired by the long-range coupled conformational changes that constitute
allosteric function in proteins. The fact that allostery is a common means for
regulation in biological molecules suggests that it is a relatively easy property
to develop through evolution. In analogy, our results show that long-range coupled
mechanical responses are similarly easy to achieve in disordered networks.
article_processing_charge: No
article_type: original
author:
- first_name: Jason W.
full_name: Rocks, Jason W.
last_name: Rocks
- first_name: Nidhi
full_name: Pashine, Nidhi
last_name: Pashine
- first_name: Irmgard
full_name: Bischofberger, Irmgard
last_name: Bischofberger
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Andrea J.
full_name: Liu, Andrea J.
last_name: Liu
- first_name: Sidney R.
full_name: Nagel, Sidney R.
last_name: Nagel
citation:
ama: Rocks JW, Pashine N, Bischofberger I, Goodrich CP, Liu AJ, Nagel SR. Designing
allostery-inspired response in mechanical networks. Proceedings of the National
Academy of Sciences. 2017;114(10):2520-2525. doi:10.1073/pnas.1612139114
apa: Rocks, J. W., Pashine, N., Bischofberger, I., Goodrich, C. P., Liu, A. J.,
& Nagel, S. R. (2017). Designing allostery-inspired response in mechanical
networks. Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences. https://doi.org/10.1073/pnas.1612139114
chicago: Rocks, Jason W., Nidhi Pashine, Irmgard Bischofberger, Carl Peter Goodrich,
Andrea J. Liu, and Sidney R. Nagel. “Designing Allostery-Inspired Response in
Mechanical Networks.” Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences, 2017. https://doi.org/10.1073/pnas.1612139114.
ieee: J. W. Rocks, N. Pashine, I. Bischofberger, C. P. Goodrich, A. J. Liu, and
S. R. Nagel, “Designing allostery-inspired response in mechanical networks,” Proceedings
of the National Academy of Sciences, vol. 114, no. 10. Proceedings of the
National Academy of Sciences, pp. 2520–2525, 2017.
ista: Rocks JW, Pashine N, Bischofberger I, Goodrich CP, Liu AJ, Nagel SR. 2017.
Designing allostery-inspired response in mechanical networks. Proceedings of the
National Academy of Sciences. 114(10), 2520–2525.
mla: Rocks, Jason W., et al. “Designing Allostery-Inspired Response in Mechanical
Networks.” Proceedings of the National Academy of Sciences, vol. 114, no.
10, Proceedings of the National Academy of Sciences, 2017, pp. 2520–25, doi:10.1073/pnas.1612139114.
short: J.W. Rocks, N. Pashine, I. Bischofberger, C.P. Goodrich, A.J. Liu, S.R. Nagel,
Proceedings of the National Academy of Sciences 114 (2017) 2520–2525.
date_created: 2020-04-30T11:38:53Z
date_published: 2017-03-07T00:00:00Z
date_updated: 2021-01-12T08:15:19Z
day: '07'
doi: 10.1073/pnas.1612139114
extern: '1'
intvolume: ' 114'
issue: '10'
language:
- iso: eng
month: '03'
oa_version: None
page: 2520-2525
publication: Proceedings of the National Academy of Sciences
publication_identifier:
issn:
- 0027-8424
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
status: public
title: Designing allostery-inspired response in mechanical networks
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '7758'
abstract:
- lang: eng
text: Controlling motion at the microscopic scale is a fundamental goal in the development
of biologically inspired systems. We show that the motion of active, self-propelled
colloids can be sufficiently controlled for use as a tool to assemble complex
structures such as braids and weaves out of microscopic filaments. Unlike typical
self-assembly paradigms, these structures are held together by geometric constraints
rather than adhesive bonds. The out-of-equilibrium assembly that we propose involves
precisely controlling the 2D motion of active colloids so that their path has
a nontrivial topology. We demonstrate with proof-of-principle Brownian dynamics
simulations that, when the colloids are attached to long semiflexible filaments,
this motion causes the filaments to braid. The ability of the active particles
to provide sufficient force necessary to bend the filaments into a braid depends
on a number of factors, including the self-propulsion mechanism, the properties
of the filament, and the maximum curvature in the braid. Our work demonstrates
that nonequilibrium assembly pathways can be designed using active particles.
article_processing_charge: No
article_type: original
author:
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Michael P.
full_name: Brenner, Michael P.
last_name: Brenner
citation:
ama: Goodrich CP, Brenner MP. Using active colloids as machines to weave and braid
on the micrometer scale. Proceedings of the National Academy of Sciences.
2017;114(2):257-262. doi:10.1073/pnas.1608838114
apa: Goodrich, C. P., & Brenner, M. P. (2017). Using active colloids as machines
to weave and braid on the micrometer scale. Proceedings of the National Academy
of Sciences. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1608838114
chicago: Goodrich, Carl Peter, and Michael P. Brenner. “Using Active Colloids as
Machines to Weave and Braid on the Micrometer Scale.” Proceedings of the National
Academy of Sciences. Proceedings of the National Academy of Sciences, 2017.
https://doi.org/10.1073/pnas.1608838114.
ieee: C. P. Goodrich and M. P. Brenner, “Using active colloids as machines to weave
and braid on the micrometer scale,” Proceedings of the National Academy of
Sciences, vol. 114, no. 2. Proceedings of the National Academy of Sciences,
pp. 257–262, 2017.
ista: Goodrich CP, Brenner MP. 2017. Using active colloids as machines to weave
and braid on the micrometer scale. Proceedings of the National Academy of Sciences.
114(2), 257–262.
mla: Goodrich, Carl Peter, and Michael P. Brenner. “Using Active Colloids as Machines
to Weave and Braid on the Micrometer Scale.” Proceedings of the National Academy
of Sciences, vol. 114, no. 2, Proceedings of the National Academy of Sciences,
2017, pp. 257–62, doi:10.1073/pnas.1608838114.
short: C.P. Goodrich, M.P. Brenner, Proceedings of the National Academy of Sciences
114 (2017) 257–262.
date_created: 2020-04-30T11:39:09Z
date_published: 2017-01-10T00:00:00Z
date_updated: 2021-01-12T08:15:20Z
day: '10'
doi: 10.1073/pnas.1608838114
extern: '1'
intvolume: ' 114'
issue: '2'
language:
- iso: eng
month: '01'
oa_version: None
page: 257-262
publication: Proceedings of the National Academy of Sciences
publication_identifier:
issn:
- 0027-8424
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
status: public
title: Using active colloids as machines to weave and braid on the micrometer scale
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '7756'
abstract:
- lang: eng
text: We study the shear jamming of athermal frictionless soft spheres, and find
that in the thermodynamic limit, a shear-jammed state exists with different elastic
properties from the isotropically-jammed state. For example, shear-jammed states
can have a non-zero residual shear stress in the thermodynamic limit that arises
from long-range stress-stress correlations. As a result, the ratio of the shear
and bulk moduli, which in isotropically-jammed systems vanishes as the jamming
transition is approached from above, instead approaches a constant. Despite these
striking differences, we argue that in a deeper sense, the shear jamming and isotropic
jamming transitions actually have the same symmetry, and that the differences
can be fully understood by rotating the six-dimensional basis of the elastic modulus
tensor.
article_processing_charge: No
article_type: original
author:
- first_name: Marco
full_name: Baity-Jesi, Marco
last_name: Baity-Jesi
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Andrea J.
full_name: Liu, Andrea J.
last_name: Liu
- first_name: Sidney R.
full_name: Nagel, Sidney R.
last_name: Nagel
- first_name: James P.
full_name: Sethna, James P.
last_name: Sethna
citation:
ama: Baity-Jesi M, Goodrich CP, Liu AJ, Nagel SR, Sethna JP. Emergent SO(3) symmetry
of the frictionless shear jamming transition. Journal of Statistical Physics.
2017;167(3-4):735-748. doi:10.1007/s10955-016-1703-9
apa: Baity-Jesi, M., Goodrich, C. P., Liu, A. J., Nagel, S. R., & Sethna, J.
P. (2017). Emergent SO(3) symmetry of the frictionless shear jamming transition.
Journal of Statistical Physics. Springer Nature. https://doi.org/10.1007/s10955-016-1703-9
chicago: Baity-Jesi, Marco, Carl Peter Goodrich, Andrea J. Liu, Sidney R. Nagel,
and James P. Sethna. “Emergent SO(3) Symmetry of the Frictionless Shear Jamming
Transition.” Journal of Statistical Physics. Springer Nature, 2017. https://doi.org/10.1007/s10955-016-1703-9.
ieee: M. Baity-Jesi, C. P. Goodrich, A. J. Liu, S. R. Nagel, and J. P. Sethna, “Emergent
SO(3) symmetry of the frictionless shear jamming transition,” Journal of Statistical
Physics, vol. 167, no. 3–4. Springer Nature, pp. 735–748, 2017.
ista: Baity-Jesi M, Goodrich CP, Liu AJ, Nagel SR, Sethna JP. 2017. Emergent SO(3)
symmetry of the frictionless shear jamming transition. Journal of Statistical
Physics. 167(3–4), 735–748.
mla: Baity-Jesi, Marco, et al. “Emergent SO(3) Symmetry of the Frictionless Shear
Jamming Transition.” Journal of Statistical Physics, vol. 167, no. 3–4,
Springer Nature, 2017, pp. 735–48, doi:10.1007/s10955-016-1703-9.
short: M. Baity-Jesi, C.P. Goodrich, A.J. Liu, S.R. Nagel, J.P. Sethna, Journal
of Statistical Physics 167 (2017) 735–748.
date_created: 2020-04-30T11:38:38Z
date_published: 2017-01-03T00:00:00Z
date_updated: 2021-01-12T08:15:19Z
day: '03'
doi: 10.1007/s10955-016-1703-9
extern: '1'
intvolume: ' 167'
issue: 3-4
language:
- iso: eng
month: '01'
oa_version: None
page: 735-748
publication: Journal of Statistical Physics
publication_identifier:
issn:
- 0022-4715
- 1572-9613
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Emergent SO(3) symmetry of the frictionless shear jamming transition
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 167
year: '2017'
...
---
_id: '788'
abstract:
- lang: eng
text: In contrast to electronic computation, chemical computation is noisy and susceptible
to a variety of sources of error, which has prevented the construction of robust
complex systems. To be effective, chemical algorithms must be designed with an
appropriate error model in mind. Here we consider the model of chemical reaction
networks that preserve molecular count (population protocols), and ask whether
computation can be made robust to a natural model of unintended “leak” reactions.
Our definition of leak is motivated by both the particular spurious behavior seen
when implementing chemical reaction networks with DNA strand displacement cascades,
as well as the unavoidable side reactions in any implementation due to the basic
laws of chemistry. We develop a new “Robust Detection” algorithm for the problem
of fast (logarithmic time) single molecule detection, and prove that it is robust
to this general model of leaks. Besides potential applications in single molecule
detection, the error-correction ideas developed here might enable a new class
of robust-by-design chemical algorithms. Our analysis is based on a non-standard
hybrid argument, combining ideas from discrete analysis of population protocols
with classic Markov chain techniques.
acknowledgement: "D. Alistarh - Supported by an SNF Ambizione Fellowship. A. Kosowski
— Supported by Inria project GANG, ANR project DESCARTES, and\r\nNCN grant 2015/17/B/ST6/01897.
D. Soloveichik — Supported by NSF grants CCF-1618895 and CCF-1652824.\r\n\r\n"
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: Bartłomiej
full_name: Dudek, Bartłomiej
last_name: Dudek
- first_name: Adrian
full_name: Kosowski, Adrian
last_name: Kosowski
- first_name: David
full_name: Soloveichik, David
last_name: Soloveichik
- first_name: Przemysław
full_name: Uznański, Przemysław
last_name: Uznański
citation:
ama: 'Alistarh D-A, Dudek B, Kosowski A, Soloveichik D, Uznański P. Robust detection
in leak-prone population protocols. In: Vol 10467 LNCS. Springer; 2017:155-171.
doi:10.1007/978-3-319-66799-7_11'
apa: Alistarh, D.-A., Dudek, B., Kosowski, A., Soloveichik, D., & Uznański,
P. (2017). Robust detection in leak-prone population protocols (Vol. 10467 LNCS,
pp. 155–171). Presented at the DNA Computing and Molecular Programming, Springer.
https://doi.org/10.1007/978-3-319-66799-7_11
chicago: Alistarh, Dan-Adrian, Bartłomiej Dudek, Adrian Kosowski, David Soloveichik,
and Przemysław Uznański. “Robust Detection in Leak-Prone Population Protocols,”
10467 LNCS:155–71. Springer, 2017. https://doi.org/10.1007/978-3-319-66799-7_11.
ieee: D.-A. Alistarh, B. Dudek, A. Kosowski, D. Soloveichik, and P. Uznański, “Robust
detection in leak-prone population protocols,” presented at the DNA Computing
and Molecular Programming, 2017, vol. 10467 LNCS, pp. 155–171.
ista: Alistarh D-A, Dudek B, Kosowski A, Soloveichik D, Uznański P. 2017. Robust
detection in leak-prone population protocols. DNA Computing and Molecular Programming,
LNCS, vol. 10467 LNCS, 155–171.
mla: Alistarh, Dan-Adrian, et al. Robust Detection in Leak-Prone Population Protocols.
