---
_id: '6185'
abstract:
- lang: eng
text: For complex Wigner-type matrices, i.e. Hermitian random matrices with independent,
not necessarily identically distributed entries above the diagonal, we show that
at any cusp singularity of the limiting eigenvalue distribution the local eigenvalue
statistics are universal and form a Pearcey process. Since the density of states
typically exhibits only square root or cubic root cusp singularities, our work
complements previous results on the bulk and edge universality and it thus completes
the resolution of the Wigner–Dyson–Mehta universality conjecture for the last
remaining universality type in the complex Hermitian class. Our analysis holds
not only for exact cusps, but approximate cusps as well, where an extended Pearcey
process emerges. As a main technical ingredient we prove an optimal local law
at the cusp for both symmetry classes. This result is also the key input in the
companion paper (Cipolloni et al. in Pure Appl Anal, 2018. arXiv:1811.04055) where
the cusp universality for real symmetric Wigner-type matrices is proven. The novel
cusp fluctuation mechanism is also essential for the recent results on the spectral
radius of non-Hermitian random matrices (Alt et al. in Spectral radius of random
matrices with independent entries, 2019. arXiv:1907.13631), and the non-Hermitian
edge universality (Cipolloni et al. in Edge universality for non-Hermitian random
matrices, 2019. arXiv:1908.00969).
acknowledgement: Open access funding provided by Institute of Science and Technology
(IST Austria). The authors are very grateful to Johannes Alt for numerous discussions
on the Dyson equation and for his invaluable help in adjusting [10] to the needs
of the present work.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
- first_name: Dominik J
full_name: Schröder, Dominik J
id: 408ED176-F248-11E8-B48F-1D18A9856A87
last_name: Schröder
orcid: 0000-0002-2904-1856
citation:
ama: 'Erdös L, Krüger TH, Schröder DJ. Cusp universality for random matrices I:
Local law and the complex Hermitian case. Communications in Mathematical Physics.
2020;378:1203-1278. doi:10.1007/s00220-019-03657-4'
apa: 'Erdös, L., Krüger, T. H., & Schröder, D. J. (2020). Cusp universality
for random matrices I: Local law and the complex Hermitian case. Communications
in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s00220-019-03657-4'
chicago: 'Erdös, László, Torben H Krüger, and Dominik J Schröder. “Cusp Universality
for Random Matrices I: Local Law and the Complex Hermitian Case.” Communications
in Mathematical Physics. Springer Nature, 2020. https://doi.org/10.1007/s00220-019-03657-4.'
ieee: 'L. Erdös, T. H. Krüger, and D. J. Schröder, “Cusp universality for random
matrices I: Local law and the complex Hermitian case,” Communications in Mathematical
Physics, vol. 378. Springer Nature, pp. 1203–1278, 2020.'
ista: 'Erdös L, Krüger TH, Schröder DJ. 2020. Cusp universality for random matrices
I: Local law and the complex Hermitian case. Communications in Mathematical Physics.
378, 1203–1278.'
mla: 'Erdös, László, et al. “Cusp Universality for Random Matrices I: Local Law
and the Complex Hermitian Case.” Communications in Mathematical Physics,
vol. 378, Springer Nature, 2020, pp. 1203–78, doi:10.1007/s00220-019-03657-4.'
short: L. Erdös, T.H. Krüger, D.J. Schröder, Communications in Mathematical Physics
378 (2020) 1203–1278.
date_created: 2019-03-28T10:21:15Z
date_published: 2020-09-01T00:00:00Z
date_updated: 2023-09-07T12:54:12Z
day: '01'
ddc:
- '530'
- '510'
department:
- _id: LaEr
doi: 10.1007/s00220-019-03657-4
ec_funded: 1
external_id:
arxiv:
- '1809.03971'
isi:
- '000529483000001'
file:
- access_level: open_access
checksum: c3a683e2afdcea27afa6880b01e53dc2
content_type: application/pdf
creator: dernst
date_created: 2020-11-18T11:14:37Z
date_updated: 2020-11-18T11:14:37Z
file_id: '8771'
file_name: 2020_CommMathPhysics_Erdoes.pdf
file_size: 2904574
relation: main_file
success: 1
file_date_updated: 2020-11-18T11:14:37Z
has_accepted_license: '1'
intvolume: ' 378'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 1203-1278
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Communications in Mathematical Physics
publication_identifier:
eissn:
- 1432-0916
issn:
- 0010-3616
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '6179'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'Cusp universality for random matrices I: Local law and the complex Hermitian
case'
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 378
year: '2020'
...
---
_id: '7629'
abstract:
- lang: eng
text: "This thesis is based on three main topics: In the first part, we study convergence
of discrete gradient flow structures associated with regular finite-volume discretisations
of Fokker-Planck equations. We show evolutionary I convergence of the discrete
gradient flows to the L2-Wasserstein gradient flow corresponding to the solution
of a Fokker-Planck\r\nequation in arbitrary dimension d >= 1. Along the argument,
we prove Mosco- and I-convergence results for discrete energy functionals, which
are of independent interest for convergence of equivalent gradient flow structures
in Hilbert spaces.\r\nThe second part investigates L2-Wasserstein flows on metric
graph. The starting point is a Benamou-Brenier formula for the L2-Wasserstein
distance, which is proved via a regularisation scheme for solutions of the continuity
equation, adapted to the peculiar geometric structure of metric graphs. Based
on those results, we show that the L2-Wasserstein space over a metric graph admits
a gradient flow which may be identified as a solution of a Fokker-Planck equation.\r\nIn
the third part, we focus again on the discrete gradient flows, already encountered
in the first part. We propose a variational structure which extends the gradient
flow structure to Markov chains violating the detailed-balance conditions. Using
this structure, we characterise contraction estimates for the discrete heat flow
in terms of convexity of\r\ncorresponding path-dependent energy functionals. In
addition, we use this approach to derive several functional inequalities for said
functionals."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Dominik L
full_name: Forkert, Dominik L
id: 35C79D68-F248-11E8-B48F-1D18A9856A87
last_name: Forkert
citation:
ama: Forkert DL. Gradient flows in spaces of probability measures for finite-volume
schemes, metric graphs and non-reversible Markov chains. 2020. doi:10.15479/AT:ISTA:7629
apa: Forkert, D. L. (2020). Gradient flows in spaces of probability measures
for finite-volume schemes, metric graphs and non-reversible Markov chains.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7629
chicago: Forkert, Dominik L. “Gradient Flows in Spaces of Probability Measures for
Finite-Volume Schemes, Metric Graphs and Non-Reversible Markov Chains.” Institute
of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7629.
ieee: D. L. Forkert, “Gradient flows in spaces of probability measures for finite-volume
schemes, metric graphs and non-reversible Markov chains,” Institute of Science
and Technology Austria, 2020.
ista: Forkert DL. 2020. Gradient flows in spaces of probability measures for finite-volume
schemes, metric graphs and non-reversible Markov chains. Institute of Science
and Technology Austria.
mla: Forkert, Dominik L. Gradient Flows in Spaces of Probability Measures for
Finite-Volume Schemes, Metric Graphs and Non-Reversible Markov Chains. Institute
of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7629.
short: D.L. Forkert, Gradient Flows in Spaces of Probability Measures for Finite-Volume
Schemes, Metric Graphs and Non-Reversible Markov Chains, Institute of Science
and Technology Austria, 2020.
date_created: 2020-04-02T06:40:23Z
date_published: 2020-03-31T00:00:00Z
date_updated: 2023-09-07T13:03:12Z
day: '31'
ddc:
- '510'
degree_awarded: PhD
department:
- _id: JaMa
doi: 10.15479/AT:ISTA:7629
ec_funded: 1
file:
- access_level: open_access
checksum: c814a1a6195269ca6fe48b0dca45ae8a
content_type: application/pdf
creator: dernst
date_created: 2020-04-14T10:47:59Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7657'
file_name: Thesis_Forkert_PDFA.pdf
file_size: 3297129
relation: main_file
- access_level: closed
checksum: ceafb53f923d1b5bdf14b2b0f22e4a81
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-04-14T10:47:59Z
date_updated: 2020-07-14T12:48:01Z
file_id: '7658'
file_name: Thesis_Forkert_source.zip
file_size: 1063908
relation: source_file
file_date_updated: 2020-07-14T12:48:01Z
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '154'
project:
- _id: 256E75B8-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '716117'
name: Optimal Transport and Stochastic Dynamics
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Jan
full_name: Maas, Jan
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
title: Gradient flows in spaces of probability measures for finite-volume schemes,
metric graphs and non-reversible Markov chains
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '8574'
abstract:
- lang: eng
text: "This thesis concerns itself with the interactions of evolutionary and ecological
forces and the consequences on genetic diversity and the ultimate survival of
populations. It is important to understand what signals processes \r\nleave on
the genome and what we can infer from such data, which is usually abundant but
noisy. Furthermore, understanding how and when populations adapt or go extinct
is important for practical purposes, such as the genetic management of populations,
as well as for theoretical questions, since local adaptation can be the first
step toward speciation. \r\nIn Chapter 2, we introduce the method of maximum entropy
to approximate the demographic changes of a population in a simple setting, namely
the logistic growth model with immigration. We show that this method is not only
a powerful \r\ntool in physics but can be gainfully applied in an ecological framework.
We investigate how well it approximates the real \r\nbehavior of the system, and
find that is does so, even in unexpected situations. Finally, we illustrate how
it can model changing environments.\r\nIn Chapter 3, we analyze the co-evolution
of allele frequencies and population sizes in an infinite island model.\r\nWe
give conditions under which polygenic adaptation to a rare habitat is possible.
