---
_id: '1175'
abstract:
- lang: eng
text: We study space complexity and time-space trade-offs with a focus not on peak
memory usage but on overall memory consumption throughout the computation. Such
a cumulative space measure was introduced for the computational model of parallel
black pebbling by [Alwen and Serbinenko ’15] as a tool for obtaining results in
cryptography. We consider instead the non- deterministic black-white pebble game
and prove optimal cumulative space lower bounds and trade-offs, where in order
to minimize pebbling time the space has to remain large during a significant fraction
of the pebbling. We also initiate the study of cumulative space in proof complexity,
an area where other space complexity measures have been extensively studied during
the last 10–15 years. Using and extending the connection between proof complexity
and pebble games in [Ben-Sasson and Nordström ’08, ’11] we obtain several strong
cumulative space results for (even parallel versions of) the resolution proof
system, and outline some possible future directions of study of this, in our opinion,
natural and interesting space measure.
alternative_title:
- LIPIcs
author:
- first_name: Joel F
full_name: Alwen, Joel F
id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87
last_name: Alwen
- first_name: Susanna
full_name: De Rezende, Susanna
last_name: De Rezende
- first_name: Jakob
full_name: Nordstrom, Jakob
last_name: Nordstrom
- first_name: Marc
full_name: Vinyals, Marc
last_name: Vinyals
citation:
ama: 'Alwen JF, De Rezende S, Nordstrom J, Vinyals M. Cumulative space in black-white
pebbling and resolution. In: Papadimitriou C, ed. Vol 67. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik; 2017:38:1-38-21. doi:10.4230/LIPIcs.ITCS.2017.38'
apa: 'Alwen, J. F., De Rezende, S., Nordstrom, J., & Vinyals, M. (2017). Cumulative
space in black-white pebbling and resolution. In C. Papadimitriou (Ed.) (Vol.
67, p. 38:1-38-21). Presented at the ITCS: Innovations in Theoretical Computer
Science, Berkeley, CA, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik.
https://doi.org/10.4230/LIPIcs.ITCS.2017.38'
chicago: Alwen, Joel F, Susanna De Rezende, Jakob Nordstrom, and Marc Vinyals. “Cumulative
Space in Black-White Pebbling and Resolution.” edited by Christos Papadimitriou,
67:38:1-38-21. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017. https://doi.org/10.4230/LIPIcs.ITCS.2017.38.
ieee: 'J. F. Alwen, S. De Rezende, J. Nordstrom, and M. Vinyals, “Cumulative space
in black-white pebbling and resolution,” presented at the ITCS: Innovations in
Theoretical Computer Science, Berkeley, CA, United States, 2017, vol. 67, p. 38:1-38-21.'
ista: 'Alwen JF, De Rezende S, Nordstrom J, Vinyals M. 2017. Cumulative space in
black-white pebbling and resolution. ITCS: Innovations in Theoretical Computer
Science, LIPIcs, vol. 67, 38:1-38-21.'
mla: Alwen, Joel F., et al. Cumulative Space in Black-White Pebbling and Resolution.
Edited by Christos Papadimitriou, vol. 67, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2017, p. 38:1-38-21, doi:10.4230/LIPIcs.ITCS.2017.38.
short: J.F. Alwen, S. De Rezende, J. Nordstrom, M. Vinyals, in:, C. Papadimitriou
(Ed.), Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2017, p. 38:1-38-21.
conference:
end_date: 2017-01-11
location: Berkeley, CA, United States
name: 'ITCS: Innovations in Theoretical Computer Science'
start_date: 2017-01-09
date_created: 2018-12-11T11:50:33Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T06:48:51Z
day: '01'
ddc:
- '005'
- '600'
department:
- _id: KrPi
doi: 10.4230/LIPIcs.ITCS.2017.38
editor:
- first_name: Christos
full_name: Papadimitriou, Christos
last_name: Papadimitriou
file:
- access_level: open_access
checksum: dbc94810be07c2fb1945d5c2a6130e6c
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:11Z
date_updated: 2020-07-14T12:44:37Z
file_id: '5263'
file_name: IST-2018-927-v1+1_LIPIcs-ITCS-2017-38.pdf
file_size: 557769
relation: main_file
file_date_updated: 2020-07-14T12:44:37Z
has_accepted_license: '1'
intvolume: ' 67'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 38:1-38-21
publication_identifier:
issn:
- '18688969'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '6179'
pubrep_id: '927'
quality_controlled: '1'
scopus_import: 1
status: public
title: Cumulative space in black-white pebbling and resolution
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: 67
year: '2017'
...
---
_id: '1191'
abstract:
- lang: eng
text: Variation in genotypes may be responsible for differences in dispersal rates,
directional biases, and growth rates of individuals. These traits may favor certain
genotypes and enhance their spatiotemporal spreading into areas occupied by the
less advantageous genotypes. We study how these factors influence the speed of
spreading in the case of two competing genotypes under the assumption that spatial
variation of the total population is small compared to the spatial variation of
the frequencies of the genotypes in the population. In that case, the dynamics
of the frequency of one of the genotypes is approximately described by a generalized
Fisher–Kolmogorov–Petrovskii–Piskunov (F–KPP) equation. This generalized F–KPP
equation with (nonlinear) frequency-dependent diffusion and advection terms admits
traveling wave solutions that characterize the invasion of the dominant genotype.
Our existence results generalize the classical theory for traveling waves for
the F–KPP with constant coefficients. Moreover, in the particular case of the
quadratic (monostable) nonlinear growth–decay rate in the generalized F–KPP we
study in detail the influence of the variance in diffusion and mean displacement
rates of the two genotypes on the minimal wave propagation speed.
acknowledgement: "We thank Nick Barton, Katarína Bod’ová, and Sr\r\n-\r\ndan Sarikas
for constructive feed-\r\nback and support. Furthermore, we would like to express
our deep gratitude to the anonymous referees (one\r\nof whom, Jimmy Garnier, agreed
to reveal his identity) and the editor Max Souza, for very helpful and\r\ndetailed
comments and suggestions that significantly helped us to improve the manuscript.
This project has\r\nreceived funding from the European Union’s Seventh Framework
Programme for research, technological\r\ndevelopment and demonstration under Grant
Agreement 618091 Speed of Adaptation in Population Genet-\r\nics and Evolutionary
Computation (SAGE) and the European Research Council (ERC) Grant No. 250152\r\n(SN),
from the Scientific Grant Agency of the Slovak Republic under the Grant 1/0459/13
and by the Slovak\r\nResearch and Development Agency under the Contract No. APVV-14-0378
(RK). RK would also like to\r\nthank IST Austria for its hospitality during the
work on this project."
author:
- first_name: Richard
full_name: Kollár, Richard
last_name: Kollár
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
citation:
ama: Kollár R, Novak S. Existence of traveling waves for the generalized F–KPP equation.
Bulletin of Mathematical Biology. 2017;79(3):525-559. doi:10.1007/s11538-016-0244-3
apa: Kollár, R., & Novak, S. (2017). Existence of traveling waves for the generalized
F–KPP equation. Bulletin of Mathematical Biology. Springer. https://doi.org/10.1007/s11538-016-0244-3
chicago: Kollár, Richard, and Sebastian Novak. “Existence of Traveling Waves for
the Generalized F–KPP Equation.” Bulletin of Mathematical Biology. Springer,
2017. https://doi.org/10.1007/s11538-016-0244-3.
ieee: R. Kollár and S. Novak, “Existence of traveling waves for the generalized
F–KPP equation,” Bulletin of Mathematical Biology, vol. 79, no. 3. Springer,
pp. 525–559, 2017.
ista: Kollár R, Novak S. 2017. Existence of traveling waves for the generalized
F–KPP equation. Bulletin of Mathematical Biology. 79(3), 525–559.
mla: Kollár, Richard, and Sebastian Novak. “Existence of Traveling Waves for the
Generalized F–KPP Equation.” Bulletin of Mathematical Biology, vol. 79,
no. 3, Springer, 2017, pp. 525–59, doi:10.1007/s11538-016-0244-3.
short: R. Kollár, S. Novak, Bulletin of Mathematical Biology 79 (2017) 525–559.
date_created: 2018-12-11T11:50:38Z
date_published: 2017-03-01T00:00:00Z
date_updated: 2021-01-12T06:48:58Z
day: '01'
department:
- _id: NiBa
doi: 10.1007/s11538-016-0244-3
ec_funded: 1
intvolume: ' 79'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.00944
month: '03'
oa: 1
oa_version: Preprint
page: 525-559
project:
- _id: 25B1EC9E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618091'
name: Speed of Adaptation in Population Genetics and Evolutionary Computation
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Bulletin of Mathematical Biology
publication_status: published
publisher: Springer
publist_id: '6160'
quality_controlled: '1'
scopus_import: 1
status: public
title: Existence of traveling waves for the generalized F–KPP equation
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 79
year: '2017'
...