Vol. 10467 LNCS, Springer, 2017, pp. 155–71, doi:10.1007/978-3-319-66799-7_11.
short: D.-A. Alistarh, B. Dudek, A. Kosowski, D. Soloveichik, P. Uznański, in:,
Springer, 2017, pp. 155–171.
conference:
name: DNA Computing and Molecular Programming
date_created: 2018-12-11T11:48:30Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2022-03-18T12:48:02Z
day: '01'
doi: 10.1007/978-3-319-66799-7_11
extern: '1'
external_id:
arxiv:
- '1706.09937'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1706.09937
month: '01'
oa: 1
oa_version: None
page: 155 - 171
publication_status: published
publisher: Springer
publist_id: '6868'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Robust detection in leak-prone population protocols
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10467 LNCS
year: '2017'
...
---
_id: '787'
abstract:
- lang: eng
text: 'Population protocols are a popular model of distributed computing, in which
randomly-interacting agents with little computational power cooperate to jointly
perform computational tasks. Inspired by developments in molecular computation,
and in particular DNA computing, recent algorithmic work has focused on the complexity
of solving simple yet fundamental tasks in the population model, such as leader
election (which requires convergence to a single agent in a special "leader"
state), and majority (in which agents must converge to a decision as to which
of two possible initial states had higher initial count). Known results point
towards an inherent trade-off between the time complexity of such algorithms,
and the space complexity, i.e. size of the memory available to each agent. In
this paper, we explore this trade-off and provide new upper and lower bounds for
majority and leader election. First, we prove a unified lower bound, which relates
the space available per node with the time complexity achievable by a protocol:
for instance, our result implies that any protocol solving either of these tasks
for n agents using O(log log n) states must take (n=polylogn) expected time. This
is the first result to characterize time complexity for protocols which employ
super-constant number of states per node, and proves that fast, poly-logarithmic
running times require protocols to have relatively large space costs. On the positive
side, we give algorithms showing that fast, poly-logarithmic convergence time
can be achieved using O(log2 n) space per node, in the case of both tasks. Overall,
our results highlight a time complexity separation between O(log log n) and (log2
n) state space size for both majority and leader election in population protocols,
and introduce new techniques, which should be applicable more broadly.'
acknowledgement: "Dan Alistarh was supported by a Swiss National Science\r\nFoundation
Ambizione Fellowship. James Aspnes was supported by the National Science Foundation
\ under grants\r\nCCF-1637385 and CCF-1650596. Rati Gelashvili was supported by
\ the National Science Foundation under grants\r\nCCF-1217921, CCF-1301926,
and IIS-1447786, the Department of Energy under grant ER26116/DE-SC0008923, and\r\nOracle
and Intel corporations.\r\nThe authors would like to thank David Doty, David\r\nSoloveichik,
\ and Milan Vojnovic for insightful discussions\r\nand feedback during the development
of this work."
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: David
full_name: Eisenstat, David
last_name: Eisenstat
- first_name: Ronald
full_name: Rivest, Ronald
last_name: Rivest
- first_name: Rati
full_name: Gelashvili, Rati
last_name: Gelashvili
citation:
ama: 'Alistarh D-A, Aspnes J, Eisenstat D, Rivest R, Gelashvili R. Time-space trade-offs
in population protocols. In: SIAM; 2017:2560-2579. doi:doi.org/10.1137/1.9781611974782.169'
apa: 'Alistarh, D.-A., Aspnes, J., Eisenstat, D., Rivest, R., & Gelashvili,
R. (2017). Time-space trade-offs in population protocols (pp. 2560–2579). Presented
at the SODA: Symposium on Discrete Algorithms, SIAM. https://doi.org/doi.org/10.1137/1.9781611974782.169'
chicago: Alistarh, Dan-Adrian, James Aspnes, David Eisenstat, Ronald Rivest, and
Rati Gelashvili. “Time-Space Trade-Offs in Population Protocols,” 2560–79. SIAM,
2017. https://doi.org/doi.org/10.1137/1.9781611974782.169.
ieee: 'D.-A. Alistarh, J. Aspnes, D. Eisenstat, R. Rivest, and R. Gelashvili, “Time-space
trade-offs in population protocols,” presented at the SODA: Symposium on Discrete
Algorithms, 2017, pp. 2560–2579.'
ista: 'Alistarh D-A, Aspnes J, Eisenstat D, Rivest R, Gelashvili R. 2017. Time-space
trade-offs in population protocols. SODA: Symposium on Discrete Algorithms, 2560–2579.'
mla: Alistarh, Dan-Adrian, et al. Time-Space Trade-Offs in Population Protocols.
SIAM, 2017, pp. 2560–79, doi:doi.org/10.1137/1.9781611974782.169.
short: D.-A. Alistarh, J. Aspnes, D. Eisenstat, R. Rivest, R. Gelashvili, in:, SIAM,
2017, pp. 2560–2579.
conference:
name: 'SODA: Symposium on Discrete Algorithms'
date_created: 2018-12-11T11:48:30Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2023-02-23T13:19:13Z
day: '01'
doi: doi.org/10.1137/1.9781611974782.169
extern: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1602.08032
month: '01'
oa: 1
oa_version: None
page: 2560 - 2579
publication_status: published
publisher: SIAM
publist_id: '6869'
status: public
title: Time-space trade-offs in population protocols
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '789'
abstract:
- lang: eng
text: 'The problem of efficient concurrent memory reclamation in unmanaged languages
such as C or C++ is one of the major challenges facing the parallelization of
billions of lines of legacy code. Garbage collectors for C/C++ can be inefficient;
thus, programmers are often forced to use finely-crafted concurrent memory reclamation
techniques. These techniques can provide good performance, but require considerable
programming effort to deploy, and have strict requirements, allowing the programmer
very little room for error. In this work, we present Forkscan, a new conservative
concurrent memory reclamation scheme which is fully automatic and surprisingly
scalable. Forkscan''s semantics place it between automatic garbage collectors
(it requires the programmer to explicitly retire nodes before they can be reclaimed),
and concurrent memory reclamation techniques (as it does not assume that nodes
are completely unlinked from the data structure for correctness). Forkscan''s
implementation exploits these new semantics for efficiency: we leverage parallelism
and optimized implementations of signaling and copy-on-write in modern operating
systems to efficiently obtain and process consistent snapshots of memory that
can be scanned concurrently with the normal program operation. Empirical evaluation
on a range of classical concurrent data structure microbenchmarks shows that Forkscan
can preserve the scalability of the original code, while maintaining an order
of magnitude lower latency than automatic garbage collection, and demonstrating
competitive performance with finely crafted memory reclamation techniques.'
acknowledgement: William Leiserson, Alexander Matveev, and Nir Shavit were supported
by the NSF under grants IIS-1447786 and CCF-1563880, and Dan Alistarh was supported
by a Swiss National Fund Ambizione Fellowship.
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: William
full_name: Leiserson, William
last_name: Leiserson
- first_name: Alexander
full_name: Matveev, Alexander
last_name: Matveev
- first_name: Nir
full_name: Shavit, Nir
last_name: Shavit
citation:
ama: 'Alistarh D-A, Leiserson W, Matveev A, Shavit N. Forkscan: Conservative memory
reclamation for modern operating systems. In: ACM; 2017:483-498. doi:10.1145/3064176.3064214'
apa: 'Alistarh, D.-A., Leiserson, W., Matveev, A., & Shavit, N. (2017). Forkscan:
Conservative memory reclamation for modern operating systems (pp. 483–498). Presented
at the EuroSys: European Conference on Computer Systems, ACM. https://doi.org/10.1145/3064176.3064214'
chicago: 'Alistarh, Dan-Adrian, William Leiserson, Alexander Matveev, and Nir Shavit.
“Forkscan: Conservative Memory Reclamation for Modern Operating Systems,” 483–98.
ACM, 2017. https://doi.org/10.1145/3064176.3064214.'
ieee: 'D.-A. Alistarh, W. Leiserson, A. Matveev, and N. Shavit, “Forkscan: Conservative
memory reclamation for modern operating systems,” presented at the EuroSys: European
Conference on Computer Systems, 2017, pp. 483–498.'
ista: 'Alistarh D-A, Leiserson W, Matveev A, Shavit N. 2017. Forkscan: Conservative
memory reclamation for modern operating systems. EuroSys: European Conference
on Computer Systems, 483–498.'
mla: 'Alistarh, Dan-Adrian, et al. Forkscan: Conservative Memory Reclamation
for Modern Operating Systems. ACM, 2017, pp. 483–98, doi:10.1145/3064176.3064214.'
short: D.-A. Alistarh, W. Leiserson, A. Matveev, N. Shavit, in:, ACM, 2017, pp.
483–498.
conference:
name: 'EuroSys: European Conference on Computer Systems'
date_created: 2018-12-11T11:48:30Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2023-02-23T13:19:44Z
day: '01'
doi: 10.1145/3064176.3064214
extern: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 483 - 498
publication_status: published
publisher: ACM
publist_id: '6867'
status: public
title: 'Forkscan: Conservative memory reclamation for modern operating systems'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '790'
abstract:
- lang: eng
text: Stochastic gradient descent (SGD) is a commonly used algorithm for training
linear machine learning models. Based on vector algebra, it benefits from the
inherent parallelism available in an FPGA. In this paper, we first present a single-precision
floating-point SGD implementation on an FPGA that provides similar performance
as a 10-core CPU. We then adapt the design to make it capable of processing low-precision
data. The low-precision data is obtained from a novel compression scheme - called
stochastic quantization, specifically designed for machine learning applications.
We test both full-precision and low-precision designs on various regression and
classification data sets. We achieve up to an order of magnitude training speedup
when using low-precision data compared to a full-precision SGD on the same FPGA
and a state-of-the-art multi-core solution, while maintaining the quality of training.
We open source the designs presented in this paper.
article_processing_charge: No
author:
- first_name: Kaan
full_name: Kara, Kaan
last_name: Kara
- 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: Gustavo
full_name: Alonso, Gustavo
last_name: Alonso
- first_name: Onur
full_name: Mutlu, Onur
last_name: Mutlu
- first_name: Ce
full_name: Zhang, Ce
last_name: Zhang
citation:
ama: 'Kara K, Alistarh D-A, Alonso G, Mutlu O, Zhang C. FPGA-accelerated dense linear
machine learning: A precision-convergence trade-off. In: IEEE; 2017:160-167. doi:10.1109/FCCM.2017.39'
apa: 'Kara, K., Alistarh, D.-A., Alonso, G., Mutlu, O., & Zhang, C. (2017).
FPGA-accelerated dense linear machine learning: A precision-convergence trade-off
(pp. 160–167). Presented at the FCCM: Field-Programmable Custom Computing Machines,
IEEE. https://doi.org/10.1109/FCCM.2017.39'
chicago: 'Kara, Kaan, Dan-Adrian Alistarh, Gustavo Alonso, Onur Mutlu, and Ce Zhang.
