---
_id: '838'
abstract:
- lang: eng
text: 'In this thesis we discuss the exact security of message authentications codes
HMAC , NMAC , and PMAC . NMAC is a mode of operation which turns a fixed input-length
keyed hash function f into a variable input-length function. A practical single-key
variant of NMAC called HMAC is a very popular and widely deployed message authentication
code (MAC). PMAC is a block-cipher based mode of operation, which also happens
to be the most famous fully parallel MAC. NMAC was introduced by Bellare, Canetti
and Krawczyk Crypto’96, who proved it to be a secure pseudorandom function (PRF),
and thus also a MAC, under two assumptions. Unfortunately, for many instantiations
of HMAC one of them has been found to be wrong. To restore the provable guarantees
for NMAC , Bellare [Crypto’06] showed its security without this assumption. PMAC
was introduced by Black and Rogaway at Eurocrypt 2002. If instantiated with a
pseudorandom permutation over n -bit strings, PMAC constitutes a provably secure
variable input-length PRF. For adversaries making q queries, each of length at
most ` (in n -bit blocks), and of total length σ ≤ q` , the original paper proves
an upper bound on the distinguishing advantage of O ( σ 2 / 2 n ), while the currently
best bound is O ( qσ/ 2 n ). In this work we show that this bound is tight by
giving an attack with advantage Ω( q 2 `/ 2 n ). In the PMAC construction one
initially XORs a mask to every message block, where the mask for the i th block
is computed as τ i := γ i · L , where L is a (secret) random value, and γ i is
the i -th codeword of the Gray code. Our attack applies more generally to any
sequence of γ i ’s which contains a large coset of a subgroup of GF (2 n ). As
for NMAC , our first contribution is a simpler and uniform proof: If f is an ε
-secure PRF (against q queries) and a δ - non-adaptively secure PRF (against q
queries), then NMAC f is an ( ε + `qδ )-secure PRF against q queries of length
at most ` blocks each. We also show that this ε + `qδ bound is basically tight
by constructing an f for which an attack with advantage `qδ exists. Moreover,
we analyze the PRF-security of a modification of NMAC called NI by An and Bellare
that avoids the constant rekeying on multi-block messages in NMAC and allows for
an information-theoretic analysis. We carry out such an analysis, obtaining a
tight `q 2 / 2 c bound for this step, improving over the trivial bound of ` 2
q 2 / 2 c . Finally, we investigate, if the security of PMAC can be further improved
by using τ i ’s that are k -wise independent, for k > 1 (the original has k
= 1). We observe that the security of PMAC will not increase in general if k =
2, and then prove that the security increases to O ( q 2 / 2 n ), if the k = 4.
Due to simple extension attacks, this is the best bound one can hope for, using
any distribution on the masks. Whether k = 3 is already sufficient to get this
level of security is left as an open problem. Keywords: Message authentication
codes, Pseudorandom functions, HMAC, PMAC. '
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Michal
full_name: Rybar, Michal
id: 2B3E3DE8-F248-11E8-B48F-1D18A9856A87
last_name: Rybar
citation:
ama: Rybar M. (The exact security of) Message authentication codes. 2017. doi:10.15479/AT:ISTA:th_828
apa: Rybar, M. (2017). (The exact security of) Message authentication codes.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:th_828
chicago: Rybar, Michal. “(The Exact Security of) Message Authentication Codes.”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:th_828.
ieee: M. Rybar, “(The exact security of) Message authentication codes,” Institute
of Science and Technology Austria, 2017.
ista: Rybar M. 2017. (The exact security of) Message authentication codes. Institute
of Science and Technology Austria.
mla: Rybar, Michal. (The Exact Security of) Message Authentication Codes.
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:th_828.
short: M. Rybar, (The Exact Security of) Message Authentication Codes, Institute
of Science and Technology Austria, 2017.
date_created: 2018-12-11T11:48:46Z
date_published: 2017-06-26T00:00:00Z
date_updated: 2023-09-07T12:02:28Z
day: '26'
ddc:
- '000'
degree_awarded: PhD
department:
- _id: KrPi
doi: 10.15479/AT:ISTA:th_828
file:
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language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: '86'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '6810'
pubrep_id: '828'
related_material:
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relation: part_of_dissertation
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- id: '6196'
relation: part_of_dissertation
status: public
status: public
title: (The exact security of) Message authentication codes
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2017'
...
---
_id: '839'
abstract:
- lang: eng
text: 'This thesis describes a brittle fracture simulation method for visual effects
applications. Building upon a symmetric Galerkin boundary element method, we first
compute stress intensity factors following the theory of linear elastic fracture
mechanics. We then use these stress intensities to simulate the motion of a propagating
crack front at a significantly higher resolution than the overall deformation
of the breaking object. Allowing for spatial variations of the material''s toughness
during crack propagation produces visually realistic, highly-detailed fracture
surfaces. Furthermore, we introduce approximations for stress intensities and
crack opening displacements, resulting in both practical speed-up and theoretically
superior runtime complexity compared to previous methods. While we choose a quasi-static
approach to fracture mechanics, ignoring dynamic deformations, we also couple
our fracture simulation framework to a standard rigid-body dynamics solver, enabling
visual effects artists to simulate both large scale motion, as well as fracturing
due to collision forces in a combined system. As fractures inside of an object
grow, their geometry must be represented both in the coarse boundary element mesh,
as well as at the desired fine output resolution. Using a boundary element method,
we avoid complicated volumetric meshing operations. Instead we describe a simple
set of surface meshing operations that allow us to progressively add cracks to
the mesh of an object and still re-use all previously computed entries of the
linear boundary element system matrix. On the high resolution level, we opt for
an implicit surface representation. We then describe how to capture fracture surfaces
during crack propagation, as well as separate the individual fragments resulting
from the fracture process, based on this implicit representation. We show results
obtained with our method, either solving the full boundary element system in every
time step, or alternatively using our fast approximations. These results demonstrate
that both of these methods perform well in basic test cases and produce realistic
fracture surfaces. Furthermore we show that our fast approximations substantially
out-perform the standard approach in more demanding scenarios. Finally, these
two methods naturally combine, using the full solution while the problem size
is manageably small and switching to the fast approximations later on. The resulting
hybrid method gives the user a direct way to choose between speed and accuracy
of the simulation. '
acknowledgement: "ERC H2020 programme (grant agreement no. 638176)\r\nFirst of all,
let me thank my committee members, especially my supervisor, Chris\r\nWojtan, for
supporting me throughout my PhD. Obviously, none of this work would\r\nhave been
possible without you.\r\nFurthermore, Thank You to all the people who have contributed
to this work in various\r\nways, in particular Martin Schanz and his group for providing
and supporting the\r\nHyENA boundary element library, as well as Eder Miguel and
Morten Bojsen-Hansen\r\nfor (repeatedly) proof reading and providing valuable suggestions
during the writing\r\nof this thesis.\r\nI would also like to thank Bernd Bickel,
and all the members – past and present – of his\r\nand Chris’ research groups at
IST Austria for always providing honest and insightful\r\nfeedback throughout many
joint group meetings, as well as Christopher Batty, Eitan\r\nGrinspun, and Fang
Da for many insights into boundary element methods during our\r\ncollaboration.\r\nAs
only virtual objects have been harmed in the process of creating this work, I would\r\nlike
to acknowledge the Stanford scanning repository for providing the “Bunny” and\r\n“Armadillo”
models, the AIM@SHAPE repository for “Pierre’s hand, watertight”, and\r\nS. Gainsbourg
for the “Column” via Archive3D.net. Sorry for breaking these models\r\nin many different
ways.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: David
full_name: Hahn, David
id: 357A6A66-F248-11E8-B48F-1D18A9856A87
last_name: Hahn
citation:
ama: Hahn D. Brittle fracture simulation with boundary elements for computer graphics.
2017. doi:10.15479/AT:ISTA:th_855
apa: Hahn, D. (2017). Brittle fracture simulation with boundary elements for
computer graphics. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:th_855
chicago: Hahn, David. “Brittle Fracture Simulation with Boundary Elements for Computer
Graphics.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:th_855.
ieee: D. Hahn, “Brittle fracture simulation with boundary elements for computer
graphics,” Institute of Science and Technology Austria, 2017.
ista: Hahn D. 2017. Brittle fracture simulation with boundary elements for computer
graphics. Institute of Science and Technology Austria.
mla: Hahn, David. Brittle Fracture Simulation with Boundary Elements for Computer
Graphics. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:th_855.
short: D. Hahn, Brittle Fracture Simulation with Boundary Elements for Computer
Graphics, Institute of Science and Technology Austria, 2017.
date_created: 2018-12-11T11:48:47Z
date_published: 2017-08-14T00:00:00Z
date_updated: 2024-02-21T13:48:02Z
day: '14'
ddc:
- '004'
- '005'
- '006'
- '531'
- '621'
degree_awarded: PhD
department:
- _id: ChWo
doi: 10.15479/AT:ISTA:th_855
ec_funded: 1
file:
- access_level: open_access
checksum: 6c1ae8c90bfaba5e089417fefbc4a272
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:46Z
date_updated: 2020-07-14T12:48:13Z
file_id: '5100'
file_name: IST-2017-855-v1+1_thesis_online_pdfA.pdf
file_size: 14596191
relation: main_file
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checksum: 421672f68d563b029869c5cf1713f919
content_type: application/zip
creator: dernst
date_created: 2019-04-05T08:40:30Z
date_updated: 2020-07-14T12:48:13Z
file_id: '6207'
file_name: 2017_thesis_Hahn_source.zip
file_size: 15060566
relation: source_file
file_date_updated: 2020-07-14T12:48:13Z
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-sa/4.0/
month: '08'
oa: 1
oa_version: Published Version
page: '124'
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '6809'
pubrep_id: '855'
related_material:
record:
- id: '1362'
relation: part_of_dissertation
status: public
- id: '1633'
relation: part_of_dissertation
status: public
- id: '5568'
relation: popular_science
status: public
status: public
supervisor:
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
title: Brittle fracture simulation with boundary elements for computer graphics
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2017'
...