---
_id: '1211'
abstract:
- lang: eng
text: Systems such as fluid flows in channels and pipes or the complex Ginzburg–Landau
system, defined over periodic domains, exhibit both continuous symmetries, translational
and rotational, as well as discrete symmetries under spatial reflections or complex
conjugation. The simplest, and very common symmetry of this type is the equivariance
of the defining equations under the orthogonal group O(2). We formulate a novel
symmetry reduction scheme for such systems by combining the method of slices with
invariant polynomial methods, and show how it works by applying it to the Kuramoto–Sivashinsky
system in one spatial dimension. As an example, we track a relative periodic orbit
through a sequence of bifurcations to the onset of chaos. Within the symmetry-reduced
state space we are able to compute and visualize the unstable manifolds of relative
periodic orbits, their torus bifurcations, a transition to chaos via torus breakdown,
and heteroclinic connections between various relative periodic orbits. It would
be very hard to carry through such analysis in the full state space, without a
symmetry reduction such as the one we present here.
acknowledgement: 'This work was supported by the family of late G. Robinson, Jr. and
NSF Grant DMS-1211827. '
author:
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
- first_name: Predrag
full_name: Cvitanović, Predrag
last_name: Cvitanović
citation:
ama: Budanur NB, Cvitanović P. Unstable manifolds of relative periodic orbits in
the symmetry reduced state space of the Kuramoto–Sivashinsky system. Journal
of Statistical Physics. 2017;167(3-4):636-655. doi:10.1007/s10955-016-1672-z
apa: Budanur, N. B., & Cvitanović, P. (2017). Unstable manifolds of relative
periodic orbits in the symmetry reduced state space of the Kuramoto–Sivashinsky
system. Journal of Statistical Physics. Springer. https://doi.org/10.1007/s10955-016-1672-z
chicago: Budanur, Nazmi B, and Predrag Cvitanović. “Unstable Manifolds of Relative
Periodic Orbits in the Symmetry Reduced State Space of the Kuramoto–Sivashinsky
System.” Journal of Statistical Physics. Springer, 2017. https://doi.org/10.1007/s10955-016-1672-z.
ieee: N. B. Budanur and P. Cvitanović, “Unstable manifolds of relative periodic
orbits in the symmetry reduced state space of the Kuramoto–Sivashinsky system,”
Journal of Statistical Physics, vol. 167, no. 3–4. Springer, pp. 636–655,
2017.
ista: Budanur NB, Cvitanović P. 2017. Unstable manifolds of relative periodic orbits
in the symmetry reduced state space of the Kuramoto–Sivashinsky system. Journal
of Statistical Physics. 167(3–4), 636–655.
mla: Budanur, Nazmi B., and Predrag Cvitanović. “Unstable Manifolds of Relative
Periodic Orbits in the Symmetry Reduced State Space of the Kuramoto–Sivashinsky
System.” Journal of Statistical Physics, vol. 167, no. 3–4, Springer, 2017,
pp. 636–55, doi:10.1007/s10955-016-1672-z.
short: N.B. Budanur, P. Cvitanović, Journal of Statistical Physics 167 (2017) 636–655.
date_created: 2018-12-11T11:50:44Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2021-01-12T06:49:07Z
day: '01'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.1007/s10955-016-1672-z
file:
- access_level: open_access
checksum: 3e971d09eb167761aa0888ed415b0056
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:01Z
date_updated: 2020-07-14T12:44:39Z
file_id: '5319'
file_name: IST-2017-782-v1+1_BudCvi15.pdf
file_size: 2820207
relation: main_file
file_date_updated: 2020-07-14T12:44:39Z
has_accepted_license: '1'
intvolume: ' 167'
issue: 3-4
language:
- iso: eng
month: '05'
oa: 1
oa_version: Submitted Version
page: 636-655
publication: Journal of Statistical Physics
publication_status: published
publisher: Springer
publist_id: '6136'
pubrep_id: '782'
quality_controlled: '1'
scopus_import: 1
status: public
title: Unstable manifolds of relative periodic orbits in the symmetry reduced state
space of the Kuramoto–Sivashinsky system
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 167
year: '2017'
...
---
_id: '1113'
abstract:
- lang: eng
text: 'A drawing of a graph G is radial if the vertices of G are placed on concentric
circles C 1 , . . . , C k with common center c , and edges are drawn radially
: every edge intersects every circle centered at c at most once. G is radial planar
if it has a radial embedding, that is, a crossing-free radial drawing. If the
vertices of G are ordered or partitioned into ordered levels (as they are for
leveled graphs), we require that the assignment of vertices to circles corresponds
to the given ordering or leveling. We show that a graph G is radial planar if
G has a radial drawing in which every two edges cross an even number of times;
the radial embedding has the same leveling as the radial drawing. In other words,
we establish the weak variant of the Hanani-Tutte theorem for radial planarity.
This generalizes a result by Pach and Toth.'
article_processing_charge: No
article_type: original
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Michael
full_name: Pelsmajer, Michael
last_name: Pelsmajer
- first_name: Marcus
full_name: Schaefer, Marcus
last_name: Schaefer
citation:
ama: Fulek R, Pelsmajer M, Schaefer M. Hanani-Tutte for radial planarity. Journal
of Graph Algorithms and Applications. 2017;21(1):135-154. doi:10.7155/jgaa.00408
apa: Fulek, R., Pelsmajer, M., & Schaefer, M. (2017). Hanani-Tutte for radial
planarity. Journal of Graph Algorithms and Applications. Brown University.
https://doi.org/10.7155/jgaa.00408
chicago: Fulek, Radoslav, Michael Pelsmajer, and Marcus Schaefer. “Hanani-Tutte
for Radial Planarity.” Journal of Graph Algorithms and Applications. Brown
University, 2017. https://doi.org/10.7155/jgaa.00408.
ieee: R. Fulek, M. Pelsmajer, and M. Schaefer, “Hanani-Tutte for radial planarity,”
Journal of Graph Algorithms and Applications, vol. 21, no. 1. Brown University,
pp. 135–154, 2017.
ista: Fulek R, Pelsmajer M, Schaefer M. 2017. Hanani-Tutte for radial planarity.
Journal of Graph Algorithms and Applications. 21(1), 135–154.
mla: Fulek, Radoslav, et al. “Hanani-Tutte for Radial Planarity.” Journal of
Graph Algorithms and Applications, vol. 21, no. 1, Brown University, 2017,
pp. 135–54, doi:10.7155/jgaa.00408.
short: R. Fulek, M. Pelsmajer, M. Schaefer, Journal of Graph Algorithms and Applications
21 (2017) 135–154.
date_created: 2018-12-11T11:50:13Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2023-02-23T10:05:57Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.7155/jgaa.00408
ec_funded: 1
external_id:
arxiv:
- '1608.08662'
file:
- access_level: open_access
content_type: application/pdf
creator: dernst
date_created: 2019-10-24T10:54:37Z
date_updated: 2019-10-24T10:54:37Z
file_id: '6967'
file_name: 2017_JournalGraphAlgorithms_Fulek.pdf
file_size: 573623
relation: main_file
success: 1
file_date_updated: 2019-10-24T10:54:37Z
has_accepted_license: '1'
intvolume: ' 21'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 135 - 154
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Journal of Graph Algorithms and Applications
publication_status: published
publisher: Brown University
publist_id: '6254'
quality_controlled: '1'
related_material:
record:
- id: '1164'
relation: earlier_version
status: public
- id: '1595'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Hanani-Tutte for radial planarity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2017'
...
---
_id: '444'
abstract:
- lang: eng
text: Complex I (NADH:ubiquinone oxidoreductase) plays a central role in cellular
energy generation, contributing to the proton motive force used to produce ATP.
It couples the transfer of two electrons between NADH and quinone to translocation
of four protons across the membrane. It is the largest protein assembly of bacterial
and mitochondrial respiratory chains, composed, in mammals, of up to 45 subunits
with a total molecular weight of ∼1 MDa. Bacterial enzyme is about half the size,
providing the important “minimal” model of complex I. The l-shaped complex consists
of a hydrophilic arm, where electron transfer occurs, and a membrane arm, where
proton translocation takes place. Previously, we have solved the crystal structures
of the hydrophilic domain of complex I from Thermus thermophilus and of the membrane
domain from Escherichia coli, followed by the atomic structure of intact, entire
complex I from T. thermophilus. Recently, we have solved by cryo-EM a first complete
atomic structure of mammalian (ovine) mitochondrial complex I. Core subunits are
well conserved from the bacterial version, whilst supernumerary subunits form
an interlinked, stabilizing shell around the core. Subunits containing additional
cofactors, including Zn ion, NADPH and phosphopantetheine, probably have regulatory
roles. Dysfunction of mitochondrial complex I is implicated in many human neurodegenerative
diseases. The structure of mammalian enzyme provides many insights into complex
I mechanism, assembly, maturation and dysfunction, allowing detailed molecular
analysis of disease-causing mutations.
author:
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: 'Sazanov LA. Structure of respiratory complex I: “Minimal” bacterial and “de
luxe” mammalian versions. In: Wikström M, ed. Mechanisms of Primary Energy
Transduction in Biology . Mechanisms of Primary Energy Transduction in Biology
. Royal Society of Chemistry; 2017:25-59. doi:10.1039/9781788010405-00025'
apa: 'Sazanov, L. A. (2017). Structure of respiratory complex I: “Minimal” bacterial
and “de luxe” mammalian versions. In M. Wikström (Ed.), Mechanisms of primary
energy transduction in biology (pp. 25–59). Royal Society of Chemistry. https://doi.org/10.1039/9781788010405-00025'
chicago: 'Sazanov, Leonid A. “Structure of Respiratory Complex I: ‘Minimal’ Bacterial
and ‘de Luxe’ Mammalian Versions.” In Mechanisms of Primary Energy Transduction
in Biology , edited by Mårten Wikström, 25–59. Mechanisms of Primary Energy
Transduction in Biology . Royal Society of Chemistry, 2017. https://doi.org/10.1039/9781788010405-00025.'
ieee: 'L. A. Sazanov, “Structure of respiratory complex I: ‘Minimal’ bacterial and
‘de luxe’ mammalian versions,” in Mechanisms of primary energy transduction
in biology , M. Wikström, Ed. Royal Society of Chemistry, 2017, pp. 25–59.'
ista: 'Sazanov LA. 2017.Structure of respiratory complex I: “Minimal” bacterial
and “de luxe” mammalian versions. In: Mechanisms of primary energy transduction
in biology . , 25–59.'