“FPGA-Accelerated Dense Linear Machine Learning: A Precision-Convergence Trade-Off,”
160–67. IEEE, 2017. https://doi.org/10.1109/FCCM.2017.39.'
ieee: 'K. Kara, D.-A. Alistarh, G. Alonso, O. Mutlu, and C. Zhang, “FPGA-accelerated
dense linear machine learning: A precision-convergence trade-off,” presented at
the FCCM: Field-Programmable Custom Computing Machines, 2017, pp. 160–167.'
ista: 'Kara K, Alistarh D-A, Alonso G, Mutlu O, Zhang C. 2017. FPGA-accelerated
dense linear machine learning: A precision-convergence trade-off. FCCM: Field-Programmable
Custom Computing Machines, 160–167.'
mla: 'Kara, Kaan, et al. FPGA-Accelerated Dense Linear Machine Learning: A Precision-Convergence
Trade-Off. IEEE, 2017, pp. 160–67, doi:10.1109/FCCM.2017.39.'
short: K. Kara, D.-A. Alistarh, G. Alonso, O. Mutlu, C. Zhang, in:, IEEE, 2017,
pp. 160–167.
conference:
name: 'FCCM: Field-Programmable Custom Computing Machines'
date_created: 2018-12-11T11:48:31Z
date_published: 2017-06-30T00:00:00Z
date_updated: 2023-02-23T13:19:52Z
day: '30'
doi: 10.1109/FCCM.2017.39
extern: '1'
language:
- iso: eng
month: '06'
oa_version: None
page: 160 - 167
publication_status: published
publisher: IEEE
publist_id: '6865'
status: public
title: 'FPGA-accelerated dense linear machine learning: A precision-convergence trade-off'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '795'
abstract:
- lang: eng
text: 'We introduce a common generalization of the strong Hanani–Tutte theorem and
the weak Hanani–Tutte theorem: if a graph G has a drawing D in the plane where
every pair of independent edges crosses an even number of times, then G has a
planar drawing preserving the rotation of each vertex whose incident edges cross
each other evenly in D. The theorem is implicit in the proof of the strong Hanani–Tutte
theorem by Pelsmajer, Schaefer and Štefankovič. We give a new, somewhat simpler
proof.'
article_number: P3.18
article_processing_charge: No
article_type: original
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
- first_name: Dömötör
full_name: Pálvölgyi, Dömötör
last_name: Pálvölgyi
citation:
ama: Fulek R, Kynčl J, Pálvölgyi D. Unified Hanani Tutte theorem. Electronic
Journal of Combinatorics. 2017;24(3). doi:10.37236/6663
apa: Fulek, R., Kynčl, J., & Pálvölgyi, D. (2017). Unified Hanani Tutte theorem.
Electronic Journal of Combinatorics. International Press. https://doi.org/10.37236/6663
chicago: Fulek, Radoslav, Jan Kynčl, and Dömötör Pálvölgyi. “Unified Hanani Tutte
Theorem.” Electronic Journal of Combinatorics. International Press, 2017.
https://doi.org/10.37236/6663.
ieee: R. Fulek, J. Kynčl, and D. Pálvölgyi, “Unified Hanani Tutte theorem,” Electronic
Journal of Combinatorics, vol. 24, no. 3. International Press, 2017.
ista: Fulek R, Kynčl J, Pálvölgyi D. 2017. Unified Hanani Tutte theorem. Electronic
Journal of Combinatorics. 24(3), P3.18.
mla: Fulek, Radoslav, et al. “Unified Hanani Tutte Theorem.” Electronic Journal
of Combinatorics, vol. 24, no. 3, P3.18, International Press, 2017, doi:10.37236/6663.
short: R. Fulek, J. Kynčl, D. Pálvölgyi, Electronic Journal of Combinatorics 24
(2017).
date_created: 2018-12-11T11:48:32Z
date_published: 2017-07-28T00:00:00Z
date_updated: 2022-03-18T12:58:53Z
day: '28'
ddc:
- '000'
department:
- _id: UlWa
doi: 10.37236/6663
ec_funded: 1
file:
- access_level: open_access
checksum: ef320cff0f062051e858f929be6a3581
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T14:04:08Z
date_updated: 2020-07-14T12:48:06Z
file_id: '5853'
file_name: 2017_ElectrCombi_Fulek.pdf
file_size: 236944
relation: main_file
file_date_updated: 2020-07-14T12:48:06Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '3'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Electronic Journal of Combinatorics
publication_identifier:
issn:
- '10778926'
publication_status: published
publisher: International Press
publist_id: '6859'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Unified Hanani Tutte theorem
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2017'
...
---
_id: '7981'
abstract:
- lang: ger
text: Aprotische Natrium‐O2‐Batterien basieren auf der reversiblen Bildung und Auflösung
von Natriumsuperoxid (NaO2) während des Zellbetriebs. Nebenreaktionen des Elektrolyten
und der Elektrode mit dem stark nukleophilen und basischen NaO2 führen zu mangelhafter
Zyklenstabilität. Seine Reaktivität allein kann die Nebenreaktionen und schlechte
Reversibilität jedoch nicht schlüssig erklären. Hier wird gezeigt, dass Singulett‐Sauerstoff
(1O2) in allen Phasen des Betriebs entsteht und eine Hauptursache für Nebenreaktionen
ist. 1O2 wurde in situ und ex situ mit einem 1O2‐Fänger detektiert, der schnell
und selektiv ein Addukt mit 1O2 bildet. Mechanistisch betrachtet entsteht 1O2
entweder durch protonenunterstützte Disproportionierung von Superoxid während
des Entladens, Lagerns und Ladens unter ca. 3.3 V oder durch direkte elektrochemische
1O2‐Entwicklung über ca. 3.3 V. Spuren von Wasser ermöglichen hohe Kapazitäten,
beschleunigen aber auch Nebenreaktionen. Daher muss das hochreaktive 1O2 unbedingt
kontrolliert werden, um die Zelle reversibel zu betreiben.
article_processing_charge: No
article_type: original
author:
- first_name: Lukas
full_name: Schafzahl, Lukas
last_name: Schafzahl
- first_name: Nika
full_name: Mahne, Nika
last_name: Mahne
- first_name: Bettina
full_name: Schafzahl, Bettina
last_name: Schafzahl
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Christian
full_name: Slugovc, Christian
last_name: Slugovc
- first_name: Sergey M.
full_name: Borisov, Sergey M.
last_name: Borisov
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Schafzahl L, Mahne N, Schafzahl B, et al. Singulett-Sauerstoff in der aprotischen
Natrium-O2-Batterie. Angewandte Chemie. 2017;129(49):15934-15938. doi:10.1002/ange.201709351
apa: Schafzahl, L., Mahne, N., Schafzahl, B., Wilkening, M., Slugovc, C., Borisov,
S. M., & Freunberger, S. A. (2017). Singulett-Sauerstoff in der aprotischen
Natrium-O2-Batterie. Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.201709351
chicago: Schafzahl, Lukas, Nika Mahne, Bettina Schafzahl, Martin Wilkening, Christian
Slugovc, Sergey M. Borisov, and Stefan Alexander Freunberger. “Singulett-Sauerstoff
in Der Aprotischen Natrium-O2-Batterie.” Angewandte Chemie. Wiley, 2017.
https://doi.org/10.1002/ange.201709351.
ieee: L. Schafzahl et al., “Singulett-Sauerstoff in der aprotischen Natrium-O2-Batterie,”
Angewandte Chemie, vol. 129, no. 49. Wiley, pp. 15934–15938, 2017.
ista: Schafzahl L, Mahne N, Schafzahl B, Wilkening M, Slugovc C, Borisov SM, Freunberger
SA. 2017. Singulett-Sauerstoff in der aprotischen Natrium-O2-Batterie. Angewandte
Chemie. 129(49), 15934–15938.
mla: Schafzahl, Lukas, et al. “Singulett-Sauerstoff in Der Aprotischen Natrium-O2-Batterie.”
Angewandte Chemie, vol. 129, no. 49, Wiley, 2017, pp. 15934–38, doi:10.1002/ange.201709351.
short: L. Schafzahl, N. Mahne, B. Schafzahl, M. Wilkening, C. Slugovc, S.M. Borisov,
S.A. Freunberger, Angewandte Chemie 129 (2017) 15934–15938.
date_created: 2020-06-19T08:22:06Z
date_published: 2017-12-04T00:00:00Z
date_updated: 2021-01-12T08:16:20Z
day: '04'
ddc:
- '540'
doi: 10.1002/ange.201709351
extern: '1'
file:
- access_level: open_access
checksum: 38f2c2383bc9573f6770c1dba72d7a9a
content_type: application/pdf
creator: dernst
date_created: 2020-06-19T11:39:09Z
date_updated: 2020-07-14T12:48:06Z
file_id: '7987'
file_name: 2017_AngChemieDT_Schafzahl.pdf
file_size: 988125
relation: main_file
file_date_updated: 2020-07-14T12:48:06Z
has_accepted_license: '1'
intvolume: ' 129'
issue: '49'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 15934-15938
publication: Angewandte Chemie
publication_identifier:
issn:
- 0044-8249
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Singulett-Sauerstoff in der aprotischen Natrium-O2-Batterie
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 129
year: '2017'
...
---
_id: '7980'
abstract:
- lang: eng
text: In this part, the use of polysaccharides, either directly through composite
approaches, or by carbonization will be described. In many cases, materials are
obtained which are competitive in terms of capacitance and cycle lifetime. In
this part, the use of polysaccharides, either directly through composite approaches,
or by carbonization will be described. In many cases, materials are obtained which
are competitive in terms of capacitance and cycle lifetime. The following part
will focus mainly on cellulosic composites with conductive polymers since cellulose
is most abundant and therefore has attracted much more research interest in this
field whereas in the second part also other polysaccharides, such as chitin, xylans,
alginates, pectins, dextrans and caragenaans have been used in carbonization experiments.
alternative_title:
- SpringerBriefs in Molecular Science
article_processing_charge: No
author:
- first_name: Soon
full_name: Yee Liew, Soon
last_name: Yee Liew
- first_name: Wim
full_name: Thielemans, Wim
last_name: Thielemans
- 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: Stefan
full_name: Spirk, Stefan
last_name: Spirk
citation:
ama: 'Yee Liew S, Thielemans W, Freunberger SA, Spirk S. Polysaccharides in supercapacitors.
In: Yee Liew S, Thielemans W, Freunberger SA, Spirk S, eds. Polysaccharide
Based Supercapacitors. Springer Nature; 2017:15-53. doi:10.1007/978-3-319-50754-5_2'
apa: Yee Liew, S., Thielemans, W., Freunberger, S. A., & Spirk, S. (2017). Polysaccharides
in supercapacitors. In S. Yee Liew, W. Thielemans, S. A. Freunberger, & S.
Spirk (Eds.), Polysaccharide Based Supercapacitors (pp. 15–53). Springer
Nature. https://doi.org/10.1007/978-3-319-50754-5_2
chicago: Yee Liew, Soon, Wim Thielemans, Stefan Alexander Freunberger, and Stefan
Spirk. “Polysaccharides in Supercapacitors.” In Polysaccharide Based Supercapacitors,
edited by Soon Yee Liew, Wim Thielemans, Stefan Alexander Freunberger, and Stefan
Spirk, 15–53. Springer Nature, 2017. https://doi.org/10.1007/978-3-319-50754-5_2.
ieee: S. Yee Liew, W. Thielemans, S. A. Freunberger, and S. Spirk, “Polysaccharides
in supercapacitors,” in Polysaccharide Based Supercapacitors, S. Yee Liew,
W. Thielemans, S. A. Freunberger, and S. Spirk, Eds. Springer Nature, 2017, pp.
15–53.
ista: 'Yee Liew S, Thielemans W, Freunberger SA, Spirk S. 2017.Polysaccharides in
supercapacitors. In: Polysaccharide Based Supercapacitors. SpringerBriefs in Molecular
Science, , 15–53.'
mla: Yee Liew, Soon, et al. “Polysaccharides in Supercapacitors.” Polysaccharide
Based Supercapacitors, edited by Soon Yee Liew et al., Springer Nature, 2017,
pp. 15–53, doi:10.1007/978-3-319-50754-5_2.
short: S. Yee Liew, W. Thielemans, S.A. Freunberger, S. Spirk, in:, S. Yee Liew,
W. Thielemans, S.A. Freunberger, S. Spirk (Eds.), Polysaccharide Based Supercapacitors,
Springer Nature, 2017, pp. 15–53.
date_created: 2020-06-19T08:11:08Z
date_published: 2017-03-26T00:00:00Z
date_updated: 2021-01-12T08:16:19Z
day: '26'
ddc:
- '540'
- '541'
doi: 10.1007/978-3-319-50754-5_2
editor:
- first_name: Soon
full_name: Yee Liew, Soon
last_name: Yee Liew
- first_name: Wim
full_name: Thielemans, Wim
last_name: Thielemans
- 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: Stefan
full_name: Spirk, Stefan
last_name: Spirk
extern: '1'
file:
- access_level: open_access
checksum: 4182aeee32c9263a626a7e522f1934f5
content_type: application/pdf
creator: sfreunbe
date_created: 2020-06-29T14:13:44Z
date_updated: 2020-07-14T12:48:06Z
file_id: '8048'
file_name: Final_EPNOE.pdf
file_size: 3339826
relation: main_file
file_date_updated: 2020-07-14T12:48:06Z
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Submitted Version
page: 15-53
publication: Polysaccharide Based Supercapacitors
publication_identifier:
isbn:
- '9783319507538'
- '9783319507545'
issn:
- 2191-5407
- 2191-5415
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Polysaccharides in supercapacitors
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '7982'
abstract:
- lang: eng
text: Beyond-intercalation batteries promise a step-change in energy storage compared
to intercalation-based lithium-ion and sodium-ion batteries. However, only performance
metrics that include all cell components and operation parameters can tell whether
a true advance over intercalation batteries has been achieved.
article_number: '17091'
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
citation:
ama: Freunberger SA. True performance metrics in beyond-intercalation batteries.