---
_id: '840'
abstract:
- lang: eng
text: Heavy holes confined in quantum dots are predicted to be promising candidates
for the realization of spin qubits with long coherence times. Here we focus on
such heavy-hole states confined in germanium hut wires. By tuning the growth density
of the latter we can realize a T-like structure between two neighboring wires.
Such a structure allows the realization of a charge sensor, which is electrostatically
and tunnel coupled to a quantum dot, with charge-transfer signals as high as 0.3
e. By integrating the T-like structure into a radiofrequency reflectometry setup,
single-shot measurements allowing the extraction of hole tunneling times are performed.
The extracted tunneling times of less than 10 μs are attributed to the small effective
mass of Ge heavy-hole states and pave the way toward projective spin readout measurements.
acknowledged_ssus:
- _id: M-Shop
article_processing_charge: No
author:
- first_name: Lada
full_name: Vukusic, Lada
id: 31E9F056-F248-11E8-B48F-1D18A9856A87
last_name: Vukusic
orcid: 0000-0003-2424-8636
- first_name: Josip
full_name: Kukucka, Josip
id: 3F5D8856-F248-11E8-B48F-1D18A9856A87
last_name: Kukucka
- first_name: Hannes
full_name: Watzinger, Hannes
id: 35DF8E50-F248-11E8-B48F-1D18A9856A87
last_name: Watzinger
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Vukušić L, Kukucka J, Watzinger H, Katsaros G. Fast hole tunneling times in
germanium hut wires probed by single-shot reflectometry. Nano Letters.
2017;17(9):5706-5710. doi:10.1021/acs.nanolett.7b02627
apa: Vukušić, L., Kukucka, J., Watzinger, H., & Katsaros, G. (2017). Fast hole
tunneling times in germanium hut wires probed by single-shot reflectometry. Nano
Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.7b02627
chicago: Vukušić, Lada, Josip Kukucka, Hannes Watzinger, and Georgios Katsaros.
“Fast Hole Tunneling Times in Germanium Hut Wires Probed by Single-Shot Reflectometry.”
Nano Letters. American Chemical Society, 2017. https://doi.org/10.1021/acs.nanolett.7b02627.
ieee: L. Vukušić, J. Kukucka, H. Watzinger, and G. Katsaros, “Fast hole tunneling
times in germanium hut wires probed by single-shot reflectometry,” Nano Letters,
vol. 17, no. 9. American Chemical Society, pp. 5706–5710, 2017.
ista: Vukušić L, Kukucka J, Watzinger H, Katsaros G. 2017. Fast hole tunneling times
in germanium hut wires probed by single-shot reflectometry. Nano Letters. 17(9),
5706–5710.
mla: Vukušić, Lada, et al. “Fast Hole Tunneling Times in Germanium Hut Wires Probed
by Single-Shot Reflectometry.” Nano Letters, vol. 17, no. 9, American Chemical
Society, 2017, pp. 5706–10, doi:10.1021/acs.nanolett.7b02627.
short: L. Vukušić, J. Kukucka, H. Watzinger, G. Katsaros, Nano Letters 17 (2017)
5706–5710.
date_created: 2018-12-11T11:48:47Z
date_published: 2017-08-10T00:00:00Z
date_updated: 2023-09-26T15:50:22Z
day: '10'
ddc:
- '539'
department:
- _id: GeKa
doi: 10.1021/acs.nanolett.7b02627
ec_funded: 1
external_id:
isi:
- '000411043500078'
file:
- access_level: open_access
checksum: 761371a0129b2aa442424b9561450ece
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:33Z
date_updated: 2020-07-14T12:48:13Z
file_id: '4951'
file_name: IST-2017-865-v1+1_acs.nanolett.7b02627.pdf
file_size: 2449546
relation: main_file
file_date_updated: 2020-07-14T12:48:13Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '9'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 5706 - 5710
project:
- _id: 25517E86-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '335497'
name: Towards Spin qubits and Majorana fermions in Germanium selfassembled hut-wires
publication: Nano Letters
publication_identifier:
issn:
- '15306984'
publication_status: published
publisher: American Chemical Society
publist_id: '6808'
pubrep_id: '865'
quality_controlled: '1'
related_material:
record:
- id: '7977'
relation: popular_science
- id: '69'
relation: dissertation_contains
status: public
- id: '7996'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Fast hole tunneling times in germanium hut wires probed by single-shot reflectometry
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 17
year: '2017'
...
---
_id: '8423'
abstract:
- lang: eng
text: In this paper we show that for a generic strictly convex domain, one can recover
the eigendata corresponding to Aubry–Mather periodic orbits of the induced billiard
map from the (maximal) marked length spectrum of the domain.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Guan
full_name: Huang, Guan
last_name: Huang
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Alfonso
full_name: Sorrentino, Alfonso
last_name: Sorrentino
citation:
ama: Huang G, Kaloshin V, Sorrentino A. On the marked length spectrum of generic
strictly convex billiard tables. Duke Mathematical Journal. 2017;167(1):175-209.
doi:10.1215/00127094-2017-0038
apa: Huang, G., Kaloshin, V., & Sorrentino, A. (2017). On the marked length
spectrum of generic strictly convex billiard tables. Duke Mathematical Journal.
Duke University Press. https://doi.org/10.1215/00127094-2017-0038
chicago: Huang, Guan, Vadim Kaloshin, and Alfonso Sorrentino. “On the Marked Length
Spectrum of Generic Strictly Convex Billiard Tables.” Duke Mathematical Journal.
Duke University Press, 2017. https://doi.org/10.1215/00127094-2017-0038.
ieee: G. Huang, V. Kaloshin, and A. Sorrentino, “On the marked length spectrum of
generic strictly convex billiard tables,” Duke Mathematical Journal, vol.
167, no. 1. Duke University Press, pp. 175–209, 2017.
ista: Huang G, Kaloshin V, Sorrentino A. 2017. On the marked length spectrum of
generic strictly convex billiard tables. Duke Mathematical Journal. 167(1), 175–209.
mla: Huang, Guan, et al. “On the Marked Length Spectrum of Generic Strictly Convex
Billiard Tables.” Duke Mathematical Journal, vol. 167, no. 1, Duke University
Press, 2017, pp. 175–209, doi:10.1215/00127094-2017-0038.
short: G. Huang, V. Kaloshin, A. Sorrentino, Duke Mathematical Journal 167 (2017)
175–209.
date_created: 2020-09-17T10:42:42Z
date_published: 2017-12-08T00:00:00Z
date_updated: 2021-01-12T08:19:11Z
day: '08'
doi: 10.1215/00127094-2017-0038
extern: '1'
external_id:
arxiv:
- '1603.08838'
intvolume: ' 167'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1603.08838
month: '12'
oa: 1
oa_version: Preprint
page: 175-209
publication: Duke Mathematical Journal
publication_identifier:
issn:
- 0012-7094
publication_status: published
publisher: Duke University Press
quality_controlled: '1'
status: public
title: On the marked length spectrum of generic strictly convex billiard tables
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 167
year: '2017'
...
---
_id: '8427'
abstract:
- lang: eng
text: We show that any sufficiently (finitely) smooth ℤ₂-symmetric strictly convex
domain sufficiently close to a circle is dynamically spectrally rigid; i.e., all
deformations among domains in the same class that preserve the length of all periodic
orbits of the associated billiard flow must necessarily be isometric deformations.
This gives a partial answer to a question of P. Sarnak.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Jacopo
full_name: De Simoi, Jacopo
last_name: De Simoi
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: Qiaoling
full_name: Wei, Qiaoling
last_name: Wei
citation:
ama: De Simoi J, Kaloshin V, Wei Q. Dynamical spectral rigidity among Z2-symmetric
strictly convex domains close to a circle. Annals of Mathematics. 2017;186(1):277-314.
doi:10.4007/annals.2017.186.1.7
apa: De Simoi, J., Kaloshin, V., & Wei, Q. (2017). Dynamical spectral rigidity
among Z2-symmetric strictly convex domains close to a circle. Annals of Mathematics.
Annals of Mathematics. https://doi.org/10.4007/annals.2017.186.1.7
chicago: De Simoi, Jacopo, Vadim Kaloshin, and Qiaoling Wei. “Dynamical Spectral
Rigidity among Z2-Symmetric Strictly Convex Domains Close to a Circle.” Annals
of Mathematics. Annals of Mathematics, 2017. https://doi.org/10.4007/annals.2017.186.1.7.
ieee: J. De Simoi, V. Kaloshin, and Q. Wei, “Dynamical spectral rigidity among Z2-symmetric
strictly convex domains close to a circle,” Annals of Mathematics, vol.
186, no. 1. Annals of Mathematics, pp. 277–314, 2017.
ista: De Simoi J, Kaloshin V, Wei Q. 2017. Dynamical spectral rigidity among Z2-symmetric
strictly convex domains close to a circle. Annals of Mathematics. 186(1), 277–314.
mla: De Simoi, Jacopo, et al. “Dynamical Spectral Rigidity among Z2-Symmetric Strictly
Convex Domains Close to a Circle.” Annals of Mathematics, vol. 186, no.
1, Annals of Mathematics, 2017, pp. 277–314, doi:10.4007/annals.2017.186.1.7.
short: J. De Simoi, V. Kaloshin, Q. Wei, Annals of Mathematics 186 (2017) 277–314.
date_created: 2020-09-17T10:46:42Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:19:12Z
day: '01'
doi: 10.4007/annals.2017.186.1.7
extern: '1'
external_id:
arxiv:
- '1606.00230'
intvolume: ' 186'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1606.00230
month: '07'
oa: 1
oa_version: Preprint
page: 277-314
publication: Annals of Mathematics
publication_identifier:
issn:
- 0003-486X
publication_status: published
publisher: Annals of Mathematics
quality_controlled: '1'
status: public
title: Dynamical spectral rigidity among Z2-symmetric strictly convex domains close
to a circle
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 186
year: '2017'
...