mla: 'Sazanov, Leonid A. “Structure of Respiratory Complex I: ‘Minimal’ Bacterial
and ‘de Luxe’ Mammalian Versions.” Mechanisms of Primary Energy Transduction
in Biology , edited by Mårten Wikström, Royal Society of Chemistry, 2017,
pp. 25–59, doi:10.1039/9781788010405-00025.'
short: L.A. Sazanov, in:, M. Wikström (Ed.), Mechanisms of Primary Energy Transduction
in Biology , Royal Society of Chemistry, 2017, pp. 25–59.
date_created: 2018-12-11T11:46:30Z
date_published: 2017-11-29T00:00:00Z
date_updated: 2021-01-12T07:56:59Z
day: '29'
department:
- _id: LeSa
doi: 10.1039/9781788010405-00025
editor:
- first_name: Mårten
full_name: Wikström, Mårten
last_name: Wikström
language:
- iso: eng
month: '11'
oa_version: None
page: 25 - 59
publication: 'Mechanisms of primary energy transduction in biology '
publication_identifier:
isbn:
- 978-1-78262-865-1
publication_status: published
publisher: Royal Society of Chemistry
publist_id: '7379'
quality_controlled: '1'
series_title: 'Mechanisms of Primary Energy Transduction in Biology '
status: public
title: 'Structure of respiratory complex I: “Minimal” bacterial and “de luxe” mammalian
versions'
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '453'
abstract:
- lang: eng
text: Most kinesin motors move in only one direction along microtubules. Members
of the kinesin-5 subfamily were initially described as unidirectional plus-end-directed
motors and shown to produce piconewton forces. However, some fungal kinesin-5
motors are bidirectional. The force production of a bidirectional kinesin-5 has
not yet been measured. Therefore, it remains unknown whether the mechanism of
the unconventional minus-end-directed motility differs fundamentally from that
of plus-end-directed stepping. Using force spectroscopy, we have measured here
the forces that ensembles of purified budding yeast kinesin-5 Cin8 produce in
microtubule gliding assays in both plus- and minus-end direction. Correlation
analysis of pause forces demonstrated that individual Cin8 molecules produce additive
forces in both directions of movement. In ensembles, Cin8 motors were able to
produce single-motor forces up to a magnitude of ∼1.5 pN. Hence, these properties
appear to be conserved within the kinesin-5 subfamily. Force production was largely
independent of the directionality of movement, indicating similarities between
the motility mechanisms for both directions. These results provide constraints
for the development of models for the bidirectional motility mechanism of fission
yeast kinesin-5 and provide insight into the function of this mitotic motor.
acknowledgement: 'The plasmid for full-length kinesin-1 was a gift from G. Holzwarth
and J. Macosko with permission from J. Howard. We thank I. Lueke and N. I. Cade
for technical assistance. G.P. thanks the Francis Crick Institute, and in particular
the Surrey and Salbreux groups, for their hospitality during his sabbatical stay,
as well as Imperial College London for making it possible. This work was supported
by the Francis Crick Institute, which receives its core funding from Cancer Research
UK (FC001163), the United Kingdom Medical Research Council (FC001163), and the Wellcome
Trust (FC001163), and by Imperial College London. J.R. was also supported by a Sir
Henry Wellcome Postdoctoral Fellowship (100145/Z/12/Z) and T.S. by the European
Research Council (Advanced Grant, project 323042). '
article_processing_charge: No
article_type: original
author:
- first_name: Todd
full_name: Fallesen, Todd
last_name: Fallesen
- first_name: Johanna
full_name: Roostalu, Johanna
last_name: Roostalu
- first_name: Christian F
full_name: Düllberg, Christian F
id: 459064DC-F248-11E8-B48F-1D18A9856A87
last_name: Düllberg
orcid: 0000-0001-6335-9748
- first_name: Gunnar
full_name: Pruessner, Gunnar
last_name: Pruessner
- first_name: Thomas
full_name: Surrey, Thomas
last_name: Surrey
citation:
ama: Fallesen T, Roostalu J, Düllberg CF, Pruessner G, Surrey T. Ensembles of bidirectional
kinesin Cin8 produce additive forces in both directions of movement. Biophysical
Journal. 2017;113(9):2055-2067. doi:10.1016/j.bpj.2017.09.006
apa: Fallesen, T., Roostalu, J., Düllberg, C. F., Pruessner, G., & Surrey, T.
(2017). Ensembles of bidirectional kinesin Cin8 produce additive forces in both
directions of movement. Biophysical Journal. Biophysical Society. https://doi.org/10.1016/j.bpj.2017.09.006
chicago: Fallesen, Todd, Johanna Roostalu, Christian F Düllberg, Gunnar Pruessner,
and Thomas Surrey. “Ensembles of Bidirectional Kinesin Cin8 Produce Additive Forces
in Both Directions of Movement.” Biophysical Journal. Biophysical Society,
2017. https://doi.org/10.1016/j.bpj.2017.09.006.
ieee: T. Fallesen, J. Roostalu, C. F. Düllberg, G. Pruessner, and T. Surrey, “Ensembles
of bidirectional kinesin Cin8 produce additive forces in both directions of movement,”
Biophysical Journal, vol. 113, no. 9. Biophysical Society, pp. 2055–2067,
2017.
ista: Fallesen T, Roostalu J, Düllberg CF, Pruessner G, Surrey T. 2017. Ensembles
of bidirectional kinesin Cin8 produce additive forces in both directions of movement.
Biophysical Journal. 113(9), 2055–2067.
mla: Fallesen, Todd, et al. “Ensembles of Bidirectional Kinesin Cin8 Produce Additive
Forces in Both Directions of Movement.” Biophysical Journal, vol. 113,
no. 9, Biophysical Society, 2017, pp. 2055–67, doi:10.1016/j.bpj.2017.09.006.
short: T. Fallesen, J. Roostalu, C.F. Düllberg, G. Pruessner, T. Surrey, Biophysical
Journal 113 (2017) 2055–2067.
date_created: 2018-12-11T11:46:33Z
date_published: 2017-11-07T00:00:00Z
date_updated: 2021-01-12T07:59:28Z
day: '07'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.bpj.2017.09.006
file:
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checksum: 99a2474088e20ac74b1882c4fbbb45b1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:03Z
date_updated: 2020-07-14T12:46:31Z
file_id: '5052'
file_name: IST-2018-965-v1+1_2017_Duellberg_Ensembles_of.pdf
file_size: 977192
relation: main_file
file_date_updated: 2020-07-14T12:46:31Z
has_accepted_license: '1'
intvolume: ' 113'
issue: '9'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 2055 - 2067
publication: Biophysical Journal
publication_status: published
publisher: Biophysical Society
publist_id: '7369'
pubrep_id: '965'
quality_controlled: '1'
status: public
title: Ensembles of bidirectional kinesin Cin8 produce additive forces in both directions
of movement
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: 113
year: '2017'
...
---
_id: '464'
abstract:
- lang: eng
text: The computation of the winning set for parity objectives and for Streett objectives
in graphs as well as in game graphs are central problems in computer-aided verification,
with application to the verification of closed systems with strong fairness conditions,
the verification of open systems, checking interface compatibility, well-formedness
of specifications, and the synthesis of reactive systems. We show how to compute
the winning set on n vertices for (1) parity-3 (aka one-pair Streett) objectives
in game graphs in time O(n5/2) and for (2) k-pair Streett objectives in graphs
in time O(n2+nklogn). For both problems this gives faster algorithms for dense
graphs and represents the first improvement in asymptotic running time in 15 years.
article_number: '26'
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Veronika
full_name: Loitzenbauer, Veronika
last_name: Loitzenbauer
citation:
ama: Chatterjee K, Henzinger MH, Loitzenbauer V. Improved algorithms for parity
and Streett objectives. Logical Methods in Computer Science. 2017;13(3).
doi:10.23638/LMCS-13(3:26)2017
apa: Chatterjee, K., Henzinger, M. H., & Loitzenbauer, V. (2017). Improved algorithms
for parity and Streett objectives. Logical Methods in Computer Science.
International Federation of Computational Logic. https://doi.org/10.23638/LMCS-13(3:26)2017
chicago: Chatterjee, Krishnendu, Monika H Henzinger, and Veronika Loitzenbauer.
“Improved Algorithms for Parity and Streett Objectives.” Logical Methods in
Computer Science. International Federation of Computational Logic, 2017. https://doi.org/10.23638/LMCS-13(3:26)2017.
ieee: K. Chatterjee, M. H. Henzinger, and V. Loitzenbauer, “Improved algorithms
for parity and Streett objectives,” Logical Methods in Computer Science,
vol. 13, no. 3. International Federation of Computational Logic, 2017.
ista: Chatterjee K, Henzinger MH, Loitzenbauer V. 2017. Improved algorithms for
parity and Streett objectives. Logical Methods in Computer Science. 13(3), 26.
mla: Chatterjee, Krishnendu, et al. “Improved Algorithms for Parity and Streett
Objectives.” Logical Methods in Computer Science, vol. 13, no. 3, 26, International
Federation of Computational Logic, 2017, doi:10.23638/LMCS-13(3:26)2017.
short: K. Chatterjee, M.H. Henzinger, V. Loitzenbauer, Logical Methods in Computer
Science 13 (2017).
date_created: 2018-12-11T11:46:37Z
date_published: 2017-09-26T00:00:00Z
date_updated: 2023-02-23T10:08:55Z
day: '26'
ddc:
- '004'
department:
- _id: KrCh
doi: 10.23638/LMCS-13(3:26)2017
ec_funded: 1
external_id:
arxiv:
- '1410.0833'
file:
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checksum: 12d469ae69b80361333d7dead965cf5d
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creator: system
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file_id: '5010'
file_name: IST-2018-956-v1+1_2017_Chatterjee_Improved_algorithms.pdf
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file_date_updated: 2020-07-14T12:46:32Z
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issue: '3'
language:
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license: https://creativecommons.org/licenses/by-nd/4.0/
month: '09'
oa: 1
oa_version: Published Version
project:
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call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Logical Methods in Computer Science
publication_identifier:
issn:
- 1860-5974
publication_status: published
publisher: International Federation of Computational Logic
publist_id: '7357'
pubrep_id: '956'
quality_controlled: '1'
related_material:
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scopus_import: '1'
status: public
title: Improved algorithms for parity and Streett objectives
tmp:
image: /image/cc_by_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nd/4.0/legalcode
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short: CC BY-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '470'
abstract:
- lang: eng
text: This paper presents a method for simulating water surface waves as a displacement
field on a 2D domain. Our method relies on Lagrangian particles that carry packets
of water wave energy; each packet carries information about an entire group of
wave trains, as opposed to only a single wave crest. Our approach is unconditionally
stable and can simulate high resolution geometric details. This approach also
presents a straightforward interface for artistic control, because it is essentially
a particle system with intuitive parameters like wavelength and amplitude. Our
implementation parallelizes well and runs in real time for moderately challenging
scenarios.
acknowledged_ssus:
- _id: ScienComp
article_number: '103'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Stefan
full_name: Jeschke, Stefan
id: 44D6411A-F248-11E8-B48F-1D18A9856A87
last_name: Jeschke
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
citation:
ama: Jeschke S, Wojtan C. Water wave packets. ACM Transactions on Graphics.