The model we use is based on the diffusion approximation, considers eco-evolutionary
feedback mechanisms (hard selection), and treats both \r\ndrift and environmental
fluctuations explicitly. We also look at limiting scenarios, for which we derive
analytical expressions. \r\nIn Chapter 4, we present a coalescent based simulation
tool to obtain patterns of diversity in a spatially explicit subdivided population,
in which the demographic history of each subpopulation can be specified. We compare
\r\nthe results to existing predictions, and explore the relative importance of
time and space under a variety of spatial arrangements and demographic histories,
such as expansion and extinction. \r\nIn the last chapter, we give a brief outlook
to further research. "
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Eniko
full_name: Szep, Eniko
id: 485BB5A4-F248-11E8-B48F-1D18A9856A87
last_name: Szep
citation:
ama: Szep E. Local adaptation in metapopulations. 2020. doi:10.15479/AT:ISTA:8574
apa: Szep, E. (2020). Local adaptation in metapopulations. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:8574
chicago: Szep, Eniko. “Local Adaptation in Metapopulations.” Institute of Science
and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8574.
ieee: E. Szep, “Local adaptation in metapopulations,” Institute of Science and Technology
Austria, 2020.
ista: Szep E. 2020. Local adaptation in metapopulations. Institute of Science and
Technology Austria.
mla: Szep, Eniko. Local Adaptation in Metapopulations. Institute of Science
and Technology Austria, 2020, doi:10.15479/AT:ISTA:8574.
short: E. Szep, Local Adaptation in Metapopulations, Institute of Science and Technology
Austria, 2020.
date_created: 2020-09-28T07:33:38Z
date_published: 2020-09-20T00:00:00Z
date_updated: 2023-09-07T13:11:39Z
day: '20'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:8574
file:
- access_level: open_access
checksum: 20e71f015fbbd78fea708893ad634ed0
content_type: application/pdf
creator: dernst
date_created: 2020-09-28T07:25:35Z
date_updated: 2020-09-28T07:25:35Z
file_id: '8575'
file_name: thesis_EnikoSzep_final.pdf
file_size: 6354833
relation: main_file
success: 1
- access_level: closed
checksum: a8de2c14a1bb4e53c857787efbb289e1
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-09-28T07:25:37Z
date_updated: 2020-09-28T07:25:37Z
file_id: '8576'
file_name: thesisFiles_EnikoSzep.zip
file_size: 23020401
relation: source_file
file_date_updated: 2020-09-28T07:25:37Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '158'
publication_identifier:
eissn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
title: Local adaptation in metapopulations
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '7514'
abstract:
- lang: eng
text: "We study the interacting homogeneous Bose gas in two spatial dimensions in
the thermodynamic limit at fixed density. We shall be concerned with some mathematical
aspects of this complicated problem in many-body quantum mechanics. More specifically,
we consider the dilute limit where the scattering length of the interaction potential,
which is a measure for the effective range of the potential, is small compared
to the average distance between the particles. We are interested in a setting
with positive (i.e., non-zero) temperature. After giving a survey of the relevant
literature in the field, we provide some facts and examples to set expectations
for the two-dimensional system. The crucial difference to the three-dimensional
system is that there is no Bose–Einstein condensate at positive temperature due
to the Hohenberg–Mermin–Wagner theorem. However, it turns out that an asymptotic
formula for the free energy holds similarly to the three-dimensional case.\r\nWe
motivate this formula by considering a toy model with δ interaction potential.
By restricting this model Hamiltonian to certain trial states with a quasi-condensate
we obtain an upper bound for the free energy that still has the quasi-condensate
fraction as a free parameter. When minimizing over the quasi-condensate fraction,
we obtain the Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity,
which plays an important role in our rigorous contribution. The mathematically
rigorous result that we prove concerns the specific free energy in the dilute
limit. We give upper and lower bounds on the free energy in terms of the free
energy of the non-interacting system and a correction term coming from the interaction.
Both bounds match and thus we obtain the leading term of an asymptotic approximation
in the dilute limit, provided the thermal wavelength of the particles is of the
same order (or larger) than the average distance between the particles. The remarkable
feature of this result is its generality: the correction term depends on the interaction
potential only through its scattering length and it holds for all nonnegative
interaction potentials with finite scattering length that are measurable. In particular,
this allows to model an interaction of hard disks."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Simon
full_name: Mayer, Simon
id: 30C4630A-F248-11E8-B48F-1D18A9856A87
last_name: Mayer
citation:
ama: Mayer S. The free energy of a dilute two-dimensional Bose gas. 2020. doi:10.15479/AT:ISTA:7514
apa: Mayer, S. (2020). The free energy of a dilute two-dimensional Bose gas.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7514
chicago: Mayer, Simon. “The Free Energy of a Dilute Two-Dimensional Bose Gas.” Institute
of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7514.
ieee: S. Mayer, “The free energy of a dilute two-dimensional Bose gas,” Institute
of Science and Technology Austria, 2020.
ista: Mayer S. 2020. The free energy of a dilute two-dimensional Bose gas. Institute
of Science and Technology Austria.
mla: Mayer, Simon. The Free Energy of a Dilute Two-Dimensional Bose Gas.
Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7514.
short: S. Mayer, The Free Energy of a Dilute Two-Dimensional Bose Gas, Institute
of Science and Technology Austria, 2020.
date_created: 2020-02-24T09:17:27Z
date_published: 2020-02-24T00:00:00Z
date_updated: 2023-09-07T13:12:42Z
day: '24'
ddc:
- '510'
degree_awarded: PhD
department:
- _id: RoSe
- _id: GradSch
doi: 10.15479/AT:ISTA:7514
ec_funded: 1
file:
- access_level: open_access
checksum: b4de7579ddc1dbdd44ff3f17c48395f6
content_type: application/pdf
creator: dernst
date_created: 2020-02-24T09:15:06Z
date_updated: 2020-07-14T12:47:59Z
file_id: '7515'
file_name: thesis.pdf
file_size: 1563429
relation: main_file
- access_level: closed
checksum: ad7425867b52d7d9e72296e87bc9cb67
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-02-24T09:15:16Z
date_updated: 2020-07-14T12:47:59Z
file_id: '7516'
file_name: thesis_source.zip
file_size: 2028038
relation: source_file
file_date_updated: 2020-07-14T12:47:59Z
has_accepted_license: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '148'
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7524'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
title: The free energy of a dilute two-dimensional Bose gas
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '8353'
abstract:
- lang: eng
text: "Mrp (Multi resistance and pH adaptation) are broadly distributed secondary
active antiporters that catalyze the transport of monovalent ions such as sodium
and potassium outside of the cell coupled to the inward translocation of protons.
Mrp antiporters are unique in a way that they are composed of seven subunits (MrpABCDEFG)
encoded in a single operon, whereas other antiporters catalyzing the same reaction
are mostly encoded by a single gene. Mrp exchangers are crucial for intracellular
pH homeostasis and Na+ efflux, essential mechanisms for H+ uptake under alkaline
environments and for reduction of the intracellular concentration of toxic cations.
Mrp displays no homology to any other monovalent Na+(K+)/H+ antiporters but Mrp
subunits have primary sequence similarity to essential redox-driven proton pumps,
such as respiratory complex I and membrane-bound hydrogenases. This similarity
reinforces the hypothesis that these present day redox-driven proton pumps are
descended from the Mrp antiporter. The Mrp structure serves as a model to understand
the yet obscure coupling mechanism between ion or electron transfer and proton
translocation in this large group of proteins. In the thesis, I am presenting
the purification, biochemical analysis, cryo-EM analysis and molecular structure
of the Mrp complex from Anoxybacillus flavithermus solved by cryo-EM at 3.0 Å
resolution. Numerous conditions were screened to purify Mrp to high homogeneity
and to obtain an appropriate distribution of single particles on cryo-EM grids
covered with a continuous layer of ultrathin carbon. A preferred particle orientation
problem was solved by performing a tilted data collection. The activity assays
showed the specific pH-dependent\r\nprofile of secondary active antiporters. The
molecular structure shows that Mrp is a dimer of seven-subunit protomers with
50 trans-membrane helices each. The dimer interface is built by many short and
tilted transmembrane helices, probably causing a thinning of the bacterial membrane.
The surface charge distribution shows an extraordinary asymmetry within each monomer,
revealing presumable proton and sodium translocation pathways. The two largest\r\nand
homologous Mrp subunits MrpA and MrpD probably translocate one proton each into
the cell. The sodium ion is likely being translocated in the opposite direction
within the small subunits along a ladder of charged and conserved residues. Based
on the structure, we propose a mechanism were the antiport activity is accomplished
via electrostatic interactions between the charged cations and key charged residues.
The flexible key TM helices coordinate these\r\nelectrostatic interactions, while
the membrane thinning between the monomers enables the translocation of sodium
across the charged membrane. The entire family of redox-driven proton pumps is
likely to perform their mechanism in a likewise manner."
acknowledged_ssus:
- _id: LifeSc
- _id: EM-Fac
- _id: ScienComp
acknowledgement: "I acknowledge the scientific service units of the IST Austria for
providing resources by the Life Science Facility, the Electron Microscopy Facility
and the high-performance computer cluster. Special thanks to the cryo-EM specialists
Valentin Hodirnau and Daniel Johann Gütl for spending many hours with me in front
of the microscope and for supporting me to collect the data presented here. I also
want to thank Professor Masahiro Ito for providing plasmid DNA\r\nencoding Mrp from
Anoxybacillus flavithermus WK1. I am a recipient of a DOC Fellowship of the Austrian
Academy of Sciences."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Julia
full_name: Steiner, Julia
id: 3BB67EB0-F248-11E8-B48F-1D18A9856A87
last_name: Steiner
orcid: 0000-0003-0493-3775
citation:
ama: Steiner J. Biochemical and structural investigation of the Mrp antiporter,
an ancestor of complex I. 2020. doi:10.15479/AT:ISTA:8353
apa: Steiner, J. (2020). Biochemical and structural investigation of the Mrp
antiporter, an ancestor of complex I. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:8353
chicago: Steiner, Julia. “Biochemical and Structural Investigation of the Mrp Antiporter,
an Ancestor of Complex I.” Institute of Science and Technology Austria, 2020.
https://doi.org/10.15479/AT:ISTA:8353.
ieee: J. Steiner, “Biochemical and structural investigation of the Mrp antiporter,
an ancestor of complex I,” Institute of Science and Technology Austria, 2020.
ista: Steiner J. 2020. Biochemical and structural investigation of the Mrp antiporter,
an ancestor of complex I. Institute of Science and Technology Austria.
mla: Steiner, Julia. Biochemical and Structural Investigation of the Mrp Antiporter,
an Ancestor of Complex I. Institute of Science and Technology Austria, 2020,
doi:10.15479/AT:ISTA:8353.
short: J. Steiner, Biochemical and Structural Investigation of the Mrp Antiporter,
an Ancestor of Complex I, Institute of Science and Technology Austria, 2020.
date_created: 2020-09-09T14:27:01Z
date_published: 2020-09-09T00:00:00Z
date_updated: 2023-09-07T13:14:09Z
day: '09'
ddc:
- '572'
degree_awarded: PhD
department:
- _id: LeSa
doi: 10.15479/AT:ISTA:8353
file:
- access_level: open_access
checksum: 2388d7e6e7a4d364c096fa89f305c3de
content_type: application/pdf
creator: jsteiner
date_created: 2020-09-09T14:22:35Z
date_updated: 2021-09-16T12:40:56Z
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language:
- iso: eng
month: '09'
oa: 1
oa_version: None
page: '191'
project:
- _id: 26169496-B435-11E9-9278-68D0E5697425
grant_number: '24741'
name: Revealing the functional mechanism of Mrp antiporter, an ancestor of complex
I
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8284'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Leonid A
full_name: Sazanov, Leonid A
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
title: Biochemical and structural investigation of the Mrp antiporter, an ancestor
of complex I
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '8589'
abstract:
- lang: eng
text: The plant hormone auxin plays indispensable roles in plant growth and development.
