---
_id: '5990'
abstract:
- lang: eng
text: 'A Ge–Si core–shell nanowire is used to realize a Josephson field‐effect transistor
with highly transparent contacts to superconducting leads. By changing the electric
field, access to two distinct regimes, not combined before in a single device,
is gained: in the accumulation mode the device is highly transparent and the supercurrent
is carried by multiple subbands, while near depletion, the supercurrent is carried
by single‐particle levels of a strongly coupled quantum dot operating in the few‐hole
regime. These results establish Ge–Si nanowires as an important platform for hybrid
superconductor–semiconductor physics and Majorana fermions.'
article_number: '1802257'
article_processing_charge: No
arxiv: 1
author:
- first_name: Joost
full_name: Ridderbos, Joost
last_name: Ridderbos
- first_name: Matthias
full_name: Brauns, Matthias
id: 33F94E3C-F248-11E8-B48F-1D18A9856A87
last_name: Brauns
- first_name: Jie
full_name: Shen, Jie
last_name: Shen
- first_name: Folkert K.
full_name: de Vries, Folkert K.
last_name: de Vries
- first_name: Ang
full_name: Li, Ang
last_name: Li
- first_name: Erik P. A. M.
full_name: Bakkers, Erik P. A. M.
last_name: Bakkers
- first_name: Alexander
full_name: Brinkman, Alexander
last_name: Brinkman
- first_name: Floris A.
full_name: Zwanenburg, Floris A.
last_name: Zwanenburg
citation:
ama: Ridderbos J, Brauns M, Shen J, et al. Josephson effect in a few-hole quantum
dot. Advanced Materials. 2018;30(44). doi:10.1002/adma.201802257
apa: Ridderbos, J., Brauns, M., Shen, J., de Vries, F. K., Li, A., Bakkers, E. P.
A. M., … Zwanenburg, F. A. (2018). Josephson effect in a few-hole quantum dot.
Advanced Materials. Wiley. https://doi.org/10.1002/adma.201802257
chicago: Ridderbos, Joost, Matthias Brauns, Jie Shen, Folkert K. de Vries, Ang Li,
Erik P. A. M. Bakkers, Alexander Brinkman, and Floris A. Zwanenburg. “Josephson
Effect in a Few-Hole Quantum Dot.” Advanced Materials. Wiley, 2018. https://doi.org/10.1002/adma.201802257.
ieee: J. Ridderbos et al., “Josephson effect in a few-hole quantum dot,”
Advanced Materials, vol. 30, no. 44. Wiley, 2018.
ista: Ridderbos J, Brauns M, Shen J, de Vries FK, Li A, Bakkers EPAM, Brinkman A,
Zwanenburg FA. 2018. Josephson effect in a few-hole quantum dot. Advanced Materials.
30(44), 1802257.
mla: Ridderbos, Joost, et al. “Josephson Effect in a Few-Hole Quantum Dot.” Advanced
Materials, vol. 30, no. 44, 1802257, Wiley, 2018, doi:10.1002/adma.201802257.
short: J. Ridderbos, M. Brauns, J. Shen, F.K. de Vries, A. Li, E.P.A.M. Bakkers,
A. Brinkman, F.A. Zwanenburg, Advanced Materials 30 (2018).
date_created: 2019-02-14T12:14:26Z
date_published: 2018-11-02T00:00:00Z
date_updated: 2023-09-19T14:29:58Z
day: '02'
department:
- _id: GeKa
doi: 10.1002/adma.201802257
external_id:
arxiv:
- '1809.08487'
isi:
- '000450232800015'
intvolume: ' 30'
isi: 1
issue: '44'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1809.08487
month: '11'
oa: 1
oa_version: Preprint
publication: Advanced Materials
publication_identifier:
issn:
- 0935-9648
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Josephson effect in a few-hole quantum dot
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 30
year: '2018'
...
---
_id: '5992'
abstract:
- lang: eng
text: Lamellipodia are flat membrane protrusions formed during mesenchymal motion.
Polymerization at the leading edge assembles the actin filament network and generates
protrusion force. How this force is supported by the network and how the assembly
rate is shared between protrusion and network retrograde flow determines the protrusion
rate. We use mathematical modeling to understand experiments changing the F-actin
density in lamellipodia of B16-F1 melanoma cells by modulation of Arp2/3 complex
activity or knockout of the formins FMNL2 and FMNL3. Cells respond to a reduction
of density with a decrease of protrusion velocity, an increase in the ratio of
force to filament number, but constant network assembly rate. The relation between
protrusion force and tension gradient in the F-actin network and the density dependency
of friction, elasticity, and viscosity of the network explain the experimental
observations. The formins act as filament nucleators and elongators with differential
rates. Modulation of their activity suggests an effect on network assembly rate.
Contrary to these expectations, the effect of changes in elongator composition
is much weaker than the consequences of the density change. We conclude that the
force acting on the leading edge membrane is the force required to drive F-actin
network retrograde flow.
article_processing_charge: No
author:
- first_name: Setareh
full_name: Dolati, Setareh
last_name: Dolati
- first_name: Frieda
full_name: Kage, Frieda
last_name: Kage
- first_name: Jan
full_name: Mueller, Jan
last_name: Mueller
- first_name: Mathias
full_name: Müsken, Mathias
last_name: Müsken
- first_name: Marieluise
full_name: Kirchner, Marieluise
last_name: Kirchner
- first_name: Gunnar
full_name: Dittmar, Gunnar
last_name: Dittmar
- 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: Klemens
full_name: Rottner, Klemens
last_name: Rottner
- first_name: Martin
full_name: Falcke, Martin
last_name: Falcke
citation:
ama: Dolati S, Kage F, Mueller J, et al. On the relation between filament density,
force generation, and protrusion rate in mesenchymal cell motility. Molecular
Biology of the Cell. 2018;29(22):2674-2686. doi:10.1091/mbc.e18-02-0082
apa: Dolati, S., Kage, F., Mueller, J., Müsken, M., Kirchner, M., Dittmar, G., …
Falcke, M. (2018). On the relation between filament density, force generation,
and protrusion rate in mesenchymal cell motility. Molecular Biology of the
Cell. American Society for Cell Biology . https://doi.org/10.1091/mbc.e18-02-0082
chicago: Dolati, Setareh, Frieda Kage, Jan Mueller, Mathias Müsken, Marieluise Kirchner,
Gunnar Dittmar, Michael K Sixt, Klemens Rottner, and Martin Falcke. “On the Relation
between Filament Density, Force Generation, and Protrusion Rate in Mesenchymal
Cell Motility.” Molecular Biology of the Cell. American Society for Cell
Biology , 2018. https://doi.org/10.1091/mbc.e18-02-0082.
ieee: S. Dolati et al., “On the relation between filament density, force
generation, and protrusion rate in mesenchymal cell motility,” Molecular Biology
of the Cell, vol. 29, no. 22. American Society for Cell Biology , pp. 2674–2686,
2018.
ista: Dolati S, Kage F, Mueller J, Müsken M, Kirchner M, Dittmar G, Sixt MK, Rottner
K, Falcke M. 2018. On the relation between filament density, force generation,
and protrusion rate in mesenchymal cell motility. Molecular Biology of the Cell.
29(22), 2674–2686.
mla: Dolati, Setareh, et al. “On the Relation between Filament Density, Force Generation,
and Protrusion Rate in Mesenchymal Cell Motility.” Molecular Biology of the
Cell, vol. 29, no. 22, American Society for Cell Biology , 2018, pp. 2674–86,
doi:10.1091/mbc.e18-02-0082.
short: S. Dolati, F. Kage, J. Mueller, M. Müsken, M. Kirchner, G. Dittmar, M.K.
Sixt, K. Rottner, M. Falcke, Molecular Biology of the Cell 29 (2018) 2674–2686.
date_created: 2019-02-14T12:25:47Z
date_published: 2018-11-01T00:00:00Z
date_updated: 2023-09-19T14:30:23Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.1091/mbc.e18-02-0082
external_id:
isi:
- '000455641000011'
pmid:
- '30156465'
file:
- access_level: open_access
checksum: e98465b4416b3e804c47f40086932af2
content_type: application/pdf
creator: kschuh
date_created: 2019-02-14T12:34:29Z
date_updated: 2020-07-14T12:47:15Z
file_id: '5994'
file_name: 2018_ASCB_Dolati.pdf
file_size: 6668971
relation: main_file
file_date_updated: 2020-07-14T12:47:15Z
has_accepted_license: '1'
intvolume: ' 29'
isi: 1
issue: '22'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '11'
oa: 1
oa_version: Published Version
page: 2674-2686
pmid: 1
publication: Molecular Biology of the Cell
publication_identifier:
eissn:
- 1939-4586
publication_status: published
publisher: 'American Society for Cell Biology '
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the relation between filament density, force generation, and protrusion
rate in mesenchymal cell motility
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 29
year: '2018'
...
---
_id: '5993'
abstract:
- lang: eng
text: 'In this article, we consider the termination problem of probabilistic programs
with real-valued variables. Thequestions concerned are: qualitative ones that
ask (i) whether the program terminates with probability 1(almost-sure termination)
and (ii) whether the expected termination time is finite (finite termination);
andquantitative ones that ask (i) to approximate the expected termination time
(expectation problem) and (ii) tocompute a boundBsuch that the probability not
to terminate afterBsteps decreases exponentially (con-centration problem). To
solve these questions, we utilize the notion of ranking supermartingales, which
isa powerful approach for proving termination of probabilistic programs. In detail,
we focus on algorithmicsynthesis of linear ranking-supermartingales over affine
probabilistic programs (Apps) with both angelic anddemonic non-determinism. An
important subclass of Apps is LRApp which is defined as the class of all Appsover
which a linear ranking-supermartingale exists.Our main contributions are as follows.
