---
_id: '12072'
abstract:
- lang: eng
text: "In this thesis, we study two of the most important questions in Arithmetic
geometry: that of the existence and density of solutions to Diophantine equations.
In order for a Diophantine equation to have any solutions over the rational numbers,
it must have solutions everywhere locally, i.e., over R and over Qp for every
prime p. The converse, called the Hasse principle, is known to fail in general.
However, it is still a central question in Arithmetic geometry to determine for
which varieties the Hasse principle does hold. In this work, we establish the
Hasse principle for a wide new family of varieties of the form f(t) = NK/Q(x)
̸= 0, where f is a polynomial with integer coefficients and NK/Q denotes the norm\r\nform
associated to a number field K. Our results cover products of arbitrarily many
linear, quadratic or cubic factors, and generalise an argument of Irving [69],
which makes use of the beta sieve of Rosser and Iwaniec. We also demonstrate how
our main sieve results can be applied to treat new cases of a conjecture of Harpaz
and Wittenberg on locally split values of polynomials over number fields, and
discuss consequences for rational points in fibrations.\r\nIn the second question,
about the density of solutions, one defines a height function and seeks to estimate
asymptotically the number of points of height bounded by B as B → ∞. Traditionally,
one either counts rational points, or\r\nintegral points with respect to a suitable
model. However, in this thesis, we study an emerging area of interest in Arithmetic
geometry known as Campana points, which in some sense interpolate between rational
and integral points.\r\nMore precisely, we count the number of nonzero integers
z1, z2, z3 such that gcd(z1, z2, z3) = 1, and z1, z2, z3, z1 + z2 + z3 are all
squareful and bounded by B. Using the circle method, we obtain an asymptotic formula
which agrees in\r\nthe power of B and log B with a bold new generalisation of
Manin’s conjecture to the setting of Campana points, recently formulated by Pieropan,
Smeets, Tanimoto and Várilly-Alvarado [96]. However, in this thesis we also provide
the first known counterexamples to leading constant predicted by their conjecture. "
acknowledgement: I acknowledge the received funding from the European Union’s Horizon
2020 research and innovation programme under the Marie Sklodowska Curie Grant Agreement
No. 665385.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Alec L
full_name: Shute, Alec L
id: 440EB050-F248-11E8-B48F-1D18A9856A87
last_name: Shute
orcid: 0000-0002-1812-2810
citation:
ama: 'Shute AL. Existence and density problems in Diophantine geometry: From norm
forms to Campana points. 2022. doi:10.15479/at:ista:12072'
apa: 'Shute, A. L. (2022). Existence and density problems in Diophantine geometry:
From norm forms to Campana points. Institute of Science and Technology Austria.
https://doi.org/10.15479/at:ista:12072'
chicago: 'Shute, Alec L. “Existence and Density Problems in Diophantine Geometry:
From Norm Forms to Campana Points.” Institute of Science and Technology Austria,
2022. https://doi.org/10.15479/at:ista:12072.'
ieee: 'A. L. Shute, “Existence and density problems in Diophantine geometry: From
norm forms to Campana points,” Institute of Science and Technology Austria, 2022.'
ista: 'Shute AL. 2022. Existence and density problems in Diophantine geometry: From
norm forms to Campana points. Institute of Science and Technology Austria.'
mla: 'Shute, Alec L. Existence and Density Problems in Diophantine Geometry:
From Norm Forms to Campana Points. Institute of Science and Technology Austria,
2022, doi:10.15479/at:ista:12072.'
short: 'A.L. Shute, Existence and Density Problems in Diophantine Geometry: From
Norm Forms to Campana Points, Institute of Science and Technology Austria, 2022.'
date_created: 2022-09-08T21:53:03Z
date_published: 2022-09-08T00:00:00Z
date_updated: 2023-02-21T16:37:35Z
day: '08'
ddc:
- '512'
degree_awarded: PhD
department:
- _id: GradSch
- _id: TiBr
doi: 10.15479/at:ista:12072
ec_funded: 1
file:
- access_level: open_access
checksum: bf073344320e05d92c224786cec2e92d
content_type: application/pdf
creator: ashute
date_created: 2022-09-08T21:50:34Z
date_updated: 2022-09-08T21:50:34Z
file_id: '12073'
file_name: Thesis_final_draft.pdf
file_size: 1907386
relation: main_file
success: 1
- access_level: closed
checksum: b054ac6baa09f70e8235403a4abbed80
content_type: application/octet-stream
creator: ashute
date_created: 2022-09-08T21:50:42Z
date_updated: 2022-09-12T11:24:21Z
file_id: '12074'
file_name: athesis.tex
file_size: 495393
relation: source_file
- access_level: closed
checksum: 0a31e905f1cff5eb8110978cc90e1e79
content_type: application/x-zip-compressed
creator: ashute
date_created: 2022-09-09T12:05:00Z
date_updated: 2022-09-12T11:24:21Z
file_id: '12078'
file_name: qfcjsfmtvtbfrjjvhdzrnqxfvgjvxtbf.zip
file_size: 944534
relation: source_file
file_date_updated: 2022-09-12T11:24:21Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '208'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
isbn:
- 978-3-99078-023-7
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12076'
relation: part_of_dissertation
status: public
- id: '12077'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
title: 'Existence and density problems in Diophantine geometry: From norm forms to
Campana points'
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12102'
abstract:
- lang: eng
text: 'Given a Markov chain M = (V, v_0, δ), with state space V and a starting state
v_0, and a probability threshold ε, an ε-core is a subset C of states that is
left with probability at most ε. More formally, C ⊆ V is an ε-core, iff ℙ[reach
(V\C)] ≤ ε. Cores have been applied in a wide variety of verification problems
over Markov chains, Markov decision processes, and probabilistic programs, as
a means of discarding uninteresting and low-probability parts of a probabilistic
system and instead being able to focus on the states that are likely to be encountered
in a real-world run. In this work, we focus on the problem of computing a minimal
ε-core in a Markov chain. Our contributions include both negative and positive
results: (i) We show that the decision problem on the existence of an ε-core of
a given size is NP-complete. This solves an open problem posed in [Jan Kretínský
and Tobias Meggendorfer, 2020]. We additionally show that the problem remains
NP-complete even when limited to acyclic Markov chains with bounded maximal vertex
degree; (ii) We provide a polynomial time algorithm for computing a minimal ε-core
on Markov chains over control-flow graphs of structured programs. A straightforward
combination of our algorithm with standard branch prediction techniques allows
one to apply the idea of cores to find a subset of program lines that are left
with low probability and then focus any desired static analysis on this core subset.'
acknowledgement: "The research was partially supported by the Hong Kong Research Grants
Council ECS\r\nProject No. 26208122, ERC CoG 863818 (FoRM-SMArt), the European Union’s
Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie
Grant Agreement No. 665385, HKUST– Kaisa Joint Research Institute Project Grant
HKJRI3A-055 and HKUST Startup Grant R9272. Ali Ahmadi and Roodabeh Safavi were interns
at HKUST."
article_number: '29'
article_processing_charge: No
author:
- first_name: Ali
full_name: Ahmadi, Ali
last_name: Ahmadi
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Amir Kafshdar
full_name: Goharshady, Amir Kafshdar
id: 391365CE-F248-11E8-B48F-1D18A9856A87
last_name: Goharshady
orcid: 0000-0003-1702-6584
- first_name: Tobias
full_name: Meggendorfer, Tobias
id: b21b0c15-30a2-11eb-80dc-f13ca25802e1
last_name: Meggendorfer
orcid: 0000-0002-1712-2165
- first_name: Roodabeh
full_name: Safavi Hemami, Roodabeh
id: 72ed2640-8972-11ed-ae7b-f9c81ec75154
last_name: Safavi Hemami
- first_name: Dorde
full_name: Zikelic, Dorde
id: 294AA7A6-F248-11E8-B48F-1D18A9856A87
last_name: Zikelic
orcid: 0000-0002-4681-1699
citation:
ama: 'Ahmadi A, Chatterjee K, Goharshady AK, Meggendorfer T, Safavi Hemami R, Zikelic
D. Algorithms and hardness results for computing cores of Markov chains. In: 42nd
IARCS Annual Conference on Foundations of Software Technology and Theoretical
Computer Science. Vol 250. Schloss Dagstuhl - Leibniz-Zentrum für Informatik;
2022. doi:10.4230/LIPIcs.FSTTCS.2022.29'
apa: 'Ahmadi, A., Chatterjee, K., Goharshady, A. K., Meggendorfer, T., Safavi Hemami,
R., & Zikelic, D. (2022). Algorithms and hardness results for computing cores
of Markov chains. In 42nd IARCS Annual Conference on Foundations of Software
Technology and Theoretical Computer Science (Vol. 250). Madras, India: Schloss
Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.FSTTCS.2022.29'
chicago: Ahmadi, Ali, Krishnendu Chatterjee, Amir Kafshdar Goharshady, Tobias Meggendorfer,
Roodabeh Safavi Hemami, and Dorde Zikelic. “Algorithms and Hardness Results for
Computing Cores of Markov Chains.” In 42nd IARCS Annual Conference on Foundations
of Software Technology and Theoretical Computer Science, Vol. 250. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2022. https://doi.org/10.4230/LIPIcs.FSTTCS.2022.29.
ieee: A. Ahmadi, K. Chatterjee, A. K. Goharshady, T. Meggendorfer, R. Safavi Hemami,
and D. Zikelic, “Algorithms and hardness results for computing cores of Markov
chains,” in 42nd IARCS Annual Conference on Foundations of Software Technology
and Theoretical Computer Science, Madras, India, 2022, vol. 250.