---
_id: '169'
abstract:
- lang: eng
text: We show that a twisted variant of Linnik’s conjecture on sums of Kloosterman
sums leads to an optimal covering exponent for S3.
article_processing_charge: No
arxiv: 1
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Vinay
full_name: Kumaraswamy, Vinay
last_name: Kumaraswamy
- first_name: Rapael
full_name: Steiner, Rapael
last_name: Steiner
citation:
ama: Browning TD, Kumaraswamy V, Steiner R. Twisted Linnik implies optimal covering
exponent for S3. International Mathematics Research Notices. 2017. doi:10.1093/imrn/rnx116
apa: Browning, T. D., Kumaraswamy, V., & Steiner, R. (2017). Twisted Linnik
implies optimal covering exponent for S3. International Mathematics Research
Notices. Oxford University Press. https://doi.org/10.1093/imrn/rnx116
chicago: Browning, Timothy D, Vinay Kumaraswamy, and Rapael Steiner. “Twisted Linnik
Implies Optimal Covering Exponent for S3.” International Mathematics Research
Notices. Oxford University Press, 2017. https://doi.org/10.1093/imrn/rnx116.
ieee: T. D. Browning, V. Kumaraswamy, and R. Steiner, “Twisted Linnik implies optimal
covering exponent for S3,” International Mathematics Research Notices.
Oxford University Press, 2017.
ista: Browning TD, Kumaraswamy V, Steiner R. 2017. Twisted Linnik implies optimal
covering exponent for S3. International Mathematics Research Notices.
mla: Browning, Timothy D., et al. “Twisted Linnik Implies Optimal Covering Exponent
for S3.” International Mathematics Research Notices, Oxford University
Press, 2017, doi:10.1093/imrn/rnx116.
short: T.D. Browning, V. Kumaraswamy, R. Steiner, International Mathematics Research
Notices (2017).
date_created: 2018-12-11T11:44:59Z
date_published: 2017-06-19T00:00:00Z
date_updated: 2021-01-12T06:52:32Z
day: '19'
doi: 10.1093/imrn/rnx116
extern: '1'
external_id:
arxiv:
- '1609.06097'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1609.06097
month: '06'
oa: 1
oa_version: None
publication: International Mathematics Research Notices
publication_status: published
publisher: Oxford University Press
publist_id: '7752'
quality_controlled: '1'
status: public
title: Twisted Linnik implies optimal covering exponent for S3
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '172'
abstract:
- lang: eng
text: We study strong approximation for some algebraic varieties over ℚ which are
defined using norm forms. This allows us to confirm a special case of a conjecture
due to Harpaz and Wittenberg.
article_processing_charge: No
arxiv: 1
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: Damaris
full_name: Schindler, Damaris
last_name: Schindler
citation:
ama: Browning TD, Schindler D. Strong approximation and a conjecture of Harpaz and
Wittenberg. International Mathematics Research Notices. 2017. doi:10.1093/imrn/rnx252
apa: Browning, T. D., & Schindler, D. (2017). Strong approximation and a conjecture
of Harpaz and Wittenberg. International Mathematics Research Notices. Oxford
University Press. https://doi.org/10.1093/imrn/rnx252
chicago: Browning, Timothy D, and Damaris Schindler. “Strong Approximation and a
Conjecture of Harpaz and Wittenberg.” International Mathematics Research Notices.
Oxford University Press, 2017. https://doi.org/10.1093/imrn/rnx252.
ieee: T. D. Browning and D. Schindler, “Strong approximation and a conjecture of
Harpaz and Wittenberg,” International Mathematics Research Notices. Oxford
University Press, 2017.
ista: Browning TD, Schindler D. 2017. Strong approximation and a conjecture of Harpaz
and Wittenberg. International Mathematics Research Notices.
mla: Browning, Timothy D., and Damaris Schindler. “Strong Approximation and a Conjecture
of Harpaz and Wittenberg.” International Mathematics Research Notices,
Oxford University Press, 2017, doi:10.1093/imrn/rnx252.
short: T.D. Browning, D. Schindler, International Mathematics Research Notices (2017).
date_created: 2018-12-11T11:45:00Z
date_published: 2017-10-30T00:00:00Z
date_updated: 2021-01-12T06:52:45Z
day: '30'
doi: 10.1093/imrn/rnx252
extern: '1'
external_id:
arxiv:
- '1509.07744'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1509.07744
month: '10'
oa: 1
oa_version: None
publication: International Mathematics Research Notices
publication_status: published
publisher: Oxford University Press
publist_id: '7749'
quality_controlled: '1'
status: public
title: Strong approximation and a conjecture of Harpaz and Wittenberg
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '2016'
abstract:
- lang: eng
text: The Ising model is one of the simplest and most famous models of interacting
systems. It was originally proposed to model ferromagnetic interactions in statistical
physics and is now widely used to model spatial processes in many areas such as
ecology, sociology, and genetics, usually without testing its goodness-of-fit.
Here, we propose an exact goodness-of-fit test for the finite-lattice Ising model.
The theory of Markov bases has been developed in algebraic statistics for exact
goodness-of-fit testing using a Monte Carlo approach. However, this beautiful
theory has fallen short of its promise for applications, because finding a Markov
basis is usually computationally intractable. We develop a Monte Carlo method
for exact goodness-of-fit testing for the Ising model which avoids computing a
Markov basis and also leads to a better connectivity of the Markov chain and hence
to a faster convergence. We show how this method can be applied to analyze the
spatial organization of receptors on the cell membrane.
article_processing_charge: No
arxiv: 1
author:
- first_name: Abraham
full_name: Martin Del Campo Sanchez, Abraham
last_name: Martin Del Campo Sanchez
- first_name: Sarah A
full_name: Cepeda Humerez, Sarah A
id: 3DEE19A4-F248-11E8-B48F-1D18A9856A87
last_name: Cepeda Humerez
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
citation:
ama: Martin Del Campo Sanchez A, Cepeda Humerez SA, Uhler C. Exact goodness-of-fit
testing for the Ising model. Scandinavian Journal of Statistics. 2017;44(2):285-306.
doi:10.1111/sjos.12251
apa: Martin Del Campo Sanchez, A., Cepeda Humerez, S. A., & Uhler, C. (2017).
Exact goodness-of-fit testing for the Ising model. Scandinavian Journal of
Statistics. Wiley-Blackwell. https://doi.org/10.1111/sjos.12251
chicago: Martin Del Campo Sanchez, Abraham, Sarah A Cepeda Humerez, and Caroline
Uhler. “Exact Goodness-of-Fit Testing for the Ising Model.” Scandinavian Journal
of Statistics. Wiley-Blackwell, 2017. https://doi.org/10.1111/sjos.12251.
ieee: A. Martin Del Campo Sanchez, S. A. Cepeda Humerez, and C. Uhler, “Exact goodness-of-fit
testing for the Ising model,” Scandinavian Journal of Statistics, vol.
44, no. 2. Wiley-Blackwell, pp. 285–306, 2017.
ista: Martin Del Campo Sanchez A, Cepeda Humerez SA, Uhler C. 2017. Exact goodness-of-fit
testing for the Ising model. Scandinavian Journal of Statistics. 44(2), 285–306.
mla: Martin Del Campo Sanchez, Abraham, et al. “Exact Goodness-of-Fit Testing for
the Ising Model.” Scandinavian Journal of Statistics, vol. 44, no. 2, Wiley-Blackwell,
2017, pp. 285–306, doi:10.1111/sjos.12251.
short: A. Martin Del Campo Sanchez, S.A. Cepeda Humerez, C. Uhler, Scandinavian
Journal of Statistics 44 (2017) 285–306.
date_created: 2018-12-11T11:55:13Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2023-09-19T15:13:27Z
day: '01'
department:
- _id: GaTk
doi: 10.1111/sjos.12251
external_id:
arxiv:
- '1410.1242'
isi:
- '000400985000001'
intvolume: ' 44'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1410.1242
month: '06'
oa: 1
oa_version: Preprint
page: 285 - 306
publication: Scandinavian Journal of Statistics
publication_identifier:
issn:
- '03036898'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5060'
quality_controlled: '1'
related_material:
record:
- id: '6473'
relation: part_of_dissertation
status: public
scopus_import: '1'
status: public
title: Exact goodness-of-fit testing for the Ising model
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 44
year: '2017'
...
---
_id: '202'
abstract:
- lang: eng
text: 'Restriction-modification (RM) represents the simplest and possibly the most
widespread mechanism of self/non-self discrimination in nature. In order to provide
bacteria with immunity against bacteriophages and other parasitic genetic elements,
RM systems rely on a balance between two enzymes: the restriction enzyme, which
cleaves non-self DNA at specific restriction sites, and the modification enzyme,
which tags the host’s DNA as self and thus protects it from cleavage. In this
thesis, I use population and single-cell level experiments in combination with
mathematical modeling to study different aspects of the interplay between RM systems,
bacteria and bacteriophages. First, I analyze how mutations in phage restriction
sites affect the probability of phage escape – an inherently stochastic process,
during which phages accidently get modified instead of restricted. Next, I use
single-cell experiments to show that RM systems can, with a low probability, attack
the genome of their bacterial host and that this primitive form of autoimmunity
leads to a tradeoff between the evolutionary cost and benefit of RM systems. Finally,
I investigate the nature of interactions between bacteria, RM systems and temperate
bacteriophages to find that, as a consequence of phage escape and its impact on
population dynamics, RM systems can promote acquisition of symbiotic bacteriophages,
rather than limit it. The results presented here uncover new fundamental biological
properties of RM systems and highlight their importance in the ecology and evolution
of bacteria, bacteriophages and their interactions.'
acknowledgement: "During my PhD studies, I received help from many people, all of
which unfortunately cannot be listed here. I thank them deeply and hope that I never
made them regret their kindness.\r\nI would like to express my deepest gratitude
to Călin Guet, who went far beyond his responsibilities as an advisor and was to
me also a great mentor and a friend. Călin never questioned my potential or lacked
compassion and I cannot thank him enough for cultivating in me an independent scientist.