2017;36(4). doi:10.1145/3072959.3073678
apa: Jeschke, S., & Wojtan, C. (2017). Water wave packets. ACM Transactions
on Graphics. ACM. https://doi.org/10.1145/3072959.3073678
chicago: Jeschke, Stefan, and Chris Wojtan. “Water Wave Packets.” ACM Transactions
on Graphics. ACM, 2017. https://doi.org/10.1145/3072959.3073678.
ieee: S. Jeschke and C. Wojtan, “Water wave packets,” ACM Transactions on Graphics,
vol. 36, no. 4. ACM, 2017.
ista: Jeschke S, Wojtan C. 2017. Water wave packets. ACM Transactions on Graphics.
36(4), 103.
mla: Jeschke, Stefan, and Chris Wojtan. “Water Wave Packets.” ACM Transactions
on Graphics, vol. 36, no. 4, 103, ACM, 2017, doi:10.1145/3072959.3073678.
short: S. Jeschke, C. Wojtan, ACM Transactions on Graphics 36 (2017).
date_created: 2018-12-11T11:46:39Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2023-02-23T12:20:26Z
day: '01'
ddc:
- '006'
department:
- _id: ChWo
doi: 10.1145/3072959.3073678
ec_funded: 1
file:
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checksum: 82a3b2bfeee4ddef16ecc21675d1a48a
content_type: application/pdf
creator: wojtan
date_created: 2020-01-24T09:32:35Z
date_updated: 2020-07-14T12:46:34Z
file_id: '7359'
file_name: wavepackets_final.pdf
file_size: 13131683
relation: main_file
file_date_updated: 2020-07-14T12:46:34Z
has_accepted_license: '1'
intvolume: ' 36'
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publication: ACM Transactions on Graphics
publication_identifier:
issn:
- '07300301'
publication_status: published
publisher: ACM
publist_id: '7350'
quality_controlled: '1'
scopus_import: 1
status: public
title: Water wave packets
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 36
year: '2017'
...
---
_id: '471'
abstract:
- lang: eng
text: 'We present a new algorithm for the statistical model checking of Markov chains
with respect to unbounded temporal properties, including full linear temporal
logic. The main idea is that we monitor each simulation run on the fly, in order
to detect quickly if a bottom strongly connected component is entered with high
probability, in which case the simulation run can be terminated early. As a result,
our simulation runs are often much shorter than required by termination bounds
that are computed a priori for a desired level of confidence on a large state
space. In comparison to previous algorithms for statistical model checking our
method is not only faster in many cases but also requires less information about
the system, namely, only the minimum transition probability that occurs in the
Markov chain. In addition, our method can be generalised to unbounded quantitative
properties such as mean-payoff bounds. '
article_number: '12'
author:
- first_name: Przemyslaw
full_name: Daca, Przemyslaw
id: 49351290-F248-11E8-B48F-1D18A9856A87
last_name: Daca
- 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: Jan
full_name: Kretinsky, Jan
id: 44CEF464-F248-11E8-B48F-1D18A9856A87
last_name: Kretinsky
orcid: 0000-0002-8122-2881
- first_name: Tatjana
full_name: Petrov, Tatjana
id: 3D5811FC-F248-11E8-B48F-1D18A9856A87
last_name: Petrov
orcid: 0000-0002-9041-0905
citation:
ama: Daca P, Henzinger TA, Kretinsky J, Petrov T. Faster statistical model checking
for unbounded temporal properties. ACM Transactions on Computational Logic
(TOCL). 2017;18(2). doi:10.1145/3060139
apa: Daca, P., Henzinger, T. A., Kretinsky, J., & Petrov, T. (2017). Faster
statistical model checking for unbounded temporal properties. ACM Transactions
on Computational Logic (TOCL). ACM. https://doi.org/10.1145/3060139
chicago: Daca, Przemyslaw, Thomas A Henzinger, Jan Kretinsky, and Tatjana Petrov.
“Faster Statistical Model Checking for Unbounded Temporal Properties.” ACM
Transactions on Computational Logic (TOCL). ACM, 2017. https://doi.org/10.1145/3060139.
ieee: P. Daca, T. A. Henzinger, J. Kretinsky, and T. Petrov, “Faster statistical
model checking for unbounded temporal properties,” ACM Transactions on Computational
Logic (TOCL), vol. 18, no. 2. ACM, 2017.
ista: Daca P, Henzinger TA, Kretinsky J, Petrov T. 2017. Faster statistical model
checking for unbounded temporal properties. ACM Transactions on Computational
Logic (TOCL). 18(2), 12.
mla: Daca, Przemyslaw, et al. “Faster Statistical Model Checking for Unbounded Temporal
Properties.” ACM Transactions on Computational Logic (TOCL), vol. 18, no.
2, 12, ACM, 2017, doi:10.1145/3060139.
short: P. Daca, T.A. Henzinger, J. Kretinsky, T. Petrov, ACM Transactions on Computational
Logic (TOCL) 18 (2017).
date_created: 2018-12-11T11:46:39Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2023-02-21T16:48:11Z
day: '01'
department:
- _id: ToHe
doi: 10.1145/3060139
ec_funded: 1
intvolume: ' 18'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1504.05739
month: '05'
oa: 1
oa_version: Submitted Version
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25F5A88A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11402-N23
name: Moderne Concurrency Paradigms
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: The Wittgenstein Prize
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: ACM Transactions on Computational Logic (TOCL)
publication_identifier:
issn:
- '15293785'
publication_status: published
publisher: ACM
publist_id: '7349'
quality_controlled: '1'
related_material:
record:
- id: '1234'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Faster statistical model checking for unbounded temporal properties
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 18
year: '2017'
...
---
_id: '481'
abstract:
- lang: eng
text: We introduce planar matchings on directed pseudo-line arrangements, which
yield a planar set of pseudo-line segments such that only matching-partners are
adjacent. By translating the planar matching problem into a corresponding stable
roommates problem we show that such matchings always exist. Using our new framework,
we establish, for the first time, a complete, rigorous definition of weighted
straight skeletons, which are based on a so-called wavefront propagation process.
We present a generalized and unified approach to treat structural changes in the
wavefront that focuses on the restoration of weak planarity by finding planar
matchings.
acknowledgement: 'Supported by NSERC and the Ross and Muriel Cheriton Fellowship.
Research supported by Austrian Science Fund (FWF): P25816-N15.'
author:
- first_name: Therese
full_name: Biedl, Therese
last_name: Biedl
- first_name: Stefan
full_name: Huber, Stefan
id: 4700A070-F248-11E8-B48F-1D18A9856A87
last_name: Huber
orcid: 0000-0002-8871-5814
- first_name: Peter
full_name: Palfrader, Peter
last_name: Palfrader
citation:
ama: Biedl T, Huber S, Palfrader P. Planar matchings for weighted straight skeletons.
International Journal of Computational Geometry and Applications. 2017;26(3-4):211-229.
doi:10.1142/S0218195916600050
apa: Biedl, T., Huber, S., & Palfrader, P. (2017). Planar matchings for weighted
straight skeletons. International Journal of Computational Geometry and Applications.
World Scientific Publishing. https://doi.org/10.1142/S0218195916600050
chicago: Biedl, Therese, Stefan Huber, and Peter Palfrader. “Planar Matchings for
Weighted Straight Skeletons.” International Journal of Computational Geometry
and Applications. World Scientific Publishing, 2017. https://doi.org/10.1142/S0218195916600050.
ieee: T. Biedl, S. Huber, and P. Palfrader, “Planar matchings for weighted straight
skeletons,” International Journal of Computational Geometry and Applications,
vol. 26, no. 3–4. World Scientific Publishing, pp. 211–229, 2017.
ista: Biedl T, Huber S, Palfrader P. 2017. Planar matchings for weighted straight
skeletons. International Journal of Computational Geometry and Applications. 26(3–4),
211–229.
mla: Biedl, Therese, et al. “Planar Matchings for Weighted Straight Skeletons.”
International Journal of Computational Geometry and Applications, vol.