ista: 'Ahmadi A, Chatterjee K, Goharshady AK, Meggendorfer T, Safavi Hemami R, Zikelic
D. 2022. Algorithms and hardness results for computing cores of Markov chains.
42nd IARCS Annual Conference on Foundations of Software Technology and Theoretical
Computer Science. FSTTC: Foundations of Software Technology and Theoretical Computer
Science vol. 250, 29.'
mla: Ahmadi, Ali, et al. “Algorithms and Hardness Results for Computing Cores of
Markov Chains.” 42nd IARCS Annual Conference on Foundations of Software Technology
and Theoretical Computer Science, vol. 250, 29, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2022, doi:10.4230/LIPIcs.FSTTCS.2022.29.
short: A. Ahmadi, K. Chatterjee, A.K. Goharshady, T. Meggendorfer, R. Safavi Hemami,
D. Zikelic, in:, 42nd IARCS Annual Conference on Foundations of Software Technology
and Theoretical Computer Science, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2022.
conference:
end_date: 2022-12-20
location: Madras, India
name: 'FSTTC: Foundations of Software Technology and Theoretical Computer Science'
start_date: 2022-12-18
date_created: 2023-01-01T23:00:50Z
date_published: 2022-12-14T00:00:00Z
date_updated: 2025-07-14T09:09:55Z
day: '14'
ddc:
- '000'
department:
- _id: KrCh
- _id: GradSch
doi: 10.4230/LIPIcs.FSTTCS.2022.29
ec_funded: 1
file:
- access_level: open_access
checksum: 6660c802489013f034c9e8bd57f4d46e
content_type: application/pdf
creator: dernst
date_created: 2023-01-20T10:39:44Z
date_updated: 2023-01-20T10:39:44Z
file_id: '12324'
file_name: 2022_LIPICs_Ahmadi.pdf
file_size: 872534
relation: main_file
success: 1
file_date_updated: 2023-01-20T10:39:44Z
has_accepted_license: '1'
intvolume: ' 250'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: 42nd IARCS Annual Conference on Foundations of Software Technology and
Theoretical Computer Science
publication_identifier:
isbn:
- '9783959772617'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: '1'
status: public
title: Algorithms and hardness results for computing cores of Markov chains
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 250
year: '2022'
...
---
_id: '12117'
abstract:
- lang: eng
text: "To understand how potential gene manipulations affect in vitro microglia,
we provide a set of short protocols to evaluate microglia identity and function.
We detail steps for immunostaining to determine microglia identity. We describe
three functional assays for microglia: phagocytosis, calcium response following
ATP stimulation, and cytokine expression upon inflammatory stimuli. We apply these
protocols to human induced-pluripotent-stem-cell (hiPSC)-derived microglia, but
they can be also applied to other in vitro microglial models including primary
mouse microglia.\r\nFor complete details on the use and execution of this protocol,
please refer to Bartalska et al. (2022).1"
acknowledged_ssus:
- _id: Bio
acknowledgement: This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation program (grant
No. 715571 to S.S.) and from the Gesellschaft für Forschungsförderung Niederösterreich
(grant No. Sc19-017 to V.H.). We thank Rouven Schulz and Alessandro Venturino for
their insights into functional assays and data analysis, Verena Seiboth for insights
into necessary institutional permission, and ISTA imaging & optics facility (IOF)
especially Bernhard Hochreiter for their support.
article_number: '101866'
article_processing_charge: No
article_type: letter_note
author:
- first_name: Verena
full_name: Hübschmann, Verena
id: 32B7C918-F248-11E8-B48F-1D18A9856A87
last_name: Hübschmann
- first_name: Medina
full_name: Korkut, Medina
id: 4B51CE74-F248-11E8-B48F-1D18A9856A87
last_name: Korkut
orcid: 0000-0003-4309-2251
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
citation:
ama: Hübschmann V, Korkut M, Siegert S. Assessing human iPSC-derived microglia identity
and function by immunostaining, phagocytosis, calcium activity, and inflammation
assay. STAR Protocols. 2022;3(4). doi:10.1016/j.xpro.2022.101866
apa: Hübschmann, V., Korkut, M., & Siegert, S. (2022). Assessing human iPSC-derived
microglia identity and function by immunostaining, phagocytosis, calcium activity,
and inflammation assay. STAR Protocols. Elsevier. https://doi.org/10.1016/j.xpro.2022.101866
chicago: Hübschmann, Verena, Medina Korkut, and Sandra Siegert. “Assessing Human
IPSC-Derived Microglia Identity and Function by Immunostaining, Phagocytosis,
Calcium Activity, and Inflammation Assay.” STAR Protocols. Elsevier, 2022.
https://doi.org/10.1016/j.xpro.2022.101866.
ieee: V. Hübschmann, M. Korkut, and S. Siegert, “Assessing human iPSC-derived microglia
identity and function by immunostaining, phagocytosis, calcium activity, and inflammation
assay,” STAR Protocols, vol. 3, no. 4. Elsevier, 2022.
ista: Hübschmann V, Korkut M, Siegert S. 2022. Assessing human iPSC-derived microglia
identity and function by immunostaining, phagocytosis, calcium activity, and inflammation
assay. STAR Protocols. 3(4), 101866.
mla: Hübschmann, Verena, et al. “Assessing Human IPSC-Derived Microglia Identity
and Function by Immunostaining, Phagocytosis, Calcium Activity, and Inflammation
Assay.” STAR Protocols, vol. 3, no. 4, 101866, Elsevier, 2022, doi:10.1016/j.xpro.2022.101866.
short: V. Hübschmann, M. Korkut, S. Siegert, STAR Protocols 3 (2022).
date_created: 2023-01-12T11:56:38Z
date_published: 2022-12-16T00:00:00Z
date_updated: 2023-11-02T12:21:32Z
day: '16'
ddc:
- '570'
department:
- _id: SaSi
- _id: GradSch
doi: 10.1016/j.xpro.2022.101866
ec_funded: 1
file:
- access_level: open_access
checksum: 3c71b8a60633d42c2f77c49025d5559b
content_type: application/pdf
creator: dernst
date_created: 2023-01-23T09:50:51Z
date_updated: 2023-01-23T09:50:51Z
file_id: '12340'
file_name: 2022_STARProtocols_Huebschmann.pdf
file_size: 6251945
relation: main_file
success: 1
file_date_updated: 2023-01-23T09:50:51Z
has_accepted_license: '1'
intvolume: ' 3'
issue: '4'
keyword:
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Neuroscience
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 25D4A630-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715571'
name: Microglia action towards neuronal circuit formation and function in health
and disease
- _id: 9B99D380-BA93-11EA-9121-9846C619BF3A
grant_number: SC19-017
name: How human microglia shape developing neurons during health and inflammation
publication: STAR Protocols
publication_identifier:
issn:
- 2666-1667
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '11478'
relation: other
status: public
scopus_import: '1'
status: public
title: Assessing human iPSC-derived microglia identity and function by immunostaining,
phagocytosis, calcium activity, and inflammation assay
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2022'
...
---
_id: '12291'
abstract:
- lang: eng
text: The phytohormone auxin triggers transcriptional reprogramming through a well-characterized
perception machinery in the nucleus. By contrast, mechanisms that underlie fast
effects of auxin, such as the regulation of ion fluxes, rapid phosphorylation
of proteins or auxin feedback on its transport, remain unclear1,2,3. Whether auxin-binding
protein 1 (ABP1) is an auxin receptor has been a source of debate for decades1,4.
Here we show that a fraction of Arabidopsis thaliana ABP1 is secreted and binds
auxin specifically at an acidic pH that is typical of the apoplast. ABP1 and its
plasma-membrane-localized partner, transmembrane kinase 1 (TMK1), are required
for the auxin-induced ultrafast global phospho-response and for downstream processes
that include the activation of H+-ATPase and accelerated cytoplasmic streaming.
abp1 and tmk mutants cannot establish auxin-transporting channels and show defective
auxin-induced vasculature formation and regeneration. An ABP1(M2X) variant that
lacks the capacity to bind auxin is unable to complement these defects in abp1
mutants. These data indicate that ABP1 is the auxin receptor for TMK1-based cell-surface
signalling, which mediates the global phospho-response and auxin canalization.
acknowledged_ssus:
- _id: Bio
- _id: EM-Fac
- _id: LifeSc
acknowledgement: We acknowledge K. Kubiasová for excellent technical assistance, J.
Neuhold, A. Lehner and A. Sedivy for technical assistance with protein production
and purification at Vienna Biocenter Core Facilities; Creoptix for performing GCI;
and the Bioimaging, Electron Microscopy and Life Science Facilities at ISTA, the
Plant Sciences Core Facility of CEITEC Masaryk University, the Core Facility CELLIM
(MEYS CR, LM2018129 Czech-BioImaging) and J. Sprakel for their assistance. J.F.
is grateful to R. Napier for many insightful suggestions and support. We thank all
past and present members of the Friml group for their support and for other contributions
to this effort to clarify the controversial role of ABP1 over the past seven years.
The project received funding from the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation program (grant agreement no.