I was amazed by his ability to recognize the most fascinating scientific problems
in objects of study that others would find mundane. I hope I adopted at least a
fraction of this ability.\r\nI will be forever grateful to Bruce Levin for all his
support and especially for giving me the best possible example of how one can practice
excellent science with humor and style. Working with Bruce was a true privilege.\r\nI
thank Jonathan Bollback and Gašper Tkačik for serving in my PhD committee and the
Austrian Academy of Science for funding my PhD research via the DOC fellowship.\r\nI
thank all our lab members: Tobias Bergmiller for his guidance, especially in the
first years of my research, and for being a good friend throughout; Remy Chait for
staying in the lab at unreasonable hours and for the good laughs at bad jokes we
shared; Anna Staron for supportively listening to my whines whenever I had to run
a gel; Magdalena Steinrück for her pioneering work in the lab; Kathrin Tomasek for
keeping the entropic forces in check and for her FACS virtuosity; Isabella Tomanek
for always being nice to me, no matter how much bench space I took from her.\r\nI
thank all my collaborators: Reiko Okura and Yuichi Wakamoto for performing and analyzing
the microfluidic experiments; Long Qian and Edo Kussell for their bioinformatics
analysis; Dominik Refardt for the λ kan phage; Moritz for his help with the mathematical
modeling. I thank Fabienne Jesse for her tireless editorial work on all our manuscripts.\r\nFinally,
I would like to thank my family and especially my wife Edita, who sacrificed a lot
so that I can pursue my goals and dreams.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Maros
full_name: Pleska, Maros
id: 4569785E-F248-11E8-B48F-1D18A9856A87
last_name: Pleska
orcid: 0000-0001-7460-7479
citation:
ama: Pleska M. Biology of restriction-modification systems at the single-cell and
population level. 2017. doi:10.15479/AT:ISTA:th_916
apa: Pleska, M. (2017). Biology of restriction-modification systems at the single-cell
and population level. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:th_916
chicago: Pleska, Maros. “Biology of Restriction-Modification Systems at the Single-Cell
and Population Level.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:th_916.
ieee: M. Pleska, “Biology of restriction-modification systems at the single-cell
and population level,” Institute of Science and Technology Austria, 2017.
ista: Pleska M. 2017. Biology of restriction-modification systems at the single-cell
and population level. Institute of Science and Technology Austria.
mla: Pleska, Maros. Biology of Restriction-Modification Systems at the Single-Cell
and Population Level. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:th_916.
short: M. Pleska, Biology of Restriction-Modification Systems at the Single-Cell
and Population Level, Institute of Science and Technology Austria, 2017.
date_created: 2018-12-11T11:45:10Z
date_published: 2017-10-01T00:00:00Z
date_updated: 2023-09-15T12:04:56Z
day: '01'
ddc:
- '576'
- '579'
degree_awarded: PhD
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:th_916
file:
- access_level: open_access
checksum: 33cfb59674e91f82e3738396d3fb3776
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:48Z
date_updated: 2020-07-14T12:45:24Z
file_id: '4710'
file_name: IST-2018-916-v1+3_2017_Pleska_Maros_Thesis.pdf
file_size: 18569590
relation: main_file
- access_level: closed
checksum: dcc239968decb233e7f98cf1083d8c26
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: dernst
date_created: 2019-04-05T08:33:14Z
date_updated: 2020-07-14T12:45:24Z
file_id: '6204'
file_name: 2017_Pleska_Maros_Thesis.docx
file_size: 2801649
relation: source_file
file_date_updated: 2020-07-14T12:45:24Z
has_accepted_license: '1'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: '126'
project:
- _id: 251D65D8-B435-11E9-9278-68D0E5697425
grant_number: '24210'
name: Effects of Stochasticity on the Function of Restriction-Modi cation Systems
at the Single-Cell Level (DOC Fellowship)
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '7711'
pubrep_id: '916'
related_material:
record:
- id: '1243'
relation: part_of_dissertation
status: public
- id: '561'
relation: part_of_dissertation
status: public
- id: '457'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
title: Biology of restriction-modification systems at the single-cell and population
level
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: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2017'
...
---
_id: '662'
abstract:
- lang: eng
text: 'We report a direct-numerical-simulation study of the Taylor-Couette flow
in the quasi-Keplerian regime at shear Reynolds numbers up to (105). Quasi-Keplerian
rotating flow has been investigated for decades as a simplified model system to
study the origin of turbulence in accretion disks that is not fully understood.
The flow in this study is axially periodic and thus the experimental end-wall
effects on the stability of the flow are avoided. Using optimal linear perturbations
as initial conditions, our simulations find no sustained turbulence: the strong
initial perturbations distort the velocity profile and trigger turbulence that
eventually decays.'
article_number: '044107'
author:
- first_name: Liang
full_name: Shi, Liang
last_name: Shi
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Markus
full_name: Rampp, Markus
last_name: Rampp
- first_name: Marc
full_name: Avila, Marc
last_name: Avila
citation:
ama: Shi L, Hof B, Rampp M, Avila M. Hydrodynamic turbulence in quasi Keplerian
rotating flows. Physics of Fluids. 2017;29(4). doi:10.1063/1.4981525
apa: Shi, L., Hof, B., Rampp, M., & Avila, M. (2017). Hydrodynamic turbulence
in quasi Keplerian rotating flows. Physics of Fluids. American Institute
of Physics. https://doi.org/10.1063/1.4981525
chicago: Shi, Liang, Björn Hof, Markus Rampp, and Marc Avila. “Hydrodynamic Turbulence
in Quasi Keplerian Rotating Flows.” Physics of Fluids. American Institute
of Physics, 2017. https://doi.org/10.1063/1.4981525.
ieee: L. Shi, B. Hof, M. Rampp, and M. Avila, “Hydrodynamic turbulence in quasi
Keplerian rotating flows,” Physics of Fluids, vol. 29, no. 4. American
Institute of Physics, 2017.
ista: Shi L, Hof B, Rampp M, Avila M. 2017. Hydrodynamic turbulence in quasi Keplerian
rotating flows. Physics of Fluids. 29(4), 044107.
mla: Shi, Liang, et al. “Hydrodynamic Turbulence in Quasi Keplerian Rotating Flows.”
Physics of Fluids, vol. 29, no. 4, 044107, American Institute of Physics,
2017, doi:10.1063/1.4981525.
short: L. Shi, B. Hof, M. Rampp, M. Avila, Physics of Fluids 29 (2017).
date_created: 2018-12-11T11:47:47Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2021-01-12T08:08:15Z
day: '01'
department:
- _id: BjHo
doi: 10.1063/1.4981525
intvolume: ' 29'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1703.01714
month: '04'
oa: 1
oa_version: Submitted Version
project:
- _id: 2511D90C-B435-11E9-9278-68D0E5697425
grant_number: SFB 963 TP A8
name: Astrophysical instability of currents and turbulences
publication: Physics of Fluids
publication_identifier:
issn:
- '10706631'
publication_status: published
publisher: American Institute of Physics
publist_id: '7072'
quality_controlled: '1'
scopus_import: 1
status: public
title: Hydrodynamic turbulence in quasi Keplerian rotating flows
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2017'
...
---
_id: '663'
abstract:
- lang: eng
text: 'In this paper, we propose an approach to automatically compute invariant
clusters for nonlinear semialgebraic hybrid systems. An invariant cluster for
an ordinary differential equation (ODE) is a multivariate polynomial invariant
g(u→, x→) = 0, parametric in u→, which can yield an infinite number of concrete
invariants by assigning different values to u→ so that every trajectory of the
system can be overapproximated precisely by the intersection of a group of concrete
invariants. For semialgebraic systems, which involve ODEs with multivariate polynomial
right-hand sides, given a template multivariate polynomial g(u→, x→), an invariant
cluster can be obtained by first computing the remainder of the Lie derivative
of g(u→, x→) divided by g(u→, x→) and then solving the system of polynomial equations
obtained from the coefficients of the remainder. Based on invariant clusters and
sum-of-squares (SOS) programming, we present a new method for the safety verification
of hybrid systems. Experiments on nonlinear benchmark systems from biology and
control theory show that our approach is efficient. '
author:
- first_name: Hui
full_name: Kong, Hui
id: 3BDE25AA-F248-11E8-B48F-1D18A9856A87
last_name: Kong
orcid: 0000-0002-3066-6941
- first_name: Sergiy
full_name: Bogomolov, Sergiy
last_name: Bogomolov
orcid: 0000-0002-0686-0365
- first_name: Christian
full_name: Schilling, Christian
last_name: Schilling
- first_name: Yu
full_name: Jiang, Yu
last_name: Jiang
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
citation:
ama: 'Kong H, Bogomolov S, Schilling C, Jiang Y, Henzinger TA. Safety verification
of nonlinear hybrid systems based on invariant clusters. In: Proceedings of
the 20th International Conference on Hybrid Systems. ACM; 2017:163-172. doi:10.1145/3049797.3049814'
apa: 'Kong, H., Bogomolov, S., Schilling, C., Jiang, Y., & Henzinger, T. A.
(2017). Safety verification of nonlinear hybrid systems based on invariant clusters.
In Proceedings of the 20th International Conference on Hybrid Systems (pp.