26, no. 3–4, World Scientific Publishing, 2017, pp. 211–29, doi:10.1142/S0218195916600050.
short: T. Biedl, S. Huber, P. Palfrader, International Journal of Computational
Geometry and Applications 26 (2017) 211–229.
date_created: 2018-12-11T11:46:43Z
date_published: 2017-04-13T00:00:00Z
date_updated: 2023-02-21T16:06:22Z
day: '13'
ddc:
- '004'
- '514'
- '516'
department:
- _id: HeEd
doi: 10.1142/S0218195916600050
file:
- access_level: open_access
checksum: f79e8558bfe4b368dfefeb8eec2e3a5e
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:34Z
date_updated: 2020-07-14T12:46:35Z
file_id: '4758'
file_name: IST-2018-949-v1+1_2016_huber_PLanar_matchings.pdf
file_size: 769296
relation: main_file
file_date_updated: 2020-07-14T12:46:35Z
has_accepted_license: '1'
intvolume: ' 26'
issue: 3-4
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 211 - 229
publication: International Journal of Computational Geometry and Applications
publication_status: published
publisher: World Scientific Publishing
publist_id: '7338'
pubrep_id: '949'
quality_controlled: '1'
related_material:
record:
- id: '10892'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Planar matchings for weighted straight skeletons
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2017'
...
---
_id: '484'
abstract:
- lang: eng
text: We consider the dynamics of a large quantum system of N identical bosons in
3D interacting via a two-body potential of the form N3β-1w(Nβ(x - y)). For fixed
0 = β < 1/3 and large N, we obtain a norm approximation to the many-body evolution
in the Nparticle Hilbert space. The leading order behaviour of the dynamics is
determined by Hartree theory while the second order is given by Bogoliubov theory.
author:
- first_name: Phan
full_name: Nam, Phan
id: 404092F4-F248-11E8-B48F-1D18A9856A87
last_name: Nam
- first_name: Marcin M
full_name: Napiórkowski, Marcin M
id: 4197AD04-F248-11E8-B48F-1D18A9856A87
last_name: Napiórkowski
citation:
ama: Nam P, Napiórkowski MM. Bogoliubov correction to the mean-field dynamics of
interacting bosons. Advances in Theoretical and Mathematical Physics. 2017;21(3):683-738.
doi:10.4310/ATMP.2017.v21.n3.a4
apa: Nam, P., & Napiórkowski, M. M. (2017). Bogoliubov correction to the mean-field
dynamics of interacting bosons. Advances in Theoretical and Mathematical Physics.
International Press. https://doi.org/10.4310/ATMP.2017.v21.n3.a4
chicago: Nam, Phan, and Marcin M Napiórkowski. “Bogoliubov Correction to the Mean-Field
Dynamics of Interacting Bosons.” Advances in Theoretical and Mathematical Physics.
International Press, 2017. https://doi.org/10.4310/ATMP.2017.v21.n3.a4.
ieee: P. Nam and M. M. Napiórkowski, “Bogoliubov correction to the mean-field dynamics
of interacting bosons,” Advances in Theoretical and Mathematical Physics,
vol. 21, no. 3. International Press, pp. 683–738, 2017.
ista: Nam P, Napiórkowski MM. 2017. Bogoliubov correction to the mean-field dynamics
of interacting bosons. Advances in Theoretical and Mathematical Physics. 21(3),
683–738.
mla: Nam, Phan, and Marcin M. Napiórkowski. “Bogoliubov Correction to the Mean-Field
Dynamics of Interacting Bosons.” Advances in Theoretical and Mathematical Physics,
vol. 21, no. 3, International Press, 2017, pp. 683–738, doi:10.4310/ATMP.2017.v21.n3.a4.
short: P. Nam, M.M. Napiórkowski, Advances in Theoretical and Mathematical Physics
21 (2017) 683–738.
date_created: 2018-12-11T11:46:43Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T08:00:58Z
day: '01'
department:
- _id: RoSe
doi: 10.4310/ATMP.2017.v21.n3.a4
ec_funded: 1
intvolume: ' 21'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1509.04631
month: '01'
oa: 1
oa_version: Submitted Version
page: 683 - 738
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _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: Advances in Theoretical and Mathematical Physics
publication_identifier:
issn:
- '10950761'
publication_status: published
publisher: International Press
publist_id: '7336'
quality_controlled: '1'
scopus_import: 1
status: public
title: Bogoliubov correction to the mean-field dynamics of interacting bosons
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2017'
...
---
_id: '483'
abstract:
- lang: eng
text: We prove the universality for the eigenvalue gap statistics in the bulk of
the spectrum for band matrices, in the regime where the band width is comparable
with the dimension of the matrix, W ~ N. All previous results concerning universality
of non-Gaussian random matrices are for mean-field models. By relying on a new
mean-field reduction technique, we deduce universality from quantum unique ergodicity
for band matrices.
author:
- first_name: Paul
full_name: Bourgade, Paul
last_name: Bourgade
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Horng
full_name: Yau, Horng
last_name: Yau
- first_name: Jun
full_name: Yin, Jun
last_name: Yin
citation:
ama: Bourgade P, Erdös L, Yau H, Yin J. Universality for a class of random band
matrices. Advances in Theoretical and Mathematical Physics. 2017;21(3):739-800.
doi:10.4310/ATMP.2017.v21.n3.a5
apa: Bourgade, P., Erdös, L., Yau, H., & Yin, J. (2017). Universality for a
class of random band matrices. Advances in Theoretical and Mathematical Physics.
International Press. https://doi.org/10.4310/ATMP.2017.v21.n3.a5
chicago: Bourgade, Paul, László Erdös, Horng Yau, and Jun Yin. “Universality for
a Class of Random Band Matrices.” Advances in Theoretical and Mathematical
Physics. International Press, 2017. https://doi.org/10.4310/ATMP.2017.v21.n3.a5.
ieee: P. Bourgade, L. Erdös, H. Yau, and J. Yin, “Universality for a class of random
band matrices,” Advances in Theoretical and Mathematical Physics, vol.
21, no. 3. International Press, pp. 739–800, 2017.
ista: Bourgade P, Erdös L, Yau H, Yin J. 2017. Universality for a class of random
band matrices. Advances in Theoretical and Mathematical Physics. 21(3), 739–800.
mla: Bourgade, Paul, et al. “Universality for a Class of Random Band Matrices.”
Advances in Theoretical and Mathematical Physics, vol. 21, no. 3, International
Press, 2017, pp. 739–800, doi:10.4310/ATMP.2017.v21.n3.a5.
short: P. Bourgade, L. Erdös, H. Yau, J. Yin, Advances in Theoretical and Mathematical
Physics 21 (2017) 739–800.
date_created: 2018-12-11T11:46:43Z
date_published: 2017-08-25T00:00:00Z
date_updated: 2021-01-12T08:00:57Z
day: '25'
department:
- _id: LaEr
doi: 10.4310/ATMP.2017.v21.n3.a5
ec_funded: 1
intvolume: ' 21'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1602.02312
month: '08'
oa: 1
oa_version: Submitted Version
page: 739 - 800
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Advances in Theoretical and Mathematical Physics
publication_identifier:
issn:
- '10950761'
publication_status: published
publisher: International Press
publist_id: '7337'
quality_controlled: '1'
scopus_import: 1
status: public
title: Universality for a class of random band matrices
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2017'
...
---
_id: '487'
abstract:
- lang: eng
text: In this paper we study network architecture for unlicensed cellular networking
for outdoor coverage in TV white spaces. The main technology proposed for TV white
spaces is 802.11af, a Wi-Fi variant adapted for TV frequencies. However, 802.11af
is originally designed for improved indoor propagation. We show that long links,
typical for outdoor use, exacerbate known Wi-Fi issues, such as hidden and exposed
terminal, and significantly reduce its efficiency. Instead, we propose CellFi,
an alternative architecture based on LTE. LTE is designed for long-range coverage
and throughput efficiency, but it is also designed to operate in tightly controlled
and centrally managed networks. CellFi overcomes these problems by designing an
LTE-compatible spectrum database component, mandatory for TV white space networking,
and introducing an interference management component for distributed coordination.
CellFi interference management is compatible with existing LTE mechanisms, requires
no explicit communication between base stations, and is more efficient than CSMA
for long links. We evaluate our design through extensive real world evaluation
on of-the-shelf LTE equipment and simulations. We show that, compared to 802.11af,
it increases coverage by 40% and reduces median flow completion times by 2.3x.
author:
- first_name: Ghufran
full_name: Baig, Ghufran
last_name: Baig
- first_name: Bozidar
full_name: Radunovic, Bozidar
last_name: Radunovic
- 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: Matthew
full_name: Balkwill, Matthew
last_name: Balkwill
- first_name: Thomas
full_name: Karagiannis, Thomas
last_name: Karagiannis
- first_name: Lili
full_name: Qiu, Lili
last_name: Qiu
citation:
ama: 'Baig G, Radunovic B, Alistarh D-A, Balkwill M, Karagiannis T, Qiu L. Towards
unlicensed cellular networks in TV white spaces. In: Proceedings of the 2017
13th International Conference on Emerging Networking EXperiments and Technologies.
ACM; 2017:2-14. doi:10.1145/3143361.3143367'
apa: 'Baig, G., Radunovic, B., Alistarh, D.-A., Balkwill, M., Karagiannis, T., &
Qiu, L. (2017). Towards unlicensed cellular networks in TV white spaces. In Proceedings
of the 2017 13th International Conference on emerging Networking EXperiments and
Technologies (pp. 2–14). Incheon, South Korea: ACM. https://doi.org/10.1145/3143361.3143367'
chicago: Baig, Ghufran, Bozidar Radunovic, Dan-Adrian Alistarh, Matthew Balkwill,
Thomas Karagiannis, and Lili Qiu. “Towards Unlicensed Cellular Networks in TV
White Spaces.” In Proceedings of the 2017 13th International Conference on
Emerging Networking EXperiments and Technologies, 2–14. ACM, 2017. https://doi.org/10.1145/3143361.3143367.
ieee: G. Baig, B. Radunovic, D.-A. Alistarh, M. Balkwill, T. Karagiannis, and L.