Nature Energy. 2017;2(7). doi:10.1038/nenergy.2017.91
apa: Freunberger, S. A. (2017). True performance metrics in beyond-intercalation
batteries. Nature Energy. Springer Nature. https://doi.org/10.1038/nenergy.2017.91
chicago: Freunberger, Stefan Alexander. “True Performance Metrics in Beyond-Intercalation
Batteries.” Nature Energy. Springer Nature, 2017. https://doi.org/10.1038/nenergy.2017.91.
ieee: S. A. Freunberger, “True performance metrics in beyond-intercalation batteries,”
Nature Energy, vol. 2, no. 7. Springer Nature, 2017.
ista: Freunberger SA. 2017. True performance metrics in beyond-intercalation batteries.
Nature Energy. 2(7), 17091.
mla: Freunberger, Stefan Alexander. “True Performance Metrics in Beyond-Intercalation
Batteries.” Nature Energy, vol. 2, no. 7, 17091, Springer Nature, 2017,
doi:10.1038/nenergy.2017.91.
short: S.A. Freunberger, Nature Energy 2 (2017).
date_created: 2020-06-19T08:23:47Z
date_published: 2017-06-05T00:00:00Z
date_updated: 2021-01-12T08:16:20Z
day: '05'
ddc:
- '540'
- '546'
- '541'
doi: 10.1038/nenergy.2017.91
extern: '1'
external_id:
arxiv:
- '2002.00712'
file:
- access_level: open_access
checksum: 2564255b76f5346a32e764dbfd17fa2f
content_type: application/pdf
creator: sfreunbe
date_created: 2020-06-29T13:26:55Z
date_updated: 2020-07-14T12:48:06Z
file_id: '8046'
file_name: NEnergy_Comment_final.pdf
file_size: 817665
relation: main_file
file_date_updated: 2020-07-14T12:48:06Z
has_accepted_license: '1'
intvolume: ' 2'
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2002.00712
month: '06'
oa: 1
oa_version: Submitted Version
publication: Nature Energy
publication_identifier:
issn:
- 2058-7546
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: True performance metrics in beyond-intercalation batteries
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2017'
...
---
_id: '7986'
article_number: '17036 '
article_processing_charge: No
article_type: original
author:
- first_name: Nika
full_name: Mahne, Nika
last_name: Mahne
- first_name: Bettina
full_name: Schafzahl, Bettina
last_name: Schafzahl
- first_name: Christian
full_name: Leypold, Christian
last_name: Leypold
- first_name: Mario
full_name: Leypold, Mario
last_name: Leypold
- first_name: Sandra
full_name: Grumm, Sandra
last_name: Grumm
- first_name: Anita
full_name: Leitgeb, Anita
last_name: Leitgeb
- first_name: Gernot A.
full_name: Strohmeier, Gernot A.
last_name: Strohmeier
- first_name: Martin
full_name: Wilkening, Martin
last_name: Wilkening
- first_name: Olivier
full_name: Fontaine, Olivier
last_name: Fontaine
- first_name: Denis
full_name: Kramer, Denis
last_name: Kramer
- first_name: Christian
full_name: Slugovc, Christian
last_name: Slugovc
- first_name: Sergey M.
full_name: Borisov, Sergey M.
last_name: Borisov
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Mahne N, Schafzahl B, Leypold C, et al. Singlet oxygen generation as a major
cause for parasitic reactions during cycling of aprotic lithium–oxygen batteries.
Nature Energy. 2017;2(5). doi:10.1038/nenergy.2017.36
apa: Mahne, N., Schafzahl, B., Leypold, C., Leypold, M., Grumm, S., Leitgeb, A.,
… Freunberger, S. A. (2017). Singlet oxygen generation as a major cause for parasitic
reactions during cycling of aprotic lithium–oxygen batteries. Nature Energy.
Springer Nature. https://doi.org/10.1038/nenergy.2017.36
chicago: Mahne, Nika, Bettina Schafzahl, Christian Leypold, Mario Leypold, Sandra
Grumm, Anita Leitgeb, Gernot A. Strohmeier, et al. “Singlet Oxygen Generation
as a Major Cause for Parasitic Reactions during Cycling of Aprotic Lithium–Oxygen
Batteries.” Nature Energy. Springer Nature, 2017. https://doi.org/10.1038/nenergy.2017.36.
ieee: N. Mahne et al., “Singlet oxygen generation as a major cause for parasitic
reactions during cycling of aprotic lithium–oxygen batteries,” Nature Energy,
vol. 2, no. 5. Springer Nature, 2017.
ista: Mahne N, Schafzahl B, Leypold C, Leypold M, Grumm S, Leitgeb A, Strohmeier
GA, Wilkening M, Fontaine O, Kramer D, Slugovc C, Borisov SM, Freunberger SA.
2017. Singlet oxygen generation as a major cause for parasitic reactions during
cycling of aprotic lithium–oxygen batteries. Nature Energy. 2(5), 17036.
mla: Mahne, Nika, et al. “Singlet Oxygen Generation as a Major Cause for Parasitic
Reactions during Cycling of Aprotic Lithium–Oxygen Batteries.” Nature Energy,
vol. 2, no. 5, 17036, Springer Nature, 2017, doi:10.1038/nenergy.2017.36.
short: N. Mahne, B. Schafzahl, C. Leypold, M. Leypold, S. Grumm, A. Leitgeb, G.A.
Strohmeier, M. Wilkening, O. Fontaine, D. Kramer, C. Slugovc, S.M. Borisov, S.A.
Freunberger, Nature Energy 2 (2017).
date_created: 2020-06-19T10:42:33Z
date_published: 2017-03-20T00:00:00Z
date_updated: 2021-01-12T08:16:21Z
day: '20'
doi: 10.1038/nenergy.2017.36
extern: '1'
external_id:
arxiv:
- '1711.10340'
intvolume: ' 2'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1711.10340
month: '03'
oa: 1
oa_version: Preprint
publication: Nature Energy
publication_identifier:
issn:
- 2058-7546
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Singlet oxygen generation as a major cause for parasitic reactions during cycling
of aprotic lithium–oxygen batteries
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2017'
...
---
_id: '797'
abstract:
- lang: ger
text: Phasenübergänge helfen beim Verständnis von Vielteilchensystemen in der Festkörperphysik
und Fluiddynamik bis hin zur Teilchenphysik. Unserer internationalen Kollaboration
ist es gelungen, einen neuartigen Phasenübergang in einem Quantensystem zu beobachten
[1]. In einem Mikrowellenresonator konnte erstmals die spontane Zustandsänderung
von undurchsichtig zu transparent nachgewiesen werden.
article_processing_charge: No
article_type: original
author:
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
citation:
ama: Fink JM. Photonenblockade aufgelöst. Physik in unserer Zeit. 2017;48(3):111-113.
doi:10.1002/piuz.201770305
apa: Fink, J. M. (2017). Photonenblockade aufgelöst. Physik in Unserer Zeit.
Wiley. https://doi.org/10.1002/piuz.201770305
chicago: Fink, Johannes M. “Photonenblockade Aufgelöst.” Physik in Unserer Zeit.
Wiley, 2017. https://doi.org/10.1002/piuz.201770305.
ieee: J. M. Fink, “Photonenblockade aufgelöst,” Physik in unserer Zeit, vol.
48, no. 3. Wiley, pp. 111–113, 2017.
ista: Fink JM. 2017. Photonenblockade aufgelöst. Physik in unserer Zeit. 48(3),
111–113.
mla: Fink, Johannes M. “Photonenblockade Aufgelöst.” Physik in Unserer Zeit,
vol. 48, no. 3, Wiley, 2017, pp. 111–13, doi:10.1002/piuz.201770305.
short: J.M. Fink, Physik in Unserer Zeit 48 (2017) 111–113.
date_created: 2018-12-11T11:48:33Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2022-03-24T09:16:20Z
day: '01'
department:
- _id: JoFi
doi: 10.1002/piuz.201770305
intvolume: ' 48'
issue: '3'
language:
- iso: eng
month: '05'
oa_version: None
page: 111 - 113
publication: Physik in unserer Zeit
publication_status: published
publisher: Wiley
publist_id: '6856'
quality_controlled: '1'
status: public
title: Photonenblockade aufgelöst
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 48
year: '2017'
...
---
_id: '8016'
abstract:
- lang: eng
text: Long-term modifications of neuronal connections are critical for reliable
memory storage in the brain. However, their locus of expression—pre- or postsynaptic—is
highly variable. Here we introduce a theoretical framework in which long-term
plasticity performs an optimization of the postsynaptic response statistics toward
a given mean with minimal variance. Consequently, the state of the synapse at
the time of plasticity induction determines the ratio of pre- and postsynaptic
modifications. Our theory explains the experimentally observed expression loci
of the hippocampal and neocortical synaptic potentiation studies we examined.
Moreover, the theory predicts presynaptic expression of long-term depression,
consistent with experimental observations. At inhibitory synapses, the theory
suggests a statistically efficient excitatory-inhibitory balance in which changes
in inhibitory postsynaptic response statistics specifically target the mean excitation.
Our results provide a unifying theory for understanding the expression mechanisms
and functions of long-term synaptic transmission plasticity.
article_processing_charge: No
article_type: original
author:
- first_name: Rui Ponte
full_name: Costa, Rui Ponte
last_name: Costa
- first_name: Zahid
full_name: Padamsey, Zahid
last_name: Padamsey
- first_name: James A.
full_name: D’Amour, James A.
last_name: D’Amour
- first_name: Nigel J.
full_name: Emptage, Nigel J.
last_name: Emptage
- first_name: Robert C.
full_name: Froemke, Robert C.
last_name: Froemke
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: Costa RP, Padamsey Z, D’Amour JA, Emptage NJ, Froemke RC, Vogels TP. Synaptic
transmission optimization predicts expression loci of long-term plasticity. Neuron.
2017;96(1):177-189.e7. doi:10.1016/j.neuron.2017.09.021
apa: Costa, R. P., Padamsey, Z., D’Amour, J. A., Emptage, N. J., Froemke, R. C.,
& Vogels, T. P. (2017). Synaptic transmission optimization predicts expression
loci of long-term plasticity. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2017.09.021
chicago: Costa, Rui Ponte, Zahid Padamsey, James A. D’Amour, Nigel J. Emptage, Robert
C. Froemke, and Tim P Vogels. “Synaptic Transmission Optimization Predicts Expression
Loci of Long-Term Plasticity.” Neuron. Elsevier, 2017. https://doi.org/10.1016/j.neuron.2017.09.021.
ieee: R. P. Costa, Z. Padamsey, J. A. D’Amour, N. J. Emptage, R. C. Froemke, and
T. P. Vogels, “Synaptic transmission optimization predicts expression loci of
long-term plasticity,” Neuron, vol. 96, no. 1. Elsevier, p. 177–189.e7,
2017.
ista: Costa RP, Padamsey Z, D’Amour JA, Emptage NJ, Froemke RC, Vogels TP. 2017.
Synaptic transmission optimization predicts expression loci of long-term plasticity.
Neuron. 96(1), 177–189.e7.
mla: Costa, Rui Ponte, et al. “Synaptic Transmission Optimization Predicts Expression
Loci of Long-Term Plasticity.” Neuron, vol. 96, no. 1, Elsevier, 2017,
p. 177–189.e7, doi:10.1016/j.neuron.2017.09.021.
short: R.P. Costa, Z. Padamsey, J.A. D’Amour, N.J. Emptage, R.C. Froemke, T.P. Vogels,
Neuron 96 (2017) 177–189.e7.
date_created: 2020-06-25T12:54:46Z
date_published: 2017-09-27T00:00:00Z
date_updated: 2021-01-12T08:16:32Z
day: '27'
ddc:
- '570'
doi: 10.1016/j.neuron.2017.09.021
extern: '1'
external_id:
pmid:
- '28957667'
file:
- access_level: open_access
checksum: 49fbca2821066c0965bd5678b32b6b48
content_type: application/pdf
creator: cziletti
date_created: 2020-07-09T09:42:49Z
date_updated: 2020-07-14T12:48:08Z
file_id: '8103'
file_name: 2017_Neuron_Costa.pdf
file_size: 7140149
relation: main_file
file_date_updated: 2020-07-14T12:48:08Z
has_accepted_license: '1'
intvolume: ' 96'
issue: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 177-189.e7
pmid: 1
publication: Neuron
publication_identifier:
issn:
- 0896-6273
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Synaptic transmission optimization predicts expression loci of long-term plasticity
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 96
year: '2017'
...