An essential level of regulation in auxin action is the directional auxin transport
within cells. The establishment of auxin gradient in plant tissue has been attributed
to local auxin biosynthesis and directional intercellular auxin transport, which
both are controlled by various environmental and developmental signals. It is
well established that asymmetric auxin distribution in cells is achieved by polarly
localized PIN-FORMED (PIN) auxin efflux transporters. Despite the initial insights
into cellular mechanisms of PIN polarization obtained from the last decades, the
molecular mechanism and specific regulators mediating PIN polarization remains
elusive. In this thesis, we aim to find novel players in PIN subcellular polarity
regulation during Arabidopsis development. We first characterize the physiological
effect of piperonylic acid (PA) on Arabidopsis hypocotyl gravitropic bending and
PIN polarization. Secondly, we reveal the importance of SCFTIR1/AFB auxin signaling
pathway in shoot gravitropism bending termination. In addition, we also explore
the role of myosin XI complex, and actin cytoskeleton in auxin feedback regulation
on PIN polarity. In Chapter 1, we give an overview of the current knowledge about
PIN-mediated auxin fluxes in various plant tropic responses. In Chapter 2, we
study the physiological effect of PA on shoot gravitropic bending. Our results
show that PA treatment inhibits auxin-mediated PIN3 repolarization by interfering
with PINOID and PIN3 phosphorylation status, ultimately leading to hyperbending
hypocotyls. In Chapter 3, we provide evidence to show that the SCFTIR1/AFB nuclear
auxin signaling pathway is crucial and required for auxin-mediated PIN3 repolarization
and shoot gravitropic bending termination. In Chapter 4, we perform a phosphoproteomics
approach and identify the motor protein Myosin XI and its binding protein, the
MadB2 family, as an essential regulator of PIN polarity for auxin-canalization
related developmental processes. In Chapter 5, we demonstrate the vital role of
actin cytoskeleton in auxin feedback on PIN polarity by regulating PIN subcellular
trafficking. Overall, the data presented in this PhD thesis brings novel insights
into the PIN polar localization regulation that resulted in the (re)establishment
of the polar auxin flow and gradient in response to environmental stimuli during
plant development.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: I also want to thank the China Scholarship Council for supporting
my study during the year from 2015 to 2019. I also want to thank IST facilities
– the Bioimaging facility, the media kitchen, the plant facility and all of the
campus services, for their support.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Huibin
full_name: Han, Huibin
id: 31435098-F248-11E8-B48F-1D18A9856A87
last_name: Han
citation:
ama: Han H. Novel insights into PIN polarity regulation during Arabidopsis development.
2020. doi:10.15479/AT:ISTA:8589
apa: Han, H. (2020). Novel insights into PIN polarity regulation during Arabidopsis
development. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8589
chicago: Han, Huibin. “Novel Insights into PIN Polarity Regulation during Arabidopsis
Development.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8589.
ieee: H. Han, “Novel insights into PIN polarity regulation during Arabidopsis development,”
Institute of Science and Technology Austria, 2020.
ista: Han H. 2020. Novel insights into PIN polarity regulation during Arabidopsis
development. Institute of Science and Technology Austria.
mla: Han, Huibin. Novel Insights into PIN Polarity Regulation during Arabidopsis
Development. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8589.
short: H. Han, Novel Insights into PIN Polarity Regulation during Arabidopsis Development,
Institute of Science and Technology Austria, 2020.
date_created: 2020-09-30T14:50:51Z
date_published: 2020-09-30T00:00:00Z
date_updated: 2023-09-07T13:13:05Z
day: '30'
ddc:
- '580'
degree_awarded: PhD
department:
- _id: JiFr
doi: 10.15479/AT:ISTA:8589
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date_created: 2020-09-30T14:50:20Z
date_updated: 2020-09-30T14:50:20Z
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month: '09'
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oa_version: Published Version
page: '164'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
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relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
title: Novel insights into PIN polarity regulation during Arabidopsis development
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '8284'
abstract:
- lang: eng
text: Multiple resistance and pH adaptation (Mrp) antiporters are multi-subunit
Na+ (or K+)/H+ exchangers representing an ancestor of many essential redox-driven
proton pumps, such as respiratory complex I. The mechanism of coupling between
ion or electron transfer and proton translocation in this large protein family
is unknown. Here, we present the structure of the Mrp complex from Anoxybacillus
flavithermus solved by cryo-EM at 3.0 Å resolution. It is a dimer of seven-subunit
protomers with 50 trans-membrane helices each. Surface charge distribution within
each monomer is remarkably asymmetric, revealing probable proton and sodium translocation
pathways. On the basis of the structure we propose a mechanism where the coupling
between sodium and proton translocation is facilitated by a series of electrostatic
interactions between a cation and key charged residues. This mechanism is likely
to be applicable to the entire family of redox proton pumps, where electron transfer
to substrates replaces cation movements.
acknowledged_ssus:
- _id: EM-Fac
- _id: LifeSc
acknowledgement: This research was supported by the Scientific Service Units (SSU)
of IST Austria through resources provided by the Electron Microscopy Facility (EMF),
the Life Science Facility (LSF) and the IST high-performance computing cluster.
We thank Dr Victor-Valentin Hodirnau and Daniel Johann Gütl from IST Austria for
assistance with collecting cryo-EM data. We thank Prof. Masahiro Ito (Graduate School
of Life Sciences, Toyo University, Japan) for a kind provision of plasmid DNA encoding
Mrp from A. flavithermus WK1. JS is a recipient of a DOC Fellowship of the Austrian
Academy of Sciences at the Institute of Science and Technology, Austria.
article_number: e59407
article_processing_charge: No
article_type: original
author:
- first_name: Julia
full_name: Steiner, Julia
id: 3BB67EB0-F248-11E8-B48F-1D18A9856A87
last_name: Steiner
orcid: 0000-0003-0493-3775
- 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: Steiner J, Sazanov LA. Structure and mechanism of the Mrp complex, an ancient
cation/proton antiporter. eLife. 2020;9. doi:10.7554/eLife.59407
apa: Steiner, J., & Sazanov, L. A. (2020). Structure and mechanism of the Mrp
complex, an ancient cation/proton antiporter. ELife. eLife Sciences Publications.
https://doi.org/10.7554/eLife.59407
chicago: Steiner, Julia, and Leonid A Sazanov. “Structure and Mechanism of the Mrp
Complex, an Ancient Cation/Proton Antiporter.” ELife. eLife Sciences Publications,
2020. https://doi.org/10.7554/eLife.59407.
ieee: J. Steiner and L. A. Sazanov, “Structure and mechanism of the Mrp complex,
an ancient cation/proton antiporter,” eLife, vol. 9. eLife Sciences Publications,
2020.
ista: Steiner J, Sazanov LA. 2020. Structure and mechanism of the Mrp complex, an
ancient cation/proton antiporter. eLife. 9, e59407.
mla: Steiner, Julia, and Leonid A. Sazanov. “Structure and Mechanism of the Mrp
Complex, an Ancient Cation/Proton Antiporter.” ELife, vol. 9, e59407, eLife
Sciences Publications, 2020, doi:10.7554/eLife.59407.
short: J. Steiner, L.A. Sazanov, ELife 9 (2020).
date_created: 2020-08-24T06:24:04Z
date_published: 2020-07-31T00:00:00Z
date_updated: 2023-09-07T13:14:08Z
day: '31'
ddc:
- '570'
department:
- _id: LeSa
doi: 10.7554/eLife.59407
external_id:
isi:
- '000562123600001'
pmid:
- '32735215'
file:
- access_level: open_access
checksum: b3656d14d5ddbb9d26e3074eea2d0c15
content_type: application/pdf
creator: cziletti
date_created: 2020-08-24T13:31:53Z
date_updated: 2020-08-24T13:31:53Z
file_id: '8289'
file_name: 2020_eLife_Steiner.pdf
file_size: 7320493
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file_date_updated: 2020-08-24T13:31:53Z
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intvolume: ' 9'
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language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 26169496-B435-11E9-9278-68D0E5697425
grant_number: '24741'
name: Revealing the functional mechanism of Mrp antiporter, an ancestor of complex
I
publication: eLife
publication_identifier:
eissn:
- 2050084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/mystery-of-giant-proton-pump-solved/
record:
- id: '8353'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Structure and mechanism of the Mrp complex, an ancient cation/proton antiporter
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2020'
...
---
_id: '8155'
abstract:
- lang: eng
text: "In the thesis we focus on the interplay of the biophysics and evolution of
gene regulation. We start by addressing how the type of prokaryotic gene regulation
– activation and repression – affects spurious binding to DNA, also known as\r\ntranscriptional
crosstalk. We propose that regulatory interference caused by excess regulatory
proteins in the dense cellular medium – global crosstalk – could be a factor in
determining which type of gene regulatory network is evolutionarily preferred.
Next,we use a normative approach in eukaryotic gene regulation to describe minimal\r\nnon-equilibrium
enhancer models that optimize so-called regulatory phenotypes. We find a class
of models that differ from standard thermodynamic equilibrium models by a single
parameter that notably increases the regulatory performance. Next chapter addresses
the question of genotype-phenotype-fitness maps of higher dimensional phenotypes.