Qiu, “Towards unlicensed cellular networks in TV white spaces,” in Proceedings
of the 2017 13th International Conference on emerging Networking EXperiments and
Technologies, Incheon, South Korea, 2017, pp. 2–14.
ista: 'Baig G, Radunovic B, Alistarh D-A, Balkwill M, Karagiannis T, Qiu L. 2017.
Towards unlicensed cellular networks in TV white spaces. Proceedings of the 2017
13th International Conference on emerging Networking EXperiments and Technologies.
CoNEXT: Conference on emerging Networking EXperiments and Technologies, 2–14.'
mla: Baig, Ghufran, et al. “Towards Unlicensed Cellular Networks in TV White Spaces.”
Proceedings of the 2017 13th International Conference on Emerging Networking
EXperiments and Technologies, ACM, 2017, pp. 2–14, doi:10.1145/3143361.3143367.
short: G. Baig, B. Radunovic, D.-A. Alistarh, M. Balkwill, T. Karagiannis, L. Qiu,
in:, Proceedings of the 2017 13th International Conference on Emerging Networking
EXperiments and Technologies, ACM, 2017, pp. 2–14.
conference:
end_date: 2017-12-15
location: Incheon, South Korea
name: 'CoNEXT: Conference on emerging Networking EXperiments and Technologies'
start_date: 2017-12-12
date_created: 2018-12-11T11:46:45Z
date_published: 2017-11-28T00:00:00Z
date_updated: 2023-02-23T12:21:11Z
day: '28'
department:
- _id: DaAl
doi: 10.1145/3143361.3143367
language:
- iso: eng
month: '11'
oa_version: None
page: 2 - 14
publication: Proceedings of the 2017 13th International Conference on emerging Networking
EXperiments and Technologies
publication_identifier:
isbn:
- 978-145035422-6
publication_status: published
publisher: ACM
publist_id: '7333'
quality_controlled: '1'
scopus_import: 1
status: public
title: Towards unlicensed cellular networks in TV white spaces
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '514'
abstract:
- lang: eng
text: 'Orientation in space is represented in specialized brain circuits. Persistent
head direction signals are transmitted from anterior thalamus to the presubiculum,
but the identity of the presubicular target neurons, their connectivity and function
in local microcircuits are unknown. Here, we examine how thalamic afferents recruit
presubicular principal neurons and Martinotti interneurons, and the ensuing synaptic
interactions between these cells. Pyramidal neuron activation of Martinotti cells
in superficial layers is strongly facilitating such that high-frequency head directional
stimulation efficiently unmutes synaptic excitation. Martinotti-cell feedback
plays a dual role: precisely timed spikes may not inhibit the firing of in-tune
head direction cells, while exerting lateral inhibition. Autonomous attractor
dynamics emerge from a modelled network implementing wiring motifs and timing
sensitive synaptic interactions in the pyramidal - Martinotti-cell feedback loop.
This inhibitory microcircuit is therefore tuned to refine and maintain head direction
information in the presubiculum.'
article_number: '16032'
author:
- first_name: Jean
full_name: Simonnet, Jean
last_name: Simonnet
- first_name: Mérie
full_name: Nassar, Mérie
last_name: Nassar
- first_name: Federico
full_name: Stella, Federico
id: 39AF1E74-F248-11E8-B48F-1D18A9856A87
last_name: Stella
orcid: 0000-0001-9439-3148
- first_name: Ivan
full_name: Cohen, Ivan
last_name: Cohen
- first_name: Bertrand
full_name: Mathon, Bertrand
last_name: Mathon
- first_name: Charlotte
full_name: Boccara, Charlotte
id: 3FC06552-F248-11E8-B48F-1D18A9856A87
last_name: Boccara
orcid: 0000-0001-7237-5109
- first_name: Richard
full_name: Miles, Richard
last_name: Miles
- first_name: Desdemona
full_name: Fricker, Desdemona
last_name: Fricker
citation:
ama: Simonnet J, Nassar M, Stella F, et al. Activity dependent feedback inhibition
may maintain head direction signals in mouse presubiculum. Nature Communications.
2017;8. doi:10.1038/ncomms16032
apa: Simonnet, J., Nassar, M., Stella, F., Cohen, I., Mathon, B., Boccara, C. N.,
… Fricker, D. (2017). Activity dependent feedback inhibition may maintain head
direction signals in mouse presubiculum. Nature Communications. Nature
Publishing Group. https://doi.org/10.1038/ncomms16032
chicago: Simonnet, Jean, Mérie Nassar, Federico Stella, Ivan Cohen, Bertrand Mathon,
Charlotte N. Boccara, Richard Miles, and Desdemona Fricker. “Activity Dependent
Feedback Inhibition May Maintain Head Direction Signals in Mouse Presubiculum.”
Nature Communications. Nature Publishing Group, 2017. https://doi.org/10.1038/ncomms16032.
ieee: J. Simonnet et al., “Activity dependent feedback inhibition may maintain
head direction signals in mouse presubiculum,” Nature Communications, vol.
8. Nature Publishing Group, 2017.
ista: Simonnet J, Nassar M, Stella F, Cohen I, Mathon B, Boccara CN, Miles R, Fricker
D. 2017. Activity dependent feedback inhibition may maintain head direction signals
in mouse presubiculum. Nature Communications. 8, 16032.
mla: Simonnet, Jean, et al. “Activity Dependent Feedback Inhibition May Maintain
Head Direction Signals in Mouse Presubiculum.” Nature Communications, vol.
8, 16032, Nature Publishing Group, 2017, doi:10.1038/ncomms16032.
short: J. Simonnet, M. Nassar, F. Stella, I. Cohen, B. Mathon, C.N. Boccara, R.
Miles, D. Fricker, Nature Communications 8 (2017).
date_created: 2018-12-11T11:46:54Z
date_published: 2017-07-01T00:00:00Z
date_updated: 2021-01-12T08:01:16Z
day: '01'
ddc:
- '571'
department:
- _id: JoCs
doi: 10.1038/ncomms16032
file:
- access_level: open_access
checksum: 76d8a2b72a58e56adb410ec37dfa7eee
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:31Z
date_updated: 2020-07-14T12:46:36Z
file_id: '5083'
file_name: IST-2018-937-v1+1_2017_Stella_Activity_dependent.pdf
file_size: 2948357
relation: main_file
file_date_updated: 2020-07-14T12:46:36Z
has_accepted_license: '1'
intvolume: ' 8'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- '20411723'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7305'
pubrep_id: '937'
quality_controlled: '1'
scopus_import: 1
status: public
title: Activity dependent feedback inhibition may maintain head direction signals
in mouse presubiculum
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2017'
...
---
_id: '515'
abstract:
- lang: eng
text: 'The oxidative phosphorylation electron transport chain (OXPHOS-ETC) of the
inner mitochondrial membrane is composed of five large protein complexes, named
CI-CV. These complexes convert energy from the food we eat into ATP, a small molecule
used to power a multitude of essential reactions throughout the cell. OXPHOS-ETC
complexes are organized into supercomplexes (SCs) of defined stoichiometry: CI
forms a supercomplex with CIII2 and CIV (SC I+III2+IV, known as the respirasome),
as well as with CIII2 alone (SC I+III2). CIII2 forms a supercomplex with CIV (SC
III2+IV) and CV forms dimers (CV2). Recent cryo-EM studies have revealed the structures
of SC I+III2+IV and SC I+III2. Furthermore, recent work has shed light on the
assembly and function of the SCs. Here we review and compare these recent studies
and discuss how they have advanced our understanding of mitochondrial electron
transport.'
article_type: original
author:
- first_name: James A
full_name: Letts, James A
id: 322DA418-F248-11E8-B48F-1D18A9856A87
last_name: Letts
orcid: 0000-0002-9864-3586
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: 'Letts JA, Sazanov LA. Clarifying the supercomplex: The higher-order organization
of the mitochondrial electron transport chain. Nature Structural and Molecular
Biology. 2017;24(10):800-808. doi:10.1038/nsmb.3460'
apa: 'Letts, J. A., & Sazanov, L. A. (2017). Clarifying the supercomplex: The
higher-order organization of the mitochondrial electron transport chain. Nature
Structural and Molecular Biology. Nature Publishing Group. https://doi.org/10.1038/nsmb.3460'
chicago: 'Letts, James A, and Leonid A Sazanov. “Clarifying the Supercomplex: The
Higher-Order Organization of the Mitochondrial Electron Transport Chain.” Nature
Structural and Molecular Biology. Nature Publishing Group, 2017. https://doi.org/10.1038/nsmb.3460.'
ieee: 'J. A. Letts and L. A. Sazanov, “Clarifying the supercomplex: The higher-order
organization of the mitochondrial electron transport chain,” Nature Structural
and Molecular Biology, vol. 24, no. 10. Nature Publishing Group, pp. 800–808,
2017.'
ista: 'Letts JA, Sazanov LA. 2017. Clarifying the supercomplex: The higher-order
organization of the mitochondrial electron transport chain. Nature Structural
and Molecular Biology. 24(10), 800–808.'
mla: 'Letts, James A., and Leonid A. Sazanov. “Clarifying the Supercomplex: The
Higher-Order Organization of the Mitochondrial Electron Transport Chain.” Nature
Structural and Molecular Biology, vol. 24, no. 10, Nature Publishing Group,
2017, pp. 800–08, doi:10.1038/nsmb.3460.'
short: J.A. Letts, L.A. Sazanov, Nature Structural and Molecular Biology 24 (2017)
800–808.
date_created: 2018-12-11T11:46:54Z
date_published: 2017-10-05T00:00:00Z
date_updated: 2021-01-12T08:01:17Z
day: '05'
ddc:
- '572'
department:
- _id: LeSa
doi: 10.1038/nsmb.3460
ec_funded: 1
file:
- access_level: open_access
checksum: 9bc7e8c41b43636dd7566289e511f096
content_type: application/pdf
creator: lsazanov
date_created: 2019-11-07T12:51:07Z
date_updated: 2020-07-14T12:46:36Z
file_id: '6993'
file_name: 29893_2_merged_1501257589_red.pdf
file_size: 4118385
relation: main_file
file_date_updated: 2020-07-14T12:46:36Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Submitted Version
page: 800 - 808
project:
- _id: 2590DB08-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '701309'
name: Atomic-Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes
(H2020)
publication: Nature Structural and Molecular Biology
publication_identifier:
issn:
- '15459993'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7304'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Clarifying the supercomplex: The higher-order organization of the mitochondrial
electron transport chain'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2017'
...