Firstly, we show that the membership problem of LRApp (i) canbe decided in polynomial
time for Apps with at most demonic non-determinism, and (ii) isNP-hard and inPSPACEfor
Apps with angelic non-determinism. Moreover, theNP-hardness result holds already
for Appswithout probability and demonic non-determinism. Secondly, we show that
the concentration problem overLRApp can be solved in the same complexity as for
the membership problem of LRApp. Finally, we show thatthe expectation problem
over LRApp can be solved in2EXPTIMEand isPSPACE-hard even for Apps withoutprobability
and non-determinism (i.e., deterministic programs). Our experimental results demonstrate
theeffectiveness of our approach to answer the qualitative and quantitative questions
over Apps with at mostdemonic non-determinism.'
article_number: '7'
article_processing_charge: No
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Hongfei
full_name: Fu, Hongfei
id: 3AAD03D6-F248-11E8-B48F-1D18A9856A87
last_name: Fu
- first_name: Petr
full_name: Novotný, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotný
- first_name: Rouzbeh
full_name: Hasheminezhad, Rouzbeh
last_name: Hasheminezhad
citation:
ama: Chatterjee K, Fu H, Novotný P, Hasheminezhad R. Algorithmic analysis of qualitative
and quantitative termination problems for affine probabilistic programs. ACM
Transactions on Programming Languages and Systems. 2018;40(2). doi:10.1145/3174800
apa: Chatterjee, K., Fu, H., Novotný, P., & Hasheminezhad, R. (2018). Algorithmic
analysis of qualitative and quantitative termination problems for affine probabilistic
programs. ACM Transactions on Programming Languages and Systems. Association
for Computing Machinery (ACM). https://doi.org/10.1145/3174800
chicago: Chatterjee, Krishnendu, Hongfei Fu, Petr Novotný, and Rouzbeh Hasheminezhad.
“Algorithmic Analysis of Qualitative and Quantitative Termination Problems for
Affine Probabilistic Programs.” ACM Transactions on Programming Languages and
Systems. Association for Computing Machinery (ACM), 2018. https://doi.org/10.1145/3174800.
ieee: K. Chatterjee, H. Fu, P. Novotný, and R. Hasheminezhad, “Algorithmic analysis
of qualitative and quantitative termination problems for affine probabilistic
programs,” ACM Transactions on Programming Languages and Systems, vol.
40, no. 2. Association for Computing Machinery (ACM), 2018.
ista: Chatterjee K, Fu H, Novotný P, Hasheminezhad R. 2018. Algorithmic analysis
of qualitative and quantitative termination problems for affine probabilistic
programs. ACM Transactions on Programming Languages and Systems. 40(2), 7.
mla: Chatterjee, Krishnendu, et al. “Algorithmic Analysis of Qualitative and Quantitative
Termination Problems for Affine Probabilistic Programs.” ACM Transactions on
Programming Languages and Systems, vol. 40, no. 2, 7, Association for Computing
Machinery (ACM), 2018, doi:10.1145/3174800.
short: K. Chatterjee, H. Fu, P. Novotný, R. Hasheminezhad, ACM Transactions on Programming
Languages and Systems 40 (2018).
date_created: 2019-02-14T12:29:10Z
date_published: 2018-06-01T00:00:00Z
date_updated: 2023-09-19T14:38:42Z
day: '01'
department:
- _id: KrCh
doi: 10.1145/3174800
ec_funded: 1
external_id:
arxiv:
- '1510.08517'
isi:
- '000434634500003'
intvolume: ' 40'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1510.08517
month: '06'
oa: 1
oa_version: Submitted Version
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: ACM Transactions on Programming Languages and Systems
publication_identifier:
issn:
- 0164-0925
publication_status: published
publisher: Association for Computing Machinery (ACM)
quality_controlled: '1'
related_material:
record:
- id: '1438'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Algorithmic analysis of qualitative and quantitative termination problems for
affine probabilistic programs
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 40
year: '2018'
...
---
_id: '5995'
abstract:
- lang: eng
text: "Motivation\r\nComputational prediction of the effect of mutations on protein
stability is used by researchers in many fields. The utility of the prediction
methods is affected by their accuracy and bias. Bias, a systematic shift of the
predicted change of stability, has been noted as an issue for several methods,
but has not been investigated systematically. Presence of the bias may lead to
misleading results especially when exploring the effects of combination of different
mutations.\r\n\r\nResults\r\nHere we use a protocol to measure the bias as a function
of the number of introduced mutations. It is based on a self-consistency test
of the reciprocity the effect of a mutation. An advantage of the used approach
is that it relies solely on crystal structures without experimentally measured
stability values. We applied the protocol to four popular algorithms predicting
change of protein stability upon mutation, FoldX, Eris, Rosetta and I-Mutant,
and found an inherent bias. For one program, FoldX, we manage to substantially
reduce the bias using additional relaxation by Modeller. Authors using algorithms
for predicting effects of mutations should be aware of the bias described here."
article_processing_charge: No
author:
- first_name: Dinara R
full_name: Usmanova, Dinara R
last_name: Usmanova
- first_name: Natalya S
full_name: Bogatyreva, Natalya S
last_name: Bogatyreva
- first_name: Joan
full_name: Ariño Bernad, Joan
last_name: Ariño Bernad
- first_name: Aleksandra A
full_name: Eremina, Aleksandra A
last_name: Eremina
- first_name: Anastasiya A
full_name: Gorshkova, Anastasiya A
last_name: Gorshkova
- first_name: German M
full_name: Kanevskiy, German M
last_name: Kanevskiy
- first_name: Lyubov R
full_name: Lonishin, Lyubov R
last_name: Lonishin
- first_name: Alexander V
full_name: Meister, Alexander V
last_name: Meister
- first_name: Alisa G
full_name: Yakupova, Alisa G
last_name: Yakupova
- first_name: Fyodor
full_name: Kondrashov, Fyodor
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
- first_name: Dmitry
full_name: Ivankov, Dmitry
id: 49FF1036-F248-11E8-B48F-1D18A9856A87
last_name: Ivankov
citation:
ama: Usmanova DR, Bogatyreva NS, Ariño Bernad J, et al. Self-consistency test reveals
systematic bias in programs for prediction change of stability upon mutation.
Bioinformatics. 2018;34(21):3653-3658. doi:10.1093/bioinformatics/bty340
apa: Usmanova, D. R., Bogatyreva, N. S., Ariño Bernad, J., Eremina, A. A., Gorshkova,
A. A., Kanevskiy, G. M., … Ivankov, D. (2018). Self-consistency test reveals systematic
bias in programs for prediction change of stability upon mutation. Bioinformatics.
Oxford University Press . https://doi.org/10.1093/bioinformatics/bty340
chicago: Usmanova, Dinara R, Natalya S Bogatyreva, Joan Ariño Bernad, Aleksandra
A Eremina, Anastasiya A Gorshkova, German M Kanevskiy, Lyubov R Lonishin, et al.
“Self-Consistency Test Reveals Systematic Bias in Programs for Prediction Change
of Stability upon Mutation.” Bioinformatics. Oxford University Press ,
2018. https://doi.org/10.1093/bioinformatics/bty340.
ieee: D. R. Usmanova et al., “Self-consistency test reveals systematic bias
in programs for prediction change of stability upon mutation,” Bioinformatics,
vol. 34, no. 21. Oxford University Press , pp. 3653–3658, 2018.
ista: Usmanova DR, Bogatyreva NS, Ariño Bernad J, Eremina AA, Gorshkova AA, Kanevskiy
GM, Lonishin LR, Meister AV, Yakupova AG, Kondrashov F, Ivankov D. 2018. Self-consistency
test reveals systematic bias in programs for prediction change of stability upon
mutation. Bioinformatics. 34(21), 3653–3658.
mla: Usmanova, Dinara R., et al. “Self-Consistency Test Reveals Systematic Bias
in Programs for Prediction Change of Stability upon Mutation.” Bioinformatics,
vol. 34, no. 21, Oxford University Press , 2018, pp. 3653–58, doi:10.1093/bioinformatics/bty340.
short: D.R. Usmanova, N.S. Bogatyreva, J. Ariño Bernad, A.A. Eremina, A.A. Gorshkova,
G.M. Kanevskiy, L.R. Lonishin, A.V. Meister, A.G. Yakupova, F. Kondrashov, D.
Ivankov, Bioinformatics 34 (2018) 3653–3658.
date_created: 2019-02-14T12:48:00Z
date_published: 2018-11-01T00:00:00Z
date_updated: 2023-09-19T14:31:13Z
day: '01'
ddc:
- '570'
department:
- _id: FyKo
doi: 10.1093/bioinformatics/bty340
ec_funded: 1
external_id:
isi:
- '000450038900008'
pmid:
- '29722803'
file:
- access_level: open_access
checksum: 7e0495153f44211479674601d7f6ee03
content_type: application/pdf
creator: kschuh
date_created: 2019-02-14T13:00:55Z
date_updated: 2020-07-14T12:47:15Z
file_id: '5997'
file_name: 2018_Oxford_Usmanova.pdf
file_size: 291969
relation: main_file
file_date_updated: 2020-07-14T12:47:15Z
has_accepted_license: '1'
intvolume: ' 34'
isi: 1
issue: '21'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 3653-3658
pmid: 1
project:
- _id: 26120F5C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '335980'
name: Systematic investigation of epistasis in molecular evolution
publication: Bioinformatics
publication_identifier:
issn:
- 1367-4803
- 1460-2059
publication_status: published
publisher: 'Oxford University Press '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Self-consistency test reveals systematic bias in programs for prediction change
of stability upon mutation
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 34
year: '2018'
...
---
_id: '5996'
abstract:
- lang: eng
text: 'In pipes, turbulence sets in despite the linear stability of the laminar
Hagen–Poiseuille flow. The Reynolds number ( ) for which turbulence first appears
in a given experiment – the ‘natural transition point’ – depends on imperfections
of the set-up, or, more precisely, on the magnitude of finite amplitude perturbations.
At onset, turbulence typically only occupies a certain fraction of the flow, and
this fraction equally is found to differ from experiment to experiment. Despite
these findings, Reynolds proposed that after sufficiently long times, flows may
settle to steady conditions: below a critical velocity, flows should (regardless
of initial conditions) always return to laminar, while above this velocity, eddying
motion should persist. As will be shown, even in pipes several thousand diameters
long, the spatio-temporal intermittent flow patterns observed at the end of the
pipe strongly depend on the initial conditions, and there is no indication that
different flow patterns would eventually settle to a (statistical) steady state.
Exploiting the fact that turbulent puffs do not age (i.e. they are memoryless),
we continuously recreate the puff sequence exiting the pipe at the pipe entrance,
and in doing so introduce periodic boundary conditions for the puff pattern. This
procedure allows us to study the evolution of the flow patterns for arbitrary
long times, and we find that after times in excess of advective time units, indeed
a statistical steady state is reached. Although the resulting flows remain spatio-temporally
intermittent, puff splitting and decay rates eventually reach a balance, so that
the turbulent fraction fluctuates around a well-defined level which only depends
on . In accordance with Reynolds’ proposition, we find that at lower (here 2020),
flows eventually always resume to laminar, while for higher ( ), turbulence persists.