163–172). Pittsburgh, PA, United States: ACM. https://doi.org/10.1145/3049797.3049814'
chicago: Kong, Hui, Sergiy Bogomolov, Christian Schilling, Yu Jiang, and Thomas
A Henzinger. “Safety Verification of Nonlinear Hybrid Systems Based on Invariant
Clusters.” In Proceedings of the 20th International Conference on Hybrid Systems,
163–72. ACM, 2017. https://doi.org/10.1145/3049797.3049814.
ieee: H. Kong, S. Bogomolov, C. Schilling, Y. Jiang, and T. A. Henzinger, “Safety
verification of nonlinear hybrid systems based on invariant clusters,” in Proceedings
of the 20th International Conference on Hybrid Systems, Pittsburgh, PA, United
States, 2017, pp. 163–172.
ista: 'Kong H, Bogomolov S, Schilling C, Jiang Y, Henzinger TA. 2017. Safety verification
of nonlinear hybrid systems based on invariant clusters. Proceedings of the 20th
International Conference on Hybrid Systems. HSCC: Hybrid Systems Computation and
Control , 163–172.'
mla: Kong, Hui, et al. “Safety Verification of Nonlinear Hybrid Systems Based on
Invariant Clusters.” Proceedings of the 20th International Conference on Hybrid
Systems, ACM, 2017, pp. 163–72, doi:10.1145/3049797.3049814.
short: H. Kong, S. Bogomolov, C. Schilling, Y. Jiang, T.A. Henzinger, in:, Proceedings
of the 20th International Conference on Hybrid Systems, ACM, 2017, pp. 163–172.
conference:
end_date: 2017-04-20
location: Pittsburgh, PA, United States
name: 'HSCC: Hybrid Systems Computation and Control '
start_date: 2017-04-18
date_created: 2018-12-11T11:47:47Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2021-01-12T08:08:17Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1145/3049797.3049814
file:
- access_level: open_access
checksum: b7667434cbf5b5f0ade3bea1dbe5bf63
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:20Z
date_updated: 2020-07-14T12:47:34Z
file_id: '4873'
file_name: IST-2017-817-v1+1_p163-kong.pdf
file_size: 1650530
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Submitted Version
page: 163 - 172
publication: Proceedings of the 20th International Conference on Hybrid Systems
publication_identifier:
isbn:
- 978-145034590-3
publication_status: published
publisher: ACM
publist_id: '7067'
pubrep_id: '817'
quality_controlled: '1'
scopus_import: 1
status: public
title: Safety verification of nonlinear hybrid systems based on invariant clusters
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '666'
abstract:
- lang: eng
text: Antibiotics elicit drastic changes in microbial gene expression, including
the induction of stress response genes. While certain stress responses are known
to “cross-protect” bacteria from other stressors, it is unclear whether cellular
responses to antibiotics have a similar protective role. By measuring the genome-wide
transcriptional response dynamics of Escherichia coli to four antibiotics, we
found that trimethoprim induces a rapid acid stress response that protects bacteria
from subsequent exposure to acid. Combining microfluidics with time-lapse imaging
to monitor survival and acid stress response in single cells revealed that the
noisy expression of the acid resistance operon gadBC correlates with single-cell
survival. Cells with higher gadBC expression following trimethoprim maintain higher
intracellular pH and survive the acid stress longer. The seemingly random single-cell
survival under acid stress can therefore be predicted from gadBC expression and
rationalized in terms of GadB/C molecular function. Overall, we provide a roadmap
for identifying the molecular mechanisms of single-cell cross-protection between
antibiotics and other stressors.
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Karin
full_name: Mitosch, Karin
id: 39B66846-F248-11E8-B48F-1D18A9856A87
last_name: Mitosch
- first_name: Georg
full_name: Rieckh, Georg
id: 34DA8BD6-F248-11E8-B48F-1D18A9856A87
last_name: Rieckh
- first_name: Tobias
full_name: Bollenbach, Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
citation:
ama: Mitosch K, Rieckh G, Bollenbach MT. Noisy response to antibiotic stress predicts
subsequent single cell survival in an acidic environment. Cell Systems.
2017;4(4):393-403. doi:10.1016/j.cels.2017.03.001
apa: Mitosch, K., Rieckh, G., & Bollenbach, M. T. (2017). Noisy response to
antibiotic stress predicts subsequent single cell survival in an acidic environment.
Cell Systems. Cell Press. https://doi.org/10.1016/j.cels.2017.03.001
chicago: Mitosch, Karin, Georg Rieckh, and Mark Tobias Bollenbach. “Noisy Response
to Antibiotic Stress Predicts Subsequent Single Cell Survival in an Acidic Environment.”
Cell Systems. Cell Press, 2017. https://doi.org/10.1016/j.cels.2017.03.001.
ieee: K. Mitosch, G. Rieckh, and M. T. Bollenbach, “Noisy response to antibiotic
stress predicts subsequent single cell survival in an acidic environment,” Cell
Systems, vol. 4, no. 4. Cell Press, pp. 393–403, 2017.
ista: Mitosch K, Rieckh G, Bollenbach MT. 2017. Noisy response to antibiotic stress
predicts subsequent single cell survival in an acidic environment. Cell Systems.
4(4), 393–403.
mla: Mitosch, Karin, et al. “Noisy Response to Antibiotic Stress Predicts Subsequent
Single Cell Survival in an Acidic Environment.” Cell Systems, vol. 4, no.
4, Cell Press, 2017, pp. 393–403, doi:10.1016/j.cels.2017.03.001.
short: K. Mitosch, G. Rieckh, M.T. Bollenbach, Cell Systems 4 (2017) 393–403.
date_created: 2018-12-11T11:47:48Z
date_published: 2017-04-26T00:00:00Z
date_updated: 2023-09-07T12:00:25Z
day: '26'
ddc:
- '576'
- '610'
department:
- _id: ToBo
- _id: GaTk
doi: 10.1016/j.cels.2017.03.001
ec_funded: 1
file:
- access_level: open_access
checksum: 04ff20011c3d9a601c514aa999a5fe1a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:54Z
date_updated: 2020-07-14T12:47:35Z
file_id: '5041'
file_name: IST-2017-901-v1+1_1-s2.0-S2405471217300868-main.pdf
file_size: 2438660
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 4'
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 393 - 403
project:
- _id: 25E83C2C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303507'
name: Optimality principles in responses to antibiotics
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
- _id: 25EB3A80-B435-11E9-9278-68D0E5697425
grant_number: RGP0042/2013
name: Revealing the fundamental limits of cell growth
publication: Cell Systems
publication_identifier:
issn:
- '24054712'
publication_status: published
publisher: Cell Press
publist_id: '7061'
pubrep_id: '901'
quality_controlled: '1'
related_material:
record:
- id: '818'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Noisy response to antibiotic stress predicts subsequent single cell survival
in an acidic environment
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2017'
...
---
_id: '6679'
abstract:
- lang: eng
text: 'Polar codes represent one of the major recent breakthroughs in coding theory
and, because of their attractive features, they have been selected for the incoming
5G standard. As such, a lot of attention has been devoted to the development of
decoding algorithms with good error performance and efficient hardware implementation.
One of the leading candidates in this regard is represented by successive-cancellation
list (SCL) decoding. However, its hardware implementation requires a large amount
of memory. Recently, a partitioned SCL (PSCL) decoder has been proposed to significantly
reduce the memory consumption [1]. In this paper, we examine the paradigm of PSCL
decoding from both theoretical and practical standpoints: (i) by changing the
construction of the code, we are able to improve the performance at no additional
computational, latency or memory cost, (ii) we present an optimal scheme to allocate
cyclic redundancy checks (CRCs), and (iii) we provide an upper bound on the list
size that allows MAP performance.'
arxiv: 1
author:
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Hamed
full_name: Hassani, Hamed
last_name: Hassani
- first_name: Ruediger
full_name: Urbanke, Ruediger
last_name: Urbanke
- first_name: Warren
full_name: Gross, Warren
last_name: Gross
citation:
ama: 'Hashemi SA, Mondelli M, Hassani H, Urbanke R, Gross W. Partitioned list decoding
of polar codes: Analysis and improvement of finite length performance. In: 2017
IEEE Global Communications Conference. IEEE; 2017:1-7. doi:10.1109/glocom.2017.8254940'
apa: 'Hashemi, S. A., Mondelli, M., Hassani, H., Urbanke, R., & Gross, W. (2017).
Partitioned list decoding of polar codes: Analysis and improvement of finite length
performance. In 2017 IEEE Global Communications Conference (pp. 1–7). Singapore,
Singapore: IEEE. https://doi.org/10.1109/glocom.2017.8254940'
chicago: 'Hashemi, Seyyed Ali, Marco Mondelli, Hamed Hassani, Ruediger Urbanke,
and Warren Gross. “Partitioned List Decoding of Polar Codes: Analysis and Improvement
of Finite Length Performance.” In 2017 IEEE Global Communications Conference,
1–7. IEEE, 2017. https://doi.org/10.1109/glocom.2017.8254940.'
ieee: 'S. A. Hashemi, M. Mondelli, H. Hassani, R. Urbanke, and W. Gross, “Partitioned
list decoding of polar codes: Analysis and improvement of finite length performance,”
in 2017 IEEE Global Communications Conference, Singapore, Singapore, 2017,
pp. 1–7.'
ista: 'Hashemi SA, Mondelli M, Hassani H, Urbanke R, Gross W. 2017. Partitioned
list decoding of polar codes: Analysis and improvement of finite length performance.
2017 IEEE Global Communications Conference. GLOBECOM: Global Communications Conference,
1–7.'
mla: 'Hashemi, Seyyed Ali, et al. “Partitioned List Decoding of Polar Codes: Analysis
and Improvement of Finite Length Performance.” 2017 IEEE Global Communications
Conference, IEEE, 2017, pp. 1–7, doi:10.1109/glocom.2017.8254940.'
short: S.A. Hashemi, M. Mondelli, H. Hassani, R. Urbanke, W. Gross, in:, 2017 IEEE
Global Communications Conference, IEEE, 2017, pp. 1–7.
conference:
end_date: 2017-12-08
location: Singapore, Singapore
name: 'GLOBECOM: Global Communications Conference'
start_date: 2017-12-04
date_created: 2019-07-24T13:55:25Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2021-01-12T08:08:34Z
day: '01'
doi: 10.1109/glocom.2017.8254940
extern: '1'
external_id:
arxiv:
- '1705.05497'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1705.05497
month: '12'
oa: 1
oa_version: Preprint
page: 1-7
publication: 2017 IEEE Global Communications Conference
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: 'Partitioned list decoding of polar codes: Analysis and improvement of finite
length performance'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '668'
abstract:
- lang: eng
text: Macrophage filopodia, finger-like membrane protrusions, were first implicated
in phagocytosis more than 100 years ago, but little is still known about the involvement
of these actin-dependent structures in particle clearance. Using spinning disk
confocal microscopy to image filopodial dynamics in mouse resident Lifeact-EGFP
macrophages, we show that filopodia, or filopodia-like structures, support pathogen
clearance by multiple means. Filopodia supported the phagocytic uptake of bacterial
(Escherichia coli) particles by (i) capturing along the filopodial shaft and surfing
toward the cell body, the most common mode of capture; (ii) capturing via the
tip followed by retraction; (iii) combinations of surfing and retraction; or (iv)
sweeping actions. In addition, filopodia supported the uptake of zymosan (Saccharomyces
cerevisiae) particles by (i) providing fixation, (ii) capturing at the tip and
filopodia-guided actin anterograde flow with phagocytic cup formation, and (iii)
the rapid growth of new protrusions. To explore the role of filopodia-inducing
Cdc42, we generated myeloid-restricted Cdc42 knock-out mice. Cdc42-deficient macrophages
exhibited rapid phagocytic cup kinetics, but reduced particle clearance, which
could be explained by the marked rounded-up morphology of these cells. Macrophages
lacking Myo10, thought to act downstream of Cdc42, had normal morphology, motility,
and phagocytic cup formation, but displayed markedly reduced filopodia formation.