---
_id: '8018'
abstract:
- lang: eng
text: 'Nervous systems use excitatory cell assemblies to encode and represent sensory
percepts. Similarly, synaptically connected cell assemblies or "engrams" are thought
to represent memories of past experience. Multiple lines of recent evidence indicate
that brain systems create and use inhibitory replicas of excitatory representations
for important cognitive functions. Such matched "inhibitory engrams" can form
through homeostatic potentiation of inhibition onto postsynaptic cells that show
increased levels of excitation. Inhibitory engrams can reduce behavioral responses
to familiar stimuli, thereby resulting in behavioral habituation. In addition,
by preventing inappropriate activation of excitatory memory engrams, inhibitory
engrams can make memories quiescent, stored in a latent form that is available
for context-relevant activation. In neural networks with balanced excitatory and
inhibitory engrams, the release of innate responses and recall of associative
memories can occur through focused disinhibition. Understanding mechanisms that
regulate the formation and expression of inhibitory engrams in vivo may help not
only to explain key features of cognition but also to provide insight into transdiagnostic
traits associated with psychiatric conditions such as autism, schizophrenia, and
posttraumatic stress disorder. '
article_processing_charge: No
article_type: original
author:
- first_name: Helen C.
full_name: Barron, Helen C.
last_name: Barron
- 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: Timothy E.
full_name: Behrens, Timothy E.
last_name: Behrens
- first_name: Mani
full_name: Ramaswami, Mani
last_name: Ramaswami
citation:
ama: Barron HC, Vogels TP, Behrens TE, Ramaswami M. Inhibitory engrams in perception
and memory. Proceedings of the National Academy of Sciences. 2017;114(26):6666-6674.
doi:10.1073/pnas.1701812114
apa: Barron, H. C., Vogels, T. P., Behrens, T. E., & Ramaswami, M. (2017). Inhibitory
engrams in perception and memory. Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1701812114
chicago: Barron, Helen C., Tim P Vogels, Timothy E. Behrens, and Mani Ramaswami.
“Inhibitory Engrams in Perception and Memory.” Proceedings of the National
Academy of Sciences. Proceedings of the National Academy of Sciences, 2017.
https://doi.org/10.1073/pnas.1701812114.
ieee: H. C. Barron, T. P. Vogels, T. E. Behrens, and M. Ramaswami, “Inhibitory engrams
in perception and memory,” Proceedings of the National Academy of Sciences,
vol. 114, no. 26. Proceedings of the National Academy of Sciences, pp. 6666–6674,
2017.
ista: Barron HC, Vogels TP, Behrens TE, Ramaswami M. 2017. Inhibitory engrams in
perception and memory. Proceedings of the National Academy of Sciences. 114(26),
6666–6674.
mla: Barron, Helen C., et al. “Inhibitory Engrams in Perception and Memory.” Proceedings
of the National Academy of Sciences, vol. 114, no. 26, Proceedings of the
National Academy of Sciences, 2017, pp. 6666–74, doi:10.1073/pnas.1701812114.
short: H.C. Barron, T.P. Vogels, T.E. Behrens, M. Ramaswami, Proceedings of the
National Academy of Sciences 114 (2017) 6666–6674.
date_created: 2020-06-25T12:56:58Z
date_published: 2017-06-27T00:00:00Z
date_updated: 2021-01-12T08:16:33Z
day: '27'
doi: 10.1073/pnas.1701812114
extern: '1'
external_id:
pmid:
- '28611219'
intvolume: ' 114'
issue: '26'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5495250/
month: '06'
oa: 1
oa_version: Published Version
page: 6666-6674
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
status: public
title: Inhibitory engrams in perception and memory
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 114
year: '2017'
...
---
_id: '8019'
abstract:
- lang: eng
text: Synaptic plasticity is essential for the function of neural systems. It sets
up initial circuitry and adjusts connection strengths according to the maintenance
requirements of its host networks. Like all things biological, synaptic plasticity
must rely on genetic programs to provide the molecular components of its machinery
to integrate ongoing, often multi-sensory experience without destabilising effects.
Because of its fundamental importance to healthy behaviour, understanding plasticity
is thought to hold the key to understanding the brain. There are innumerable ways
to approach this topic and a complete review of its status quo would be impossible.
In the current issue we dig into some of the finer points of synaptic plasticity,
starting small, at the level of genes, and slowly zooming out to synapses, populations
of synapses, and finally entire systems and brain regions. At each level, we tried
to represent different perspectives, different systems, and approaches to the
same questions to give a broad sampling of how synaptic plasticity is being studied.
article_processing_charge: No
article_type: letter_note
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: Leslie C
full_name: Griffith, Leslie C
last_name: Griffith
citation:
ama: 'Vogels TP, Griffith LC. Editorial overview: Neurobiology of learning and plasticity
2017. Current Opinion in Neurobiology. 2017;43:A1-A5. doi:10.1016/j.conb.2017.04.002'
apa: 'Vogels, T. P., & Griffith, L. C. (2017). Editorial overview: Neurobiology
of learning and plasticity 2017. Current Opinion in Neurobiology. Elsevier.
https://doi.org/10.1016/j.conb.2017.04.002'
chicago: 'Vogels, Tim P, and Leslie C Griffith. “Editorial Overview: Neurobiology
of Learning and Plasticity 2017.” Current Opinion in Neurobiology. Elsevier,
2017. https://doi.org/10.1016/j.conb.2017.04.002.'
ieee: 'T. P. Vogels and L. C. Griffith, “Editorial overview: Neurobiology of learning
and plasticity 2017,” Current Opinion in Neurobiology, vol. 43. Elsevier,
pp. A1–A5, 2017.'
ista: 'Vogels TP, Griffith LC. 2017. Editorial overview: Neurobiology of learning
and plasticity 2017. Current Opinion in Neurobiology. 43, A1–A5.'
mla: 'Vogels, Tim P., and Leslie C. Griffith. “Editorial Overview: Neurobiology
of Learning and Plasticity 2017.” Current Opinion in Neurobiology, vol.
43, Elsevier, 2017, pp. A1–5, doi:10.1016/j.conb.2017.04.002.'
short: T.P. Vogels, L.C. Griffith, Current Opinion in Neurobiology 43 (2017) A1–A5.
date_created: 2020-06-25T13:03:30Z
date_published: 2017-04-17T00:00:00Z
date_updated: 2021-01-12T08:16:33Z
day: '17'
doi: 10.1016/j.conb.2017.04.002
extern: '1'
external_id:
pmid:
- '28427877'
intvolume: ' 43'
language:
- iso: eng
month: '04'
oa_version: None
page: A1-A5
pmid: 1
publication: Current Opinion in Neurobiology
publication_identifier:
issn:
- 0959-4388
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: 'Editorial overview: Neurobiology of learning and plasticity 2017'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 43
year: '2017'
...
---
_id: '8017'
abstract:
- lang: eng
text: nhibitory neurons, although relatively few in number, exert powerful control
over brain circuits. They stabilize network activity in the face of strong feedback
excitation and actively engage in computations. Recent studies reveal the importance
of a precise balance of excitation and inhibition in neural circuits, which often
requires exquisite fine-tuning of inhibitory connections. We review inhibitory
synaptic plasticity and its roles in shaping both feedforward and feedback control.
We discuss the necessity of complex, codependent plasticity mechanisms to build
nontrivial, functioning networks, and we end by summarizing experimental evidence
of such interactions.
article_processing_charge: No
article_type: original
author:
- first_name: Guillaume
full_name: Hennequin, Guillaume
last_name: Hennequin
- first_name: Everton J.
full_name: Agnes, Everton J.
last_name: Agnes
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: 'Hennequin G, Agnes EJ, Vogels TP. Inhibitory plasticity: Balance, control,
and codependence. Annual Review of Neuroscience. 2017;40(1):557-579. doi:10.1146/annurev-neuro-072116-031005'
apa: 'Hennequin, G., Agnes, E. J., & Vogels, T. P. (2017). Inhibitory plasticity:
Balance, control, and codependence. Annual Review of Neuroscience. Annual
Reviews. https://doi.org/10.1146/annurev-neuro-072116-031005'
chicago: 'Hennequin, Guillaume, Everton J. Agnes, and Tim P Vogels. “Inhibitory
Plasticity: Balance, Control, and Codependence.” Annual Review of Neuroscience.
Annual Reviews, 2017. https://doi.org/10.1146/annurev-neuro-072116-031005.'
ieee: 'G. Hennequin, E. J. Agnes, and T. P. Vogels, “Inhibitory plasticity: Balance,
control, and codependence,” Annual Review of Neuroscience, vol. 40, no.
1. Annual Reviews, pp. 557–579, 2017.'
ista: 'Hennequin G, Agnes EJ, Vogels TP. 2017. Inhibitory plasticity: Balance, control,
and codependence. Annual Review of Neuroscience. 40(1), 557–579.'
mla: 'Hennequin, Guillaume, et al. “Inhibitory Plasticity: Balance, Control, and
Codependence.” Annual Review of Neuroscience, vol. 40, no. 1, Annual Reviews,
2017, pp. 557–79, doi:10.1146/annurev-neuro-072116-031005.'
short: G. Hennequin, E.J. Agnes, T.P. Vogels, Annual Review of Neuroscience 40 (2017)
557–579.
date_created: 2020-06-25T12:55:53Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:16:32Z
day: '01'
doi: 10.1146/annurev-neuro-072116-031005
extern: '1'
external_id:
pmid:
- '28598717'
intvolume: ' 40'
issue: '1'
language:
- iso: eng
month: '07'
oa_version: None
page: 557-579
pmid: 1
publication: Annual Review of Neuroscience
publication_identifier:
issn:
- 0147-006X
- 1545-4126
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
status: public
title: 'Inhibitory plasticity: Balance, control, and codependence'
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 40
year: '2017'
...
---
_id: '8075'
abstract:
- lang: eng
text: Ion channel models are the building blocks of computational neuron models.
Their biological fidelity is therefore crucial for the interpretation of simulations.
However, the number of published models, and the lack of standardization, make
the comparison of ion channel models with one another and with experimental data
difficult. Here, we present a framework for the automated large-scale classification
of ion channel models. Using annotated metadata and responses to a set of voltage-clamp
protocols, we assigned 2378 models of voltage- and calcium-gated ion channels
coded in NEURON to 211 clusters. The IonChannelGenealogy (ICGenealogy) web interface
provides an interactive resource for the categorization of new and existing models
and experimental recordings. It enables quantitative comparisons of simulated
and/or measured ion channel kinetics, and facilitates field-wide standardization
of experimentally-constrained modeling.
article_number: e22152
article_processing_charge: No
article_type: original
author:
- first_name: William F
full_name: Podlaski, William F
last_name: Podlaski
- first_name: Alexander
full_name: Seeholzer, Alexander
last_name: Seeholzer
- first_name: Lukas N
full_name: Groschner, Lukas N
last_name: Groschner
- first_name: Gero
full_name: Miesenböck, Gero
last_name: Miesenböck
- first_name: Rajnish
full_name: Ranjan, Rajnish
last_name: Ranjan
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: Podlaski WF, Seeholzer A, Groschner LN, Miesenböck G, Ranjan R, Vogels TP.
Mapping the function of neuronal ion channels in model and experiment. eLife.
2017;6. doi:10.7554/elife.22152
apa: Podlaski, W. F., Seeholzer, A., Groschner, L. N., Miesenböck, G., Ranjan, R.,
& Vogels, T. P. (2017). Mapping the function of neuronal ion channels in model
and experiment. ELife. eLife Sciences Publications, Ltd. https://doi.org/10.7554/elife.22152
chicago: Podlaski, William F, Alexander Seeholzer, Lukas N Groschner, Gero Miesenböck,
Rajnish Ranjan, and Tim P Vogels. “Mapping the Function of Neuronal Ion Channels
in Model and Experiment.” ELife. eLife Sciences Publications, Ltd, 2017.
https://doi.org/10.7554/elife.22152.
ieee: W. F. Podlaski, A. Seeholzer, L. N. Groschner, G. Miesenböck, R. Ranjan, and
T. P. Vogels, “Mapping the function of neuronal ion channels in model and experiment,”
eLife, vol. 6. eLife Sciences Publications, Ltd, 2017.
ista: Podlaski WF, Seeholzer A, Groschner LN, Miesenböck G, Ranjan R, Vogels TP.