The critical point for pipe flow hence falls in the interval of $2020 , which
is in very good agreement with the recently proposed value of . The latter estimate
was based on single-puff statistics and entirely neglected puff interactions.
Unlike in typical contact processes where such interactions strongly affect the
percolation threshold, in pipe flow, the critical point is only marginally influenced.
Interactions, on the other hand, are responsible for the approach to the statistical
steady state. As shown, they strongly affect the resulting flow patterns, where
they cause ‘puff clustering’, and these regions of large puff densities are observed
to travel across the puff pattern in a wave-like fashion.'
acknowledgement: ' We also thank Philipp Maier and the IST Austria workshop for theirdedicated
technical support'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Mukund
full_name: Vasudevan, Mukund
id: 3C5A959A-F248-11E8-B48F-1D18A9856A87
last_name: Vasudevan
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Vasudevan M, Hof B. The critical point of the transition to turbulence in pipe
flow. Journal of Fluid Mechanics. 2018;839:76-94. doi:10.1017/jfm.2017.923
apa: Vasudevan, M., & Hof, B. (2018). The critical point of the transition to
turbulence in pipe flow. Journal of Fluid Mechanics. Cambridge University
Press. https://doi.org/10.1017/jfm.2017.923
chicago: Vasudevan, Mukund, and Björn Hof. “The Critical Point of the Transition
to Turbulence in Pipe Flow.” Journal of Fluid Mechanics. Cambridge University
Press, 2018. https://doi.org/10.1017/jfm.2017.923.
ieee: M. Vasudevan and B. Hof, “The critical point of the transition to turbulence
in pipe flow,” Journal of Fluid Mechanics, vol. 839. Cambridge University
Press, pp. 76–94, 2018.
ista: Vasudevan M, Hof B. 2018. The critical point of the transition to turbulence
in pipe flow. Journal of Fluid Mechanics. 839, 76–94.
mla: Vasudevan, Mukund, and Björn Hof. “The Critical Point of the Transition to
Turbulence in Pipe Flow.” Journal of Fluid Mechanics, vol. 839, Cambridge
University Press, 2018, pp. 76–94, doi:10.1017/jfm.2017.923.
short: M. Vasudevan, B. Hof, Journal of Fluid Mechanics 839 (2018) 76–94.
date_created: 2019-02-14T12:50:50Z
date_published: 2018-03-25T00:00:00Z
date_updated: 2023-09-19T14:37:49Z
day: '25'
department:
- _id: BjHo
doi: 10.1017/jfm.2017.923
ec_funded: 1
external_id:
arxiv:
- '1709.06372'
isi:
- '000437858300003'
intvolume: ' 839'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1709.06372
month: '03'
oa: 1
oa_version: Preprint
page: 76-94
project:
- _id: 25152F3A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '306589'
name: Decoding the complexity of turbulence at its origin
publication: Journal of Fluid Mechanics
publication_identifier:
eissn:
- 1469-7645
issn:
- 0022-1120
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: The critical point of the transition to turbulence in pipe flow
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 839
year: '2018'
...
---
_id: '5998'
abstract:
- lang: eng
text: Genome amplification and cellular senescence are commonly associated with
pathological processes. While physiological roles for polyploidization and senescence
have been described in mouse development, controversy exists over their significance
in humans. Here, we describe tetraploidization and senescence as phenomena of
normal human placenta development. During pregnancy, placental extravillous trophoblasts
(EVTs) invade the pregnant endometrium, termed decidua, to establish an adapted
microenvironment required for the developing embryo. This process is critically
dependent on continuous cell proliferation and differentiation, which is thought
to follow the classical model of cell cycle arrest prior to terminal differentiation.
Strikingly, flow cytometry and DNAseq revealed that EVT formation is accompanied
with a genome-wide polyploidization, independent of mitotic cycles. DNA replication
in these cells was analysed by a fluorescent cell-cycle indicator reporter system,
cell cycle marker expression and EdU incorporation. Upon invasion into the decidua,
EVTs widely lose their replicative potential and enter a senescent state characterized
by high senescence-associated (SA) β-galactosidase activity, induction of a SA
secretory phenotype as well as typical metabolic alterations. Furthermore, we
show that the shift from endocycle-dependent genome amplification to growth arrest
is disturbed in androgenic complete hydatidiform moles (CHM), a hyperplastic pregnancy
disorder associated with increased risk of developing choriocarinoma. Senescence
is decreased in CHM-EVTs, accompanied by exacerbated endoreduplication and hyperploidy.
We propose induction of cellular senescence as a ploidy-limiting mechanism during
normal human placentation and unravel a link between excessive polyploidization
and reduced senescence in CHM.
article_number: e1007698
article_processing_charge: No
author:
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Gudrun
full_name: Meinhardt, Gudrun
last_name: Meinhardt
- first_name: Kerstin
full_name: Plessl, Kerstin
last_name: Plessl
- first_name: Sigrid
full_name: Vondra, Sigrid
last_name: Vondra
- first_name: Tamara
full_name: Weiss, Tamara
last_name: Weiss
- first_name: Peter
full_name: Haslinger, Peter
last_name: Haslinger
- first_name: Thomas
full_name: Lendl, Thomas
last_name: Lendl
- first_name: Karin
full_name: Aumayr, Karin
last_name: Aumayr
- first_name: Mario
full_name: Mairhofer, Mario
last_name: Mairhofer
- first_name: Xiaowei
full_name: Zhu, Xiaowei
last_name: Zhu
- first_name: Birgit
full_name: Schütz, Birgit
last_name: Schütz
- first_name: Roberta L.
full_name: Hannibal, Roberta L.
last_name: Hannibal
- first_name: Robert
full_name: Lindau, Robert
last_name: Lindau
- first_name: Beatrix
full_name: Weil, Beatrix
last_name: Weil
- first_name: Jan
full_name: Ernerudh, Jan
last_name: Ernerudh
- first_name: Jürgen
full_name: Neesen, Jürgen
last_name: Neesen
- first_name: Gerda
full_name: Egger, Gerda
last_name: Egger
- first_name: Mario
full_name: Mikula, Mario
last_name: Mikula
- first_name: Clemens
full_name: Röhrl, Clemens
last_name: Röhrl
- first_name: Alexander E.
full_name: Urban, Alexander E.
last_name: Urban
- first_name: Julie
full_name: Baker, Julie
last_name: Baker
- first_name: Martin
full_name: Knöfler, Martin
last_name: Knöfler
- first_name: Jürgen
full_name: Pollheimer, Jürgen
last_name: Pollheimer
citation:
ama: Velicky P, Meinhardt G, Plessl K, et al. Genome amplification and cellular
senescence are hallmarks of human placenta development. PLOS Genetics.
2018;14(10). doi:10.1371/journal.pgen.1007698
apa: Velicky, P., Meinhardt, G., Plessl, K., Vondra, S., Weiss, T., Haslinger, P.,
… Pollheimer, J. (2018). Genome amplification and cellular senescence are hallmarks
of human placenta development. PLOS Genetics. Public Library of Science.
https://doi.org/10.1371/journal.pgen.1007698
chicago: Velicky, Philipp, Gudrun Meinhardt, Kerstin Plessl, Sigrid Vondra, Tamara
Weiss, Peter Haslinger, Thomas Lendl, et al. “Genome Amplification and Cellular
Senescence Are Hallmarks of Human Placenta Development.” PLOS Genetics.
Public Library of Science, 2018. https://doi.org/10.1371/journal.pgen.1007698.
ieee: P. Velicky et al., “Genome amplification and cellular senescence are
hallmarks of human placenta development,” PLOS Genetics, vol. 14, no. 10.
Public Library of Science, 2018.
ista: Velicky P, Meinhardt G, Plessl K, Vondra S, Weiss T, Haslinger P, Lendl T,
Aumayr K, Mairhofer M, Zhu X, Schütz B, Hannibal RL, Lindau R, Weil B, Ernerudh
J, Neesen J, Egger G, Mikula M, Röhrl C, Urban AE, Baker J, Knöfler M, Pollheimer
J. 2018. Genome amplification and cellular senescence are hallmarks of human placenta
development. PLOS Genetics. 14(10), e1007698.
mla: Velicky, Philipp, et al. “Genome Amplification and Cellular Senescence Are
Hallmarks of Human Placenta Development.” PLOS Genetics, vol. 14, no. 10,
e1007698, Public Library of Science, 2018, doi:10.1371/journal.pgen.1007698.
short: P. Velicky, G. Meinhardt, K. Plessl, S. Vondra, T. Weiss, P. Haslinger, T.
Lendl, K. Aumayr, M. Mairhofer, X. Zhu, B. Schütz, R.L. Hannibal, R. Lindau, B.
Weil, J. Ernerudh, J. Neesen, G. Egger, M. Mikula, C. Röhrl, A.E. Urban, J. Baker,
M. Knöfler, J. Pollheimer, PLOS Genetics 14 (2018).
date_created: 2019-02-14T13:07:45Z
date_published: 2018-10-12T00:00:00Z
date_updated: 2023-09-19T14:31:43Z
day: '12'
ddc:
- '570'
department:
- _id: JoDa
doi: 10.1371/journal.pgen.1007698
external_id:
isi:
- '000449328500025'
file:
- access_level: open_access
checksum: 34aa9a5972f61889c19f18be8ee787a0
content_type: application/pdf
creator: kschuh
date_created: 2019-02-14T13:14:35Z
date_updated: 2020-07-14T12:47:15Z
file_id: '6000'
file_name: 2018_PLOS_Velicky.pdf
file_size: 4592947
relation: main_file
file_date_updated: 2020-07-14T12:47:15Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
publication: PLOS Genetics
publication_identifier:
issn:
- 1553-7404
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Genome amplification and cellular senescence are hallmarks of human placenta
development
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: 14
year: '2018'
...