In conclusion, live-cell imaging revealed multiple mechanisms involving macrophage
filopodia in particle capture and engulfment. Cdc42 is not critical for filopodia
or phagocytic cup formation, but plays a key role in driving macrophage lamellipodial
spreading.
article_type: original
author:
- first_name: Markus
full_name: Horsthemke, Markus
last_name: Horsthemke
- first_name: Anne
full_name: Bachg, Anne
last_name: Bachg
- first_name: Katharina
full_name: Groll, Katharina
last_name: Groll
- first_name: Sven
full_name: Moyzio, Sven
last_name: Moyzio
- first_name: Barbara
full_name: Müther, Barbara
last_name: Müther
- first_name: Sandra
full_name: Hemkemeyer, Sandra
last_name: Hemkemeyer
- first_name: Roland
full_name: Wedlich Söldner, Roland
last_name: Wedlich Söldner
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Sebastian
full_name: Tacke, Sebastian
last_name: Tacke
- first_name: Martin
full_name: Bähler, Martin
last_name: Bähler
- first_name: Peter
full_name: Hanley, Peter
last_name: Hanley
citation:
ama: Horsthemke M, Bachg A, Groll K, et al. Multiple roles of filopodial dynamics
in particle capture and phagocytosis and phenotypes of Cdc42 and Myo10 deletion.
Journal of Biological Chemistry. 2017;292(17):7258-7273. doi:10.1074/jbc.M116.766923
apa: Horsthemke, M., Bachg, A., Groll, K., Moyzio, S., Müther, B., Hemkemeyer, S.,
… Hanley, P. (2017). Multiple roles of filopodial dynamics in particle capture
and phagocytosis and phenotypes of Cdc42 and Myo10 deletion. Journal of Biological
Chemistry. American Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/jbc.M116.766923
chicago: Horsthemke, Markus, Anne Bachg, Katharina Groll, Sven Moyzio, Barbara Müther,
Sandra Hemkemeyer, Roland Wedlich Söldner, et al. “Multiple Roles of Filopodial
Dynamics in Particle Capture and Phagocytosis and Phenotypes of Cdc42 and Myo10
Deletion.” Journal of Biological Chemistry. American Society for Biochemistry
and Molecular Biology, 2017. https://doi.org/10.1074/jbc.M116.766923.
ieee: M. Horsthemke et al., “Multiple roles of filopodial dynamics in particle
capture and phagocytosis and phenotypes of Cdc42 and Myo10 deletion,” Journal
of Biological Chemistry, vol. 292, no. 17. American Society for Biochemistry
and Molecular Biology, pp. 7258–7273, 2017.
ista: Horsthemke M, Bachg A, Groll K, Moyzio S, Müther B, Hemkemeyer S, Wedlich
Söldner R, Sixt MK, Tacke S, Bähler M, Hanley P. 2017. Multiple roles of filopodial
dynamics in particle capture and phagocytosis and phenotypes of Cdc42 and Myo10
deletion. Journal of Biological Chemistry. 292(17), 7258–7273.
mla: Horsthemke, Markus, et al. “Multiple Roles of Filopodial Dynamics in Particle
Capture and Phagocytosis and Phenotypes of Cdc42 and Myo10 Deletion.” Journal
of Biological Chemistry, vol. 292, no. 17, American Society for Biochemistry
and Molecular Biology, 2017, pp. 7258–73, doi:10.1074/jbc.M116.766923.
short: M. Horsthemke, A. Bachg, K. Groll, S. Moyzio, B. Müther, S. Hemkemeyer, R.
Wedlich Söldner, M.K. Sixt, S. Tacke, M. Bähler, P. Hanley, Journal of Biological
Chemistry 292 (2017) 7258–7273.
date_created: 2018-12-11T11:47:49Z
date_published: 2017-04-28T00:00:00Z
date_updated: 2021-01-12T08:08:34Z
day: '28'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1074/jbc.M116.766923
file:
- access_level: open_access
checksum: d488162874326a4bb056065fa549dc4a
content_type: application/pdf
creator: dernst
date_created: 2019-10-24T15:25:42Z
date_updated: 2020-07-14T12:47:37Z
file_id: '6971'
file_name: 2017_JBC_Horsthemke.pdf
file_size: 5647880
relation: main_file
file_date_updated: 2020-07-14T12:47:37Z
has_accepted_license: '1'
intvolume: ' 292'
issue: '17'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 7258 - 7273
publication: Journal of Biological Chemistry
publication_identifier:
issn:
- '00219258'
publication_status: published
publisher: American Society for Biochemistry and Molecular Biology
publist_id: '7059'
quality_controlled: '1'
scopus_import: 1
status: public
title: Multiple roles of filopodial dynamics in particle capture and phagocytosis
and phenotypes of Cdc42 and Myo10 deletion
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 292
year: '2017'
...
---
_id: '669'
abstract:
- lang: eng
text: 'The exocyst, a eukaryotic tethering complex, coregulates targeted exocytosis
as an effector of small GTPases in polarized cell growth. In land plants, several
exocyst subunits are encoded by double or triple paralogs, culminating in tens
of EXO70 paralogs. Out of 23 Arabidopsis thaliana EXO70 isoforms, we analyzed
seven isoforms expressed in pollen. Genetic and microscopic analyses of single
mutants in EXO70A2, EXO70C1, EXO70C2, EXO70F1, EXO70H3, EXO70H5, and EXO70H6 genes
revealed that only a loss-of-function EXO70C2 allele resulted in a significant
male-specific transmission defect (segregation 40%:51%:9%) due to aberrant pollen
tube growth. Mutant pollen tubes grown in vitro exhibited an enhanced growth rate
and a decreased thickness of the tip cell wall, causing tip bursts. However, exo70C2
pollen tubes could frequently recover and restart their speedy elongation, resulting
in a repetitive stop-and-go growth dynamics. A pollenspecific depletion of the
closest paralog, EXO70C1, using artificial microRNA in the exo70C2 mutant background,
resulted in a complete pollen-specific transmission defect, suggesting redundant
functions of EXO70C1 and EXO70C2. Both EXO70C1 and EXO70C2, GFP tagged and expressed
under the control of their native promoters, localized in the cytoplasm of pollen
grains, pollen tubes, and also root trichoblast cells. The expression of EXO70C2-GFP
complemented the aberrant growth of exo70C2 pollen tubes. The absent EXO70C2 interactions
with core exocyst subunits in the yeast two-hybrid assay, cytoplasmic localization,
and genetic effect suggest an unconventional EXO70 function possibly as a regulator
of exocytosis outside the exocyst complex. In conclusion, EXO70C2 is a novel factor
contributing to the regulation of optimal tip growth of Arabidopsis pollen tubes. '
article_processing_charge: No
article_type: original
author:
- first_name: Lukáš
full_name: Synek, Lukáš
last_name: Synek
- first_name: Nemanja
full_name: Vukašinović, Nemanja
last_name: Vukašinović
- first_name: Ivan
full_name: Kulich, Ivan
last_name: Kulich
- first_name: Michal
full_name: Hála, Michal
last_name: Hála
- first_name: Klára
full_name: Aldorfová, Klára
last_name: Aldorfová
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Viktor
full_name: Žárský, Viktor
last_name: Žárský
citation:
ama: Synek L, Vukašinović N, Kulich I, et al. EXO70C2 is a key regulatory factor
for optimal tip growth of pollen. Plant Physiology. 2017;174(1):223-240.
doi:10.1104/pp.16.01282
apa: Synek, L., Vukašinović, N., Kulich, I., Hála, M., Aldorfová, K., Fendrych,
M., & Žárský, V. (2017). EXO70C2 is a key regulatory factor for optimal tip
growth of pollen. Plant Physiology. American Society of Plant Biologists.
https://doi.org/10.1104/pp.16.01282
chicago: Synek, Lukáš, Nemanja Vukašinović, Ivan Kulich, Michal Hála, Klára Aldorfová,
Matyas Fendrych, and Viktor Žárský. “EXO70C2 Is a Key Regulatory Factor for Optimal
Tip Growth of Pollen.” Plant Physiology. American Society of Plant Biologists,
2017. https://doi.org/10.1104/pp.16.01282.
ieee: L. Synek et al., “EXO70C2 is a key regulatory factor for optimal tip
growth of pollen,” Plant Physiology, vol. 174, no. 1. American Society
of Plant Biologists, pp. 223–240, 2017.
ista: Synek L, Vukašinović N, Kulich I, Hála M, Aldorfová K, Fendrych M, Žárský
V. 2017. EXO70C2 is a key regulatory factor for optimal tip growth of pollen.
Plant Physiology. 174(1), 223–240.
mla: Synek, Lukáš, et al. “EXO70C2 Is a Key Regulatory Factor for Optimal Tip Growth
of Pollen.” Plant Physiology, vol. 174, no. 1, American Society of Plant
Biologists, 2017, pp. 223–40, doi:10.1104/pp.16.01282.
short: L. Synek, N. Vukašinović, I. Kulich, M. Hála, K. Aldorfová, M. Fendrych,
V. Žárský, Plant Physiology 174 (2017) 223–240.
date_created: 2018-12-11T11:47:49Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2021-01-12T08:08:35Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1104/pp.16.01282
external_id:
pmid:
- '28356503'
file:
- access_level: open_access
checksum: 97155acc6aa5f0d0a78e0589a932fe02
content_type: application/pdf
creator: dernst
date_created: 2019-11-18T16:16:18Z
date_updated: 2020-07-14T12:47:37Z
file_id: '7041'
file_name: 2017_PlantPhysio_Synek.pdf
file_size: 2176903
relation: main_file
file_date_updated: 2020-07-14T12:47:37Z
has_accepted_license: '1'
intvolume: ' 174'
issue: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
page: 223 - 240
pmid: 1
publication: Plant Physiology
publication_identifier:
issn:
- '00320889'
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '7058'
quality_controlled: '1'
scopus_import: 1
status: public
title: EXO70C2 is a key regulatory factor for optimal tip growth of pollen
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 174
year: '2017'
...