We show that our biophysically realistic approach allows us to understand how
the mechanisms of promoter function constrain genotypephenotype maps, and how
they affect the evolutionary trajectories of promoters.\r\nIn the last chapter
we ask whether the intrinsic instability of gene duplication and amplification
provides a generic alternative to canonical gene regulation. Using mathematical
modeling, we show that amplifications can tune gene expression in many environments,
including those where transcription factor-based schemes are\r\nhard to evolve
or maintain. "
acknowledgement: For the duration of his PhD, Rok was a recipient of a DOC fellowship
of the Austrian Academy of Sciences.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Rok
full_name: Grah, Rok
id: 483E70DE-F248-11E8-B48F-1D18A9856A87
last_name: Grah
orcid: 0000-0003-2539-3560
citation:
ama: Grah R. Gene regulation across scales – how biophysical constraints shape evolution.
2020. doi:10.15479/AT:ISTA:8155
apa: Grah, R. (2020). Gene regulation across scales – how biophysical constraints
shape evolution. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8155
chicago: Grah, Rok. “Gene Regulation across Scales – How Biophysical Constraints
Shape Evolution.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8155.
ieee: R. Grah, “Gene regulation across scales – how biophysical constraints shape
evolution,” Institute of Science and Technology Austria, 2020.
ista: Grah R. 2020. Gene regulation across scales – how biophysical constraints
shape evolution. Institute of Science and Technology Austria.
mla: Grah, Rok. Gene Regulation across Scales – How Biophysical Constraints Shape
Evolution. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8155.
short: R. Grah, Gene Regulation across Scales – How Biophysical Constraints Shape
Evolution, Institute of Science and Technology Austria, 2020.
date_created: 2020-07-23T09:51:28Z
date_published: 2020-07-24T00:00:00Z
date_updated: 2023-09-07T13:13:27Z
day: '24'
ddc:
- '530'
- '570'
degree_awarded: PhD
department:
- _id: CaGu
- _id: GaTk
doi: 10.15479/AT:ISTA:8155
file:
- access_level: open_access
content_type: application/pdf
creator: rgrah
date_created: 2020-07-27T12:00:07Z
date_updated: 2020-07-27T12:00:07Z
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file_size: 16638998
relation: main_file
success: 1
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content_type: application/zip
creator: rgrah
date_created: 2020-07-27T12:02:23Z
date_updated: 2020-07-30T13:04:55Z
file_id: '8177'
file_name: Thesis_new.zip
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relation: main_file
file_date_updated: 2020-07-30T13:04:55Z
has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: '310'
project:
- _id: 267C84F4-B435-11E9-9278-68D0E5697425
name: Biophysically realistic genotype-phenotype maps for regulatory networks
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7675'
relation: part_of_dissertation
status: public
- id: '7569'
relation: part_of_dissertation
status: public
- id: '7652'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Gene regulation across scales – how biophysical constraints shape evolution
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '7643'
acknowledgement: 'This work was supported by the European Research Council under the
European Union’s Horizon 2020 research and innovation Programme (ERC grant agreement
number 742985), and the Austrian Science Fund (FWF, grant number I 3630-B25) to
JF. HH is supported by the China Scholarship Council (CSC scholarship). '
article_processing_charge: No
article_type: letter_note
author:
- first_name: Huibin
full_name: Han, Huibin
id: 31435098-F248-11E8-B48F-1D18A9856A87
last_name: Han
- first_name: Hana
full_name: Rakusova, Hana
id: 4CAAA450-78D2-11EA-8E57-B40A396E08BA
last_name: Rakusova
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
- first_name: Yuzhou
full_name: Zhang, Yuzhou
id: 3B6137F2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
orcid: 0000-0003-2627-6956
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Han H, Rakusova H, Verstraeten I, Zhang Y, Friml J. SCF TIR1/AFB auxin signaling
for bending termination during shoot gravitropism. Plant Physiology. 2020;183(5):37-40.
doi:10.1104/pp.20.00212
apa: Han, H., Rakusova, H., Verstraeten, I., Zhang, Y., & Friml, J. (2020).
SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism.
Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.20.00212
chicago: Han, Huibin, Hana Rakusova, Inge Verstraeten, Yuzhou Zhang, and Jiří Friml.
“SCF TIR1/AFB Auxin Signaling for Bending Termination during Shoot Gravitropism.”
Plant Physiology. American Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00212.
ieee: H. Han, H. Rakusova, I. Verstraeten, Y. Zhang, and J. Friml, “SCF TIR1/AFB
auxin signaling for bending termination during shoot gravitropism,” Plant Physiology,
vol. 183, no. 5. American Society of Plant Biologists, pp. 37–40, 2020.
ista: Han H, Rakusova H, Verstraeten I, Zhang Y, Friml J. 2020. SCF TIR1/AFB auxin
signaling for bending termination during shoot gravitropism. Plant Physiology.
183(5), 37–40.
mla: Han, Huibin, et al. “SCF TIR1/AFB Auxin Signaling for Bending Termination during
Shoot Gravitropism.” Plant Physiology, vol. 183, no. 5, American Society
of Plant Biologists, 2020, pp. 37–40, doi:10.1104/pp.20.00212.
short: H. Han, H. Rakusova, I. Verstraeten, Y. Zhang, J. Friml, Plant Physiology
183 (2020) 37–40.
date_created: 2020-04-06T10:06:40Z
date_published: 2020-05-08T00:00:00Z
date_updated: 2023-09-07T13:13:04Z
day: '08'
department:
- _id: JiFr
doi: 10.1104/pp.20.00212
ec_funded: 1
external_id:
isi:
- '000536641800018'
pmid:
- '32107280'
intvolume: ' 183'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1104/pp.20.00212
month: '05'
oa: 1
oa_version: Published Version
page: 37-40
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: Plant Physiology
publication_identifier:
eissn:
- 1532-2548
issn:
- 0032-0889
publication_status: published
publisher: American Society of Plant Biologists
quality_controlled: '1'
related_material:
record:
- id: '8589'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 183
year: '2020'
...
---
_id: '7675'
abstract:
- lang: eng
text: 'In prokaryotes, thermodynamic models of gene regulation provide a highly
quantitative mapping from promoter sequences to gene expression levels that is
compatible with in vivo and in vitro bio-physical measurements. Such concordance
has not been achieved for models of enhancer function in eukaryotes. In equilibrium
models, it is difficult to reconcile the reported short transcription factor (TF)
residence times on the DNA with the high specificity of regulation. In non-equilibrium
models, progress is difficult due to an explosion in the number of parameters.
Here, we navigate this complexity by looking for minimal non-equilibrium enhancer
models that yield desired regulatory phenotypes: low TF residence time, high specificity
and tunable cooperativity. We find that a single extra parameter, interpretable
as the “linking rate” by which bound TFs interact with Mediator components, enables
our models to escape equilibrium bounds and access optimal regulatory phenotypes,
while remaining consistent with the reported phenomenology and simple enough to
be inferred from upcoming experiments. We further find that high specificity in
non-equilibrium models is in a tradeoff with gene expression noise, predicting
bursty dynamics — an experimentally-observed hallmark of eukaryotic transcription.
By drastically reducing the vast parameter space to a much smaller subspace that
optimally realizes biological function prior to inference from data, our normative
approach holds promise for mathematical models in systems biology.'
article_processing_charge: No
author:
- first_name: Rok
full_name: Grah, Rok
id: 483E70DE-F248-11E8-B48F-1D18A9856A87
last_name: Grah
orcid: 0000-0003-2539-3560
- first_name: Benjamin
full_name: Zoller, Benjamin
last_name: Zoller
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: Grah R, Zoller B, Tkačik G. Normative models of enhancer function. bioRxiv.
2020. doi:10.1101/2020.04.08.029405
apa: Grah, R., Zoller, B., & Tkačik, G. (2020). Normative models of enhancer
function. bioRxiv. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2020.04.08.029405
chicago: Grah, Rok, Benjamin Zoller, and Gašper Tkačik. “Normative Models of Enhancer
Function.” BioRxiv. Cold Spring Harbor Laboratory, 2020. https://doi.org/10.1101/2020.04.08.029405.
ieee: R. Grah, B. Zoller, and G. Tkačik, “Normative models of enhancer function,”
bioRxiv. Cold Spring Harbor Laboratory, 2020.
ista: Grah R, Zoller B, Tkačik G. 2020. Normative models of enhancer function. bioRxiv,
10.1101/2020.04.08.029405.
mla: Grah, Rok, et al. “Normative Models of Enhancer Function.” BioRxiv,
Cold Spring Harbor Laboratory, 2020, doi:10.1101/2020.04.08.029405.
short: R. Grah, B. Zoller, G. Tkačik, BioRxiv (2020).
date_created: 2020-04-23T10:12:51Z
date_published: 2020-04-09T00:00:00Z
date_updated: 2023-09-07T13:13:26Z
day: '09'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1101/2020.04.08.029405
language:
- iso: eng
main_file_link:
- open_access: '1'
url: 'https://doi.org/10.1101/2020.04.08.029405 '
month: '04'
oa: 1
oa_version: Preprint
project:
- _id: 2665AAFE-B435-11E9-9278-68D0E5697425
grant_number: RGP0034/2018
name: Can evolution minimize spurious signaling crosstalk to reach optimal performance?