---
_id: '5999'
abstract:
- lang: eng
text: "We introduce for each quiver Q and each algebraic oriented cohomology theory
A, the cohomological Hall algebra (CoHA) of Q, as the A-homology of the moduli
of representations of the preprojective algebra of Q. This generalizes the K-theoretic
Hall algebra of commuting varieties defined by Schiffmann-Vasserot. When A is
the Morava K-theory, we show evidence that this algebra is a candidate for Lusztig's
reformulated conjecture on modular representations of algebraic groups.\r\nWe
construct an action of the preprojective CoHA on the A-homology of Nakajima quiver
varieties. We compare this with the action of the Borel subalgebra of Yangian
when A is the intersection theory. We also give a shuffle algebra description
of this CoHA in terms of the underlying formal group law of A. As applications,
we obtain a shuffle description of the Yangian. "
article_processing_charge: No
arxiv: 1
author:
- first_name: Yaping
full_name: Yang, Yaping
last_name: Yang
- first_name: Gufang
full_name: Zhao, Gufang
id: 2BC2AC5E-F248-11E8-B48F-1D18A9856A87
last_name: Zhao
citation:
ama: Yang Y, Zhao G. The cohomological Hall algebra of a preprojective algebra.
Proceedings of the London Mathematical Society. 2018;116(5):1029-1074.
doi:10.1112/plms.12111
apa: Yang, Y., & Zhao, G. (2018). The cohomological Hall algebra of a preprojective
algebra. Proceedings of the London Mathematical Society. Oxford University
Press. https://doi.org/10.1112/plms.12111
chicago: Yang, Yaping, and Gufang Zhao. “The Cohomological Hall Algebra of a Preprojective
Algebra.” Proceedings of the London Mathematical Society. Oxford University
Press, 2018. https://doi.org/10.1112/plms.12111.
ieee: Y. Yang and G. Zhao, “The cohomological Hall algebra of a preprojective algebra,”
Proceedings of the London Mathematical Society, vol. 116, no. 5. Oxford
University Press, pp. 1029–1074, 2018.
ista: Yang Y, Zhao G. 2018. The cohomological Hall algebra of a preprojective algebra.
Proceedings of the London Mathematical Society. 116(5), 1029–1074.
mla: Yang, Yaping, and Gufang Zhao. “The Cohomological Hall Algebra of a Preprojective
Algebra.” Proceedings of the London Mathematical Society, vol. 116, no.
5, Oxford University Press, 2018, pp. 1029–74, doi:10.1112/plms.12111.
short: Y. Yang, G. Zhao, Proceedings of the London Mathematical Society 116 (2018)
1029–1074.
date_created: 2019-02-14T13:14:22Z
date_published: 2018-05-01T00:00:00Z
date_updated: 2023-09-19T14:37:19Z
day: '01'
department:
- _id: TaHa
doi: 10.1112/plms.12111
external_id:
arxiv:
- '1407.7994'
isi:
- '000431506400001'
intvolume: ' 116'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1407.7994
month: '05'
oa: 1
oa_version: Preprint
page: 1029-1074
publication: Proceedings of the London Mathematical Society
publication_identifier:
issn:
- 0024-6115
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: The cohomological Hall algebra of a preprojective algebra
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 116
year: '2018'
...
---
_id: '6'
abstract:
- lang: eng
text: Lesion and electrode location verification are traditionally done via histological
examination of stained brain slices, a time-consuming procedure that requires
manual estimation. Here, we describe a simple, straightforward method for quantifying
lesions and locating electrodes in the brain that is less laborious and yields
more detailed results. Whole brains are stained with osmium tetroxide, embedded
in resin, and imaged with a micro-CT scanner. The scans result in 3D digital volumes
of the brains with resolutions and virtual section thicknesses dependent on the
sample size (12-15 and 5-6 µm per voxel for rat and zebra finch brains, respectively).
Surface and deep lesions can be characterized, and single tetrodes, tetrode arrays,
electrolytic lesions, and silicon probes can also be localized. Free and proprietary
software allows experimenters to examine the sample volume from any plane and
segment the volume manually or automatically. Because this method generates whole
brain volume, lesions and electrodes can be quantified to a much higher degree
than in current methods, which will help standardize comparisons within and across
studies.
article_processing_charge: No
author:
- first_name: Javier
full_name: Masís, Javier
last_name: Masís
- first_name: David
full_name: Mankus, David
last_name: Mankus
- first_name: Steffen
full_name: Wolff, Steffen
last_name: Wolff
- first_name: Grigori
full_name: Guitchounts, Grigori
last_name: Guitchounts
- first_name: Maximilian A
full_name: Jösch, Maximilian A
id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
last_name: Jösch
orcid: 0000-0002-3937-1330
- first_name: David
full_name: Cox, David
last_name: Cox
citation:
ama: Masís J, Mankus D, Wolff S, Guitchounts G, Jösch MA, Cox D. A micro-CT-based
method for characterising lesions and locating electrodes in small animal brains.
Journal of visualized experiments. 2018;141. doi:10.3791/58585
apa: Masís, J., Mankus, D., Wolff, S., Guitchounts, G., Jösch, M. A., & Cox,
D. (2018). A micro-CT-based method for characterising lesions and locating electrodes
in small animal brains. Journal of Visualized Experiments. MyJove Corporation.
https://doi.org/10.3791/58585
chicago: Masís, Javier, David Mankus, Steffen Wolff, Grigori Guitchounts, Maximilian
A Jösch, and David Cox. “A Micro-CT-Based Method for Characterising Lesions and
Locating Electrodes in Small Animal Brains.” Journal of Visualized Experiments.
MyJove Corporation, 2018. https://doi.org/10.3791/58585.
ieee: J. Masís, D. Mankus, S. Wolff, G. Guitchounts, M. A. Jösch, and D. Cox, “A
micro-CT-based method for characterising lesions and locating electrodes in small
animal brains,” Journal of visualized experiments, vol. 141. MyJove Corporation,
2018.
ista: Masís J, Mankus D, Wolff S, Guitchounts G, Jösch MA, Cox D. 2018. A micro-CT-based
method for characterising lesions and locating electrodes in small animal brains.
Journal of visualized experiments. 141.
mla: Masís, Javier, et al. “A Micro-CT-Based Method for Characterising Lesions and
Locating Electrodes in Small Animal Brains.” Journal of Visualized Experiments,
vol. 141, MyJove Corporation, 2018, doi:10.3791/58585.
short: J. Masís, D. Mankus, S. Wolff, G. Guitchounts, M.A. Jösch, D. Cox, Journal
of Visualized Experiments 141 (2018).
date_created: 2018-12-11T11:44:07Z
date_published: 2018-11-08T00:00:00Z
date_updated: 2023-10-17T11:49:25Z
day: '08'
department:
- _id: MaJö
doi: 10.3791/58585
external_id:
isi:
- '000456469400103'
intvolume: ' 141'
isi: 1
language:
- iso: eng
month: '11'
oa_version: None
publication: Journal of visualized experiments
publication_status: published
publisher: MyJove Corporation
publist_id: '8050'
quality_controlled: '1'
scopus_import: '1'
status: public
title: A micro-CT-based method for characterising lesions and locating electrodes
in small animal brains
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 141
year: '2018'
...
---
_id: '60'
abstract:
- lang: eng
text: Model checking is a computer-assisted method for the analysis of dynamical
systems that can be modeled by state-transition systems. Drawing from research
traditions in mathematical logic, programming languages, hardware design, and
theoretical computer science, model checking is now widely used for the verification
of hardware and software in industry. This chapter is an introduction and short
survey of model checking. The chapter aims to motivate and link the individual
chapters of the handbook, and to provide context for readers who are not familiar
with model checking.
author:
- first_name: Edmund
full_name: Clarke, Edmund
last_name: Clarke
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Helmut
full_name: Veith, Helmut
last_name: Veith
citation:
ama: 'Clarke E, Henzinger TA, Veith H. Introduction to model checking. In: Henzinger
TA, ed. Handbook of Model Checking. Handbook of Model Checking. Springer;
2018:1-26. doi:10.1007/978-3-319-10575-8_1'
apa: Clarke, E., Henzinger, T. A., & Veith, H. (2018). Introduction to model
checking. In T. A. Henzinger (Ed.), Handbook of Model Checking (pp. 1–26).
Springer. https://doi.org/10.1007/978-3-319-10575-8_1
chicago: Clarke, Edmund, Thomas A Henzinger, and Helmut Veith. “Introduction to
Model Checking.” In Handbook of Model Checking, edited by Thomas A Henzinger,
1–26. Handbook of Model Checking. Springer, 2018. https://doi.org/10.1007/978-3-319-10575-8_1.
ieee: E. Clarke, T. A. Henzinger, and H. Veith, “Introduction to model checking,”
in Handbook of Model Checking, T. A. Henzinger, Ed. Springer, 2018, pp.
1–26.
ista: 'Clarke E, Henzinger TA, Veith H. 2018.Introduction to model checking. In:
Handbook of Model Checking. , 1–26.'
mla: Clarke, Edmund, et al. “Introduction to Model Checking.” Handbook of Model
Checking, edited by Thomas A Henzinger, Springer, 2018, pp. 1–26, doi:10.1007/978-3-319-10575-8_1.
short: E. Clarke, T.A. Henzinger, H. Veith, in:, T.A. Henzinger (Ed.), Handbook
of Model Checking, Springer, 2018, pp. 1–26.
date_created: 2018-12-11T11:44:25Z
date_published: 2018-05-19T00:00:00Z
date_updated: 2021-01-12T08:05:35Z
day: '19'
department:
- _id: ToHe
doi: 10.1007/978-3-319-10575-8_1
editor:
- first_name: Thomas A
full_name: Henzinger, Thomas A
last_name: Henzinger
language:
- iso: eng
month: '05'
oa_version: None
page: 1 - 26
publication: Handbook of Model Checking
publication_status: published
publisher: Springer
publist_id: '7994'
quality_controlled: '1'
scopus_import: 1
series_title: Handbook of Model Checking
status: public
title: Introduction to model checking
type: book_chapter
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '6001'
abstract:
- lang: eng
text: "The concurrent memory reclamation problem is that of devising a way for a
deallocating thread to verify that no other concurrent threads hold references
to a memory block being deallocated. To date, in the absence of automatic garbage
collection, there is no satisfactory solution to this problem; existing tracking
methods like hazard pointers, reference counters, or epoch-based techniques like
RCU are either prohibitively expensive or require significant programming expertise
to the extent that implementing them efficiently can be worthy of a publication.