---
_id: '670'
abstract:
- lang: eng
text: We propose an efficient method to model paper tearing in the context of interactive
modeling. The method uses geometrical information to automatically detect potential
starting points of tears. We further introduce a new hybrid geometrical and physical-based
method to compute the trajectory of tears while procedurally synthesizing high
resolution details of the tearing path using a texture based approach. The results
obtained are compared with real paper and with previous studies on the expected
geometric paths of paper that tears.
article_processing_charge: No
article_type: original
author:
- first_name: Camille
full_name: Schreck, Camille
id: 2B14B676-F248-11E8-B48F-1D18A9856A87
last_name: Schreck
- first_name: Damien
full_name: Rohmer, Damien
last_name: Rohmer
- first_name: Stefanie
full_name: Hahmann, Stefanie
last_name: Hahmann
citation:
ama: Schreck C, Rohmer D, Hahmann S. Interactive paper tearing. Computer Graphics
Forum. 2017;36(2):95-106. doi:10.1111/cgf.13110
apa: Schreck, C., Rohmer, D., & Hahmann, S. (2017). Interactive paper tearing.
Computer Graphics Forum. Wiley. https://doi.org/10.1111/cgf.13110
chicago: Schreck, Camille, Damien Rohmer, and Stefanie Hahmann. “Interactive Paper
Tearing.” Computer Graphics Forum. Wiley, 2017. https://doi.org/10.1111/cgf.13110.
ieee: C. Schreck, D. Rohmer, and S. Hahmann, “Interactive paper tearing,” Computer
Graphics Forum, vol. 36, no. 2. Wiley, pp. 95–106, 2017.
ista: Schreck C, Rohmer D, Hahmann S. 2017. Interactive paper tearing. Computer
Graphics Forum. 36(2), 95–106.
mla: Schreck, Camille, et al. “Interactive Paper Tearing.” Computer Graphics
Forum, vol. 36, no. 2, Wiley, 2017, pp. 95–106, doi:10.1111/cgf.13110.
short: C. Schreck, D. Rohmer, S. Hahmann, Computer Graphics Forum 36 (2017) 95–106.
date_created: 2018-12-11T11:47:49Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2021-01-12T08:08:37Z
day: '01'
ddc:
- '000'
department:
- _id: ChWo
doi: 10.1111/cgf.13110
intvolume: ' 36'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://hal.inria.fr/hal-01647113/file/eg_2017_schreck_paper_tearing.pdf
month: '05'
oa: 1
oa_version: Published Version
page: 95 - 106
project:
- _id: 25357BD2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 24352-N23
name: 'Deep Pictures: Creating Visual and Haptic Vector Images'
publication: Computer Graphics Forum
publication_identifier:
issn:
- '01677055'
publication_status: published
publisher: Wiley
publist_id: '7056'
quality_controlled: '1'
scopus_import: 1
status: public
title: Interactive paper tearing
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 36
year: '2017'
...
---
_id: '671'
abstract:
- lang: eng
text: Humans routinely use conditionally cooperative strategies when interacting
in repeated social dilemmas. They are more likely to cooperate if others cooperated
before, and are ready to retaliate if others defected. To capture the emergence
of reciprocity, most previous models consider subjects who can only choose from
a restricted set of representative strategies, or who react to the outcome of
the very last round only. As players memorize more rounds, the dimension of the
strategy space increases exponentially. This increasing computational complexity
renders simulations for individuals with higher cognitive abilities infeasible,
especially if multiplayer interactions are taken into account. Here, we take an
axiomatic approach instead. We propose several properties that a robust cooperative
strategy for a repeated multiplayer dilemma should have. These properties naturally
lead to a unique class of cooperative strategies, which contains the classical
Win-Stay Lose-Shift rule as a special case. A comprehensive numerical analysis
for the prisoner's dilemma and for the public goods game suggests that strategies
of this class readily evolve across various memory-n spaces. Our results reveal
that successful strategies depend not only on how cooperative others were in the
past but also on the respective context of cooperation.
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Vaquero
full_name: Martinez, Vaquero
last_name: Martinez
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Hilbe C, Martinez V, Chatterjee K, Nowak M. Memory-n strategies of direct reciprocity.
PNAS. 2017;114(18):4715-4720. doi:10.1073/pnas.1621239114
apa: Hilbe, C., Martinez, V., Chatterjee, K., & Nowak, M. (2017). Memory-n strategies
of direct reciprocity. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1621239114
chicago: Hilbe, Christian, Vaquero Martinez, Krishnendu Chatterjee, and Martin Nowak.
“Memory-n Strategies of Direct Reciprocity.” PNAS. National Academy of
Sciences, 2017. https://doi.org/10.1073/pnas.1621239114.
ieee: C. Hilbe, V. Martinez, K. Chatterjee, and M. Nowak, “Memory-n strategies of
direct reciprocity,” PNAS, vol. 114, no. 18. National Academy of Sciences,
pp. 4715–4720, 2017.
ista: Hilbe C, Martinez V, Chatterjee K, Nowak M. 2017. Memory-n strategies of direct
reciprocity. PNAS. 114(18), 4715–4720.
mla: Hilbe, Christian, et al. “Memory-n Strategies of Direct Reciprocity.” PNAS,
vol. 114, no. 18, National Academy of Sciences, 2017, pp. 4715–20, doi:10.1073/pnas.1621239114.
short: C. Hilbe, V. Martinez, K. Chatterjee, M. Nowak, PNAS 114 (2017) 4715–4720.
date_created: 2018-12-11T11:47:50Z
date_published: 2017-05-02T00:00:00Z
date_updated: 2021-01-12T08:08:37Z
day: '02'
department:
- _id: KrCh
doi: 10.1073/pnas.1621239114
ec_funded: 1
external_id:
pmid:
- '28420786'
intvolume: ' 114'
issue: '18'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5422766/
month: '05'
oa: 1
oa_version: Published Version
page: 4715 - 4720
pmid: 1
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _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
publication: PNAS
publication_identifier:
issn:
- '00278424'
publication_status: published
publisher: National Academy of Sciences
publist_id: '7053'
quality_controlled: '1'
scopus_import: 1
status: public
title: Memory-n strategies of direct reciprocity
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 114
year: '2017'
...
---
_id: '672'
abstract:
- lang: eng
text: Trafficking cells frequently transmigrate through epithelial and endothelial
monolayers. How monolayers cooperate with the penetrating cells to support their
transit is poorly understood. We studied dendritic cell (DC) entry into lymphatic
capillaries as a model system for transendothelial migration. We find that the
chemokine CCL21, which is the decisive guidance cue for intravasation, mainly
localizes in the trans-Golgi network and intracellular vesicles of lymphatic endothelial
cells. Upon DC transmigration, these Golgi deposits disperse and CCL21 becomes
extracellularly enriched at the sites of endothelial cell-cell junctions. When
we reconstitute the transmigration process in vitro, we find that secretion of
CCL21-positive vesicles is triggered by a DC contact-induced calcium signal, and
selective calcium chelation in lymphatic endothelium attenuates transmigration.
Altogether, our data demonstrate a chemokine-mediated feedback between DCs and
lymphatic endothelium, which facilitates transendothelial migration.
article_processing_charge: Yes
author:
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
- first_name: Markus
full_name: Brown, Markus
id: 3DAB9AFC-F248-11E8-B48F-1D18A9856A87
last_name: Brown
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Ingrid
full_name: De Vries, Ingrid
id: 4C7D837E-F248-11E8-B48F-1D18A9856A87
last_name: De Vries
- first_name: Alexander F
full_name: Leithner, Alexander F
id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87
last_name: Leithner
- first_name: Matthias
full_name: Mehling, Matthias
id: 3C23B994-F248-11E8-B48F-1D18A9856A87
last_name: Mehling
orcid: 0000-0001-8599-1226
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Vaahtomeri K, Brown M, Hauschild R, et al. Locally triggered release of the
chemokine CCL21 promotes dendritic cell transmigration across lymphatic endothelia.
Cell Reports. 2017;19(5):902-909. doi:10.1016/j.celrep.2017.04.027
apa: Vaahtomeri, K., Brown, M., Hauschild, R., de Vries, I., Leithner, A. F., Mehling,
M., … Sixt, M. K. (2017). Locally triggered release of the chemokine CCL21 promotes
dendritic cell transmigration across lymphatic endothelia. Cell Reports.