742985 to J.F. and 833867 to D.W.); the Austrian Science Fund (FWF; P29988 to J.F.);
the Netherlands Organization for Scientific Research (NWO; VICI grant 865.14.001
to D.W. and VENI grant VI.Veni.212.003 to A.K.); the Ministry of Education, Science
and Technological Development of the Republic of Serbia (contract no. 451-03-68/2022-14/200053
to B.D.Ž.); and the MEXT/JSPS KAKENHI to K.T. (20K06685) and T.K. (20H05687 and
20H05910).
article_processing_charge: No
article_type: original
author:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Michelle C
full_name: Gallei, Michelle C
id: 35A03822-F248-11E8-B48F-1D18A9856A87
last_name: Gallei
orcid: 0000-0003-1286-7368
- first_name: Zuzana
full_name: Gelová, Zuzana
id: 0AE74790-0E0B-11E9-ABC7-1ACFE5697425
last_name: Gelová
orcid: 0000-0003-4783-1752
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
- first_name: Ewa
full_name: Mazur, Ewa
last_name: Mazur
- first_name: Aline
full_name: Monzer, Aline
id: 2DB5D88C-D7B3-11E9-B8FD-7907E6697425
last_name: Monzer
- first_name: Lesia
full_name: Rodriguez Solovey, Lesia
id: 3922B506-F248-11E8-B48F-1D18A9856A87
last_name: Rodriguez Solovey
orcid: 0000-0002-7244-7237
- first_name: Mark
full_name: Roosjen, Mark
last_name: Roosjen
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
- first_name: Branka D.
full_name: Živanović, Branka D.
last_name: Živanović
- first_name: Minxia
full_name: Zou, Minxia
id: 5c243f41-03f3-11ec-841c-96faf48a7ef9
last_name: Zou
- first_name: Lukas
full_name: Fiedler, Lukas
id: 7c417475-8972-11ed-ae7b-8b674ca26986
last_name: Fiedler
- first_name: Caterina
full_name: Giannini, Caterina
id: e3fdddd5-f6e0-11ea-865d-ca99ee6367f4
last_name: Giannini
- first_name: Peter
full_name: Grones, Peter
last_name: Grones
- first_name: Mónika
full_name: Hrtyan, Mónika
id: 45A71A74-F248-11E8-B48F-1D18A9856A87
last_name: Hrtyan
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Andre
full_name: Kuhn, Andre
last_name: Kuhn
- first_name: Madhumitha
full_name: Narasimhan, Madhumitha
id: 44BF24D0-F248-11E8-B48F-1D18A9856A87
last_name: Narasimhan
orcid: 0000-0002-8600-0671
- first_name: Marek
full_name: Randuch, Marek
id: 6ac4636d-15b2-11ec-abd3-fb8df79972ae
last_name: Randuch
- first_name: Nikola
full_name: Rýdza, Nikola
last_name: Rýdza
- first_name: Koji
full_name: Takahashi, Koji
last_name: Takahashi
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Anastasiia
full_name: Teplova, Anastasiia
id: e3736151-106c-11ec-b916-c2558e2762c6
last_name: Teplova
- first_name: Toshinori
full_name: Kinoshita, Toshinori
last_name: Kinoshita
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Hana
full_name: Rakusová, Hana
last_name: Rakusová
citation:
ama: Friml J, Gallei MC, Gelová Z, et al. ABP1–TMK auxin perception for global phosphorylation
and auxin canalization. Nature. 2022;609(7927):575-581. doi:10.1038/s41586-022-05187-x
apa: Friml, J., Gallei, M. C., Gelová, Z., Johnson, A. J., Mazur, E., Monzer, A.,
… Rakusová, H. (2022). ABP1–TMK auxin perception for global phosphorylation and
auxin canalization. Nature. Springer Nature. https://doi.org/10.1038/s41586-022-05187-x
chicago: Friml, Jiří, Michelle C Gallei, Zuzana Gelová, Alexander J Johnson, Ewa
Mazur, Aline Monzer, Lesia Rodriguez Solovey, et al. “ABP1–TMK Auxin Perception
for Global Phosphorylation and Auxin Canalization.” Nature. Springer Nature,
2022. https://doi.org/10.1038/s41586-022-05187-x.
ieee: J. Friml et al., “ABP1–TMK auxin perception for global phosphorylation
and auxin canalization,” Nature, vol. 609, no. 7927. Springer Nature, pp.
575–581, 2022.
ista: Friml J, Gallei MC, Gelová Z, Johnson AJ, Mazur E, Monzer A, Rodriguez Solovey
L, Roosjen M, Verstraeten I, Živanović BD, Zou M, Fiedler L, Giannini C, Grones
P, Hrtyan M, Kaufmann W, Kuhn A, Narasimhan M, Randuch M, Rýdza N, Takahashi K,
Tan S, Teplova A, Kinoshita T, Weijers D, Rakusová H. 2022. ABP1–TMK auxin perception
for global phosphorylation and auxin canalization. Nature. 609(7927), 575–581.
mla: Friml, Jiří, et al. “ABP1–TMK Auxin Perception for Global Phosphorylation and
Auxin Canalization.” Nature, vol. 609, no. 7927, Springer Nature, 2022,
pp. 575–81, doi:10.1038/s41586-022-05187-x.
short: J. Friml, M.C. Gallei, Z. Gelová, A.J. Johnson, E. Mazur, A. Monzer, L. Rodriguez
Solovey, M. Roosjen, I. Verstraeten, B.D. Živanović, M. Zou, L. Fiedler, C. Giannini,
P. Grones, M. Hrtyan, W. Kaufmann, A. Kuhn, M. Narasimhan, M. Randuch, N. Rýdza,
K. Takahashi, S. Tan, A. Teplova, T. Kinoshita, D. Weijers, H. Rakusová, Nature
609 (2022) 575–581.
date_created: 2023-01-16T10:04:48Z
date_published: 2022-09-15T00:00:00Z
date_updated: 2023-11-07T08:16:09Z
day: '15'
ddc:
- '580'
department:
- _id: JiFr
- _id: GradSch
- _id: EvBe
- _id: EM-Fac
doi: 10.1038/s41586-022-05187-x
ec_funded: 1
external_id:
isi:
- '000851357500002'
pmid:
- '36071161'
file:
- access_level: open_access
checksum: a6055c606aefb900bf62ae3e7d15f921
content_type: application/pdf
creator: amally
date_created: 2023-11-02T17:12:37Z
date_updated: 2023-11-02T17:12:37Z
file_id: '14483'
file_name: Friml Nature 2022_merged.pdf
file_size: 79774945
relation: main_file
success: 1
file_date_updated: 2023-11-02T17:12:37Z
has_accepted_license: '1'
intvolume: ' 609'
isi: 1
issue: '7927'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 575-581
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: 262EF96E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29988
name: RNA-directed DNA methylation in plant development
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: ABP1–TMK auxin perception for global phosphorylation and auxin canalization
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 609
year: '2022'
...
---
_id: '12307'
abstract:
- lang: eng
text: Point-set topology is among the most abstract branches of mathematics in that
it lacks tangible notions of distance, length, magnitude, order, and size. There
is no shape, no geometry, no algebra, and no direction. Everything we are used
to visualizing is gone. In the teaching and learning of mathematics, this can
present a conundrum. Yet, this very property makes point set topology perfect
for teaching and learning abstract mathematical concepts. It clears our minds
of preconceived intuitions and expectations and forces us to think in new and
creative ways. In this paper, we present guided investigations into topology through
questions and thinking strategies that open up fascinating problems. They are
intended for faculty who already teach or are thinking about teaching a class
in topology or abstract mathematical reasoning for undergraduates. They can be
used to build simple to challenging projects in topology, proofs, honors programs,
and research experiences.
article_processing_charge: No
article_type: original
author:
- first_name: Barbara A.
full_name: Shipman, Barbara A.
last_name: Shipman
- first_name: Elizabeth R
full_name: Stephenson, Elizabeth R
id: 2D04F932-F248-11E8-B48F-1D18A9856A87
last_name: Stephenson
orcid: 0000-0002-6862-208X
citation:
ama: Shipman BA, Stephenson ER. Tangible topology through the lens of limits. PRIMUS.
2022;32(5):593-609. doi:10.1080/10511970.2021.1872750
apa: Shipman, B. A., & Stephenson, E. R. (2022). Tangible topology through the
lens of limits. PRIMUS. Taylor & Francis. https://doi.org/10.1080/10511970.2021.1872750
chicago: Shipman, Barbara A., and Elizabeth R Stephenson. “Tangible Topology through
the Lens of Limits.” PRIMUS. Taylor & Francis, 2022. https://doi.org/10.1080/10511970.2021.1872750.
ieee: B. A. Shipman and E. R. Stephenson, “Tangible topology through the lens of
limits,” PRIMUS, vol. 32, no. 5. Taylor & Francis, pp. 593–609, 2022.
ista: Shipman BA, Stephenson ER. 2022. Tangible topology through the lens of limits.
PRIMUS. 32(5), 593–609.
mla: Shipman, Barbara A., and Elizabeth R. Stephenson. “Tangible Topology through
the Lens of Limits.” PRIMUS, vol. 32, no. 5, Taylor & Francis, 2022,
pp. 593–609, doi:10.1080/10511970.2021.1872750.
short: B.A. Shipman, E.R. Stephenson, PRIMUS 32 (2022) 593–609.
date_created: 2023-01-16T10:07:21Z
date_published: 2022-05-28T00:00:00Z
date_updated: 2023-01-30T13:02:30Z
day: '28'
department:
- _id: HeEd
- _id: GradSch
doi: 10.1080/10511970.2021.1872750
intvolume: ' 32'
issue: '5'
keyword:
- Education
- General Mathematics
language:
- iso: eng
month: '05'
oa_version: None
page: 593-609
publication: PRIMUS
publication_identifier:
eissn:
- 1935-4053
issn:
- 1051-1970
publication_status: published
publisher: Taylor & Francis
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tangible topology through the lens of limits
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2022'
...