None of the existing techniques are automatic or even semi-automated.\r\nIn this
article, we take a new approach to concurrent memory reclamation. Instead of manually
tracking access to memory locations as done in techniques like hazard pointers,
or restricting shared accesses to specific epoch boundaries as in RCU, our algorithm,
called ThreadScan, leverages operating system signaling to automatically detect
which memory locations are being accessed by concurrent threads.\r\nInitial empirical
evidence shows that ThreadScan scales surprisingly well and requires negligible
programming effort beyond the standard use of Malloc and Free."
article_number: '18'
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. ThreadScan: Automatic and
scalable memory reclamation. ACM Transactions on Parallel Computing. 2018;4(4).
doi:10.1145/3201897'
apa: 'Alistarh, D.-A., Leiserson, W., Matveev, A., & Shavit, N. (2018). ThreadScan:
Automatic and scalable memory reclamation. ACM Transactions on Parallel Computing.
Association for Computing Machinery. https://doi.org/10.1145/3201897'
chicago: 'Alistarh, Dan-Adrian, William Leiserson, Alexander Matveev, and Nir Shavit.
“ThreadScan: Automatic and Scalable Memory Reclamation.” ACM Transactions on
Parallel Computing. Association for Computing Machinery, 2018. https://doi.org/10.1145/3201897.'
ieee: 'D.-A. Alistarh, W. Leiserson, A. Matveev, and N. Shavit, “ThreadScan: Automatic
and scalable memory reclamation,” ACM Transactions on Parallel Computing,
vol. 4, no. 4. Association for Computing Machinery, 2018.'
ista: 'Alistarh D-A, Leiserson W, Matveev A, Shavit N. 2018. ThreadScan: Automatic
and scalable memory reclamation. ACM Transactions on Parallel Computing. 4(4),
18.'
mla: 'Alistarh, Dan-Adrian, et al. “ThreadScan: Automatic and Scalable Memory Reclamation.”
ACM Transactions on Parallel Computing, vol. 4, no. 4, 18, Association
for Computing Machinery, 2018, doi:10.1145/3201897.'
short: D.-A. Alistarh, W. Leiserson, A. Matveev, N. Shavit, ACM Transactions on
Parallel Computing 4 (2018).
date_created: 2019-02-14T13:24:11Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2023-02-23T13:17:54Z
day: '01'
department:
- _id: DaAl
doi: 10.1145/3201897
intvolume: ' 4'
issue: '4'
language:
- iso: eng
month: '09'
oa_version: None
publication: ACM Transactions on Parallel Computing
publication_identifier:
issn:
- 2329-4949
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
related_material:
record:
- id: '779'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: 'ThreadScan: Automatic and scalable memory reclamation'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2018'
...
---
_id: '6002'
abstract:
- lang: eng
text: The Bogoliubov free energy functional is analysed. The functional serves as
a model of a translation-invariant Bose gas at positive temperature. We prove
the existence of minimizers in the case of repulsive interactions given by a sufficiently
regular two-body potential. Furthermore, we prove the existence of a phase transition
in this model and provide its phase diagram.
article_processing_charge: No
arxiv: 1
author:
- first_name: Marcin M
full_name: Napiórkowski, Marcin M
id: 4197AD04-F248-11E8-B48F-1D18A9856A87
last_name: Napiórkowski
- first_name: Robin
full_name: Reuvers, Robin
last_name: Reuvers
- first_name: Jan Philip
full_name: Solovej, Jan Philip
last_name: Solovej
citation:
ama: 'Napiórkowski MM, Reuvers R, Solovej JP. The Bogoliubov free energy functional
I: Existence of minimizers and phase diagram. Archive for Rational Mechanics
and Analysis. 2018;229(3):1037-1090. doi:10.1007/s00205-018-1232-6'
apa: 'Napiórkowski, M. M., Reuvers, R., & Solovej, J. P. (2018). The Bogoliubov
free energy functional I: Existence of minimizers and phase diagram. Archive
for Rational Mechanics and Analysis. Springer Nature. https://doi.org/10.1007/s00205-018-1232-6'
chicago: 'Napiórkowski, Marcin M, Robin Reuvers, and Jan Philip Solovej. “The Bogoliubov
Free Energy Functional I: Existence of Minimizers and Phase Diagram.” Archive
for Rational Mechanics and Analysis. Springer Nature, 2018. https://doi.org/10.1007/s00205-018-1232-6.'
ieee: 'M. M. Napiórkowski, R. Reuvers, and J. P. Solovej, “The Bogoliubov free energy
functional I: Existence of minimizers and phase diagram,” Archive for Rational
Mechanics and Analysis, vol. 229, no. 3. Springer Nature, pp. 1037–1090, 2018.'
ista: 'Napiórkowski MM, Reuvers R, Solovej JP. 2018. The Bogoliubov free energy
functional I: Existence of minimizers and phase diagram. Archive for Rational
Mechanics and Analysis. 229(3), 1037–1090.'
mla: 'Napiórkowski, Marcin M., et al. “The Bogoliubov Free Energy Functional I:
Existence of Minimizers and Phase Diagram.” Archive for Rational Mechanics
and Analysis, vol. 229, no. 3, Springer Nature, 2018, pp. 1037–90, doi:10.1007/s00205-018-1232-6.'
short: M.M. Napiórkowski, R. Reuvers, J.P. Solovej, Archive for Rational Mechanics
and Analysis 229 (2018) 1037–1090.
date_created: 2019-02-14T13:40:53Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2023-09-19T14:33:12Z
day: '01'
department:
- _id: RoSe
doi: 10.1007/s00205-018-1232-6
external_id:
arxiv:
- '1511.05935'
isi:
- '000435367300003'
intvolume: ' 229'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1511.05935
month: '09'
oa: 1
oa_version: Preprint
page: 1037-1090
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
publication: Archive for Rational Mechanics and Analysis
publication_identifier:
eissn:
- 1432-0673
issn:
- 0003-9527
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The Bogoliubov free energy functional I: Existence of minimizers and phase
diagram'
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 229
year: '2018'
...
---
_id: '6003'
abstract:
- lang: eng
text: Digital fabrication devices are powerful tools for creating tangible reproductions
of 3D digital models. Most available printing technologies aim at producing an
accurate copy of a tridimensional shape. However, fabrication technologies can
also be used to create a stylistic representation of a digital shape. We refer
to this class of methods as ‘stylized fabrication methods’. These methods abstract
geometric and physical features of a given shape to create an unconventional representation,
to produce an optical illusion or to devise a particular interaction with the
fabricated model. In this state‐of‐the‐art report, we classify and overview this
broad and emerging class of approaches and also propose possible directions for
future research.
article_processing_charge: No
author:
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Paolo
full_name: Cignoni, Paolo
last_name: Cignoni
- first_name: Luigi
full_name: Malomo, Luigi
last_name: Malomo
- first_name: Nico
full_name: Pietroni, Nico
last_name: Pietroni
citation:
ama: Bickel B, Cignoni P, Malomo L, Pietroni N. State of the art on stylized fabrication.
Computer Graphics Forum. 2018;37(6):325-342. doi:10.1111/cgf.13327
apa: Bickel, B., Cignoni, P., Malomo, L., & Pietroni, N. (2018). State of the
art on stylized fabrication. Computer Graphics Forum. Wiley. https://doi.org/10.1111/cgf.13327
chicago: Bickel, Bernd, Paolo Cignoni, Luigi Malomo, and Nico Pietroni. “State of
the Art on Stylized Fabrication.” Computer Graphics Forum. Wiley, 2018.
https://doi.org/10.1111/cgf.13327.
ieee: B. Bickel, P. Cignoni, L. Malomo, and N. Pietroni, “State of the art on stylized
fabrication,” Computer Graphics Forum, vol. 37, no. 6. Wiley, pp. 325–342,
2018.
ista: Bickel B, Cignoni P, Malomo L, Pietroni N. 2018. State of the art on stylized
fabrication. Computer Graphics Forum. 37(6), 325–342.
mla: Bickel, Bernd, et al. “State of the Art on Stylized Fabrication.” Computer
Graphics Forum, vol. 37, no. 6, Wiley, 2018, pp. 325–42, doi:10.1111/cgf.13327.
short: B. Bickel, P. Cignoni, L. Malomo, N. Pietroni, Computer Graphics Forum 37
(2018) 325–342.
date_created: 2019-02-14T13:52:25Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2023-09-19T14:33:40Z
day: '01'
ddc:
- '004'
department:
- _id: BeBi
doi: 10.1111/cgf.13327
ec_funded: 1
external_id:
isi:
- '000437272800019'
file:
- access_level: open_access
checksum: d2bbe5c658d8159fbe9016a4f5e82b19
content_type: application/pdf
creator: kschuh
date_created: 2019-02-14T14:09:28Z
date_updated: 2020-07-14T12:47:15Z
file_id: '6004'
file_name: StylizedFabricationSTAR-Personal.pdf
file_size: 6209349
relation: main_file
file_date_updated: 2020-07-14T12:47:15Z
has_accepted_license: '1'
intvolume: ' 37'
isi: 1
issue: '6'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 325-342
project:
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publication: Computer Graphics Forum
publication_identifier:
issn:
- 0167-7055
publication_status: published
publisher: Wiley
pubrep_id: '1051'
quality_controlled: '1'
scopus_import: '1'
status: public
title: State of the art on stylized fabrication
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 37
year: '2018'
...
---
_id: '6005'
abstract:
- lang: eng
text: Network games are widely used as a model for selfish resource-allocation problems.
In the classicalmodel, each player selects a path connecting her source and target
vertices. The cost of traversingan edge depends on theload; namely, number of
players that traverse it. Thus, it abstracts the factthat different users may
use a resource at different times and for different durations, which playsan important
role in determining the costs of the users in reality. For example, when transmittingpackets
in a communication network, routing traffic in a road network, or processing a
task in aproduction system, actual sharing and congestion of resources crucially
depends on time.In [13], we introducedtimed network games, which add a time component
to network games.Each vertexvin the network is associated with a cost function,
mapping the load onvto theprice that a player pays for staying invfor one time
unit with this load. Each edge in thenetwork is guarded by the time intervals
in which it can be traversed, which forces the players tospend time in the vertices.