---
_id: '513'
abstract:
- lang: eng
text: 'We present an experimental setup that creates a shear flow with zero mean
advection velocity achieved by counterbalancing the nonzero streamwise pressure
gradient by moving boundaries, which generates plane Couette-Poiseuille flow.
We obtain experimental results in the transitional regime for this flow. Using
flow visualization, we characterize the subcritical transition to turbulence in
Couette-Poiseuille flow and show the existence of turbulent spots generated by
a permanent perturbation. Due to the zero mean advection velocity of the base
profile, these turbulent structures are nearly stationary. We distinguish two
regions of the turbulent spot: the active turbulent core, which is characterized
by waviness of the streaks similar to traveling waves, and the surrounding region,
which includes in addition the weak undisturbed streaks and oblique waves at the
laminar-turbulent interface. We also study the dependence of the size of these
two regions on Reynolds number. Finally, we show that the traveling waves move
in the downstream (Poiseuille) direction.'
article_number: '043904'
author:
- first_name: Lukasz
full_name: Klotz, Lukasz
id: 2C9AF1C2-F248-11E8-B48F-1D18A9856A87
last_name: Klotz
orcid: 0000-0003-1740-7635
- first_name: Grégoire M
full_name: Lemoult, Grégoire M
id: 4787FE80-F248-11E8-B48F-1D18A9856A87
last_name: Lemoult
- first_name: Idalia
full_name: Frontczak, Idalia
last_name: Frontczak
- first_name: Laurette
full_name: Tuckerman, Laurette
last_name: Tuckerman
- first_name: José
full_name: Wesfreid, José
last_name: Wesfreid
citation:
ama: 'Klotz L, Lemoult GM, Frontczak I, Tuckerman L, Wesfreid J. Couette-Poiseuille
flow experiment with zero mean advection velocity: Subcritical transition to turbulence.
Physical Review Fluids. 2017;2(4). doi:10.1103/PhysRevFluids.2.043904'
apa: 'Klotz, L., Lemoult, G. M., Frontczak, I., Tuckerman, L., & Wesfreid, J.
(2017). Couette-Poiseuille flow experiment with zero mean advection velocity:
Subcritical transition to turbulence. Physical Review Fluids. American
Physical Society. https://doi.org/10.1103/PhysRevFluids.2.043904'
chicago: 'Klotz, Lukasz, Grégoire M Lemoult, Idalia Frontczak, Laurette Tuckerman,
and José Wesfreid. “Couette-Poiseuille Flow Experiment with Zero Mean Advection
Velocity: Subcritical Transition to Turbulence.” Physical Review Fluids.
American Physical Society, 2017. https://doi.org/10.1103/PhysRevFluids.2.043904.'
ieee: 'L. Klotz, G. M. Lemoult, I. Frontczak, L. Tuckerman, and J. Wesfreid, “Couette-Poiseuille
flow experiment with zero mean advection velocity: Subcritical transition to turbulence,”
Physical Review Fluids, vol. 2, no. 4. American Physical Society, 2017.'
ista: 'Klotz L, Lemoult GM, Frontczak I, Tuckerman L, Wesfreid J. 2017. Couette-Poiseuille
flow experiment with zero mean advection velocity: Subcritical transition to turbulence.
Physical Review Fluids. 2(4), 043904.'
mla: 'Klotz, Lukasz, et al. “Couette-Poiseuille Flow Experiment with Zero Mean Advection
Velocity: Subcritical Transition to Turbulence.” Physical Review Fluids,
vol. 2, no. 4, 043904, American Physical Society, 2017, doi:10.1103/PhysRevFluids.2.043904.'
short: L. Klotz, G.M. Lemoult, I. Frontczak, L. Tuckerman, J. Wesfreid, Physical
Review Fluids 2 (2017).
date_created: 2018-12-11T11:46:54Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2021-01-12T08:01:16Z
day: '01'
department:
- _id: BjHo
doi: 10.1103/PhysRevFluids.2.043904
intvolume: ' 2'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1704.02619
month: '04'
oa: 1
oa_version: Preprint
publication: Physical Review Fluids
publication_status: published
publisher: American Physical Society
publist_id: '7306'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Couette-Poiseuille flow experiment with zero mean advection velocity: Subcritical
transition to turbulence'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2017'
...
---
_id: '520'
abstract:
- lang: eng
text: Cyanobacteria are mostly engineered to be sustainable cell-factories by genetic
manipulations alone. Here, by modulating the concentration of allosteric effectors,
we focus on increasing product formation without further burdening the cells with
increased expression of enzymes. Resorting to a novel 96-well microplate cultivation
system for cyanobacteria, and using lactate-producing strains of Synechocystis
PCC6803 expressing different l-lactate dehydrogenases (LDH), we titrated the effect
of 2,5-anhydro-mannitol supplementation. The latter acts in cells as a nonmetabolizable
analogue of fructose 1,6-bisphosphate, a known allosteric regulator of one of
the tested LDHs. In this strain (SAA023), we achieved over 2-fold increase of
lactate productivity. Furthermore, we observed that as carbon is increasingly
deviated during growth toward product formation, there is an increased fixation
rate in the population of spontaneous mutants harboring an impaired production
pathway. This is a challenge in the development of green cell factories, which
may be countered by the incorporation in biotechnological processes of strategies
such as the one pioneered here.
article_type: letter_note
author:
- first_name: Wei
full_name: Du, Wei
last_name: Du
- first_name: Andreas
full_name: Angermayr, Andreas
id: 4677C796-F248-11E8-B48F-1D18A9856A87
last_name: Angermayr
orcid: 0000-0001-8619-2223
- first_name: Joeri
full_name: Jongbloets, Joeri
last_name: Jongbloets
- first_name: Douwe
full_name: Molenaar, Douwe
last_name: Molenaar
- first_name: Herwig
full_name: Bachmann, Herwig
last_name: Bachmann
- first_name: Klaas
full_name: Hellingwerf, Klaas
last_name: Hellingwerf
- first_name: Filipe
full_name: Branco Dos Santos, Filipe
last_name: Branco Dos Santos
citation:
ama: Du W, Angermayr A, Jongbloets J, et al. Nonhierarchical flux regulation exposes
the fitness burden associated with lactate production in Synechocystis sp. PCC6803.
ACS Synthetic Biology. 2017;6(3):395-401. doi:10.1021/acssynbio.6b00235
apa: Du, W., Angermayr, A., Jongbloets, J., Molenaar, D., Bachmann, H., Hellingwerf,
K., & Branco Dos Santos, F. (2017). Nonhierarchical flux regulation exposes
the fitness burden associated with lactate production in Synechocystis sp. PCC6803.
ACS Synthetic Biology. American Chemical Society. https://doi.org/10.1021/acssynbio.6b00235
chicago: Du, Wei, Andreas Angermayr, Joeri Jongbloets, Douwe Molenaar, Herwig Bachmann,
Klaas Hellingwerf, and Filipe Branco Dos Santos. “Nonhierarchical Flux Regulation
Exposes the Fitness Burden Associated with Lactate Production in Synechocystis
Sp. PCC6803.” ACS Synthetic Biology. American Chemical Society, 2017. https://doi.org/10.1021/acssynbio.6b00235.
ieee: W. Du et al., “Nonhierarchical flux regulation exposes the fitness
burden associated with lactate production in Synechocystis sp. PCC6803,” ACS
Synthetic Biology, vol. 6, no. 3. American Chemical Society, pp. 395–401,
2017.
ista: Du W, Angermayr A, Jongbloets J, Molenaar D, Bachmann H, Hellingwerf K, Branco
Dos Santos F. 2017. Nonhierarchical flux regulation exposes the fitness burden
associated with lactate production in Synechocystis sp. PCC6803. ACS Synthetic
Biology. 6(3), 395–401.
mla: Du, Wei, et al. “Nonhierarchical Flux Regulation Exposes the Fitness Burden
Associated with Lactate Production in Synechocystis Sp. PCC6803.” ACS Synthetic
Biology, vol. 6, no. 3, American Chemical Society, 2017, pp. 395–401, doi:10.1021/acssynbio.6b00235.
short: W. Du, A. Angermayr, J. Jongbloets, D. Molenaar, H. Bachmann, K. Hellingwerf,
F. Branco Dos Santos, ACS Synthetic Biology 6 (2017) 395–401.
date_created: 2018-12-11T11:46:56Z
date_published: 2017-03-17T00:00:00Z
date_updated: 2021-01-12T08:01:21Z
day: '17'
department:
- _id: ToBo
doi: 10.1021/acssynbio.6b00235
external_id:
pmid:
- '27936615'
intvolume: ' 6'
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 395 - 401
pmid: 1
publication: ACS Synthetic Biology
publication_identifier:
issn:
- '21615063'
publication_status: published
publisher: American Chemical Society
publist_id: '7298'
quality_controlled: '1'
scopus_import: 1
status: public
title: Nonhierarchical flux regulation exposes the fitness burden associated with
lactate production in Synechocystis sp. PCC6803
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2017'
...