---
_id: '12358'
abstract:
- lang: eng
text: "The complex yarn structure of knitted and woven fabrics gives rise to both
a mechanical and\r\nvisual complexity. The small-scale interactions of yarns colliding
with and pulling on each\r\nother result in drastically different large-scale
stretching and bending behavior, introducing\r\nanisotropy, curling, and more.
While simulating cloth as individual yarns can reproduce this\r\ncomplexity and
match the quality of real fabric, it may be too computationally expensive for\r\nlarge
fabrics. On the other hand, continuum-based approaches do not need to discretize
the\r\ncloth at a stitch-level, but it is non-trivial to find a material model
that would replicate the\r\nlarge-scale behavior of yarn fabrics, and they discard
the intricate visual detail. In this thesis,\r\nwe discuss three methods to try
and bridge the gap between small-scale and large-scale yarn\r\nmechanics using
numerical homogenization: fitting a continuum model to periodic yarn simulations,
adding mechanics-aware yarn detail onto thin-shell simulations, and quantitatively\r\nfitting
yarn parameters to physical measurements of real fabric.\r\nTo start, we present
a method for animating yarn-level cloth effects using a thin-shell solver.\r\nWe
first use a large number of periodic yarn-level simulations to build a model of
the potential\r\nenergy density of the cloth, and then use it to compute forces
in a thin-shell simulator. The\r\nresulting simulations faithfully reproduce expected
effects like the stiffening of woven fabrics\r\nand the highly deformable nature
and anisotropy of knitted fabrics at a fraction of the cost of\r\nfull yarn-level
simulation.\r\nWhile our thin-shell simulations are able to capture large-scale
yarn mechanics, they lack\r\nthe rich visual detail of yarn-level simulations.
Therefore, we propose a method to animate\r\nyarn-level cloth geometry on top
of an underlying deforming mesh in a mechanics-aware\r\nfashion in real time.
Using triangle strains to interpolate precomputed yarn geometry, we are\r\nable
to reproduce effects such as knit loops tightening under stretching at negligible
cost.\r\nFinally, we introduce a methodology for inverse-modeling of yarn-level
mechanics of cloth,\r\nbased on the mechanical response of fabrics in the real
world. We compile a database from\r\nphysical tests of several knitted fabrics
used in the textile industry spanning diverse physical\r\nproperties like stiffness,
nonlinearity, and anisotropy. We then develop a system for approximating these
mechanical responses with yarn-level cloth simulation, using homogenized\r\nshell
models to speed up computation and adding some small-but-necessary extensions
to\r\nyarn-level models used in computer graphics.\r\n"
acknowledged_ssus:
- _id: SSU
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Georg
full_name: Sperl, Georg
id: 4DD40360-F248-11E8-B48F-1D18A9856A87
last_name: Sperl
citation:
ama: 'Sperl G. Homogenizing yarn simulations: Large-scale mechanics, small-scale
detail, and quantitative fitting. 2022. doi:10.15479/at:ista:12103'
apa: 'Sperl, G. (2022). Homogenizing yarn simulations: Large-scale mechanics,
small-scale detail, and quantitative fitting. Institute of Science and Technology
Austria. https://doi.org/10.15479/at:ista:12103'
chicago: 'Sperl, Georg. “Homogenizing Yarn Simulations: Large-Scale Mechanics, Small-Scale
Detail, and Quantitative Fitting.” Institute of Science and Technology Austria,
2022. https://doi.org/10.15479/at:ista:12103.'
ieee: 'G. Sperl, “Homogenizing yarn simulations: Large-scale mechanics, small-scale
detail, and quantitative fitting,” Institute of Science and Technology Austria,
2022.'
ista: 'Sperl G. 2022. Homogenizing yarn simulations: Large-scale mechanics, small-scale
detail, and quantitative fitting. Institute of Science and Technology Austria.'
mla: 'Sperl, Georg. Homogenizing Yarn Simulations: Large-Scale Mechanics, Small-Scale
Detail, and Quantitative Fitting. Institute of Science and Technology Austria,
2022, doi:10.15479/at:ista:12103.'
short: 'G. Sperl, Homogenizing Yarn Simulations: Large-Scale Mechanics, Small-Scale
Detail, and Quantitative Fitting, Institute of Science and Technology Austria,
2022.'
date_created: 2023-01-24T10:49:46Z
date_published: 2022-09-22T00:00:00Z
date_updated: 2024-02-28T12:57:46Z
day: '22'
ddc:
- '000'
- '620'
degree_awarded: PhD
department:
- _id: GradSch
- _id: ChWo
doi: 10.15479/at:ista:12103
ec_funded: 1
file:
- access_level: open_access
checksum: 083722acbb8115e52e3b0fdec6226769
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-25T12:04:41Z
date_updated: 2023-02-02T09:29:57Z
description: 'This is the main PDF file of the thesis. File size: 105 MB'
file_id: '12371'
file_name: thesis_gsperl.pdf
file_size: 104497530
relation: main_file
title: Thesis
- access_level: open_access
checksum: 511f82025e5fcb70bff4731d6896ca07
content_type: application/pdf
creator: cchlebak
date_created: 2023-02-02T09:33:37Z
date_updated: 2023-02-02T09:33:37Z
description: This version of the thesis uses stronger image compression for a smaller
file size of 23MB.
file_id: '12483'
file_name: thesis_gsperl_compressed.pdf
file_size: 23183710
relation: main_file
title: Thesis (compressed 23MB)
- access_level: open_access
checksum: ed4cb85225eedff761c25bddfc37a2ed
content_type: application/x-zip-compressed
creator: cchlebak
date_created: 2023-02-02T09:39:25Z
date_updated: 2023-02-02T09:39:25Z
file_id: '12484'
file_name: thesis-source.zip
file_size: 98382247
relation: source_file
file_date_updated: 2023-02-02T09:39:25Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '138'
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publication_identifier:
isbn:
- 978-3-99078-020-6
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '11736'
relation: part_of_dissertation
status: public
- id: '9818'
relation: part_of_dissertation
status: public
- id: '8385'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
title: 'Homogenizing yarn simulations: Large-scale mechanics, small-scale detail,
and quantitative fitting'
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '12364'
abstract:
- lang: eng
text: "Autism spectrum disorders (ASDs) are a group of neurodevelopmental disorders
character\x02ized by behavioral symptoms such as problems in social communication
and interaction, as\r\nwell as repetitive, restricted behaviors and interests.
These disorders show a high degree\r\nof heritability and hundreds of risk genes
have been identifed using high throughput\r\nsequencing technologies. This genetic
heterogeneity has hampered eforts in understanding\r\nthe pathogenesis of ASD
but at the same time given rise to the concept of convergent\r\nmechanisms. Previous
studies have identifed that risk genes for ASD broadly converge\r\nonto specifc
functional categories with transcriptional regulation being one of the biggest\r\ngroups.
In this thesis, I focus on this subgroup of genes and investigate the gene regulatory\r\nconsequences
of some of them in the context of neurodevelopment.\r\nFirst, we showed that mutations
in the ASD and intellectual disability risk gene Setd5 lead\r\nto perturbations
of gene regulatory programs in early cell fate specifcation. In addition,\r\nadult
animals display abnormal learning behavior which is mirrored at the transcriptional\r\nlevel
by altered activity dependent regulation of postsynaptic gene expression. Lastly,\r\nwe
link the regulatory function of Setd5 to its interaction with the Paf1 and the
NCoR\r\ncomplex.\r\nSecond, by modeling the heterozygous loss of the top ASD gene
CHD8 in human cerebral\r\norganoids we demonstrate profound changes in the developmental
trajectories of both\r\ninhibitory and excitatory neurons using single cell RNA-sequencing.
While the former\r\nwere generated earlier in CHD8+/- organoids, the generation
of the latter was shifted to\r\nlater times in favor of a prolonged progenitor
expansion phase and ultimately increased\r\norganoid size.\r\nFinally, by modeling
heterozygous mutations for four ASD associated chromatin modifers,\r\nASH1L, KDM6B,
KMT5B, and SETD5 in human cortical spheroids we show evidence of\r\nregulatory
convergence across three of those genes. We observe a shift from dorsal cortical\r\nexcitatory
neuron fates towards partially ventralized cell types resembling cells from the\r\nlateral
ganglionic eminence. As this project is still ongoing at the time of writing,
future\r\nexperiments will aim at elucidating the regulatory mechanisms underlying
this shift with\r\nthe aim of linking these three ASD risk genes through biological
convergence."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Christoph
full_name: Dotter, Christoph
id: 4C66542E-F248-11E8-B48F-1D18A9856A87
last_name: Dotter
orcid: 0000-0002-9033-9096
citation:
ama: Dotter C. Transcriptional consequences of mutations in genes associated with
Autism Spectrum Disorder. 2022. doi:10.15479/at:ista:12094
apa: Dotter, C. (2022). Transcriptional consequences of mutations in genes associated
with Autism Spectrum Disorder. Institute of Science and Technology Austria.
https://doi.org/10.15479/at:ista:12094
chicago: Dotter, Christoph. “Transcriptional Consequences of Mutations in Genes
Associated with Autism Spectrum Disorder.” Institute of Science and Technology
Austria, 2022. https://doi.org/10.15479/at:ista:12094.
ieee: C. Dotter, “Transcriptional consequences of mutations in genes associated
with Autism Spectrum Disorder,” Institute of Science and Technology Austria, 2022.