In this work we significantly extend the way time can be referred toin timed network
games. In the model we study, the network is equipped withclocks, and, as intimed
automata, edges are guarded by constraints on the values of the clocks, and their
traversalmay involve a reset of some clocks. We argue that the stronger model
captures many realisticnetworks. The addition of clocks breaks the techniques
we developed in [13] and we developnew techniques in order to show that positive
results on classic network games carry over to thestronger timed setting.
alternative_title:
- LIPIcs
article_number: '23'
article_processing_charge: No
author:
- first_name: Guy
full_name: Avni, Guy
id: 463C8BC2-F248-11E8-B48F-1D18A9856A87
last_name: Avni
orcid: 0000-0001-5588-8287
- first_name: Shibashis
full_name: Guha, Shibashis
last_name: Guha
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
citation:
ama: 'Avni G, Guha S, Kupferman O. Timed network games with clocks. In: Vol 117.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:10.4230/LIPICS.MFCS.2018.23'
apa: 'Avni, G., Guha, S., & Kupferman, O. (2018). Timed network games with clocks
(Vol. 117). Presented at the MFCS: Mathematical Foundations of Computer Science,
Liverpool, United Kingdom: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPICS.MFCS.2018.23'
chicago: Avni, Guy, Shibashis Guha, and Orna Kupferman. “Timed Network Games with
Clocks,” Vol. 117. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPICS.MFCS.2018.23.
ieee: 'G. Avni, S. Guha, and O. Kupferman, “Timed network games with clocks,” presented
at the MFCS: Mathematical Foundations of Computer Science, Liverpool, United Kingdom,
2018, vol. 117.'
ista: 'Avni G, Guha S, Kupferman O. 2018. Timed network games with clocks. MFCS:
Mathematical Foundations of Computer Science, LIPIcs, vol. 117, 23.'
mla: Avni, Guy, et al. Timed Network Games with Clocks. Vol. 117, 23, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2018, doi:10.4230/LIPICS.MFCS.2018.23.
short: G. Avni, S. Guha, O. Kupferman, in:, Schloss Dagstuhl - Leibniz-Zentrum für
Informatik, 2018.
conference:
end_date: 2018-08-31
location: Liverpool, United Kingdom
name: 'MFCS: Mathematical Foundations of Computer Science'
start_date: 2018-08-27
date_created: 2019-02-14T14:12:09Z
date_published: 2018-08-01T00:00:00Z
date_updated: 2023-02-23T14:02:58Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.4230/LIPICS.MFCS.2018.23
file:
- access_level: open_access
checksum: 41ab2ae9b63f5eb49fa995250c0ba128
content_type: application/pdf
creator: dernst
date_created: 2019-02-14T14:22:04Z
date_updated: 2020-07-14T12:47:15Z
file_id: '6007'
file_name: 2018_LIPIcs_Avni.pdf
file_size: 542889
relation: main_file
file_date_updated: 2020-07-14T12:47:15Z
has_accepted_license: '1'
intvolume: ' 117'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 264B3912-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02369
name: Formal Methods meets Algorithmic Game Theory
publication_identifier:
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
related_material:
record:
- id: '963'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Timed network games with clocks
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 117
year: '2018'
...
---
_id: '6006'
abstract:
- lang: eng
text: 'Network games (NGs) are played on directed graphs and are extensively used
in network design and analysis. Search problems for NGs include finding special
strategy profiles such as a Nash equilibrium and a globally-optimal solution.
The networks modeled by NGs may be huge. In formal verification, abstraction has
proven to be an extremely effective technique for reasoning about systems with
big and even infinite state spaces. We describe an abstraction-refinement methodology
for reasoning about NGs. Our methodology is based on an abstraction function that
maps the state space of an NG to a much smaller state space. We search for a global
optimum and a Nash equilibrium by reasoning on an under- and an over-approximation
defined on top of this smaller state space. When the approximations are too coarse
to find such profiles, we refine the abstraction function. We extend the abstraction-refinement
methodology to labeled networks, where the objectives of the players are regular
languages. Our experimental results demonstrate the effectiveness of the methodology. '
article_number: '39'
author:
- first_name: Guy
full_name: Avni, Guy
id: 463C8BC2-F248-11E8-B48F-1D18A9856A87
last_name: Avni
orcid: 0000-0001-5588-8287
- first_name: Shibashis
full_name: Guha, Shibashis
last_name: Guha
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
citation:
ama: Avni G, Guha S, Kupferman O. An abstraction-refinement methodology for reasoning
about network games. Games. 2018;9(3). doi:10.3390/g9030039
apa: Avni, G., Guha, S., & Kupferman, O. (2018). An abstraction-refinement methodology
for reasoning about network games. Games. MDPI AG. https://doi.org/10.3390/g9030039
chicago: Avni, Guy, Shibashis Guha, and Orna Kupferman. “An Abstraction-Refinement
Methodology for Reasoning about Network Games.” Games. MDPI AG, 2018. https://doi.org/10.3390/g9030039.
ieee: G. Avni, S. Guha, and O. Kupferman, “An abstraction-refinement methodology
for reasoning about network games,” Games, vol. 9, no. 3. MDPI AG, 2018.
ista: Avni G, Guha S, Kupferman O. 2018. An abstraction-refinement methodology for
reasoning about network games. Games. 9(3), 39.
mla: Avni, Guy, et al. “An Abstraction-Refinement Methodology for Reasoning about
Network Games.” Games, vol. 9, no. 3, 39, MDPI AG, 2018, doi:10.3390/g9030039.
short: G. Avni, S. Guha, O. Kupferman, Games 9 (2018).
date_created: 2019-02-14T14:17:54Z
date_published: 2018-09-01T00:00:00Z
date_updated: 2023-09-22T09:48:59Z
day: '01'
ddc:
- '004'
department:
- _id: ToHe
doi: 10.3390/g9030039
file:
- access_level: open_access
checksum: 749d65ca4ce74256a029d9644a1b1cb0
content_type: application/pdf
creator: kschuh
date_created: 2019-02-14T14:20:31Z
date_updated: 2020-07-14T12:47:16Z
file_id: '6008'
file_name: 2018_MDPI_Avni.pdf
file_size: 505155
relation: main_file
file_date_updated: 2020-07-14T12:47:16Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '3'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 264B3912-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02369
name: Formal Methods meets Algorithmic Game Theory
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
publication: Games
publication_identifier:
issn:
- 2073-4336
publication_status: published
publisher: MDPI AG
quality_controlled: '1'
related_material:
record:
- id: '1003'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: An abstraction-refinement methodology for reasoning about network games
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: 9
year: '2018'
...
---
_id: '6009'
abstract:
- lang: eng
text: "We study algorithmic questions wrt algebraic path properties in concurrent
systems, where the transitions of the system are labeled from a complete, closed
semiring. The algebraic path properties can model dataflow analysis problems,
the shortest path problem, and many other natural problems that arise in program
analysis. We consider that each component of the concurrent system is a graph
with constant treewidth, a property satisfied by the controlflow graphs of most
programs. We allow for multiple possible queries, which arise naturally in demand
driven dataflow analysis. The study of multiple queries allows us to consider
the tradeoff between the resource usage of the one-time preprocessing and for
each individual query. The traditional approach constructs the product graph of
all components and applies the best-known graph algorithm on the product. In this
approach, even the answer to a single query requires the transitive closure (i.e.,
the results of all possible queries), which provides no room for tradeoff between
preprocessing and query time.\r\nOur main contributions are algorithms that significantly
improve the worst-case running time of the traditional approach, and provide various
tradeoffs depending on the number of queries. For example, in a concurrent system
of two components, the traditional approach requires hexic time in the worst case
for answering one query as well as computing the transitive closure, whereas we
show that with one-time preprocessing in almost cubic time, each subsequent query
can be answered in at most linear time, and even the transitive closure can be
computed in almost quartic time. Furthermore, we establish conditional optimality
results showing that the worst-case running time of our algorithms cannot be improved
without achieving major breakthroughs in graph algorithms (i.e., improving the
worst-case bound for the shortest path problem in general graphs). Preliminary
experimental results show that our algorithms perform favorably on several benchmarks.\r\n"
article_number: '9'
article_processing_charge: No
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Rasmus
full_name: Ibsen-Jensen, Rasmus
id: 3B699956-F248-11E8-B48F-1D18A9856A87
last_name: Ibsen-Jensen
orcid: 0000-0003-4783-0389
- first_name: Amir Kafshdar
full_name: Goharshady, Amir Kafshdar
id: 391365CE-F248-11E8-B48F-1D18A9856A87
last_name: Goharshady
orcid: 0000-0003-1702-6584
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
citation:
ama: Chatterjee K, Ibsen-Jensen R, Goharshady AK, Pavlogiannis A. Algorithms for
algebraic path properties in concurrent systems of constant treewidth components.
ACM Transactions on Programming Languages and Systems. 2018;40(3). doi:10.1145/3210257
apa: Chatterjee, K., Ibsen-Jensen, R., Goharshady, A. K., & Pavlogiannis, A.
(2018). Algorithms for algebraic path properties in concurrent systems of constant
treewidth components. ACM Transactions on Programming Languages and Systems.
Association for Computing Machinery (ACM). https://doi.org/10.1145/3210257
chicago: Chatterjee, Krishnendu, Rasmus Ibsen-Jensen, Amir Kafshdar Goharshady,
and Andreas Pavlogiannis. “Algorithms for Algebraic Path Properties in Concurrent
Systems of Constant Treewidth Components.” ACM Transactions on Programming
Languages and Systems. Association for Computing Machinery (ACM), 2018. https://doi.org/10.1145/3210257.
ieee: K. Chatterjee, R. Ibsen-Jensen, A. K. Goharshady, and A. Pavlogiannis, “Algorithms
for algebraic path properties in concurrent systems of constant treewidth components,”
ACM Transactions on Programming Languages and Systems, vol. 40, no. 3.
Association for Computing Machinery (ACM), 2018.
ista: Chatterjee K, Ibsen-Jensen R, Goharshady AK, Pavlogiannis A. 2018. Algorithms
for algebraic path properties in concurrent systems of constant treewidth components.