- _id: 267C84F4-B435-11E9-9278-68D0E5697425
name: Biophysically realistic genotype-phenotype maps for regulatory networks
publication: bioRxiv
publication_status: published
publisher: Cold Spring Harbor Laboratory
related_material:
record:
- id: '8155'
relation: dissertation_contains
status: public
status: public
title: Normative models of enhancer function
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7460'
abstract:
- lang: eng
text: "Many methods for the reconstruction of shapes from sets of points produce
ordered simplicial complexes, which are collections of vertices, edges, triangles,
and their higher-dimensional analogues, called simplices, in which every simplex
gets assigned a real value measuring its size. This thesis studies ordered simplicial
complexes, with a focus on their topology, which reflects the connectedness of
the represented shapes and the presence of holes. We are interested both in understanding
better the structure of these complexes, as well as in developing algorithms for
applications.\r\n\r\nFor the Delaunay triangulation, the most popular measure
for a simplex is the radius of the smallest empty circumsphere. Based on it, we
revisit Alpha and Wrap complexes and experimentally determine their probabilistic
properties for random data. Also, we prove the existence of tri-partitions, propose
algorithms to open and close holes, and extend the concepts from Euclidean to
Bregman geometries."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Katharina
full_name: Ölsböck, Katharina
id: 4D4AA390-F248-11E8-B48F-1D18A9856A87
last_name: Ölsböck
orcid: 0000-0002-4672-8297
citation:
ama: Ölsböck K. The hole system of triangulated shapes. 2020. doi:10.15479/AT:ISTA:7460
apa: Ölsböck, K. (2020). The hole system of triangulated shapes. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7460
chicago: Ölsböck, Katharina. “The Hole System of Triangulated Shapes.” Institute
of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7460.
ieee: K. Ölsböck, “The hole system of triangulated shapes,” Institute of Science
and Technology Austria, 2020.
ista: Ölsböck K. 2020. The hole system of triangulated shapes. Institute of Science
and Technology Austria.
mla: Ölsböck, Katharina. The Hole System of Triangulated Shapes. Institute
of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7460.
short: K. Ölsböck, The Hole System of Triangulated Shapes, Institute of Science
and Technology Austria, 2020.
date_created: 2020-02-06T14:56:53Z
date_published: 2020-02-10T00:00:00Z
date_updated: 2023-09-07T13:15:30Z
day: '10'
ddc:
- '514'
degree_awarded: PhD
department:
- _id: HeEd
- _id: GradSch
doi: 10.15479/AT:ISTA:7460
file:
- access_level: open_access
checksum: 1df9f8c530b443c0e63a3f2e4fde412e
content_type: application/pdf
creator: koelsboe
date_created: 2020-02-06T14:43:54Z
date_updated: 2020-07-14T12:47:58Z
file_id: '7461'
file_name: thesis_ist-final_noack.pdf
file_size: 76195184
relation: main_file
- access_level: closed
checksum: 7a52383c812b0be64d3826546509e5a4
content_type: application/x-zip-compressed
creator: koelsboe
date_created: 2020-02-06T14:52:45Z
date_updated: 2020-07-14T12:47:58Z
description: latex source files, figures
file_id: '7462'
file_name: latex-files.zip
file_size: 122103715
relation: source_file
file_date_updated: 2020-07-14T12:47:58Z
has_accepted_license: '1'
keyword:
- shape reconstruction
- hole manipulation
- ordered complexes
- Alpha complex
- Wrap complex
- computational topology
- Bregman geometry
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '02'
oa: 1
oa_version: Published Version
page: '155'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6608'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
title: The hole system of triangulated shapes
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: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '7896'
abstract:
- lang: eng
text: "A search problem lies in the complexity class FNP if a solution to the given
instance of the problem can be verified efficiently. The complexity class TFNP
consists of all search problems in FNP that are total in the sense that a solution
is guaranteed to exist. TFNP contains a host of interesting problems from fields
such as algorithmic game theory, computational topology, number theory and combinatorics.
Since TFNP is a semantic class, it is unlikely to have a complete problem. Instead,
one studies its syntactic subclasses which are defined based on the combinatorial
principle used to argue totality. Of particular interest is the subclass PPAD,
which contains important problems\r\nlike computing Nash equilibrium for bimatrix
games and computational counterparts of several fixed-point theorems as complete.
In the thesis, we undertake the study of averagecase hardness of TFNP, and in
particular its subclass PPAD.\r\nAlmost nothing was known about average-case hardness
of PPAD before a series of recent results showed how to achieve it using a cryptographic
primitive called program obfuscation.\r\nHowever, it is currently not known how
to construct program obfuscation from standard cryptographic assumptions. Therefore,
it is desirable to relax the assumption under which average-case hardness of PPAD
can be shown. In the thesis we take a step in this direction. First, we show that
assuming the (average-case) hardness of a numbertheoretic\r\nproblem related to
factoring of integers, which we call Iterated-Squaring, PPAD is hard-on-average
in the random-oracle model. Then we strengthen this result to show that the average-case
hardness of PPAD reduces to the (adaptive) soundness of the Fiat-Shamir Transform,
a well-known technique used to compile a public-coin interactive protocol into
a non-interactive one. As a corollary, we obtain average-case hardness for PPAD
in the random-oracle model assuming the worst-case hardness of #SAT. Moreover,
the above results can all be strengthened to obtain average-case hardness for
the class CLS ⊆ PPAD.\r\nOur main technical contribution is constructing incrementally-verifiable
procedures for computing Iterated-Squaring and #SAT. By incrementally-verifiable,
we mean that every intermediate state of the computation includes a proof of its
correctness, and the proof can be updated and verified in polynomial time. Previous
constructions of such procedures relied on strong, non-standard assumptions. Instead,
we introduce a technique called recursive proof-merging to obtain the same from
weaker assumptions. "
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Chethan
full_name: Kamath Hosdurg, Chethan
id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87
last_name: Kamath Hosdurg
citation:
ama: Kamath Hosdurg C. On the average-case hardness of total search problems. 2020.
doi:10.15479/AT:ISTA:7896
apa: Kamath Hosdurg, C. (2020). On the average-case hardness of total search
problems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7896
chicago: Kamath Hosdurg, Chethan. “On the Average-Case Hardness of Total Search
Problems.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7896.
ieee: C. Kamath Hosdurg, “On the average-case hardness of total search problems,”
Institute of Science and Technology Austria, 2020.
ista: Kamath Hosdurg C. 2020. On the average-case hardness of total search problems.
Institute of Science and Technology Austria.
mla: Kamath Hosdurg, Chethan. On the Average-Case Hardness of Total Search Problems.
Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7896.
short: C. Kamath Hosdurg, On the Average-Case Hardness of Total Search Problems,
Institute of Science and Technology Austria, 2020.
date_created: 2020-05-26T14:08:55Z
date_published: 2020-05-25T00:00:00Z
date_updated: 2023-09-07T13:15:55Z
day: '25'
ddc:
- '000'
degree_awarded: PhD
department:
- _id: KrPi
doi: 10.15479/AT:ISTA:7896
ec_funded: 1
file:
- access_level: open_access
checksum: b39e2e1c376f5819b823fb7077491c64
content_type: application/pdf
creator: dernst
date_created: 2020-05-26T14:08:13Z
date_updated: 2020-07-14T12:48:04Z
file_id: '7897'
file_name: 2020_Thesis_Kamath.pdf
file_size: 1622742
relation: main_file
- access_level: closed
checksum: 8b26ba729c1a85ac6bea775f5d73cdc7
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-05-26T14:08:23Z
date_updated: 2020-07-14T12:48:04Z
file_id: '7898'
file_name: Thesis_Kamath.zip
file_size: 15301529
relation: source_file
file_date_updated: 2020-07-14T12:48:04Z
has_accepted_license: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '126'
project:
- _id: 258C570E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '259668'
name: Provable Security for Physical Cryptography
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6677'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
title: On the average-case hardness of total search problems
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '7936'
abstract:
- lang: eng
text: 'State-of-the-art detection systems are generally evaluated on their ability
to exhaustively retrieve objects densely distributed in the image, across a wide
variety of appearances and semantic categories. Orthogonal to this, many real-life
object detection applications, for example in remote sensing, instead require
dealing with large images that contain only a few small objects of a single class,
scattered heterogeneously across the space. In addition, they are often subject
to strict computational constraints, such as limited battery capacity and computing
power.To tackle these more practical scenarios, we propose a novel flexible detection
scheme that efficiently adapts to variable object sizes and densities: We rely
on a sequence of detection stages, each of which has the ability to predict groups
of objects as well as individuals. Similar to a detection cascade, this multi-stage
architecture spares computational effort by discarding large irrelevant regions
of the image early during the detection process. The ability to group objects
provides further computational and memory savings, as it allows working with lower
image resolutions in early stages, where groups are more easily detected than
individuals, as they are more salient. We report experimental results on two aerial
image datasets, and show that the proposed method is as accurate yet computationally
more efficient than standard single-shot detectors, consistently across three
different backbone architectures.'
article_number: 1716-1725
article_processing_charge: No
author:
- first_name: Amélie
full_name: Royer, Amélie
id: 3811D890-F248-11E8-B48F-1D18A9856A87
last_name: Royer
orcid: 0000-0002-8407-0705
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Royer A, Lampert C. Localizing grouped instances for efficient detection in
low-resource scenarios. In: IEEE Winter Conference on Applications of Computer
Vision. IEEE; 2020. doi:10.1109/WACV45572.2020.9093288'
apa: 'Royer, A., & Lampert, C. (2020). Localizing grouped instances for efficient
detection in low-resource scenarios. In IEEE Winter Conference on Applications
of Computer Vision. Snowmass Village, CO, United States: IEEE. https://doi.org/10.1109/WACV45572.2020.9093288'
chicago: Royer, Amélie, and Christoph Lampert. “Localizing Grouped Instances for
Efficient Detection in Low-Resource Scenarios.” In IEEE Winter Conference on
Applications of Computer Vision. IEEE, 2020. https://doi.org/10.1109/WACV45572.2020.9093288.
ieee: A. Royer and C. Lampert, “Localizing grouped instances for efficient detection
in low-resource scenarios,” in IEEE Winter Conference on Applications of Computer
Vision, Snowmass Village, CO, United States, 2020.
ista: 'Royer A, Lampert C. 2020. Localizing grouped instances for efficient detection
in low-resource scenarios. IEEE Winter Conference on Applications of Computer
Vision. WACV: Winter Conference on Applications of Computer Vision, 1716–1725.'
mla: Royer, Amélie, and Christoph Lampert. “Localizing Grouped Instances for Efficient
Detection in Low-Resource Scenarios.” IEEE Winter Conference on Applications
of Computer Vision, 1716–1725, IEEE, 2020, doi:10.1109/WACV45572.2020.9093288.
short: A. Royer, C. Lampert, in:, IEEE Winter Conference on Applications of Computer
Vision, IEEE, 2020.