ista: Dotter C. 2022. Transcriptional consequences of mutations in genes associated
with Autism Spectrum Disorder. Institute of Science and Technology Austria.
mla: Dotter, Christoph. Transcriptional Consequences of Mutations in Genes Associated
with Autism Spectrum Disorder. Institute of Science and Technology Austria,
2022, doi:10.15479/at:ista:12094.
short: C. Dotter, Transcriptional Consequences of Mutations in Genes Associated
with Autism Spectrum Disorder, Institute of Science and Technology Austria, 2022.
date_created: 2023-01-24T13:09:57Z
date_published: 2022-09-19T00:00:00Z
date_updated: 2023-11-16T13:10:22Z
day: '19'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: GaNo
doi: 10.15479/at:ista:12094
ec_funded: 1
file:
- access_level: open_access
checksum: 896f4cac9adb6d3f26a6605772f4e1a3
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-24T13:15:45Z
date_updated: 2023-09-20T22:30:03Z
embargo: 2023-09-19
file_id: '12365'
file_name: 220923_Thesis_CDotter_Final.pdf
file_size: 20457465
relation: main_file
- access_level: closed
checksum: ad01bb20da163be6893b7af832e58419
content_type: application/x-zip-compressed
creator: cchlebak
date_created: 2023-02-02T09:15:35Z
date_updated: 2023-09-20T22:30:03Z
embargo_to: open_access
file_id: '12482'
file_name: latex_source_CDotter_Thesis_2022.zip
file_size: 22433512
relation: source_file
file_date_updated: 2023-09-20T22:30:03Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '152'
project:
- _id: 254BA948-B435-11E9-9278-68D0E5697425
grant_number: '401299'
name: Probing development and reversibility of autism spectrum disorders
- _id: 9B91375C-BA93-11EA-9121-9846C619BF3A
grant_number: '707964'
name: Critical windows and reversibility of ASD associated with mutations in chromatin
remodelers
- _id: 25444568-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715508'
name: Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo
and in vitro Models
- _id: 2690FEAC-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I04205
name: Identification of converging Molecular Pathways Across Chromatinopathies as
Targets for Therapy
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '3'
relation: part_of_dissertation
status: public
- id: '11160'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
title: Transcriptional consequences of mutations in genes associated with Autism Spectrum
Disorder
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '12366'
abstract:
- lang: eng
text: "Recent substantial advances in the feld of superconducting circuits have
shown its\r\npotential as a leading platform for future quantum computing. In
contrast to classical\r\ncomputers based on bits that are represented by a single
binary value, 0 or 1, quantum\r\nbits (or qubits) can be in a superposition of
both. Thus, quantum computers can store\r\nand handle more information at the
same time and a quantum advantage has already\r\nbeen demonstrated for two types
of computational tasks. Rapid progress in academic\r\nand industry labs accelerates
the development of superconducting processors which may\r\nsoon fnd applications
in complex computations, chemical simulations, cryptography, and\r\noptimization.
Now that these machines are scaled up to tackle such problems the questions\r\nof
qubit interconnects and networks becomes very relevant. How to route signals on-chip\r\nbetween
diferent processor components? What is the most efcient way to entangle\r\nqubits?
And how to then send and process entangled signals between distant cryostats\r\nhosting
superconducting processors?\r\nIn this thesis, we are looking for solutions to
these problems by studying the collective\r\nbehavior of superconducting qubit
ensembles. We frst demonstrate on-demand tunable\r\ndirectional scattering of
microwave photons from a pair of qubits in a waveguide. Such a\r\ndevice can route
microwave photons on-chip with a high diode efciency. Then we focus\r\non studying
ultra-strong coupling regimes between light (microwave photons) and matter\r\n(superconducting
qubits), a regime that could be promising for extremely fast multi-qubit\r\nentanglement
generation. Finally, we show coherent pulse storage and periodic revivals\r\nin
a fve qubit ensemble strongly coupled to a resonator. Such a reconfgurable storage\r\ndevice
could be used as part of a quantum repeater that is needed for longer-distance\r\nquantum
communication.\r\nThe achieved high degree of control over multi-qubit ensembles
highlights not only the\r\nbeautiful physics of circuit quantum electrodynamics,
it also represents the frst step\r\ntoward new quantum simulation and communication
methods, and certain techniques\r\nmay also fnd applications in future superconducting
quantum computing hardware.\r\n"
acknowledged_ssus:
- _id: NanoFab
- _id: M-Shop
- _id: EM-Fac
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Elena
full_name: Redchenko, Elena
id: 2C21D6E8-F248-11E8-B48F-1D18A9856A87
last_name: Redchenko
citation:
ama: Redchenko E. Controllable states of superconducting Qubit ensembles. 2022.
doi:10.15479/at:ista:12132
apa: Redchenko, E. (2022). Controllable states of superconducting Qubit ensembles.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12132
chicago: Redchenko, Elena. “Controllable States of Superconducting Qubit Ensembles.”
Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:12132.
ieee: E. Redchenko, “Controllable states of superconducting Qubit ensembles,” Institute
of Science and Technology Austria, 2022.
ista: Redchenko E. 2022. Controllable states of superconducting Qubit ensembles.
Institute of Science and Technology Austria.
mla: Redchenko, Elena. Controllable States of Superconducting Qubit Ensembles.
Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:12132.
short: E. Redchenko, Controllable States of Superconducting Qubit Ensembles, Institute
of Science and Technology Austria, 2022.
date_created: 2023-01-25T09:17:02Z
date_published: 2022-09-26T00:00:00Z
date_updated: 2024-08-07T07:11:56Z
day: '26'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JoFi
doi: 10.15479/at:ista:12132
ec_funded: 1
file:
- access_level: open_access
checksum: 39eabb1e006b41335f17f3b29af09648
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-25T09:41:49Z
date_updated: 2023-01-26T23:30:44Z
embargo: 2022-12-28
file_id: '12367'
file_name: Final_Thesis_ES_Redchenko.pdf
file_size: 56076868
relation: main_file
file_date_updated: 2023-01-26T23:30:44Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '168'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 26336814-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '758053'
name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 237CBA6C-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '862644'
name: Quantum readout techniques and technologies
publication_identifier:
isbn:
- 978-3-99078-024-4
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
title: Controllable states of superconducting Qubit ensembles
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '12368'
abstract:
- lang: eng
text: "Metazoan development relies on the formation and remodeling of cell-cell
contacts. The \r\nbinding of adhesion receptors and remodeling of the actomyosin
cell cortex at cell-cell \r\ninteraction sites have been implicated in cell-cell
contact formation. Yet, how these two \r\nprocesses functionally interact to drive
cell-cell contact expansion and strengthening \r\nremains unclear. Here, we study
how primary germ layer progenitor cells from zebrafish \r\nbind to supported lipid
bilayers (SLB) functionalized with E-cadherin ectodomains as an \r\nassay system
for monitoring cell-cell contact formation at high spatiotemporal resolution.
\r\nWe show that cell-cell contact formation represents a two-tiered process:
E-cadherin\x02mediated downregulation of the small GTPase RhoA at the forming
contact leads to both \r\ndepletion of Myosin-2 and decrease of F-actin. This
is followed by centrifugal actin \r\nnetwork flows at the contact triggered by
a sharp gradient of Myosin-2 at the rim of the \r\ncontact zone, with Myosin-2
displaying higher cortical localization outside than inside of \r\nthe contact.
These centrifugal cortical actin flows, in turn, not only further dilute the actin
\r\nnetwork at the contact disc, but also lead to an accumulation of both F-actin
and E\x02cadherin at the contact rim. Eventually, this combination of actomyosin
downregulation \r\nand flows at the contact contribute to the characteristic molecular
organization implicated \r\nin contact formation and maintenance: depletion of
cortical actomyosin at the contact disc, \r\ndriving contact expansion by lowering
interfacial tension at the contact, and accumulation \r\nof both E-cadherin and
F-actin at the contact rim, mechanically linking the contractile \r\ncortices
of the adhering cells. Thus, using a biomimetic assay, we exemplify how \r\nadhesion
signaling and cell mechanics function together to modulate the spatial \r\norganization
of cell-cell contacts."
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
- _id: NanoFab
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Feyza N
full_name: Arslan, Feyza N
id: 49DA7910-F248-11E8-B48F-1D18A9856A87
last_name: Arslan
orcid: 0000-0001-5809-9566
citation:
ama: Arslan FN. Remodeling of E-cadherin-mediated contacts via cortical flows.
2022. doi:10.15479/at:ista:12153
apa: Arslan, F. N. (2022). Remodeling of E-cadherin-mediated contacts via cortical
flows. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12153
chicago: Arslan, Feyza N. “Remodeling of E-Cadherin-Mediated Contacts via Cortical
Flows.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:12153.
ieee: F. N. Arslan, “Remodeling of E-cadherin-mediated contacts via cortical flows,”
Institute of Science and Technology Austria, 2022.
ista: Arslan FN. 2022. Remodeling of E-cadherin-mediated contacts via cortical
flows. Institute of Science and Technology Austria.
mla: Arslan, Feyza N. Remodeling of E-Cadherin-Mediated Contacts via Cortical
Flows. Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:12153.
short: F.N. Arslan, Remodeling of E-Cadherin-Mediated Contacts via Cortical Flows,
Institute of Science and Technology Austria, 2022.
date_created: 2023-01-25T10:43:24Z
date_published: 2022-09-29T00:00:00Z
date_updated: 2023-08-08T13:14:10Z
day: '29'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: CaHe
doi: 10.15479/at:ista:12153
ec_funded: 1
file:
- access_level: open_access
checksum: e54a3e69b83ebf166544164afd25608e
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-25T10:52:46Z
date_updated: 2023-01-25T10:52:46Z
file_id: '12369'
file_name: THESIS_FINAL_FArslan_pdfa.pdf
file_size: 14581024
relation: main_file
success: 1
file_date_updated: 2023-01-25T10:52:46Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '113'
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
publication_identifier:
isbn:
- ' 978-3-99078-025-1 '
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '9350'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
title: Remodeling of E-cadherin-mediated contacts via cortical flows
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12378'
abstract:
- lang: eng
text: "Environmental cues influence the highly dynamic morphology of microglia.