---
_id: '521'
abstract:
- lang: eng
text: Let X and Y be proper metric spaces. We show that a coarsely n-to-1 map f:X→Y
induces an n-to-1 map of Higson coronas. This viewpoint turns out to be successful
in showing that the classical dimension raising theorems hold in large scale;
that is, if f:X→Y is a coarsely n-to-1 map between proper metric spaces X and
Y then asdim(Y)≤asdim(X)+n−1. Furthermore we introduce coarsely open coarsely
n-to-1 maps, which include the natural quotient maps via a finite group action,
and prove that they preserve the asymptotic dimension.
author:
- first_name: Kyle
full_name: Austin, Kyle
last_name: Austin
- first_name: Ziga
full_name: Virk, Ziga
id: 2E36B656-F248-11E8-B48F-1D18A9856A87
last_name: Virk
citation:
ama: Austin K, Virk Z. Higson compactification and dimension raising. Topology
and its Applications. 2017;215:45-57. doi:10.1016/j.topol.2016.10.005
apa: Austin, K., & Virk, Z. (2017). Higson compactification and dimension raising.
Topology and Its Applications. Elsevier. https://doi.org/10.1016/j.topol.2016.10.005
chicago: Austin, Kyle, and Ziga Virk. “Higson Compactification and Dimension Raising.”
Topology and Its Applications. Elsevier, 2017. https://doi.org/10.1016/j.topol.2016.10.005.
ieee: K. Austin and Z. Virk, “Higson compactification and dimension raising,” Topology
and its Applications, vol. 215. Elsevier, pp. 45–57, 2017.
ista: Austin K, Virk Z. 2017. Higson compactification and dimension raising. Topology
and its Applications. 215, 45–57.
mla: Austin, Kyle, and Ziga Virk. “Higson Compactification and Dimension Raising.”
Topology and Its Applications, vol. 215, Elsevier, 2017, pp. 45–57, doi:10.1016/j.topol.2016.10.005.
short: K. Austin, Z. Virk, Topology and Its Applications 215 (2017) 45–57.
date_created: 2018-12-11T11:46:56Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T08:01:21Z
day: '01'
department:
- _id: HeEd
doi: 10.1016/j.topol.2016.10.005
intvolume: ' 215'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1608.03954v1
month: '01'
oa: 1
oa_version: Submitted Version
page: 45 - 57
publication: Topology and its Applications
publication_identifier:
issn:
- '01668641'
publication_status: published
publisher: Elsevier
publist_id: '7299'
quality_controlled: '1'
status: public
title: Higson compactification and dimension raising
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 215
year: '2017'
...
---
_id: '534'
abstract:
- lang: eng
text: We investigate the complexity of finding an embedded non-orientable surface
of Euler genus g in a triangulated 3-manifold. This problem occurs both as a natural
question in low-dimensional topology, and as a first non-trivial instance of embeddability
of complexes into 3-manifolds. We prove that the problem is NP-hard, thus adding
to the relatively few hardness results that are currently known in 3-manifold
topology. In addition, we show that the problem lies in NP when the Euler genus
g is odd, and we give an explicit algorithm in this case.
article_processing_charge: No
article_type: original
author:
- first_name: Benjamin
full_name: Burton, Benjamin
last_name: Burton
- first_name: Arnaud N
full_name: De Mesmay, Arnaud N
id: 3DB2F25C-F248-11E8-B48F-1D18A9856A87
last_name: De Mesmay
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Burton B, de Mesmay AN, Wagner U. Finding non-orientable surfaces in 3-Manifolds.
Discrete & Computational Geometry. 2017;58(4):871-888. doi:10.1007/s00454-017-9900-0
apa: Burton, B., de Mesmay, A. N., & Wagner, U. (2017). Finding non-orientable
surfaces in 3-Manifolds. Discrete & Computational Geometry. Springer.
https://doi.org/10.1007/s00454-017-9900-0
chicago: Burton, Benjamin, Arnaud N de Mesmay, and Uli Wagner. “Finding Non-Orientable
Surfaces in 3-Manifolds.” Discrete & Computational Geometry. Springer,
2017. https://doi.org/10.1007/s00454-017-9900-0.
ieee: B. Burton, A. N. de Mesmay, and U. Wagner, “Finding non-orientable surfaces
in 3-Manifolds,” Discrete & Computational Geometry, vol. 58, no. 4.
Springer, pp. 871–888, 2017.
ista: Burton B, de Mesmay AN, Wagner U. 2017. Finding non-orientable surfaces in
3-Manifolds. Discrete & Computational Geometry. 58(4), 871–888.
mla: Burton, Benjamin, et al. “Finding Non-Orientable Surfaces in 3-Manifolds.”
Discrete & Computational Geometry, vol. 58, no. 4, Springer, 2017,
pp. 871–88, doi:10.1007/s00454-017-9900-0.
short: B. Burton, A.N. de Mesmay, U. Wagner, Discrete & Computational Geometry
58 (2017) 871–888.
date_created: 2018-12-11T11:47:01Z
date_published: 2017-06-09T00:00:00Z
date_updated: 2023-02-21T17:01:34Z
day: '09'
department:
- _id: UlWa
doi: 10.1007/s00454-017-9900-0
external_id:
arxiv:
- '1602.07907'
intvolume: ' 58'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1602.07907
month: '06'
oa: 1
oa_version: Preprint
page: 871 - 888
publication: Discrete & Computational Geometry
publication_identifier:
issn:
- '01795376'
publication_status: published
publisher: Springer
publist_id: '7283'
quality_controlled: '1'
related_material:
record:
- id: '1379'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Finding non-orientable surfaces in 3-Manifolds
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 58
year: '2017'
...
---
_id: '538'
abstract:
- lang: ger
text: 'Optogenetik und Photopharmakologie ermöglichen präzise räumliche und zeitliche
Kontrolle von Proteinwechselwirkung und -funktion in Zellen und Tieren. Optogenetische
Methoden, die auf grünes Licht ansprechen und zum Trennen von Proteinkomplexen
geeignet sind, sind nichtweitläufig verfügbar, würden jedoch mehrfarbige Experimente
zur Beantwortung von biologischen Fragestellungen ermöglichen. Hier demonstrieren
wir die Verwendung von Cobalamin(Vitamin B12)-bindenden Domänen von bakteriellen
CarH-Transkriptionsfaktoren zur Grünlicht-induzierten Dissoziation von Rezeptoren.
Fusioniert mit dem Fibroblasten-W achstumsfaktor-Rezeptor 1 führten diese im Dunkeln
in kultivierten Zellen zu Signalaktivität durch Oligomerisierung, welche durch
Beleuchten umgehend aufgehoben wurde. In Zebrafischembryonen, die einen derartigen
Rezeptor exprimieren, ermöglichte grünes Licht die Kontrolle über abnormale Signalaktivität
während der Embryonalentwicklung. '
author:
- first_name: Stephanie
full_name: Kainrath, Stephanie
id: 32CFBA64-F248-11E8-B48F-1D18A9856A87
last_name: Kainrath
- first_name: Manuela
full_name: Stadler, Manuela
last_name: Stadler
- first_name: Eva
full_name: Gschaider-Reichhart, Eva
id: 3FEE232A-F248-11E8-B48F-1D18A9856A87
last_name: Gschaider-Reichhart
orcid: 0000-0002-7218-7738
- first_name: Martin
full_name: Distel, Martin
last_name: Distel
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
citation:
ama: Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. Grünlicht-induzierte
Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte Chemie.
2017;129(16):4679-4682. doi:10.1002/ange.201611998
apa: Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., & Janovjak,
H. L. (2017). Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende
Domänen. Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.201611998
chicago: Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel,
and Harald L Janovjak. “Grünlicht-Induzierte Rezeptorinaktivierung Durch Cobalamin-Bindende
Domänen.” Angewandte Chemie. Wiley, 2017. https://doi.org/10.1002/ange.201611998.
ieee: S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, and H. L. Janovjak,
“Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen,”
Angewandte Chemie, vol. 129, no. 16. Wiley, pp. 4679–4682, 2017.
ista: Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. 2017.
Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen. Angewandte
Chemie. 129(16), 4679–4682.
mla: Kainrath, Stephanie, et al. “Grünlicht-Induzierte Rezeptorinaktivierung Durch
Cobalamin-Bindende Domänen.” Angewandte Chemie, vol. 129, no. 16, Wiley,
2017, pp. 4679–82, doi:10.1002/ange.201611998.
short: S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak,
Angewandte Chemie 129 (2017) 4679–4682.
date_created: 2018-12-11T11:47:02Z
date_published: 2017-05-20T00:00:00Z
date_updated: 2021-01-12T08:01:33Z
day: '20'
ddc:
- '571'
department:
- _id: CaGu
- _id: HaJa
doi: 10.1002/ange.201611998
ec_funded: 1
file:
- access_level: open_access
checksum: d66fee867e7cdbfa3fe276c2fb0778bb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:24Z
date_updated: 2020-07-14T12:46:39Z
file_id: '5007'
file_name: IST-2018-932-v1+1_Kainrath_et_al-2017-Angewandte_Chemie.pdf
file_size: 1668557
relation: main_file
file_date_updated: 2020-07-14T12:46:39Z
has_accepted_license: '1'
intvolume: ' 129'
issue: '16'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 4679 - 4682
project:
- _id: 25548C20-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303564'
name: Microbial Ion Channels for Synthetic Neurobiology
- _id: 255A6082-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: Angewandte Chemie
publication_status: published
publisher: Wiley
publist_id: '7279'
pubrep_id: '932'
quality_controlled: '1'
status: public
title: Grünlicht-induzierte Rezeptorinaktivierung durch Cobalamin-bindende Domänen
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: 129
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...