conference:
end_date: 2020-03-05
location: ' Snowmass Village, CO, United States'
name: 'WACV: Winter Conference on Applications of Computer Vision'
start_date: 2020-03-01
date_created: 2020-06-07T22:00:53Z
date_published: 2020-03-01T00:00:00Z
date_updated: 2023-09-07T13:16:17Z
day: '01'
department:
- _id: ChLa
doi: 10.1109/WACV45572.2020.9093288
external_id:
arxiv:
- '2004.12623'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2004.12623
month: '03'
oa: 1
oa_version: Preprint
publication: IEEE Winter Conference on Applications of Computer Vision
publication_identifier:
isbn:
- '9781728165530'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '8331'
relation: dissertation_contains
status: deleted
- id: '8390'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Localizing grouped instances for efficient detection in low-resource scenarios
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7937'
abstract:
- lang: eng
text: 'Fine-tuning is a popular way of exploiting knowledge contained in a pre-trained
convolutional network for a new visual recognition task. However, the orthogonal
setting of transferring knowledge from a pretrained network to a visually different
yet semantically close source is rarely considered: This commonly happens with
real-life data, which is not necessarily as clean as the training source (noise,
geometric transformations, different modalities, etc.).To tackle such scenarios,
we introduce a new, generalized form of fine-tuning, called flex-tuning, in which
any individual unit (e.g. layer) of a network can be tuned, and the most promising
one is chosen automatically. In order to make the method appealing for practical
use, we propose two lightweight and faster selection procedures that prove to
be good approximations in practice. We study these selection criteria empirically
across a variety of domain shifts and data scarcity scenarios, and show that fine-tuning
individual units, despite its simplicity, yields very good results as an adaptation
technique. As it turns out, in contrast to common practice, rather than the last
fully-connected unit it is best to tune an intermediate or early one in many domain-
shift scenarios, which is accurately detected by flex-tuning.'
article_number: 2180-2189
article_processing_charge: No
author:
- first_name: Amélie
full_name: Royer, Amélie
id: 3811D890-F248-11E8-B48F-1D18A9856A87
last_name: Royer
orcid: 0000-0002-8407-0705
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Royer A, Lampert C. A flexible selection scheme for minimum-effort transfer
learning. In: 2020 IEEE Winter Conference on Applications of Computer Vision.
IEEE; 2020. doi:10.1109/WACV45572.2020.9093635'
apa: 'Royer, A., & Lampert, C. (2020). A flexible selection scheme for minimum-effort
transfer learning. In 2020 IEEE Winter Conference on Applications of Computer
Vision. Snowmass Village, CO, United States: IEEE. https://doi.org/10.1109/WACV45572.2020.9093635'
chicago: Royer, Amélie, and Christoph Lampert. “A Flexible Selection Scheme for
Minimum-Effort Transfer Learning.” In 2020 IEEE Winter Conference on Applications
of Computer Vision. IEEE, 2020. https://doi.org/10.1109/WACV45572.2020.9093635.
ieee: A. Royer and C. Lampert, “A flexible selection scheme for minimum-effort transfer
learning,” in 2020 IEEE Winter Conference on Applications of Computer Vision,
Snowmass Village, CO, United States, 2020.
ista: 'Royer A, Lampert C. 2020. A flexible selection scheme for minimum-effort
transfer learning. 2020 IEEE Winter Conference on Applications of Computer Vision.
WACV: Winter Conference on Applications of Computer Vision, 2180–2189.'
mla: Royer, Amélie, and Christoph Lampert. “A Flexible Selection Scheme for Minimum-Effort
Transfer Learning.” 2020 IEEE Winter Conference on Applications of Computer
Vision, 2180–2189, IEEE, 2020, doi:10.1109/WACV45572.2020.9093635.
short: A. Royer, C. Lampert, in:, 2020 IEEE Winter Conference on Applications of
Computer Vision, IEEE, 2020.
conference:
end_date: 2020-03-05
location: Snowmass Village, CO, United States
name: 'WACV: Winter Conference on Applications of Computer Vision'
start_date: 2020-03-01
date_created: 2020-06-07T22:00:53Z
date_published: 2020-03-01T00:00:00Z
date_updated: 2023-09-07T13:16:17Z
day: '01'
department:
- _id: ChLa
doi: 10.1109/WACV45572.2020.9093635
external_id:
arxiv:
- '2008.11995'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/2008.11995
month: '03'
oa: 1
oa_version: Preprint
publication: 2020 IEEE Winter Conference on Applications of Computer Vision
publication_identifier:
isbn:
- '9781728165530'
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '8331'
relation: dissertation_contains
status: deleted
- id: '8390'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: A flexible selection scheme for minimum-effort transfer learning
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8193'
abstract:
- lang: eng
text: 'Multiple-environment Markov decision processes (MEMDPs) are MDPs equipped
with not one, but multiple probabilistic transition functions, which represent
the various possible unknown environments. While the previous research on MEMDPs
focused on theoretical properties for long-run average payoff, we study them with
discounted-sum payoff and focus on their practical advantages and applications.
MEMDPs can be viewed as a special case of Partially observable and Mixed observability
MDPs: the state of the system is perfectly observable, but not the environment.
We show that the specific structure of MEMDPs allows for more efficient algorithmic
analysis, in particular for faster belief updates. We demonstrate the applicability
of MEMDPs in several domains. In particular, we formalize the sequential decision-making
approach to contextual recommendation systems as MEMDPs and substantially improve
over the previous MDP approach.'
acknowledgement: Krishnendu Chatterjee is supported by the Austrian ScienceFund (FWF)
NFN Grant No. S11407-N23 (RiSE/SHiNE),and COST Action GAMENET. Petr Novotn ́y is
supported bythe Czech Science Foundation grant No. GJ19-15134Y.
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: Martin
full_name: Chmelik, Martin
id: 3624234E-F248-11E8-B48F-1D18A9856A87
last_name: Chmelik
- first_name: Deep
full_name: Karkhanis, Deep
last_name: Karkhanis
- first_name: Petr
full_name: Novotný, Petr
id: 3CC3B868-F248-11E8-B48F-1D18A9856A87
last_name: Novotný
- first_name: Amélie
full_name: Royer, Amélie
id: 3811D890-F248-11E8-B48F-1D18A9856A87
last_name: Royer
orcid: 0000-0002-8407-0705
citation:
ama: 'Chatterjee K, Chmelik M, Karkhanis D, Novotný P, Royer A. Multiple-environment
Markov decision processes: Efficient analysis and applications. In: Proceedings
of the 30th International Conference on Automated Planning and Scheduling.
Vol 30. Association for the Advancement of Artificial Intelligence; 2020:48-56.'
apa: 'Chatterjee, K., Chmelik, M., Karkhanis, D., Novotný, P., & Royer, A. (2020).
Multiple-environment Markov decision processes: Efficient analysis and applications.
In Proceedings of the 30th International Conference on Automated Planning and
Scheduling (Vol. 30, pp. 48–56). Nancy, France: Association for the Advancement
of Artificial Intelligence.'
chicago: 'Chatterjee, Krishnendu, Martin Chmelik, Deep Karkhanis, Petr Novotný,
and Amélie Royer. “Multiple-Environment Markov Decision Processes: Efficient Analysis
and Applications.” In Proceedings of the 30th International Conference on Automated
Planning and Scheduling, 30:48–56. Association for the Advancement of Artificial
Intelligence, 2020.'
ieee: 'K. Chatterjee, M. Chmelik, D. Karkhanis, P. Novotný, and A. Royer, “Multiple-environment
Markov decision processes: Efficient analysis and applications,” in Proceedings
of the 30th International Conference on Automated Planning and Scheduling,
Nancy, France, 2020, vol. 30, pp. 48–56.'
ista: 'Chatterjee K, Chmelik M, Karkhanis D, Novotný P, Royer A. 2020. Multiple-environment
Markov decision processes: Efficient analysis and applications. Proceedings of
the 30th International Conference on Automated Planning and Scheduling. ICAPS:
International Conference on Automated Planning and Scheduling vol. 30, 48–56.'
mla: 'Chatterjee, Krishnendu, et al. “Multiple-Environment Markov Decision Processes:
Efficient Analysis and Applications.” Proceedings of the 30th International
Conference on Automated Planning and Scheduling, vol. 30, Association for
the Advancement of Artificial Intelligence, 2020, pp. 48–56.'
short: K. Chatterjee, M. Chmelik, D. Karkhanis, P. Novotný, A. Royer, in:, Proceedings
of the 30th International Conference on Automated Planning and Scheduling, Association
for the Advancement of Artificial Intelligence, 2020, pp. 48–56.
conference:
end_date: 2020-10-30
location: Nancy, France
name: 'ICAPS: International Conference on Automated Planning and Scheduling'
start_date: 2020-10-26
date_created: 2020-08-02T22:00:58Z
date_published: 2020-06-01T00:00:00Z
date_updated: 2023-09-07T13:16:18Z
day: '01'
department:
- _id: KrCh
intvolume: ' 30'
language:
- iso: eng
month: '06'
oa_version: None
page: 48-56
project:
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
publication: Proceedings of the 30th International Conference on Automated Planning
and Scheduling
publication_identifier:
eissn:
- '23340843'
issn:
- '23340835'
publication_status: published
publisher: Association for the Advancement of Artificial Intelligence
quality_controlled: '1'
related_material:
record:
- id: '8390'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'Multiple-environment Markov decision processes: Efficient analysis and applications'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2020'
...