Strategies to \r\ncharacterize these changes usually involve user-selected morphometric
features, which \r\npreclude the identification of a spectrum of context-dependent
morphological phenotypes. \r\nHere, we develop MorphOMICs, a topological data
analysis approach, which enables semi\x02automatic mapping of microglial morphology
into an atlas of cue-dependent phenotypes,\r\novercomes feature-selection bias
and minimizes biological variability. \r\nFirst, with MorphOMICs we derive the
morphological spectrum of microglia across seven \r\nbrain regions during postnatal
development and in two distinct Alzheimer’s disease \r\ndegeneration mouse models.
We uncover region-specific and sexually dimorphic\r\nmorphological trajectories,
with females showing an earlier morphological shift than males in \r\nthe degenerating
brain. Overall, we demonstrate that both long primary- and short terminal \r\nprocesses
provide distinct insights to morphological phenotypes. Moreover, using machine
\r\nlearning to map novel condition on the spectrum, we observe that microglia
morphologies \r\nreflect a dose-dependent adaptation upon ketamine anesthesia
and do not recover to control \r\nmorphologies.\r\nNext, we took advantage of
MorphOMICs to build a high-resolution and layer-specific map of \r\nmicroglial
morphological spectrum in the retina, covering postnatal development and rd10
\r\ndegeneration. Here, following photoreceptor death, microglia assume an early
development\x02like morphology. Finally, we map microglial morphology following
optic nerve crush on the \r\nretinal spectrum and observe a layer- and sex-dependent
response. \r\nOverall, MorphOMICs opens a new perspective to analyze microglial
morphology across \r\nmultiple conditions, and provides a novel tool to characterize
microglial morphology beyond \r\nthe traditionally dichotomized view of microglia."
acknowledged_ssus:
- _id: PreCl
- _id: Bio
- _id: ScienComp
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Gloria
full_name: Colombo, Gloria
id: 3483CF6C-F248-11E8-B48F-1D18A9856A87
last_name: Colombo
orcid: 0000-0001-9434-8902
citation:
ama: Colombo G. MorphOMICs, a tool for mapping microglial morphology, reveals brain
region- and sex-dependent phenotypes. 2022. doi:10.15479/at:ista:12378
apa: Colombo, G. (2022). MorphOMICs, a tool for mapping microglial morphology,
reveals brain region- and sex-dependent phenotypes. Institute of Science and
Technology Austria. https://doi.org/10.15479/at:ista:12378
chicago: Colombo, Gloria. “MorphOMICs, a Tool for Mapping Microglial Morphology,
Reveals Brain Region- and Sex-Dependent Phenotypes.” Institute of Science and
Technology Austria, 2022. https://doi.org/10.15479/at:ista:12378.
ieee: G. Colombo, “MorphOMICs, a tool for mapping microglial morphology, reveals
brain region- and sex-dependent phenotypes,” Institute of Science and Technology
Austria, 2022.
ista: Colombo G. 2022. MorphOMICs, a tool for mapping microglial morphology, reveals
brain region- and sex-dependent phenotypes. Institute of Science and Technology
Austria.
mla: Colombo, Gloria. MorphOMICs, a Tool for Mapping Microglial Morphology, Reveals
Brain Region- and Sex-Dependent Phenotypes. Institute of Science and Technology
Austria, 2022, doi:10.15479/at:ista:12378.
short: G. Colombo, MorphOMICs, a Tool for Mapping Microglial Morphology, Reveals
Brain Region- and Sex-Dependent Phenotypes, Institute of Science and Technology
Austria, 2022.
date_created: 2023-01-25T14:27:43Z
date_published: 2022-11-11T00:00:00Z
date_updated: 2023-08-04T09:40:37Z
day: '11'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: SaSi
doi: 10.15479/at:ista:12378
ec_funded: 1
file:
- access_level: closed
checksum: 8cd3ddfe9b53381dcf086023d8d8893a
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: cchlebak
date_created: 2023-01-25T14:31:32Z
date_updated: 2023-04-12T22:30:03Z
embargo_to: open_access
file_id: '12379'
file_name: Gloria_Colombo_Thesis.docx
file_size: 23890382
relation: source_file
- access_level: open_access
checksum: 8af4319c18b516e8758e9a6cb02b103b
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-25T14:31:36Z
date_updated: 2023-04-12T22:30:03Z
embargo: 2023-04-11
file_id: '12380'
file_name: Gloria_Colombo_Thesis.pdf
file_size: 13802421
relation: main_file
file_date_updated: 2023-04-12T22:30:03Z
has_accepted_license: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: '142'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12244'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
title: MorphOMICs, a tool for mapping microglial morphology, reveals brain region-
and sex-dependent phenotypes
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12390'
abstract:
- lang: eng
text: "The scope of this thesis is to study quantum systems exhibiting a continuous
symmetry that\r\nis broken on the level of the corresponding effective theory.
In particular we are going to\r\ninvestigate translation-invariant Bose gases
in the mean field limit, effectively described by\r\nthe Hartree functional, and
the Fröhlich Polaron in the regime of strong coupling, effectively\r\ndescribed
by the Pekar functional. The latter is a model describing the interaction between
a\r\ncharged particle and the optical modes of a polar crystal. Regarding the
former, we assume in\r\naddition that the particles in the gas are unconfined,
and typically we will consider particles\r\nthat are subject to an attractive
interaction. In both cases the ground state energy of the\r\nHamiltonian is not
a proper eigenvalue due to the underlying translation-invariance, while on\r\nthe
contrary there exists a whole invariant orbit of minimizers for the corresponding
effective\r\nfunctionals. Both, the absence of proper eigenstates and the broken
symmetry of the effective\r\ntheory, make the study significantly more involved
and it is the content of this thesis to\r\ndevelop a frameworks which allows for
a systematic way to circumvent these issues.\r\nIt is a well-established result
that the ground state energy of Bose gases in the mean field limit,\r\nas well
as the ground state energy of the Fröhlich Polaron in the regime of strong coupling,
is\r\nto leading order given by the minimal energy of the corresponding effective
theory. As part\r\nof this thesis we identify the sub-leading term in the expansion
of the ground state energy,\r\nwhich can be interpreted as the quantum correction
to the classical energy, since the effective\r\ntheories under consideration can
be seen as classical counterparts.\r\nWe are further going to establish an asymptotic
expression for the energy-momentum relation\r\nof the Fröhlich Polaron in the
strong coupling limit. In the regime of suitably small momenta,\r\nthis asymptotic
expression agrees with the energy-momentum relation of a free particle having\r\nan
effectively increased mass, and we find that this effectively increased mass agrees
with the\r\nconjectured value in the physics literature.\r\nIn addition we will
discuss two unrelated papers written by the author during his stay at ISTA\r\nin
the appendix. The first one concerns the realization of anyons, which are quasi-particles\r\nacquiring
a non-trivial phase under the exchange of two particles, as molecular impurities.\r\nThe
second one provides a classification of those vector fields defined on a given
manifold\r\nthat can be written as the gradient of a given functional with respect
to a suitable metric,\r\nprovided that some mild smoothness assumptions hold.
This classification is subsequently\r\nused to identify those quantum Markov semigroups
that can be written as a gradient flow of\r\nthe relative entropy.\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Morris
full_name: Brooks, Morris
id: B7ECF9FC-AA38-11E9-AC9A-0930E6697425
last_name: Brooks
orcid: 0000-0002-6249-0928
citation:
ama: Brooks M. Translation-invariant quantum systems with effectively broken symmetry.