2017. Mapping the function of neuronal ion channels in model and experiment. eLife.
6, e22152.
mla: Podlaski, William F., et al. “Mapping the Function of Neuronal Ion Channels
in Model and Experiment.” ELife, vol. 6, e22152, eLife Sciences Publications,
Ltd, 2017, doi:10.7554/elife.22152.
short: W.F. Podlaski, A. Seeholzer, L.N. Groschner, G. Miesenböck, R. Ranjan, T.P.
Vogels, ELife 6 (2017).
date_created: 2020-06-30T13:32:18Z
date_published: 2017-03-06T00:00:00Z
date_updated: 2021-01-12T08:16:46Z
day: '06'
ddc:
- '570'
doi: 10.7554/elife.22152
extern: '1'
external_id:
pmid:
- '28267430'
file:
- access_level: open_access
checksum: e5c5a33bcb3ac38ad62df1010ab29040
content_type: application/pdf
creator: cziletti
date_created: 2020-07-16T12:08:40Z
date_updated: 2020-07-16T12:08:40Z
file_id: '8124'
file_name: 2017_elife_Podlaski.pdf
file_size: 16034505
relation: main_file
success: 1
file_date_updated: 2020-07-16T12:08:40Z
has_accepted_license: '1'
intvolume: ' 6'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications, Ltd
quality_controlled: '1'
status: public
title: Mapping the function of neuronal ion channels in model and experiment
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: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 6
year: '2017'
...
---
_id: '807'
abstract:
- lang: eng
text: 'On January the 1st, 2016 a new agreement between 32 Austrian scientific libraries
and the publisher Springer took its effect: this deal covers accessing the licensed
content on the one hand, and publishing open access on the other hand. More than
1000 papers by Austrian authors were published open access at Springer in the
first year alone. The working group "Springer Compact Evaluierung" made
the data for these articles available via the platform OpenAPC and would like
to use this opportunity to give a short account of what this publishing agreement
actually entails and the working group intends to do.'
author:
- first_name: Magdalena
full_name: Andrae, Magdalena
last_name: Andrae
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Andrae M, Villányi M. Der Springer Compact-Deal – Ein erster Einblick in die
Evaluierung einer Offsetting-Vereinbarung. Mitteilungen der Vereinigung Österreichischer
Bibliothekarinnen und Bibliothekare. 2017;70(2):274-280. doi:10.31263/voebm.v70i2.1898
apa: Andrae, M., & Villányi, M. (2017). Der Springer Compact-Deal – Ein erster
Einblick in die Evaluierung einer Offsetting-Vereinbarung. Mitteilungen Der
Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare. VÖB. https://doi.org/10.31263/voebm.v70i2.1898
chicago: Andrae, Magdalena, and Márton Villányi. “Der Springer Compact-Deal – Ein
Erster Einblick in Die Evaluierung Einer Offsetting-Vereinbarung.” Mitteilungen
Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare. VÖB,
2017. https://doi.org/10.31263/voebm.v70i2.1898.
ieee: M. Andrae and M. Villányi, “Der Springer Compact-Deal – Ein erster Einblick
in die Evaluierung einer Offsetting-Vereinbarung,” Mitteilungen der Vereinigung
Österreichischer Bibliothekarinnen und Bibliothekare, vol. 70, no. 2. VÖB,
pp. 274–280, 2017.
ista: Andrae M, Villányi M. 2017. Der Springer Compact-Deal – Ein erster Einblick
in die Evaluierung einer Offsetting-Vereinbarung. Mitteilungen der Vereinigung
Österreichischer Bibliothekarinnen und Bibliothekare. 70(2), 274–280.
mla: Andrae, Magdalena, and Márton Villányi. “Der Springer Compact-Deal – Ein Erster
Einblick in Die Evaluierung Einer Offsetting-Vereinbarung.” Mitteilungen Der
Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare, vol. 70,
no. 2, VÖB, 2017, pp. 274–80, doi:10.31263/voebm.v70i2.1898.
short: M. Andrae, M. Villányi, Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen
Und Bibliothekare 70 (2017) 274–280.
date_created: 2018-12-11T11:48:36Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2021-01-12T08:16:45Z
day: '01'
ddc:
- '020'
department:
- _id: E-Lib
doi: 10.31263/voebm.v70i2.1898
file:
- access_level: open_access
checksum: 558c18bcf5580d87dd371ec626d52075
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T13:39:26Z
date_updated: 2020-07-14T12:48:09Z
file_id: '5851'
file_name: 2017_VOEB_Andrae.pdf
file_size: 125065
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
intvolume: ' 70'
issue: '2'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 274 - 280
popular_science: '1'
publication: Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare
publication_identifier:
issn:
- '10222588'
publication_status: published
publisher: VÖB
publist_id: '6843'
scopus_import: 1
status: public
title: Der Springer Compact-Deal – Ein erster Einblick in die Evaluierung einer Offsetting-Vereinbarung
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 70
year: '2017'
...
---
_id: '8129'
abstract:
- lang: eng
text: "Cortical circuits exhibit intricate recurrent architectures that are remarkably
similar across different brain areas. Such stereotyped structure suggests the
existence of common computational principles. However, such principles have remained
largely elusive. Inspired by gated-memory networks, namely long short-term memory
networks (LSTMs), we introduce a recurrent neural network in which information
is gated through inhibitory cells that are subtractive (subLSTM). We propose a
natural mapping of subLSTMs onto known canonical excitatory-inhibitory cortical
microcircuits. Our empirical evaluation across sequential image classification
and language modelling tasks shows that subLSTM units can achieve similar performance
to LSTM units. These results suggest that cortical circuits can be optimised to
solve complex contextual problems and proposes a novel view on their computational
function.\r\nOverall our work provides a step towards unifying recurrent networks
as used in machine learning with their biological counterparts."
article_processing_charge: No
author:
- first_name: Rui Ponte
full_name: Costa, Rui Ponte
last_name: Costa
- first_name: Yannis M.
full_name: Assael, Yannis M.
last_name: Assael
- first_name: Brendan
full_name: Shillingford, Brendan
last_name: Shillingford
- first_name: Nando de
full_name: Freitas, Nando de
last_name: Freitas
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
citation:
ama: 'Costa RP, Assael YM, Shillingford B, Freitas N de, Vogels TP. Cortical microcircuits
as gated-recurrent neural networks. In: Advances in Neural Information Processing
Systems. Vol 30. Neural Information Processing Systems Foundation; 2017:272-283.'
apa: 'Costa, R. P., Assael, Y. M., Shillingford, B., Freitas, N. de, & Vogels,
T. P. (2017). Cortical microcircuits as gated-recurrent neural networks. In Advances
in Neural Information Processing Systems (Vol. 30, pp. 272–283). Long Beach,
CA, United States: Neural Information Processing Systems Foundation.'
chicago: Costa, Rui Ponte, Yannis M. Assael, Brendan Shillingford, Nando de Freitas,
and Tim P Vogels. “Cortical Microcircuits as Gated-Recurrent Neural Networks.”
In Advances in Neural Information Processing Systems, 30:272–83. Neural
Information Processing Systems Foundation, 2017.
ieee: R. P. Costa, Y. M. Assael, B. Shillingford, N. de Freitas, and T. P. Vogels,
“Cortical microcircuits as gated-recurrent neural networks,” in Advances in
Neural Information Processing Systems, Long Beach, CA, United States, 2017,
vol. 30, pp. 272–283.
ista: 'Costa RP, Assael YM, Shillingford B, Freitas N de, Vogels TP. 2017. Cortical
microcircuits as gated-recurrent neural networks. Advances in Neural Information
Processing Systems. NIPS: Neural Information Processing System vol. 30, 272–283.'
mla: Costa, Rui Ponte, et al. “Cortical Microcircuits as Gated-Recurrent Neural
Networks.” Advances in Neural Information Processing Systems, vol. 30,
Neural Information Processing Systems Foundation, 2017, pp. 272–83.
short: R.P. Costa, Y.M. Assael, B. Shillingford, N. de Freitas, T.P. Vogels, in:,
Advances in Neural Information Processing Systems, Neural Information Processing
Systems Foundation, 2017, pp. 272–283.
conference:
end_date: 2017-12-09
location: Long Beach, CA, United States
name: 'NIPS: Neural Information Processing System'
start_date: 2017-12-04
date_created: 2020-07-16T19:13:10Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2021-01-12T08:17:03Z
day: '01'
extern: '1'
external_id:
arxiv:
- '1711.02448'
intvolume: ' 30'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1711.02448
month: '12'
oa: 1
oa_version: Preprint
page: 272-283
publication: Advances in Neural Information Processing Systems
publication_identifier:
issn:
- '10495258'
publication_status: published
publisher: Neural Information Processing Systems Foundation
quality_controlled: '1'
status: public
title: Cortical microcircuits as gated-recurrent neural networks
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2017'
...
---
_id: '817'
abstract:
- lang: eng
text: Cryo-electron tomography (cryo-ET) allows cellular ultrastructures and macromolecular
complexes to be imaged in three-dimensions in their native environments. Cryo-electron
tomograms are reconstructed from projection images taken at defined tilt-angles.
In order to recover high-resolution information from cryo-electron tomograms,
it is necessary to measure and correct for the contrast transfer function (CTF)
of the microscope. Most commonly, this is performed using protocols that approximate
the sample as a two-dimensional (2D) plane. This approximation accounts for differences
in defocus and therefore CTF across the tilted sample. It does not account for
differences in defocus of objects at different heights within the sample; instead,
a 3D approach is required. Currently available approaches for 3D-CTF correction
are computationally expensive and have not been widely implemented. Here we simulate
the benefits of 3D-CTF correction for high-resolution subtomogram averaging, and
present a user-friendly, computationally-efficient 3D-CTF correction tool, NovaCTF,
that is compatible with standard tomogram reconstruction workflows in IMOD. We
validate the approach on synthetic data and test it using subtomogram averaging
of real data. Consistent with our simulations, we find that 3D-CTF correction
allows high-resolution structures to be obtained with much smaller subtomogram
averaging datasets than are required using 2D-CTF. We also show that using equivalent
dataset sizes, 3D-CTF correction can be used to obtain higher-resolution structures.
We present a 3.4. Å resolution structure determined by subtomogram averaging.
author:
- first_name: Beata
full_name: Turoňová, Beata
last_name: Turoňová
- first_name: Florian
full_name: Schur, Florian
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
- first_name: William
full_name: Wan, William
last_name: Wan
- first_name: John
full_name: Briggs, John
last_name: Briggs
citation:
ama: Turoňová B, Schur FK, Wan W, Briggs J. Efficient 3D-CTF correction for cryo-electron
tomography using NovaCTF improves subtomogram averaging resolution to 3.4Å. Journal
of Structural Biology. 2017;199(3):187-195. doi:10.1016/j.jsb.2017.07.007
apa: Turoňová, B., Schur, F. K., Wan, W., & Briggs, J. (2017). Efficient 3D-CTF
correction for cryo-electron tomography using NovaCTF improves subtomogram averaging
resolution to 3.4Å. Journal of Structural Biology. Academic Press. https://doi.org/10.1016/j.jsb.2017.07.007
chicago: Turoňová, Beata, Florian KM Schur, William Wan, and John Briggs. “Efficient
3D-CTF Correction for Cryo-Electron Tomography Using NovaCTF Improves Subtomogram
Averaging Resolution to 3.4Å.” Journal of Structural Biology. Academic
Press, 2017. https://doi.org/10.1016/j.jsb.2017.07.007.
ieee: B. Turoňová, F. K. Schur, W. Wan, and J. Briggs, “Efficient 3D-CTF correction
for cryo-electron tomography using NovaCTF improves subtomogram averaging resolution
to 3.4Å,” Journal of Structural Biology, vol. 199, no. 3. Academic Press,
pp. 187–195, 2017.
ista: Turoňová B, Schur FK, Wan W, Briggs J. 2017. Efficient 3D-CTF correction for
cryo-electron tomography using NovaCTF improves subtomogram averaging resolution
to 3.4Å. Journal of Structural Biology. 199(3), 187–195.
mla: Turoňová, Beata, et al. “Efficient 3D-CTF Correction for Cryo-Electron Tomography
Using NovaCTF Improves Subtomogram Averaging Resolution to 3.4Å.” Journal of
Structural Biology, vol. 199, no. 3, Academic Press, 2017, pp. 187–95, doi:10.1016/j.jsb.2017.07.007.
short: B. Turoňová, F.K. Schur, W. Wan, J. Briggs, Journal of Structural Biology
199 (2017) 187–195.
date_created: 2018-12-11T11:48:40Z
date_published: 2017-09-01T00:00:00Z
date_updated: 2021-01-12T08:17:16Z
day: '01'
ddc:
- '570'
doi: 10.1016/j.jsb.2017.07.007
extern: '1'
file:
- access_level: open_access
checksum: 7f2d4bbac767f9acc254d1a4114d181a
content_type: application/pdf
creator: kschuh
date_created: 2019-03-22T09:29:44Z
date_updated: 2020-07-14T12:48:09Z
file_id: '6168'
file_name: 2017_Elsevier_Turonova.pdf
file_size: 1310009
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
intvolume: ' 199'
issue: '3'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 187-195
publication: Journal of Structural Biology
publication_status: published
publisher: Academic Press
publist_id: '6832'
quality_controlled: '1'
status: public
title: Efficient 3D-CTF correction for cryo-electron tomography using NovaCTF improves
subtomogram averaging resolution to 3.4Å
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 199
year: '2017'
...