---
_id: '8092'
abstract:
- lang: eng
text: Image translation refers to the task of mapping images from a visual domain
to another. Given two unpaired collections of images, we aim to learn a mapping
between the corpus-level style of each collection, while preserving semantic content
shared across the two domains. We introduce xgan, a dual adversarial auto-encoder,
which captures a shared representation of the common domain semantic content in
an unsupervised way, while jointly learning the domain-to-domain image translations
in both directions. We exploit ideas from the domain adaptation literature and
define a semantic consistency loss which encourages the learned embedding to preserve
semantics shared across domains. We report promising qualitative results for the
task of face-to-cartoon translation. The cartoon dataset we collected for this
purpose, “CartoonSet”, is also publicly available as a new benchmark for semantic
style transfer at https://google.github.io/cartoonset/index.html.
article_processing_charge: No
author:
- first_name: Amélie
full_name: Royer, Amélie
id: 3811D890-F248-11E8-B48F-1D18A9856A87
last_name: Royer
orcid: 0000-0002-8407-0705
- first_name: Konstantinos
full_name: Bousmalis, Konstantinos
last_name: Bousmalis
- first_name: Stephan
full_name: Gouws, Stephan
last_name: Gouws
- first_name: Fred
full_name: Bertsch, Fred
last_name: Bertsch
- first_name: Inbar
full_name: Mosseri, Inbar
last_name: Mosseri
- first_name: Forrester
full_name: Cole, Forrester
last_name: Cole
- first_name: Kevin
full_name: Murphy, Kevin
last_name: Murphy
citation:
ama: 'Royer A, Bousmalis K, Gouws S, et al. XGAN: Unsupervised image-to-image translation
for many-to-many mappings. In: Singh R, Vatsa M, Patel VM, Ratha N, eds. Domain
Adaptation for Visual Understanding. Springer Nature; 2020:33-49. doi:10.1007/978-3-030-30671-7_3'
apa: 'Royer, A., Bousmalis, K., Gouws, S., Bertsch, F., Mosseri, I., Cole, F., &
Murphy, K. (2020). XGAN: Unsupervised image-to-image translation for many-to-many
mappings. In R. Singh, M. Vatsa, V. M. Patel, & N. Ratha (Eds.), Domain
Adaptation for Visual Understanding (pp. 33–49). Springer Nature. https://doi.org/10.1007/978-3-030-30671-7_3'
chicago: 'Royer, Amélie, Konstantinos Bousmalis, Stephan Gouws, Fred Bertsch, Inbar
Mosseri, Forrester Cole, and Kevin Murphy. “XGAN: Unsupervised Image-to-Image
Translation for Many-to-Many Mappings.” In Domain Adaptation for Visual Understanding,
edited by Richa Singh, Mayank Vatsa, Vishal M. Patel, and Nalini Ratha, 33–49.
Springer Nature, 2020. https://doi.org/10.1007/978-3-030-30671-7_3.'
ieee: 'A. Royer et al., “XGAN: Unsupervised image-to-image translation for
many-to-many mappings,” in Domain Adaptation for Visual Understanding,
R. Singh, M. Vatsa, V. M. Patel, and N. Ratha, Eds. Springer Nature, 2020, pp.
33–49.'
ista: 'Royer A, Bousmalis K, Gouws S, Bertsch F, Mosseri I, Cole F, Murphy K. 2020.XGAN:
Unsupervised image-to-image translation for many-to-many mappings. In: Domain
Adaptation for Visual Understanding. , 33–49.'
mla: 'Royer, Amélie, et al. “XGAN: Unsupervised Image-to-Image Translation for Many-to-Many
Mappings.” Domain Adaptation for Visual Understanding, edited by Richa
Singh et al., Springer Nature, 2020, pp. 33–49, doi:10.1007/978-3-030-30671-7_3.'
short: A. Royer, K. Bousmalis, S. Gouws, F. Bertsch, I. Mosseri, F. Cole, K. Murphy,
in:, R. Singh, M. Vatsa, V.M. Patel, N. Ratha (Eds.), Domain Adaptation for Visual
Understanding, Springer Nature, 2020, pp. 33–49.
date_created: 2020-07-05T22:00:46Z
date_published: 2020-01-08T00:00:00Z
date_updated: 2023-09-07T13:16:18Z
day: '08'
department:
- _id: ChLa
doi: 10.1007/978-3-030-30671-7_3
editor:
- first_name: Richa
full_name: Singh, Richa
last_name: Singh
- first_name: Mayank
full_name: Vatsa, Mayank
last_name: Vatsa
- first_name: Vishal M.
full_name: Patel, Vishal M.
last_name: Patel
- first_name: Nalini
full_name: Ratha, Nalini
last_name: Ratha
external_id:
arxiv:
- '1711.05139'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1711.05139
month: '01'
oa: 1
oa_version: Preprint
page: 33-49
publication: Domain Adaptation for Visual Understanding
publication_identifier:
isbn:
- '9783030306717'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '8331'
relation: dissertation_contains
status: deleted
- id: '8390'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'XGAN: Unsupervised image-to-image translation for many-to-many mappings'
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7944'
abstract:
- lang: eng
text: "This thesis considers two examples of reconfiguration problems: flipping
edges in edge-labelled triangulations of planar point sets and swapping labelled
tokens placed on vertices of a graph. In both cases the studied structures – all
the triangulations of a given point set or all token placements on a given graph
– can be thought of as vertices of the so-called reconfiguration graph, in which
two vertices are adjacent if the corresponding structures differ by a single elementary
operation – by a flip of a diagonal in a triangulation or by a swap of tokens
on adjacent vertices, respectively. We study the reconfiguration of one instance
of a structure into another via (shortest) paths in the reconfiguration graph.\r\n\r\nFor
triangulations of point sets in which each edge has a unique label and a flip
transfers the label from the removed edge to the new edge, we prove a polynomial-time
testable condition, called the Orbit Theorem, that characterizes when two triangulations
of the same point set lie in the same connected component of the reconfiguration
graph. The condition was first conjectured by Bose, Lubiw, Pathak and Verdonschot.
We additionally provide a polynomial time algorithm that computes a reconfiguring
flip sequence, if it exists. Our proof of the Orbit Theorem uses topological properties
of a certain high-dimensional cell complex that has the usual reconfiguration
graph as its 1-skeleton.\r\n\r\nIn the context of token swapping on a tree graph,
we make partial progress on the problem of finding shortest reconfiguration sequences.
We disprove the so-called Happy Leaf Conjecture and demonstrate the importance
of swapping tokens that are already placed at the correct vertices. We also prove
that a generalization of the problem to weighted coloured token swapping is NP-hard
on trees but solvable in polynomial time on paths and stars."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Zuzana
full_name: Masárová, Zuzana
id: 45CFE238-F248-11E8-B48F-1D18A9856A87
last_name: Masárová
orcid: 0000-0002-6660-1322
citation:
ama: Masárová Z. Reconfiguration problems. 2020. doi:10.15479/AT:ISTA:7944
apa: Masárová, Z. (2020). Reconfiguration problems. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:7944
chicago: Masárová, Zuzana. “Reconfiguration Problems.” Institute of Science and
Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7944.
ieee: Z. Masárová, “Reconfiguration problems,” Institute of Science and Technology
Austria, 2020.
ista: Masárová Z. 2020. Reconfiguration problems. Institute of Science and Technology
Austria.
mla: Masárová, Zuzana. Reconfiguration Problems. Institute of Science and
Technology Austria, 2020, doi:10.15479/AT:ISTA:7944.
short: Z. Masárová, Reconfiguration Problems, Institute of Science and Technology
Austria, 2020.
date_created: 2020-06-08T00:49:46Z
date_published: 2020-06-09T00:00:00Z
date_updated: 2023-09-07T13:17:37Z
day: '09'
ddc:
- '516'
- '514'
degree_awarded: PhD
department:
- _id: HeEd
- _id: UlWa
doi: 10.15479/AT:ISTA:7944
file:
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checksum: df688bc5a82b50baee0b99d25fc7b7f0
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date_created: 2020-06-08T00:34:00Z
date_updated: 2020-07-14T12:48:05Z
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file_size: 13661779
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content_type: application/zip
creator: zmasarov
date_created: 2020-06-08T00:35:30Z
date_updated: 2020-07-14T12:48:05Z
file_id: '7946'
file_name: THESIS_Zuzka_Masarova_SOURCE_FILES.zip
file_size: 32184006
relation: source_file
file_date_updated: 2020-07-14T12:48:05Z
has_accepted_license: '1'
keyword:
- reconfiguration
- reconfiguration graph
- triangulations
- flip
- constrained triangulations
- shellability
- piecewise-linear balls
- token swapping
- trees
- coloured weighted token swapping
language:
- iso: eng
license: https://creativecommons.org/licenses/by-sa/4.0/
month: '06'
oa: 1
oa_version: Published Version
page: '160'
publication_identifier:
isbn:
- 978-3-99078-005-3
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7950'
relation: part_of_dissertation
status: public
- id: '5986'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
title: Reconfiguration problems
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '8587'
abstract:
- lang: eng
text: Inspired by the possibility to experimentally manipulate and enhance chemical
reactivity in helium nanodroplets, we investigate the effective interaction and
the resulting correlations between two diatomic molecules immersed in a bath of
bosons. By analogy with the bipolaron, we introduce the biangulon quasiparticle
describing two rotating molecules that align with respect to each other due to
the effective attractive interaction mediated by the excitations of the bath.
We study this system in different parameter regimes and apply several theoretical
approaches to describe its properties. Using a Born–Oppenheimer approximation,
we investigate the dependence of the effective intermolecular interaction on the
rotational state of the two molecules. In the strong-coupling regime, a product-state
ansatz shows that the molecules tend to have a strong alignment in the ground
state. To investigate the system in the weak-coupling regime, we apply a one-phonon
excitation variational ansatz, which allows us to access the energy spectrum.
In comparison to the angulon quasiparticle, the biangulon shows shifted angulon
instabilities and an additional spectral instability, where resonant angular momentum
transfer between the molecules and the bath takes place. These features are proposed
as an experimentally observable signature for the formation of the biangulon quasiparticle.
Finally, by using products of single angulon and bare impurity wave functions
as basis states, we introduce a diagonalization scheme that allows us to describe
the transition from two separated angulons to a biangulon as a function of the
distance between the two molecules.
acknowledgement: We are grateful to Areg Ghazaryan for valuable discussions. M.L.
acknowledges support from the Austrian Science Fund (FWF) under Project No. P29902-N27
and from the European Research Council (ERC) Starting Grant No. 801770 (ANGULON).
G.B. acknowledges support from the Austrian Science Fund (FWF) under Project No.