2022. doi:10.15479/at:ista:12390
apa: Brooks, M. (2022). Translation-invariant quantum systems with effectively
broken symmetry. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12390
chicago: Brooks, Morris. “Translation-Invariant Quantum Systems with Effectively
Broken Symmetry.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:12390.
ieee: M. Brooks, “Translation-invariant quantum systems with effectively broken
symmetry,” Institute of Science and Technology Austria, 2022.
ista: Brooks M. 2022. Translation-invariant quantum systems with effectively broken
symmetry. Institute of Science and Technology Austria.
mla: Brooks, Morris. Translation-Invariant Quantum Systems with Effectively Broken
Symmetry. Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:12390.
short: M. Brooks, Translation-Invariant Quantum Systems with Effectively Broken
Symmetry, Institute of Science and Technology Austria, 2022.
date_created: 2023-01-26T10:00:42Z
date_published: 2022-12-15T00:00:00Z
date_updated: 2023-08-07T13:32:09Z
day: '15'
ddc:
- '500'
degree_awarded: PhD
department:
- _id: GradSch
- _id: RoSe
doi: 10.15479/at:ista:12390
ec_funded: 1
file:
- access_level: open_access
checksum: b31460e937f33b557abb40ebef02b567
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-26T10:02:34Z
date_updated: 2023-01-26T10:02:34Z
file_id: '12391'
file_name: Brooks_Thesis.pdf
file_size: 3095225
relation: main_file
success: 1
- access_level: closed
checksum: 9751869fa5e7981588ad4228f4fd4bd6
content_type: application/octet-stream
creator: cchlebak
date_created: 2023-01-26T10:02:42Z
date_updated: 2023-01-26T10:02:42Z
file_id: '12392'
file_name: Brooks_Thesis.tex
file_size: 809842
relation: source_file
file_date_updated: 2023-01-26T10:02:42Z
has_accepted_license: '1'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: '196'
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: '9005'
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: Translation-invariant quantum systems with effectively broken symmetry
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: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '12401'
abstract:
- lang: eng
text: "Detachment of the cancer cells from the bulk of the tumor is the first step
of metastasis, which\r\nis the primary cause of cancer related deaths. It is unclear,
which factors contribute to this step.\r\nRecent studies indicate a crucial role
of the tumor microenvironment in malignant\r\ntransformation and metastasis. Studying
cancer cell invasion and detachments quantitatively in\r\nthe context of its physiological
microenvironment is technically challenging. Especially, precise\r\ncontrol of
microenvironmental properties in vivo is currently not possible. Here, I studied
the\r\nrole of microenvironment geometry in the invasion and detachment of cancer
cells from the\r\nbulk with a simplistic and reductionist approach. In this approach,
I engineered microfluidic\r\ndevices to mimic a pseudo 3D extracellular matrix
environment, where I was able to\r\nquantitatively tune the geometrical configuration
of the microenvironment and follow tumor\r\ncells with fluorescence live imaging.
To aid quantitative analysis I developed a widely applicable\r\nsoftware application
to automatically analyze and visualize particle tracking data.\r\nQuantitative
analysis of tumor cell invasion in isotropic and anisotropic microenvironments\r\nshowed
that heterogeneity in the microenvironment promotes faster invasion and more\r\nfrequent
detachment of cells. These observations correlated with overall higher speed of
cells at\r\nthe edge of the bulk of the cells. In heterogeneous microenvironments
cells preferentially\r\npassed through larger pores, thus invading areas of least
resistance and generating finger-like\r\ninvasive structures. The detachments
occurred mostly at the tips of these structures.\r\nTo investigate the potential
mechanism, we established a two dimensional model to simulate\r\nactive Brownian
particles representing the cell nuclei dynamics. These simulations backed our
in\r\nvitro observations without the need of precise fitting the simulation parameters.
Our model\r\nsuggests the importance of the pore heterogeneity in the direction
perpendicular to the\r\norientation of bias field (lateral heterogeneity), which
causes the interface roughening."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
citation:
ama: Tasciyan S. Role of microenvironment heterogeneity in cancer cell invasion.
2022. doi:10.15479/at:ista:12401
apa: Tasciyan, S. (2022). Role of microenvironment heterogeneity in cancer cell
invasion. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12401
chicago: Tasciyan, Saren. “Role of Microenvironment Heterogeneity in Cancer Cell
Invasion.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:12401.
ieee: S. Tasciyan, “Role of microenvironment heterogeneity in cancer cell invasion,”
Institute of Science and Technology Austria, 2022.
ista: Tasciyan S. 2022. Role of microenvironment heterogeneity in cancer cell invasion.
Institute of Science and Technology Austria.
mla: Tasciyan, Saren. Role of Microenvironment Heterogeneity in Cancer Cell Invasion.
Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:12401.
short: S. Tasciyan, Role of Microenvironment Heterogeneity in Cancer Cell Invasion,
Institute of Science and Technology Austria, 2022.
date_created: 2023-01-26T11:55:16Z
date_published: 2022-12-22T00:00:00Z
date_updated: 2024-09-10T12:04:26Z
day: '22'
ddc:
- '610'
degree_awarded: PhD
department:
- _id: GradSch
- _id: MiSi
doi: 10.15479/at:ista:12401
file:
- access_level: open_access
checksum: cc4a2b4a7e3c4ee8ef7f2dbf909b12bd
content_type: application/pdf
creator: cchlebak
date_created: 2023-01-26T11:58:14Z
date_updated: 2023-12-21T23:30:03Z
embargo: 2023-12-20
file_id: '12402'
file_name: PhD-Thesis_Saren Tasciyan_formatted_aftercrash_fixed_600dpi_95pc_final_PDFA3b.pdf
file_size: 42059787
relation: main_file
- access_level: closed
checksum: f1b4ca98b8ab0cb043b1830971e9bd9c
content_type: application/x-zip-compressed
creator: cchlebak
date_created: 2023-01-26T12:00:10Z
date_updated: 2023-12-21T23:30:03Z
embargo_to: open_access
file_id: '12403'
file_name: Source Files - Saren Tasciyan - PhD Thesis.zip
file_size: 261256696
relation: source_file
file_date_updated: 2023-12-21T23:30:03Z
has_accepted_license: '1'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: '105'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '679'
relation: part_of_dissertation
status: public
- id: '10703'
relation: part_of_dissertation
status: public
- id: '7885'
relation: part_of_dissertation
status: public
- id: '9429'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
title: Role of microenvironment heterogeneity in cancer cell invasion
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2022'
...
---
_id: '12677'
abstract:
- lang: eng
text: "In modern sample-driven Prophet Inequality, an adversary chooses a sequence
of n items with values v1,v2,…,vn to be presented to a decision maker (DM). The
process follows in two phases. In the first phase (sampling phase), some items,
possibly selected at random, are revealed to the DM, but she can never accept
them. In the second phase, the DM is presented with the other items in a random
order and online fashion. For each item, she must make an irrevocable decision
to either accept the item and stop the process or reject the item forever and
proceed to the next item. The goal of the DM is to maximize the expected value
as compared to a Prophet (or offline algorithm) that has access to all information.
In this setting, the sampling phase has no cost and is not part of the optimization
process. However, in many scenarios, the samples are obtained as part of the decision-making
process.\r\nWe model this aspect as a two-phase Prophet Inequality where an adversary
chooses a sequence of 2n items with values v1,v2,…,v2n and the items are randomly
ordered. Finally, there are two phases of the Prophet Inequality problem with
the first n-items and the rest of the items, respectively. We show that some basic
algorithms achieve a ratio of at most 0.450. We present an algorithm that achieves
a ratio of at least 0.495. Finally, we show that for every algorithm the ratio
it can achieve is at most 0.502. Hence our algorithm is near-optimal."
acknowledgement: This research was partially supported by the ERC CoG 863818 (ForM-SMArt)
grant.
article_number: '2209.14368'
article_processing_charge: No
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Mona
full_name: Mohammadi, Mona
id: 4363614d-b686-11ed-a7d5-ac9e4a24bc2e
last_name: Mohammadi
- first_name: Raimundo J
full_name: Saona Urmeneta, Raimundo J
id: BD1DF4C4-D767-11E9-B658-BC13E6697425
last_name: Saona Urmeneta
orcid: 0000-0001-5103-038X
citation:
ama: Chatterjee K, Mohammadi M, Saona Urmeneta RJ. Repeated prophet inequality with
near-optimal bounds. arXiv. doi:10.48550/ARXIV.2209.14368
apa: Chatterjee, K., Mohammadi, M., & Saona Urmeneta, R. J. (n.d.). Repeated
prophet inequality with near-optimal bounds. arXiv. https://doi.org/10.48550/ARXIV.2209.14368
chicago: Chatterjee, Krishnendu, Mona Mohammadi, and Raimundo J Saona Urmeneta.
“Repeated Prophet Inequality with Near-Optimal Bounds.” ArXiv, n.d. https://doi.org/10.48550/ARXIV.2209.14368.
ieee: K. Chatterjee, M. Mohammadi, and R. J. Saona Urmeneta, “Repeated prophet inequality
with near-optimal bounds,” arXiv. .
ista: Chatterjee K, Mohammadi M, Saona Urmeneta RJ. Repeated prophet inequality
with near-optimal bounds. arXiv, 2209.14368.
mla: Chatterjee, Krishnendu, et al. “Repeated Prophet Inequality with Near-Optimal
Bounds.” ArXiv, 2209.14368, doi:10.48550/ARXIV.2209.14368.
short: K. Chatterjee, M. Mohammadi, R.J. Saona Urmeneta, ArXiv (n.d.).
date_created: 2023-02-24T12:21:40Z
date_published: 2022-09-28T00:00:00Z
date_updated: 2025-07-14T09:09:51Z
day: '28'
department:
- _id: GradSch
- _id: KrCh
doi: 10.48550/ARXIV.2209.14368
ec_funded: 1
external_id:
arxiv:
- '2209.14368'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2209.14368'
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
publication: arXiv
publication_status: submitted
status: public
title: Repeated prophet inequality with near-optimal bounds
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12750'
abstract:
- lang: eng
text: Quantum kinetically constrained models have recently attracted significant
attention due to their anomalous dynamics and thermalization. In this work, we
introduce a hitherto unexplored family of kinetically constrained models featuring
a conserved particle number and strong inversion-symmetry breaking due to facilitated
hopping. We demonstrate that these models provide a generic example of so-called
quantum Hilbert space fragmentation, that is manifested in disconnected sectors
in the Hilbert space that are not apparent in the computational basis. Quantum
Hilbert space fragmentation leads to an exponential in system size number of eigenstates
with exactly zero entanglement entropy across several bipartite cuts. These eigenstates
can be probed dynamically using quenches from simple initial product states. In
addition, we study the particle spreading under unitary dynamics launched from
the domain wall state, and find faster than diffusive dynamics at high particle
densities, that crosses over into logarithmically slow relaxation at smaller densities.