---
_id: '8237'
abstract:
- lang: eng
text: Monoclonal antibodies find broad application as therapy for various types
of cancer by employing multiple mechanisms of action against tumors. Manipulating
the Fc-mediated functions of antibodies that engage immune effector cells, such
as NK cells, represents a strategy to influence effector cell activation and to
enhance antibody potency and potentially efficacy. We developed a novel approach
to generate and ascertain the functional attributes of Fc mutant monoclonal antibodies.
This entailed coupling single expression vector (pVitro1) antibody cloning, using
polymerase incomplete primer extension (PIPE) polymerase chain reaction, together
with simultaneous Fc region point mutagenesis and high yield transient expression
in human mammalian cells. Employing this, we engineered wild type, low (N297Q,
NQ), and high (S239D/I332E, DE) FcR-binding Fc mutant monoclonal antibody panels
recognizing two cancer antigens, HER2/neu and chondroitin sulfate proteoglycan
4. Antibodies were generated with universal mutagenic primers applicable to any
IgG1 pVitro1 constructs, with high mutagenesis and transfection efficiency, in
small culture volumes, at high yields and within 12 days from design to purified
material. Antibody variants conserved their Fab-mediated recognition of target
antigens and their direct anti-proliferative effects against cancer cells. Fc
mutations had a significant impact on antibody interactions with Fc receptors
(FcRs) on human NK cells, and consequently on the potency of NK cell activation,
quantified by immune complex-mediated calcium mobilization and by antibody-dependent
cellular cytotoxicity (ADCC) of tumor cells. This strategy for manipulation and
testing of Fc region engagement with cognate FcRs can facilitate the design of
antibodies with defined effector functions and potentially enhanced efficacy against
tumor cells.
article_number: '1112'
article_processing_charge: No
article_type: original
author:
- first_name: Kristina M.
full_name: Ilieva, Kristina M.
last_name: Ilieva
- first_name: Judit
full_name: Fazekas-Singer, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas-Singer
orcid: 0000-0002-8777-3502
- first_name: Daniela Y.
full_name: Achkova, Daniela Y.
last_name: Achkova
- first_name: Tihomir S.
full_name: Dodev, Tihomir S.
last_name: Dodev
- first_name: Silvia
full_name: Mele, Silvia
last_name: Mele
- first_name: Silvia
full_name: Crescioli, Silvia
last_name: Crescioli
- first_name: Heather J.
full_name: Bax, Heather J.
last_name: Bax
- first_name: Anthony
full_name: Cheung, Anthony
last_name: Cheung
- first_name: Panagiotis
full_name: Karagiannis, Panagiotis
last_name: Karagiannis
- first_name: Isabel
full_name: Correa, Isabel
last_name: Correa
- first_name: Mariangela
full_name: Figini, Mariangela
last_name: Figini
- first_name: Rebecca
full_name: Marlow, Rebecca
last_name: Marlow
- first_name: Debra H.
full_name: Josephs, Debra H.
last_name: Josephs
- first_name: Andrew J.
full_name: Beavil, Andrew J.
last_name: Beavil
- first_name: John
full_name: Maher, John
last_name: Maher
- first_name: James F.
full_name: Spicer, James F.
last_name: Spicer
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
- first_name: Andrew N.
full_name: Tutt, Andrew N.
last_name: Tutt
- first_name: Sophia N.
full_name: Karagiannis, Sophia N.
last_name: Karagiannis
citation:
ama: Ilieva KM, Singer J, Achkova DY, et al. Functionally active Fc mutant antibodies
recognizing cancer antigens generated rapidly at high yields. Frontiers in
Immunology. 2017;8. doi:10.3389/fimmu.2017.01112
apa: Ilieva, K. M., Singer, J., Achkova, D. Y., Dodev, T. S., Mele, S., Crescioli,
S., … Karagiannis, S. N. (2017). Functionally active Fc mutant antibodies recognizing
cancer antigens generated rapidly at high yields. Frontiers in Immunology.
Frontiers. https://doi.org/10.3389/fimmu.2017.01112
chicago: Ilieva, Kristina M., Judit Singer, Daniela Y. Achkova, Tihomir S. Dodev,
Silvia Mele, Silvia Crescioli, Heather J. Bax, et al. “Functionally Active Fc
Mutant Antibodies Recognizing Cancer Antigens Generated Rapidly at High Yields.”
Frontiers in Immunology. Frontiers, 2017. https://doi.org/10.3389/fimmu.2017.01112.
ieee: K. M. Ilieva et al., “Functionally active Fc mutant antibodies recognizing
cancer antigens generated rapidly at high yields,” Frontiers in Immunology,
vol. 8. Frontiers, 2017.
ista: Ilieva KM, Singer J, Achkova DY, Dodev TS, Mele S, Crescioli S, Bax HJ, Cheung
A, Karagiannis P, Correa I, Figini M, Marlow R, Josephs DH, Beavil AJ, Maher J,
Spicer JF, Jensen-Jarolim E, Tutt AN, Karagiannis SN. 2017. Functionally active
Fc mutant antibodies recognizing cancer antigens generated rapidly at high yields.
Frontiers in Immunology. 8, 1112.
mla: Ilieva, Kristina M., et al. “Functionally Active Fc Mutant Antibodies Recognizing
Cancer Antigens Generated Rapidly at High Yields.” Frontiers in Immunology,
vol. 8, 1112, Frontiers, 2017, doi:10.3389/fimmu.2017.01112.
short: K.M. Ilieva, J. Singer, D.Y. Achkova, T.S. Dodev, S. Mele, S. Crescioli,
H.J. Bax, A. Cheung, P. Karagiannis, I. Correa, M. Figini, R. Marlow, D.H. Josephs,
A.J. Beavil, J. Maher, J.F. Spicer, E. Jensen-Jarolim, A.N. Tutt, S.N. Karagiannis,
Frontiers in Immunology 8 (2017).
date_created: 2020-08-10T11:53:32Z
date_published: 2017-09-11T00:00:00Z
date_updated: 2021-01-12T08:17:39Z
day: '11'
doi: 10.3389/fimmu.2017.01112
extern: '1'
intvolume: ' 8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.3389/fimmu.2017.01112
month: '09'
oa: 1
oa_version: Published Version
publication: Frontiers in Immunology
publication_identifier:
issn:
- 1664-3224
publication_status: published
publisher: Frontiers
quality_controlled: '1'
status: public
title: Functionally active Fc mutant antibodies recognizing cancer antigens generated
rapidly at high yields
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2017'
...
---
_id: '8236'
abstract:
- lang: eng
text: Th2 immunity and allergic immune surveillance play critical roles in host
responses to pathogens, parasites and allergens. Numerous studies have reported
significant links between Th2 responses and cancer, including insights into the
functions of IgE antibodies and associated effector cells in both antitumour immune
surveillance and therapy. The interdisciplinary field of AllergoOncology was given
Task Force status by the European Academy of Allergy and Clinical Immunology in
2014. Affiliated expert groups focus on the interface between allergic responses
and cancer, applied to immune surveillance, immunomodulation and the functions
of IgE‐mediated immune responses against cancer, to derive novel insights into
more effective treatments. Coincident with rapid expansion in clinical application
of cancer immunotherapies, here we review the current state‐of‐the‐art and future
translational opportunities, as well as challenges in this relatively new field.
Recent developments include improved understanding of Th2 antibodies, intratumoral
innate allergy effector cells and mediators, IgE‐mediated tumour antigen cross‐presentation
by dendritic cells, as well as immunotherapeutic strategies such as vaccines and
recombinant antibodies, and finally, the management of allergy in daily clinical
oncology. Shedding light on the crosstalk between allergic response and cancer
is paving the way for new avenues of treatment.
article_processing_charge: No
article_type: original
author:
- first_name: E.
full_name: Jensen-Jarolim, E.
last_name: Jensen-Jarolim
orcid: 0000-0003-4019-5765
- first_name: H. J.
full_name: Bax, H. J.
last_name: Bax
- first_name: R.
full_name: Bianchini, R.
last_name: Bianchini
- first_name: M.
full_name: Capron, M.
last_name: Capron
- first_name: C.
full_name: Corrigan, C.
last_name: Corrigan
- first_name: M.
full_name: Castells, M.
last_name: Castells
- first_name: D.
full_name: Dombrowicz, D.
last_name: Dombrowicz
- first_name: T. R.
full_name: Daniels-Wells, T. R.
last_name: Daniels-Wells
- first_name: Judit
full_name: Fazekas, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas
orcid: 0000-0002-8777-3502
- first_name: E.
full_name: Fiebiger, E.
last_name: Fiebiger
- first_name: S.
full_name: Gatault, S.
last_name: Gatault
- first_name: H. J.
full_name: Gould, H. J.
last_name: Gould
- first_name: J.
full_name: Janda, J.
last_name: Janda
- first_name: D. H.
full_name: Josephs, D. H.
last_name: Josephs
- first_name: P.
full_name: Karagiannis, P.
last_name: Karagiannis
- first_name: F.
full_name: Levi-Schaffer, F.
last_name: Levi-Schaffer
- first_name: A.
full_name: Meshcheryakova, A.
last_name: Meshcheryakova
- first_name: D.
full_name: Mechtcheriakova, D.
last_name: Mechtcheriakova
- first_name: Y.
full_name: Mekori, Y.
last_name: Mekori
- first_name: F.
full_name: Mungenast, F.
last_name: Mungenast
- first_name: E. A.
full_name: Nigro, E. A.
last_name: Nigro
- first_name: M. L.
full_name: Penichet, M. L.
last_name: Penichet
- first_name: F.
full_name: Redegeld, F.
last_name: Redegeld
- first_name: L.
full_name: Saul, L.
last_name: Saul
- first_name: J.
full_name: Singer, J.
last_name: Singer
- first_name: J. F.
full_name: Spicer, J. F.
last_name: Spicer
- first_name: A. G.
full_name: Siccardi, A. G.
last_name: Siccardi
- first_name: E.
full_name: Spillner, E.
last_name: Spillner
- first_name: M. C.
full_name: Turner, M. C.
last_name: Turner
- first_name: E.
full_name: Untersmayr, E.
last_name: Untersmayr
- first_name: L.
full_name: Vangelista, L.
last_name: Vangelista
- first_name: S. N.
full_name: Karagiannis, S. N.
last_name: Karagiannis
citation:
ama: 'Jensen-Jarolim E, Bax HJ, Bianchini R, et al. AllergoOncology - the impact
of allergy in oncology: EAACI position paper. Allergy. 2017;72(6):866-887.
doi:10.1111/all.13119'
apa: 'Jensen-Jarolim, E., Bax, H. J., Bianchini, R., Capron, M., Corrigan, C., Castells,
M., … Karagiannis, S. N. (2017). AllergoOncology - the impact of allergy in oncology:
EAACI position paper. Allergy. Wiley. https://doi.org/10.1111/all.13119'
chicago: 'Jensen-Jarolim, E., H. J. Bax, R. Bianchini, M. Capron, C. Corrigan, M.
Castells, D. Dombrowicz, et al. “AllergoOncology - the Impact of Allergy in Oncology:
EAACI Position Paper.” Allergy. Wiley, 2017. https://doi.org/10.1111/all.13119.'
ieee: 'E. Jensen-Jarolim et al., “AllergoOncology - the impact of allergy
in oncology: EAACI position paper,” Allergy, vol. 72, no. 6. Wiley, pp.