M2461-N27. A.D. acknowledges funding from the European Union’s Horizon 2020 research
and innovation programme under the European Research Council (ERC) Grant Agreement
No. 694227 and under the Marie Sklodowska-Curie Grant Agreement No. 836146. R.S.
was supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation)
under Germany’s Excellence Strategy – EXC-2111 – 390814868.
article_number: '164302'
article_processing_charge: No
article_type: original
author:
- first_name: Xiang
full_name: Li, Xiang
id: 4B7E523C-F248-11E8-B48F-1D18A9856A87
last_name: Li
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
- first_name: Giacomo
full_name: Bighin, Giacomo
id: 4CA96FD4-F248-11E8-B48F-1D18A9856A87
last_name: Bighin
orcid: 0000-0001-8823-9777
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Andreas
full_name: Deuchert, Andreas
id: 4DA65CD0-F248-11E8-B48F-1D18A9856A87
last_name: Deuchert
orcid: 0000-0003-3146-6746
citation:
ama: Li X, Yakaboylu E, Bighin G, Schmidt R, Lemeshko M, Deuchert A. Intermolecular
forces and correlations mediated by a phonon bath. The Journal of Chemical
Physics. 2020;152(16). doi:10.1063/1.5144759
apa: Li, X., Yakaboylu, E., Bighin, G., Schmidt, R., Lemeshko, M., & Deuchert,
A. (2020). Intermolecular forces and correlations mediated by a phonon bath. The
Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/1.5144759
chicago: Li, Xiang, Enderalp Yakaboylu, Giacomo Bighin, Richard Schmidt, Mikhail
Lemeshko, and Andreas Deuchert. “Intermolecular Forces and Correlations Mediated
by a Phonon Bath.” The Journal of Chemical Physics. AIP Publishing, 2020.
https://doi.org/10.1063/1.5144759.
ieee: X. Li, E. Yakaboylu, G. Bighin, R. Schmidt, M. Lemeshko, and A. Deuchert,
“Intermolecular forces and correlations mediated by a phonon bath,” The Journal
of Chemical Physics, vol. 152, no. 16. AIP Publishing, 2020.
ista: Li X, Yakaboylu E, Bighin G, Schmidt R, Lemeshko M, Deuchert A. 2020. Intermolecular
forces and correlations mediated by a phonon bath. The Journal of Chemical Physics.
152(16), 164302.
mla: Li, Xiang, et al. “Intermolecular Forces and Correlations Mediated by a Phonon
Bath.” The Journal of Chemical Physics, vol. 152, no. 16, 164302, AIP Publishing,
2020, doi:10.1063/1.5144759.
short: X. Li, E. Yakaboylu, G. Bighin, R. Schmidt, M. Lemeshko, A. Deuchert, The
Journal of Chemical Physics 152 (2020).
date_created: 2020-09-30T10:33:17Z
date_published: 2020-04-27T00:00:00Z
date_updated: 2023-09-07T13:16:42Z
day: '27'
department:
- _id: MiLe
- _id: RoSe
doi: 10.1063/1.5144759
ec_funded: 1
external_id:
arxiv:
- '1912.02658'
isi:
- '000530448300001'
intvolume: ' 152'
isi: 1
issue: '16'
keyword:
- Physical and Theoretical Chemistry
- General Physics and Astronomy
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1912.02658
month: '04'
oa: 1
oa_version: Preprint
project:
- _id: 26031614-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29902
name: Quantum rotations in the presence of a many-body environment
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
- _id: 26986C82-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02641
name: A path-integral approach to composite impurities
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: The Journal of Chemical Physics
publication_identifier:
eissn:
- 1089-7690
issn:
- 0021-9606
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
related_material:
record:
- id: '8958'
relation: dissertation_contains
status: public
status: public
title: Intermolecular forces and correlations mediated by a phonon bath
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 152
year: '2020'
...
---
_id: '8341'
abstract:
- lang: eng
text: "One of the most striking hallmarks of the eukaryotic cell is the presence
of intracellular vesicles and organelles. Each of these membrane-enclosed compartments
has a distinct composition of lipids and proteins, which is essential for accurate
membrane traffic and homeostasis. Interestingly, their biochemical identities
are achieved with the help\r\nof small GTPases of the Rab family, which cycle
between GDP- and GTP-bound forms on the selected membrane surface. While this
activity switch is well understood for an individual protein, how Rab GTPases
collectively transition between states to generate decisive signal propagation
in space and time is unclear. In my PhD thesis, I present\r\nin vitro reconstitution
experiments with theoretical modeling to systematically study a minimal Rab5 activation
network from bottom-up. We find that positive feedback based on known molecular
interactions gives rise to bistable GTPase activity switching on system’s scale.
Furthermore, we determine that collective transition near the critical\r\npoint
is intrinsically stochastic and provide evidence that the inactive Rab5 abundance
on the membrane can shape the network response. Finally, we demonstrate that collective
switching can spread on the lipid bilayer as a traveling activation wave, representing
a possible emergent activity pattern in endosomal maturation. Together, our\r\nfindings
reveal new insights into the self-organization properties of signaling networks
away from chemical equilibrium. Our work highlights the importance of systematic
characterization of biochemical systems in well-defined physiological conditions.
This way, we were able to answer long-standing open questions in the field and
close the gap between regulatory processes on a molecular scale and emergent responses
on system’s level."
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: NanoFab
acknowledgement: My thanks goes to the Loose lab members, BioImaging, Life Science
and Nanofabrication Facilities and the wonderful international community at IST
for sharing this experience with me.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Urban
full_name: Bezeljak, Urban
id: 2A58201A-F248-11E8-B48F-1D18A9856A87
last_name: Bezeljak
orcid: 0000-0003-1365-5631
citation:
ama: Bezeljak U. In vitro reconstitution of a Rab activation switch. 2020. doi:10.15479/AT:ISTA:8341
apa: Bezeljak, U. (2020). In vitro reconstitution of a Rab activation switch.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8341
chicago: Bezeljak, Urban. “In Vitro Reconstitution of a Rab Activation Switch.”
Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8341.
ieee: U. Bezeljak, “In vitro reconstitution of a Rab activation switch,” Institute
of Science and Technology Austria, 2020.
ista: Bezeljak U. 2020. In vitro reconstitution of a Rab activation switch. Institute
of Science and Technology Austria.
mla: Bezeljak, Urban. In Vitro Reconstitution of a Rab Activation Switch.
Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8341.
short: U. Bezeljak, In Vitro Reconstitution of a Rab Activation Switch, Institute
of Science and Technology Austria, 2020.
date_created: 2020-09-08T08:53:53Z
date_published: 2020-09-08T00:00:00Z
date_updated: 2023-09-07T13:17:06Z
day: '08'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: MaLo
doi: 10.15479/AT:ISTA:8341
file:
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checksum: 70871b335a595252a66c6bbf0824fb02
content_type: application/x-zip-compressed
creator: dernst
date_created: 2020-09-08T09:00:29Z
date_updated: 2021-09-16T12:49:12Z
file_id: '8342'
file_name: 2020_Urban_Bezeljak_Thesis_TeX.zip
file_size: 65246782
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checksum: 59a62275088b00b7241e6ff4136434c7
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date_created: 2020-09-08T09:00:27Z
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file_name: 2020_Urban_Bezeljak_Thesis.pdf
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has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '215'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7580'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
title: In vitro reconstitution of a Rab activation switch
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: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2020'
...
---
_id: '7580'
abstract:
- lang: eng
text: The eukaryotic endomembrane system is controlled by small GTPases of the Rab
family, which are activated at defined times and locations in a switch-like manner.
While this switch is well understood for an individual protein, how regulatory
networks produce intracellular activity patterns is currently not known. Here,
we combine in vitro reconstitution experiments with computational modeling to
study a minimal Rab5 activation network. We find that the molecular interactions
in this system give rise to a positive feedback and bistable collective switching
of Rab5. Furthermore, we find that switching near the critical point is intrinsically
stochastic and provide evidence that controlling the inactive population of Rab5
on the membrane can shape the network response. Notably, we demonstrate that collective
switching can spread on the membrane surface as a traveling wave of Rab5 activation.
Together, our findings reveal how biochemical signaling networks control vesicle
trafficking pathways and how their nonequilibrium properties define the spatiotemporal
organization of the cell.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
article_processing_charge: No
article_type: original
author:
- first_name: Urban
full_name: Bezeljak, Urban
id: 2A58201A-F248-11E8-B48F-1D18A9856A87
last_name: Bezeljak
orcid: 0000-0003-1365-5631
- first_name: Hrushikesh
full_name: Loya, Hrushikesh
last_name: Loya
- first_name: Beata M
full_name: Kaczmarek, Beata M
id: 36FA4AFA-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarek
- first_name: Timothy E.
full_name: Saunders, Timothy E.
last_name: Saunders
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: Bezeljak U, Loya H, Kaczmarek BM, Saunders TE, Loose M. Stochastic activation
and bistability in a Rab GTPase regulatory network. Proceedings of the National
Academy of Sciences. 2020;117(12):6504-6549. doi:10.1073/pnas.1921027117
apa: Bezeljak, U., Loya, H., Kaczmarek, B. M., Saunders, T. E., & Loose, M.
(2020). Stochastic activation and bistability in a Rab GTPase regulatory network.
Proceedings of the National Academy of Sciences. Proceedings of the National
Academy of Sciences. https://doi.org/10.1073/pnas.1921027117
chicago: Bezeljak, Urban, Hrushikesh Loya, Beata M Kaczmarek, Timothy E. Saunders,
and Martin Loose. “Stochastic Activation and Bistability in a Rab GTPase Regulatory
Network.” Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.1921027117.
ieee: U. Bezeljak, H. Loya, B. M. Kaczmarek, T. E. Saunders, and M. Loose, “Stochastic
activation and bistability in a Rab GTPase regulatory network,” Proceedings
of the National Academy of Sciences, vol. 117, no. 12. Proceedings of the
National Academy of Sciences, pp. 6504–6549, 2020.
ista: Bezeljak U, Loya H, Kaczmarek BM, Saunders TE, Loose M. 2020. Stochastic activation
and bistability in a Rab GTPase regulatory network. Proceedings of the National
Academy of Sciences. 117(12), 6504–6549.
mla: Bezeljak, Urban, et al. “Stochastic Activation and Bistability in a Rab GTPase
Regulatory Network.” Proceedings of the National Academy of Sciences, vol.
117, no. 12, Proceedings of the National Academy of Sciences, 2020, pp. 6504–49,
doi:10.1073/pnas.1921027117.
short: U. Bezeljak, H. Loya, B.M. Kaczmarek, T.E. Saunders, M. Loose, Proceedings
of the National Academy of Sciences 117 (2020) 6504–6549.
date_created: 2020-03-12T05:32:26Z
date_published: 2020-03-24T00:00:00Z
date_updated: 2023-09-07T13:17:06Z
day: '24'
department:
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- _id: CaBe
doi: 10.1073/pnas.1921027117
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name: Reconstitution of cell polarity and axis determination in a cell-free system
publication: Proceedings of the National Academy of Sciences
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title: Stochastic activation and bistability in a Rab GTPase regulatory network
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 117
year: '2020'
...