ACM Transactions on Programming Languages and Systems. 40(3), 9.
mla: Chatterjee, Krishnendu, et al. “Algorithms for Algebraic Path Properties in
Concurrent Systems of Constant Treewidth Components.” ACM Transactions on Programming
Languages and Systems, vol. 40, no. 3, 9, Association for Computing Machinery
(ACM), 2018, doi:10.1145/3210257.
short: K. Chatterjee, R. Ibsen-Jensen, A.K. Goharshady, A. Pavlogiannis, ACM Transactions
on Programming Languages and Systems 40 (2018).
date_created: 2019-02-14T14:31:52Z
date_published: 2018-08-01T00:00:00Z
date_updated: 2024-03-25T23:30:19Z
day: '01'
department:
- _id: KrCh
doi: 10.1145/3210257
ec_funded: 1
external_id:
arxiv:
- '1510.07565'
isi:
- '000444694800001'
intvolume: ' 40'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1510.07565
month: '08'
oa: 1
oa_version: Preprint
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: ACM Transactions on Programming Languages and Systems
publication_identifier:
issn:
- 0164-0925
publication_status: published
publisher: Association for Computing Machinery (ACM)
quality_controlled: '1'
related_material:
record:
- id: '1437'
relation: earlier_version
status: public
- id: '5441'
relation: earlier_version
status: public
- id: '5442'
relation: earlier_version
status: public
- id: '8934'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Algorithms for algebraic path properties in concurrent systems of constant
treewidth components
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 40
year: '2018'
...
---
_id: '6010'
abstract:
- lang: eng
text: The optic tectum (TeO), or superior colliculus, is a multisensory midbrain
center that organizes spatially orienting responses to relevant stimuli. To define
the stimulus with the highest priority at each moment, a network of reciprocal
connections between the TeO and the isthmi promotes competition between concurrent
tectal inputs. In the avian midbrain, the neurons mediating enhancement and suppression
of tectal inputs are located in separate isthmic nuclei, facilitating the analysis
of the neural processes that mediate competition. A specific subset of radial
neurons in the intermediate tectal layers relay retinal inputs to the isthmi,
but at present it is unclear whether separate neurons innervate individual nuclei
or a single neural type sends a common input to several of them. In this study,
we used in vitro neural tracing and cell-filling experiments in chickens to show
that single neurons innervate, via axon collaterals, the three nuclei that comprise
the isthmotectal network. This demonstrates that the input signals representing
the strength of the incoming stimuli are simultaneously relayed to the mechanisms
promoting both enhancement and suppression of the input signals. By performing
in vivo recordings in anesthetized chicks, we also show that this common input
generates synchrony between both antagonistic mechanisms, demonstrating that activity
enhancement and suppression are closely coordinated. From a computational point
of view, these results suggest that these tectal neurons constitute integrative
nodes that combine inputs from different sources to drive in parallel several
concurrent neural processes, each performing complementary functions within the
network through different firing patterns and connectivity.
article_processing_charge: No
author:
- first_name: Florencia
full_name: Garrido-Charad, Florencia
last_name: Garrido-Charad
- first_name: Tomas A
full_name: Vega Zuniga, Tomas A
id: 2E7C4E78-F248-11E8-B48F-1D18A9856A87
last_name: Vega Zuniga
- first_name: Cristián
full_name: Gutiérrez-Ibáñez, Cristián
last_name: Gutiérrez-Ibáñez
- first_name: Pedro
full_name: Fernandez, Pedro
last_name: Fernandez
- first_name: Luciana
full_name: López-Jury, Luciana
last_name: López-Jury
- first_name: Cristian
full_name: González-Cabrera, Cristian
last_name: González-Cabrera
- first_name: Harvey J.
full_name: Karten, Harvey J.
last_name: Karten
- first_name: Harald
full_name: Luksch, Harald
last_name: Luksch
- first_name: Gonzalo J.
full_name: Marín, Gonzalo J.
last_name: Marín
citation:
ama: Garrido-Charad F, Vega Zuniga TA, Gutiérrez-Ibáñez C, et al. “Shepherd’s crook”
neurons drive and synchronize the enhancing and suppressive mechanisms of the
midbrain stimulus selection network. Proceedings of the National Academy of
Sciences. 2018;115(32):E7615-E7623. doi:10.1073/pnas.1804517115
apa: Garrido-Charad, F., Vega Zuniga, T. A., Gutiérrez-Ibáñez, C., Fernandez, P.,
López-Jury, L., González-Cabrera, C., … Marín, G. J. (2018). “Shepherd’s crook”
neurons drive and synchronize the enhancing and suppressive mechanisms of the
midbrain stimulus selection network. Proceedings of the National Academy of
Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1804517115
chicago: Garrido-Charad, Florencia, Tomas A Vega Zuniga, Cristián Gutiérrez-Ibáñez,
Pedro Fernandez, Luciana López-Jury, Cristian González-Cabrera, Harvey J. Karten,
Harald Luksch, and Gonzalo J. Marín. ““Shepherd’s Crook” Neurons Drive and Synchronize
the Enhancing and Suppressive Mechanisms of the Midbrain Stimulus Selection Network.”
Proceedings of the National Academy of Sciences. National Academy of Sciences,
2018. https://doi.org/10.1073/pnas.1804517115.
ieee: F. Garrido-Charad et al., ““Shepherd’s crook” neurons drive and synchronize
the enhancing and suppressive mechanisms of the midbrain stimulus selection network,”
Proceedings of the National Academy of Sciences, vol. 115, no. 32. National
Academy of Sciences, pp. E7615–E7623, 2018.
ista: Garrido-Charad F, Vega Zuniga TA, Gutiérrez-Ibáñez C, Fernandez P, López-Jury
L, González-Cabrera C, Karten HJ, Luksch H, Marín GJ. 2018. “Shepherd’s crook”
neurons drive and synchronize the enhancing and suppressive mechanisms of the
midbrain stimulus selection network. Proceedings of the National Academy of Sciences.
115(32), E7615–E7623.
mla: Garrido-Charad, Florencia, et al. ““Shepherd’s Crook” Neurons Drive and Synchronize
the Enhancing and Suppressive Mechanisms of the Midbrain Stimulus Selection Network.”
Proceedings of the National Academy of Sciences, vol. 115, no. 32, National
Academy of Sciences, 2018, pp. E7615–23, doi:10.1073/pnas.1804517115.
short: F. Garrido-Charad, T.A. Vega Zuniga, C. Gutiérrez-Ibáñez, P. Fernandez, L.
López-Jury, C. González-Cabrera, H.J. Karten, H. Luksch, G.J. Marín, Proceedings
of the National Academy of Sciences 115 (2018) E7615–E7623.
date_created: 2019-02-14T14:33:34Z
date_published: 2018-08-07T00:00:00Z
date_updated: 2023-09-19T14:35:36Z
day: '07'
department:
- _id: MaJö
doi: 10.1073/pnas.1804517115
external_id:
isi:
- '000440982000020'
pmid:
- '30026198'
intvolume: ' 115'
isi: 1
issue: '32'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pubmed/30026198
month: '08'
oa: 1
oa_version: Submitted Version
page: E7615-E7623
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: “Shepherd’s crook” neurons drive and synchronize the enhancing and suppressive
mechanisms of the midbrain stimulus selection network
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 115
year: '2018'
...
---
_id: '6011'
abstract:
- lang: eng
text: 'We establish a data-dependent notion of algorithmic stability for Stochastic
Gradient Descent (SGD), and employ it to develop novel generalization bounds.
This is in contrast to previous distribution-free algorithmic stability results
for SGD which depend on the worst-case constants. By virtue of the data-dependent
argument, our bounds provide new insights into learning with SGD on convex and
non-convex problems. In the convex case, we show that the bound on the generalization
error depends on the risk at the initialization point. In the non-convex case,
we prove that the expected curvature of the objective function around the initialization
point has crucial influence on the generalization error. In both cases, our results
suggest a simple data-driven strategy to stabilize SGD by pre-screening its initialization.
As a corollary, our results allow us to show optimistic generalization bounds
that exhibit fast convergence rates for SGD subject to a vanishing empirical risk
and low noise of stochastic gradient. '
article_processing_charge: No
arxiv: 1
author:
- first_name: Ilja
full_name: Kuzborskij, Ilja
last_name: Kuzborskij
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Kuzborskij I, Lampert C. Data-dependent stability of stochastic gradient descent.
In: Proceedings of the 35 Th International Conference on Machine Learning.
Vol 80. ML Research Press; 2018:2815-2824.'
apa: 'Kuzborskij, I., & Lampert, C. (2018). Data-dependent stability of stochastic
gradient descent. In Proceedings of the 35 th International Conference on Machine
Learning (Vol. 80, pp. 2815–2824). Stockholm, Sweden: ML Research Press.'
chicago: Kuzborskij, Ilja, and Christoph Lampert. “Data-Dependent Stability of Stochastic
Gradient Descent.” In Proceedings of the 35 Th International Conference on
Machine Learning, 80:2815–24. ML Research Press, 2018.
ieee: I. Kuzborskij and C. Lampert, “Data-dependent stability of stochastic gradient
descent,” in Proceedings of the 35 th International Conference on Machine Learning,
Stockholm, Sweden, 2018, vol. 80, pp. 2815–2824.
ista: 'Kuzborskij I, Lampert C. 2018. Data-dependent stability of stochastic gradient
descent. Proceedings of the 35 th International Conference on Machine Learning.
ICML: International Conference on Machine Learning vol. 80, 2815–2824.'
mla: Kuzborskij, Ilja, and Christoph Lampert. “Data-Dependent Stability of Stochastic
Gradient Descent.” Proceedings of the 35 Th International Conference on Machine
Learning, vol. 80, ML Research Press, 2018, pp. 2815–24.
short: I. Kuzborskij, C. Lampert, in:, Proceedings of the 35 Th International Conference
on Machine Learning, ML Research Press, 2018, pp. 2815–2824.
conference:
end_date: 2018-07-15
location: Stockholm, Sweden
name: 'ICML: International Conference on Machine Learning'
start_date: 2018-07-10
date_created: 2019-02-14T14:51:57Z
date_published: 2018-02-01T00:00:00Z
date_updated: 2023-10-17T09:51:13Z
day: '01'
department:
- _id: ChLa
ec_funded: 1
external_id:
arxiv:
- '1703.01678'
isi:
- '000683379202095'
intvolume: ' 80'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1703.01678
month: '02'
oa: 1
oa_version: Preprint
page: 2815-2824
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '308036'
name: Lifelong Learning of Visual Scene Understanding
publication: Proceedings of the 35 th International Conference on Machine Learning
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Data-dependent stability of stochastic gradient descent
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 80
year: '2018'
...