866–887, 2017.'
ista: 'Jensen-Jarolim E, Bax HJ, Bianchini R, Capron M, Corrigan C, Castells M,
Dombrowicz D, Daniels-Wells TR, Singer J, Fiebiger E, Gatault S, Gould HJ, Janda
J, Josephs DH, Karagiannis P, Levi-Schaffer F, Meshcheryakova A, Mechtcheriakova
D, Mekori Y, Mungenast F, Nigro EA, Penichet ML, Redegeld F, Saul L, Singer J,
Spicer JF, Siccardi AG, Spillner E, Turner MC, Untersmayr E, Vangelista L, Karagiannis
SN. 2017. AllergoOncology - the impact of allergy in oncology: EAACI position
paper. Allergy. 72(6), 866–887.'
mla: 'Jensen-Jarolim, E., et al. “AllergoOncology - the Impact of Allergy in Oncology:
EAACI Position Paper.” Allergy, vol. 72, no. 6, Wiley, 2017, pp. 866–87,
doi:10.1111/all.13119.'
short: E. Jensen-Jarolim, H.J. Bax, R. Bianchini, M. Capron, C. Corrigan, M. Castells,
D. Dombrowicz, T.R. Daniels-Wells, J. Singer, E. Fiebiger, S. Gatault, H.J. Gould,
J. Janda, D.H. Josephs, P. Karagiannis, F. Levi-Schaffer, A. Meshcheryakova, D.
Mechtcheriakova, Y. Mekori, F. Mungenast, E.A. Nigro, M.L. Penichet, F. Redegeld,
L. Saul, J. Singer, J.F. Spicer, A.G. Siccardi, E. Spillner, M.C. Turner, E. Untersmayr,
L. Vangelista, S.N. Karagiannis, Allergy 72 (2017) 866–887.
date_created: 2020-08-10T11:53:26Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2021-01-12T08:17:39Z
day: '01'
doi: 10.1111/all.13119
extern: '1'
intvolume: ' 72'
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/all.13119
month: '06'
oa: 1
oa_version: Published Version
page: 866-887
publication: Allergy
publication_identifier:
issn:
- 0105-4538
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: 'AllergoOncology - the impact of allergy in oncology: EAACI position paper'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 72
year: '2017'
...
---
_id: '8239'
abstract:
- lang: eng
text: Acrolein, a highly reactive unsaturated aldehyde, is generated in large amounts
during smoking and is best known for its genotoxic capacity. Here, we aimed to
assess whether acrolein at concentrations relevant for smokers may also exert
immunomodulatory effects that could be relevant in allergy or cancer. In a BALB/c
allergy model repeated nasal exposure to acrolein abrogated allergen-specific
antibody and cytokine formation, and led to a relative accumulation of regulatory
T cells in the lungs. Only the acrolein-treated mice were protected from bronchial
hyperreactivity as well as from anaphylactic reactions upon challenge with the
specific allergen. Moreover, grafted D2F2 tumor cells grew faster and intratumoral
Foxp3+ cell accumulation was observed in these mice compared to sham-treated controls.
Results from reporter cell lines suggested that acrolein acts via the aryl-hydrocarbon
receptor which could be inhibited by resveratrol and 3′-methoxy-4′-nitroflavone
Acrolein- stimulation of human PBMCs increased Foxp3+ expression by T cells which
could be antagonized by resveratrol. Our mouse and human data thus revealed that
acrolein exerts systemic immunosuppression by promoting Foxp3+ regulatory cells.
This provides a novel explanation why smokers have a lower allergy, but higher
cancer risk.
article_number: '45067'
article_processing_charge: No
article_type: original
author:
- first_name: Franziska
full_name: Roth-Walter, Franziska
last_name: Roth-Walter
- first_name: Cornelia
full_name: Bergmayr, Cornelia
last_name: Bergmayr
- first_name: Sarah
full_name: Meitz, Sarah
last_name: Meitz
- first_name: Stefan
full_name: Buchleitner, Stefan
last_name: Buchleitner
- first_name: Caroline
full_name: Stremnitzer, Caroline
last_name: Stremnitzer
- first_name: Judit
full_name: Fazekas, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas
orcid: 0000-0002-8777-3502
- first_name: Anna
full_name: Moskovskich, Anna
last_name: Moskovskich
- first_name: Mario A.
full_name: Müller, Mario A.
last_name: Müller
- first_name: Georg A.
full_name: Roth, Georg A.
last_name: Roth
- first_name: Krisztina
full_name: Manzano-Szalai, Krisztina
last_name: Manzano-Szalai
- first_name: Zdenek
full_name: Dvorak, Zdenek
last_name: Dvorak
- first_name: Alina
full_name: Neunkirchner, Alina
last_name: Neunkirchner
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
citation:
ama: 'Roth-Walter F, Bergmayr C, Meitz S, et al. Janus-faced Acrolein prevents allergy
but accelerates tumor growth by promoting immunoregulatory Foxp3+ cells: Mouse
model for passive respiratory exposure. Scientific Reports. 2017;7. doi:10.1038/srep45067'
apa: 'Roth-Walter, F., Bergmayr, C., Meitz, S., Buchleitner, S., Stremnitzer, C.,
Singer, J., … Jensen-Jarolim, E. (2017). Janus-faced Acrolein prevents allergy
but accelerates tumor growth by promoting immunoregulatory Foxp3+ cells: Mouse
model for passive respiratory exposure. Scientific Reports. Springer Nature.
https://doi.org/10.1038/srep45067'
chicago: 'Roth-Walter, Franziska, Cornelia Bergmayr, Sarah Meitz, Stefan Buchleitner,
Caroline Stremnitzer, Judit Singer, Anna Moskovskich, et al. “Janus-Faced Acrolein
Prevents Allergy but Accelerates Tumor Growth by Promoting Immunoregulatory Foxp3+
Cells: Mouse Model for Passive Respiratory Exposure.” Scientific Reports.
Springer Nature, 2017. https://doi.org/10.1038/srep45067.'
ieee: 'F. Roth-Walter et al., “Janus-faced Acrolein prevents allergy but
accelerates tumor growth by promoting immunoregulatory Foxp3+ cells: Mouse model
for passive respiratory exposure,” Scientific Reports, vol. 7. Springer
Nature, 2017.'
ista: 'Roth-Walter F, Bergmayr C, Meitz S, Buchleitner S, Stremnitzer C, Singer
J, Moskovskich A, Müller MA, Roth GA, Manzano-Szalai K, Dvorak Z, Neunkirchner
A, Jensen-Jarolim E. 2017. Janus-faced Acrolein prevents allergy but accelerates
tumor growth by promoting immunoregulatory Foxp3+ cells: Mouse model for passive
respiratory exposure. Scientific Reports. 7, 45067.'
mla: 'Roth-Walter, Franziska, et al. “Janus-Faced Acrolein Prevents Allergy but
Accelerates Tumor Growth by Promoting Immunoregulatory Foxp3+ Cells: Mouse Model
for Passive Respiratory Exposure.” Scientific Reports, vol. 7, 45067, Springer
Nature, 2017, doi:10.1038/srep45067.'
short: F. Roth-Walter, C. Bergmayr, S. Meitz, S. Buchleitner, C. Stremnitzer, J.
Singer, A. Moskovskich, M.A. Müller, G.A. Roth, K. Manzano-Szalai, Z. Dvorak,
A. Neunkirchner, E. Jensen-Jarolim, Scientific Reports 7 (2017).
date_created: 2020-08-10T11:53:46Z
date_published: 2017-03-23T00:00:00Z
date_updated: 2021-01-12T08:17:40Z
day: '23'
doi: 10.1038/srep45067
extern: '1'
intvolume: ' 7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/srep45067
month: '03'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_identifier:
issn:
- 2045-2322
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: 'Janus-faced Acrolein prevents allergy but accelerates tumor growth by promoting
immunoregulatory Foxp3+ cells: Mouse model for passive respiratory exposure'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2017'
...
---
_id: '8240'
abstract:
- lang: eng
text: "Background/Aim: Cancer cell lines are indispensible surrogate models in cancer
research, as they can be used off-the-shelf, expanded to the desired extent, easily
modified and exchanged between research groups for affirmation, reproduction or
follow-up experiments.\r\nAs malignant cells are prone to genomic instability,
phenotypical changes may occur after certain passages in culture. Thus, cell lines
have to be regularly authenticated to ensure data quality. In between experiments
these cell lines are often stored in liquid nitrogen for extended time periods.\r\nAlthough
freezing of cells is a necessary evil, little research is performed on how long-term
storage affects cancer cell lines. Therefore, this study investigated the effects
of a 28-year long liquid nitrogen storage period on BT474 cells with regard to
phenotypical changes, differences in cell-surface receptor expression as well
as cytokine and gene expressional variations.\r\nMethods: Two batches of BT474
cells, one frozen in 1986, the other directly purchased from ATCC were investigated
by light microscopy, cell growth analysis, flow cytometry and cytokine as well
as whole-transcriptome expression profiling.\r\nResults: The cell lines were morphologically
indifferent and showed similar growth rates and similar cell-surface receptor
expression. Transcriptome analysis revealed significant differences in only 26
of 40,716 investigated RefSeq transcripts with 4 of them being up-regulated and
22 down-regulated.\r\nConclusion: This study demonstrates that even after very
long periods of storage in liquid nitrogen, cancer cell lines display only minimal
changes in their gene expression profiles. However, also such minor changes should
be carefully assessed before continuation of experiments, especially if phenotypic
alterations can be additionally observed."
article_processing_charge: No
article_type: original
author:
- first_name: Judit
full_name: Fazekas, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas
orcid: 0000-0002-8777-3502
- first_name: Thomas W.
full_name: Grunt, Thomas W.
last_name: Grunt
- first_name: Erika
full_name: Jensen-Jarolim, Erika
last_name: Jensen-Jarolim
- first_name: Josef
full_name: Singer, Josef
last_name: Singer
citation:
ama: Singer J, Grunt TW, Jensen-Jarolim E, Singer J. Long term storage in liquid
nitrogen leads to only minor phenotypic and gene expression changes in the mammary
carcinoma model cell line BT474. Oncotarget. 2017;8:35076-35087. doi:10.18632/oncotarget.16623
apa: Singer, J., Grunt, T. W., Jensen-Jarolim, E., & Singer, J. (2017). Long
term storage in liquid nitrogen leads to only minor phenotypic and gene expression
changes in the mammary carcinoma model cell line BT474. Oncotarget. Impact
Journals. https://doi.org/10.18632/oncotarget.16623
chicago: Singer, Judit, Thomas W. Grunt, Erika Jensen-Jarolim, and Josef Singer.
“Long Term Storage in Liquid Nitrogen Leads to Only Minor Phenotypic and Gene
Expression Changes in the Mammary Carcinoma Model Cell Line BT474.” Oncotarget.
Impact Journals, 2017. https://doi.org/10.18632/oncotarget.16623.
ieee: J. Singer, T. W. Grunt, E. Jensen-Jarolim, and J. Singer, “Long term storage
in liquid nitrogen leads to only minor phenotypic and gene expression changes
in the mammary carcinoma model cell line BT474,” Oncotarget, vol. 8. Impact
Journals, pp. 35076–35087, 2017.
ista: Singer J, Grunt TW, Jensen-Jarolim E, Singer J. 2017. Long term storage in
liquid nitrogen leads to only minor phenotypic and gene expression changes in
the mammary carcinoma model cell line BT474. Oncotarget. 8, 35076–35087.
mla: Singer, Judit, et al. “Long Term Storage in Liquid Nitrogen Leads to Only Minor
Phenotypic and Gene Expression Changes in the Mammary Carcinoma Model Cell Line
BT474.” Oncotarget, vol. 8, Impact Journals, 2017, pp. 35076–87, doi:10.18632/oncotarget.16623.
short: J. Singer, T.W. Grunt, E. Jensen-Jarolim, J. Singer, Oncotarget 8 (2017)
35076–35087.
date_created: 2020-08-10T11:53:53Z
date_published: 2017-03-28T00:00:00Z
date_updated: 2021-01-12T08:17:41Z
day: '28'
doi: 10.18632/oncotarget.16623
extern: '1'
intvolume: ' 8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.18632/oncotarget.16623
month: '03'
oa: 1
oa_version: Published Version
page: 35076-35087
publication: Oncotarget
publication_identifier:
issn:
- 1949-2553
publication_status: published
publisher: Impact Journals
quality_controlled: '1'
status: public
title: Long term storage in liquid nitrogen leads to only minor phenotypic and gene
expression changes in the mammary carcinoma model cell line BT474
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2017'
...