Cell Press. https://doi.org/10.1016/j.celrep.2017.04.027
chicago: Vaahtomeri, Kari, Markus Brown, Robert Hauschild, Ingrid de Vries, Alexander
F Leithner, Matthias Mehling, Walter Kaufmann, and Michael K Sixt. “Locally Triggered
Release of the Chemokine CCL21 Promotes Dendritic Cell Transmigration across Lymphatic
Endothelia.” Cell Reports. Cell Press, 2017. https://doi.org/10.1016/j.celrep.2017.04.027.
ieee: K. Vaahtomeri et al., “Locally triggered release of the chemokine CCL21
promotes dendritic cell transmigration across lymphatic endothelia,” Cell Reports,
vol. 19, no. 5. Cell Press, pp. 902–909, 2017.
ista: Vaahtomeri K, Brown M, Hauschild R, de Vries I, Leithner AF, Mehling M, Kaufmann
W, Sixt MK. 2017. Locally triggered release of the chemokine CCL21 promotes dendritic
cell transmigration across lymphatic endothelia. Cell Reports. 19(5), 902–909.
mla: Vaahtomeri, Kari, et al. “Locally Triggered Release of the Chemokine CCL21
Promotes Dendritic Cell Transmigration across Lymphatic Endothelia.” Cell Reports,
vol. 19, no. 5, Cell Press, 2017, pp. 902–09, doi:10.1016/j.celrep.2017.04.027.
short: K. Vaahtomeri, M. Brown, R. Hauschild, I. de Vries, A.F. Leithner, M. Mehling,
W. Kaufmann, M.K. Sixt, Cell Reports 19 (2017) 902–909.
date_created: 2018-12-11T11:47:50Z
date_published: 2017-05-02T00:00:00Z
date_updated: 2023-02-23T12:50:09Z
day: '02'
ddc:
- '570'
department:
- _id: MiSi
- _id: Bio
- _id: EM-Fac
doi: 10.1016/j.celrep.2017.04.027
ec_funded: 1
file:
- access_level: open_access
checksum: 8fdddaab1f1d76a6ec9ca94dcb6b07a2
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:54Z
date_updated: 2020-07-14T12:47:38Z
file_id: '5109'
file_name: IST-2017-900-v1+1_1-s2.0-S2211124717305211-main.pdf
file_size: 2248814
relation: main_file
file_date_updated: 2020-07-14T12:47:38Z
has_accepted_license: '1'
intvolume: ' 19'
issue: '5'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 902 - 909
project:
- _id: 25A603A2-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281556'
name: Cytoskeletal force generation and force transduction of migrating leukocytes
(EU)
- _id: 25A8E5EA-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Y 564-B12
name: Cytoskeletal force generation and transduction of leukocytes (FWF)
publication: Cell Reports
publication_identifier:
issn:
- '22111247'
publication_status: published
publisher: Cell Press
publist_id: '7052'
pubrep_id: '900'
quality_controlled: '1'
scopus_import: 1
status: public
title: Locally triggered release of the chemokine CCL21 promotes dendritic cell transmigration
across lymphatic endothelia
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2017'
...
---
_id: '6729'
abstract:
- lang: eng
text: Consider the problem of constructing a polar code of block length N for the
transmission over a given channel W. Typically this requires to compute the reliability
of all the N synthetic channels and then to include those that are sufficiently
reliable. However, we know from [1], [2] that there is a partial order among the
synthetic channels. Hence, it is natural to ask whether we can exploit it to reduce
the computational burden of the construction problem. We show that, if we take
advantage of the partial order [1], [2], we can construct a polar code by computing
the reliability of roughly N/ log 3/2 N synthetic channels. Such a set of synthetic
channels is universal, in the sense that it allows one to construct polar codes
for any W, and it can be identified by solving a maximum matching problem on a
bipartite graph. Our proof technique consists in reducing the construction problem
to the problem of computing the maximum cardinality of an antichain for a suitable
partially ordered set. As such, this method is general and it can be used to further
improve the complexity of the construction problem in case a new partial order
on the synthetic channels of polar codes is discovered.
arxiv: 1
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: S. Hamed
full_name: Hassani, S. Hamed
last_name: Hassani
- first_name: Rudiger
full_name: Urbanke, Rudiger
last_name: Urbanke
citation:
ama: 'Mondelli M, Hassani SH, Urbanke R. Construction of polar codes with sublinear
complexity. In: 2017 IEEE International Symposium on Information Theory .
IEEE; 2017:1853-1857. doi:10.1109/isit.2017.8006850'
apa: 'Mondelli, M., Hassani, S. H., & Urbanke, R. (2017). Construction of polar
codes with sublinear complexity. In 2017 IEEE International Symposium on Information
Theory (pp. 1853–1857). Aachen, Germany: IEEE. https://doi.org/10.1109/isit.2017.8006850'
chicago: Mondelli, Marco, S. Hamed Hassani, and Rudiger Urbanke. “Construction of
Polar Codes with Sublinear Complexity.” In 2017 IEEE International Symposium
on Information Theory , 1853–57. IEEE, 2017. https://doi.org/10.1109/isit.2017.8006850.
ieee: M. Mondelli, S. H. Hassani, and R. Urbanke, “Construction of polar codes with
sublinear complexity,” in 2017 IEEE International Symposium on Information
Theory , Aachen, Germany, 2017, pp. 1853–1857.
ista: 'Mondelli M, Hassani SH, Urbanke R. 2017. Construction of polar codes with
sublinear complexity. 2017 IEEE International Symposium on Information Theory
. ISIT: International Symposium on Information Theory, 1853–1857.'
mla: Mondelli, Marco, et al. “Construction of Polar Codes with Sublinear Complexity.”
2017 IEEE International Symposium on Information Theory , IEEE, 2017, pp.
1853–57, doi:10.1109/isit.2017.8006850.
short: M. Mondelli, S.H. Hassani, R. Urbanke, in:, 2017 IEEE International Symposium
on Information Theory , IEEE, 2017, pp. 1853–1857.
conference:
end_date: 2017-06-30
location: Aachen, Germany
name: 'ISIT: International Symposium on Information Theory'
start_date: 2017-06-25
date_created: 2019-07-30T07:14:18Z
date_published: 2017-06-15T00:00:00Z
date_updated: 2023-02-23T12:49:08Z
day: '15'
doi: 10.1109/isit.2017.8006850
extern: '1'
external_id:
arxiv:
- '1612.05295'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1612.05295
month: '06'
oa: 1
oa_version: Preprint
page: 1853-1857
publication: '2017 IEEE International Symposium on Information Theory '
publication_identifier:
eissn:
- 2157-8117
isbn:
- '9781509040964'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '6663'
relation: later_version
status: public
status: public
title: Construction of polar codes with sublinear complexity
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '673'
abstract:
- lang: eng
text: We present a numerical study of wavy supercritical cylindrical Couette flow
between counter-rotating cylinders in which the wavy pattern propagates either
prograde with the inner cylinder or retrograde opposite the rotation of the inner
cylinder. The wave propagation reversals from prograde to retrograde and vice
versa occur at distinct values of the inner cylinder Reynolds number when the
associated frequency of the wavy instability vanishes. The reversal occurs for
both twofold and threefold symmetric wavy vortices. Moreover, the wave propagation
reversal only occurs for sufficiently strong counter-rotation. The flow pattern
reversal appears to be intrinsic in the system as either periodic boundary conditions
or fixed end wall boundary conditions for different system sizes always result
in the wave propagation reversal. We present a detailed bifurcation sequence and
parameter space diagram with respect to retrograde behavior of wavy flows. The
retrograde propagation of the instability occurs when the inner Reynolds number
is about two times the outer Reynolds number. The mechanism for the retrograde
propagation is associated with the inviscidly unstable region near the inner cylinder
and the direction of the global average azimuthal velocity. Flow dynamics, spatio-temporal
behavior, global mean angular velocity, and torque of the flow with the wavy pattern
are explored.
article_number: '053103'
article_processing_charge: No
author:
- first_name: Sebastian
full_name: Altmeyer, Sebastian
id: 2EE67FDC-F248-11E8-B48F-1D18A9856A87
last_name: Altmeyer
orcid: 0000-0001-5964-0203
- first_name: Richard
full_name: Lueptow, Richard
last_name: Lueptow
citation:
ama: Altmeyer S, Lueptow R. Wave propagation reversal for wavy vortices in wide
gap counter rotating cylindrical Couette flow. Physical Review E. 2017;95(5).
doi:10.1103/PhysRevE.95.053103
apa: Altmeyer, S., & Lueptow, R. (2017). Wave propagation reversal for wavy
vortices in wide gap counter rotating cylindrical Couette flow. Physical Review
E. American Physical Society. https://doi.org/10.1103/PhysRevE.95.053103
chicago: Altmeyer, Sebastian, and Richard Lueptow. “Wave Propagation Reversal for
Wavy Vortices in Wide Gap Counter Rotating Cylindrical Couette Flow.” Physical
Review E. American Physical Society, 2017. https://doi.org/10.1103/PhysRevE.95.053103.
ieee: S. Altmeyer and R. Lueptow, “Wave propagation reversal for wavy vortices in
wide gap counter rotating cylindrical Couette flow,” Physical Review E,
vol. 95, no. 5. American Physical Society, 2017.
ista: Altmeyer S, Lueptow R. 2017. Wave propagation reversal for wavy vortices in
wide gap counter rotating cylindrical Couette flow. Physical Review E. 95(5),
053103.
mla: Altmeyer, Sebastian, and Richard Lueptow. “Wave Propagation Reversal for Wavy
Vortices in Wide Gap Counter Rotating Cylindrical Couette Flow.” Physical Review
E, vol. 95, no. 5, 053103, American Physical Society, 2017, doi:10.1103/PhysRevE.95.053103.
short: S. Altmeyer, R. Lueptow, Physical Review E 95 (2017).
date_created: 2018-12-11T11:47:50Z
date_published: 2017-05-10T00:00:00Z
date_updated: 2023-10-10T13:30:03Z
day: '10'
department:
- _id: BjHo
doi: 10.1103/PhysRevE.95.053103
intvolume: ' 95'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/pdf/physics/0505164.pdf
month: '05'
oa: 1
oa_version: Submitted Version
publication: Physical Review E
publication_identifier:
issn:
- 2470-0045
publication_status: published
publisher: American Physical Society
publist_id: '7049'
scopus_import: '1'
status: public
title: Wave propagation reversal for wavy vortices in wide gap counter rotating cylindrical
Couette flow
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 95
year: '2017'
...