---
_id: '6012'
abstract:
- lang: eng
text: We present an approach to identify concise equations from data using a shallow
neural network approach. In contrast to ordinary black-box regression, this approach
allows understanding functional relations and generalizing them from observed
data to unseen parts of the parameter space. We show how to extend the class of
learnable equations for a recently proposed equation learning network to include
divisions, and we improve the learning and model selection strategy to be useful
for challenging real-world data. For systems governed by analytical expressions,
our method can in many cases identify the true underlying equation and extrapolate
to unseen domains. We demonstrate its effectiveness by experiments on a cart-pendulum
system, where only 2 random rollouts are required to learn the forward dynamics
and successfully achieve the swing-up task.
article_processing_charge: No
arxiv: 1
author:
- first_name: Subham
full_name: Sahoo, Subham
last_name: Sahoo
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Georg S
full_name: Martius, Georg S
id: 3A276B68-F248-11E8-B48F-1D18A9856A87
last_name: Martius
citation:
ama: 'Sahoo S, Lampert C, Martius GS. Learning equations for extrapolation and control.
In: Proceedings of the 35th International Conference on Machine Learning.
Vol 80. ML Research Press; 2018:4442-4450.'
apa: 'Sahoo, S., Lampert, C., & Martius, G. S. (2018). Learning equations for
extrapolation and control. In Proceedings of the 35th International Conference
on Machine Learning (Vol. 80, pp. 4442–4450). Stockholm, Sweden: ML Research
Press.'
chicago: Sahoo, Subham, Christoph Lampert, and Georg S Martius. “Learning Equations
for Extrapolation and Control.” In Proceedings of the 35th International Conference
on Machine Learning, 80:4442–50. ML Research Press, 2018.
ieee: S. Sahoo, C. Lampert, and G. S. Martius, “Learning equations for extrapolation
and control,” in Proceedings of the 35th International Conference on Machine
Learning, Stockholm, Sweden, 2018, vol. 80, pp. 4442–4450.
ista: 'Sahoo S, Lampert C, Martius GS. 2018. Learning equations for extrapolation
and control. Proceedings of the 35th International Conference on Machine Learning.
ICML: International Conference on Machine Learning vol. 80, 4442–4450.'
mla: Sahoo, Subham, et al. “Learning Equations for Extrapolation and Control.” Proceedings
of the 35th International Conference on Machine Learning, vol. 80, ML Research
Press, 2018, pp. 4442–50.
short: S. Sahoo, C. Lampert, G.S. Martius, in:, Proceedings of the 35th International
Conference on Machine Learning, ML Research Press, 2018, pp. 4442–4450.
conference:
end_date: 2018-07-15
location: Stockholm, Sweden
name: 'ICML: International Conference on Machine Learning'
start_date: 2018-07-10
date_created: 2019-02-14T15:21:07Z
date_published: 2018-02-01T00:00:00Z
date_updated: 2023-10-17T09:50:53Z
day: '01'
department:
- _id: ChLa
ec_funded: 1
external_id:
arxiv:
- '1806.07259'
isi:
- '000683379204058'
intvolume: ' 80'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1806.07259
month: '02'
oa: 1
oa_version: Preprint
page: 4442-4450
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Proceedings of the 35th International Conference on Machine Learning
publication_status: published
publisher: ML Research Press
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/first-machine-learning-method-capable-of-accurate-extrapolation/
scopus_import: '1'
status: public
title: Learning equations for extrapolation and control
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 80
year: '2018'
...
---
_id: '6031'
abstract:
- lang: eng
text: We introduce Clover, a new library for efficient computation using low-precision
data, providing mathematical routines required by fundamental methods in optimization
and sparse recovery. Our library faithfully implements variants of stochastic
quantization that guarantee convergence at low precision, and supports data formats
from 4-bit quantized to 32-bit IEEE-754 on current Intel processors. In particular,
we show that 4-bit can be implemented efficiently using Intel AVX despite the
lack of native support for this data format. Experimental results with dot product,
matrix-vector multiplication (MVM), gradient descent (GD), and iterative hard
thresholding (IHT) demonstrate that the attainable speedups are in many cases
close to linear with respect to the reduction of precision due to reduced data
movement. Finally, for GD and IHT, we show examples of absolute speedup achieved
by 4-bit versus 32-bit, by iterating until a given target error is achieved.
article_number: '8598402'
article_processing_charge: No
author:
- first_name: Alen
full_name: Stojanov, Alen
last_name: Stojanov
- first_name: Tyler Michael
full_name: Smith, Tyler Michael
last_name: Smith
- 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: Markus
full_name: Puschel, Markus
last_name: Puschel
citation:
ama: 'Stojanov A, Smith TM, Alistarh D-A, Puschel M. Fast quantized arithmetic on
x86: Trading compute for data movement. In: 2018 IEEE International Workshop
on Signal Processing Systems. Vol 2018-October. IEEE; 2018. doi:10.1109/SiPS.2018.8598402'
apa: 'Stojanov, A., Smith, T. M., Alistarh, D.-A., & Puschel, M. (2018). Fast
quantized arithmetic on x86: Trading compute for data movement. In 2018 IEEE
International Workshop on Signal Processing Systems (Vol. 2018–October). Cape
Town, South Africa: IEEE. https://doi.org/10.1109/SiPS.2018.8598402'
chicago: 'Stojanov, Alen, Tyler Michael Smith, Dan-Adrian Alistarh, and Markus Puschel.
“Fast Quantized Arithmetic on X86: Trading Compute for Data Movement.” In 2018
IEEE International Workshop on Signal Processing Systems, Vol. 2018–October.
IEEE, 2018. https://doi.org/10.1109/SiPS.2018.8598402.'
ieee: 'A. Stojanov, T. M. Smith, D.-A. Alistarh, and M. Puschel, “Fast quantized
arithmetic on x86: Trading compute for data movement,” in 2018 IEEE International
Workshop on Signal Processing Systems, Cape Town, South Africa, 2018, vol.
2018–October.'
ista: 'Stojanov A, Smith TM, Alistarh D-A, Puschel M. 2018. Fast quantized arithmetic
on x86: Trading compute for data movement. 2018 IEEE International Workshop on
Signal Processing Systems. SiPS: Workshop on Signal Processing Systems vol. 2018–October,
8598402.'
mla: 'Stojanov, Alen, et al. “Fast Quantized Arithmetic on X86: Trading Compute
for Data Movement.” 2018 IEEE International Workshop on Signal Processing Systems,
vol. 2018–October, 8598402, IEEE, 2018, doi:10.1109/SiPS.2018.8598402.'
short: A. Stojanov, T.M. Smith, D.-A. Alistarh, M. Puschel, in:, 2018 IEEE International
Workshop on Signal Processing Systems, IEEE, 2018.
conference:
end_date: 2018-10-24
location: Cape Town, South Africa
name: 'SiPS: Workshop on Signal Processing Systems'
start_date: 2018-10-21
date_created: 2019-02-17T22:59:25Z
date_published: 2018-12-31T00:00:00Z
date_updated: 2023-09-19T14:41:51Z
day: '31'
department:
- _id: DaAl
doi: 10.1109/SiPS.2018.8598402
external_id:
isi:
- '000465106800060'
isi: 1
language:
- iso: eng
month: '12'
oa_version: None
publication: 2018 IEEE International Workshop on Signal Processing Systems
publication_status: published
publisher: IEEE
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Fast quantized arithmetic on x86: Trading compute for data movement'
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 2018-October
year: '2018'
...
---
_id: '6032'
abstract:
- lang: eng
text: The main result of this article is a generalization of the classical blossom
algorithm for finding perfect matchings. Our algorithm can efficiently solve Boolean
CSPs where each variable appears in exactly two constraints (we call it edge CSP)
and all constraints are even Δ-matroid relations (represented by lists of tuples).
As a consequence of this, we settle the complexity classification of planar Boolean
CSPs started by Dvorak and Kupec. Using a reduction to even Δ-matroids, we then
extend the tractability result to larger classes of Δ-matroids that we call efficiently
coverable. It properly includes classes that were known to be tractable before,
namely, co-independent, compact, local, linear, and binary, with the following
caveat:We represent Δ-matroids by lists of tuples, while the last two use a representation
by matrices. Since an n ×n matrix can represent exponentially many tuples, our
tractability result is not strictly stronger than the known algorithm for linear
and binary Δ-matroids.
article_number: '22'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alexandr
full_name: Kazda, Alexandr
id: 3B32BAA8-F248-11E8-B48F-1D18A9856A87
last_name: Kazda
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Michal
full_name: Rolinek, Michal
id: 3CB3BC06-F248-11E8-B48F-1D18A9856A87
last_name: Rolinek
citation:
ama: Kazda A, Kolmogorov V, Rolinek M. Even delta-matroids and the complexity of
planar boolean CSPs. ACM Transactions on Algorithms. 2018;15(2). doi:10.1145/3230649
apa: Kazda, A., Kolmogorov, V., & Rolinek, M. (2018). Even delta-matroids and
the complexity of planar boolean CSPs. ACM Transactions on Algorithms.
ACM. https://doi.org/10.1145/3230649
chicago: Kazda, Alexandr, Vladimir Kolmogorov, and Michal Rolinek. “Even Delta-Matroids
and the Complexity of Planar Boolean CSPs.” ACM Transactions on Algorithms.
ACM, 2018. https://doi.org/10.1145/3230649.
ieee: A. Kazda, V. Kolmogorov, and M. Rolinek, “Even delta-matroids and the complexity
of planar boolean CSPs,” ACM Transactions on Algorithms, vol. 15, no. 2.
ACM, 2018.
ista: Kazda A, Kolmogorov V, Rolinek M. 2018. Even delta-matroids and the complexity
of planar boolean CSPs. ACM Transactions on Algorithms. 15(2), 22.
mla: Kazda, Alexandr, et al. “Even Delta-Matroids and the Complexity of Planar Boolean
CSPs.” ACM Transactions on Algorithms, vol. 15, no. 2, 22, ACM, 2018, doi:10.1145/3230649.
short: A. Kazda, V. Kolmogorov, M. Rolinek, ACM Transactions on Algorithms 15 (2018).
date_created: 2019-02-17T22:59:25Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2023-09-20T11:20:26Z
day: '01'
department:
- _id: VlKo
doi: 10.1145/3230649
ec_funded: 1
external_id:
arxiv:
- '1602.03124'
isi:
- '000468036500007'
intvolume: ' 15'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1602.03124
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
publication: ACM Transactions on Algorithms
publication_status: published
publisher: ACM
quality_controlled: '1'
related_material:
record:
- id: '1192'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Even delta-matroids and the complexity of planar boolean CSPs
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 15
year: '2018'
...