Using a classically simulable cellular automaton, we reproduce the logarithmic
dynamics observed in the quantum case. Our work suggests that particle conserving
constrained models with inversion symmetry breaking realize so far unexplored
universality classes of dynamics and invite their further theoretical and experimental
studies.
article_number: '2210.15607'
article_processing_charge: No
arxiv: 1
author:
- first_name: Pietro
full_name: Brighi, Pietro
id: 4115AF5C-F248-11E8-B48F-1D18A9856A87
last_name: Brighi
orcid: 0000-0002-7969-2729
- first_name: Marko
full_name: Ljubotina, Marko
id: F75EE9BE-5C90-11EA-905D-16643DDC885E
last_name: Ljubotina
orcid: 0000-0003-0038-7068
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
citation:
ama: Brighi P, Ljubotina M, Serbyn M. Hilbert space fragmentation and slow dynamics
in particle-conserving quantum East models. arXiv. doi:10.48550/arXiv.2210.15607
apa: Brighi, P., Ljubotina, M., & Serbyn, M. (n.d.). Hilbert space fragmentation
and slow dynamics in particle-conserving quantum East models. arXiv. https://doi.org/10.48550/arXiv.2210.15607
chicago: Brighi, Pietro, Marko Ljubotina, and Maksym Serbyn. “Hilbert Space Fragmentation
and Slow Dynamics in Particle-Conserving Quantum East Models.” ArXiv, n.d.
https://doi.org/10.48550/arXiv.2210.15607.
ieee: P. Brighi, M. Ljubotina, and M. Serbyn, “Hilbert space fragmentation and slow
dynamics in particle-conserving quantum East models,” arXiv. .
ista: Brighi P, Ljubotina M, Serbyn M. Hilbert space fragmentation and slow dynamics
in particle-conserving quantum East models. arXiv, 2210.15607.
mla: Brighi, Pietro, et al. “Hilbert Space Fragmentation and Slow Dynamics in Particle-Conserving
Quantum East Models.” ArXiv, 2210.15607, doi:10.48550/arXiv.2210.15607.
short: P. Brighi, M. Ljubotina, M. Serbyn, ArXiv (n.d.).
date_created: 2023-03-23T14:33:13Z
date_published: 2022-11-07T00:00:00Z
date_updated: 2023-09-20T10:46:29Z
day: '07'
department:
- _id: GradSch
- _id: MaSe
doi: 10.48550/arXiv.2210.15607
external_id:
arxiv:
- '2210.15607'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2210.15607
month: '11'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: submitted
related_material:
record:
- id: '12732'
relation: dissertation_contains
status: public
- id: '14334'
relation: later_version
status: public
status: public
title: Hilbert space fragmentation and slow dynamics in particle-conserving quantum
East models
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: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12860'
abstract:
- lang: eng
text: 'Memorization of the relation between entities in a dataset can lead to privacy
issues when using a trained model for question answering. We introduce Relational
Memorization (RM) to understand, quantify and control this phenomenon. While bounding
general memorization can have detrimental effects on the performance of a trained
model, bounding RM does not prevent effective learning. The difference is most
pronounced when the data distribution is long-tailed, with many queries having
only few training examples: Impeding general memorization prevents effective learning,
while impeding only relational memorization still allows learning general properties
of the underlying concepts. We formalize the notion of Relational Privacy (RP)
and, inspired by Differential Privacy (DP), we provide a possible definition of
Differential Relational Privacy (DrP). These notions can be used to describe and
compute bounds on the amount of RM in a trained model. We illustrate Relational
Privacy concepts in experiments with large-scale models for Question Answering.'
article_number: '2203.16701'
article_processing_charge: No
arxiv: 1
author:
- first_name: Simone
full_name: Bombari, Simone
id: ca726dda-de17-11ea-bc14-f9da834f63aa
last_name: Bombari
- first_name: Alessandro
full_name: Achille, Alessandro
last_name: Achille
- first_name: Zijian
full_name: Wang, Zijian
last_name: Wang
- first_name: Yu-Xiang
full_name: Wang, Yu-Xiang
last_name: Wang
- first_name: Yusheng
full_name: Xie, Yusheng
last_name: Xie
- first_name: Kunwar Yashraj
full_name: Singh, Kunwar Yashraj
last_name: Singh
- first_name: Srikar
full_name: Appalaraju, Srikar
last_name: Appalaraju
- first_name: Vijay
full_name: Mahadevan, Vijay
last_name: Mahadevan
- first_name: Stefano
full_name: Soatto, Stefano
last_name: Soatto
citation:
ama: Bombari S, Achille A, Wang Z, et al. Towards differential relational privacy
and its use in question answering. arXiv. doi:10.48550/arXiv.2203.16701
apa: Bombari, S., Achille, A., Wang, Z., Wang, Y.-X., Xie, Y., Singh, K. Y., … Soatto,
S. (n.d.). Towards differential relational privacy and its use in question answering.
arXiv. https://doi.org/10.48550/arXiv.2203.16701
chicago: Bombari, Simone, Alessandro Achille, Zijian Wang, Yu-Xiang Wang, Yusheng
Xie, Kunwar Yashraj Singh, Srikar Appalaraju, Vijay Mahadevan, and Stefano Soatto.
“Towards Differential Relational Privacy and Its Use in Question Answering.” ArXiv,
n.d. https://doi.org/10.48550/arXiv.2203.16701.
ieee: S. Bombari et al., “Towards differential relational privacy and its
use in question answering,” arXiv. .
ista: Bombari S, Achille A, Wang Z, Wang Y-X, Xie Y, Singh KY, Appalaraju S, Mahadevan
V, Soatto S. Towards differential relational privacy and its use in question answering.
arXiv, 2203.16701.
mla: Bombari, Simone, et al. “Towards Differential Relational Privacy and Its Use
in Question Answering.” ArXiv, 2203.16701, doi:10.48550/arXiv.2203.16701.
short: S. Bombari, A. Achille, Z. Wang, Y.-X. Wang, Y. Xie, K.Y. Singh, S. Appalaraju,
V. Mahadevan, S. Soatto, ArXiv (n.d.).
date_created: 2023-04-23T16:11:48Z
date_published: 2022-03-30T00:00:00Z
date_updated: 2023-04-25T07:34:49Z
day: '30'
department:
- _id: GradSch
- _id: MaMo
doi: 10.48550/arXiv.2203.16701
external_id:
arxiv:
- '2203.16701'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2203.16701
month: '03'
oa: 1
oa_version: Preprint
publication: arXiv
publication_status: submitted
status: public
title: Towards differential relational privacy and its use in question answering
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '14355'
abstract:
- lang: eng
text: 'Purpose: The mediator (MED) multisubunit-complex modulates the activity of
the transcriptional machinery, and genetic defects in different MED subunits (17,
20, 27) have been implicated in neurologic diseases. In this study, we identified
a recurrent homozygous variant in MED11 (c.325C>T; p.Arg109Ter) in 7 affected
individuals from 5 unrelated families. Methods: To investigate the genetic cause
of the disease, exome or genome sequencing were performed in 5 unrelated families
identified via different research networks and Matchmaker Exchange. Deep clinical
and brain imaging evaluations were performed by clinical pediatric neurologists
and neuroradiologists. The functional effect of the candidate variant on both
MED11 RNA and protein was assessed using reverse transcriptase polymerase chain
reaction and western blotting using fibroblast cell lines derived from 1 affected
individual and controls and through computational approaches. Knockouts in zebrafish
were generated using clustered regularly interspaced short palindromic repeats/Cas9.
Results: The disease was characterized by microcephaly, profound neurodevelopmental
impairment, exaggerated startle response, myoclonic seizures, progressive widespread
neurodegeneration, and premature death. Functional studies on patient-derived
fibroblasts did not show a loss of protein function but rather disruption of the
C-terminal of MED11, likely impairing binding to other MED subunits. A zebrafish
knockout model recapitulates key clinical phenotypes. Conclusion: Loss of the
C-terminal of MED subunit 11 may affect its binding efficiency to other MED subunits,
thus implicating the MED-complex stability in brain development and neurodegeneration.
(C) 2022 The Authors. Published by Elsevier Inc. on behalf of American College
of Medical Genetics and Genomics.'
article_processing_charge: No
article_type: original
author:
- first_name: Elisa
full_name: Cali, Elisa
last_name: Cali
- first_name: Sheng-Jia
full_name: Lin, Sheng-Jia
last_name: Lin
- first_name: Clarissa
full_name: Rocca, Clarissa
last_name: Rocca
- first_name: Yavuz
full_name: Sahin, Yavuz
last_name: Sahin
- first_name: Aisha
full_name: Al Shamsi, Aisha
last_name: Al Shamsi
- first_name: Salima
full_name: El Chehadeh, Salima
last_name: El Chehadeh
- first_name: Myriam
full_name: Chaabouni, Myriam
last_name: Chaabouni
- first_name: Kshitij
full_name: Mankad, Kshitij
last_name: Mankad
- first_name: Evangelia
full_name: Galanaki, Evangelia
last_name: Galanaki
- first_name: Stephanie
full_name: Efthymiou, Stephanie
last_name: Efthymiou
- first_name: Sniya
full_name: Sudhakar, Sniya
last_name: Sudhakar
- first_name: Alkyoni
full_name: Athanasiou-Fragkouli, Alkyoni
last_name: Athanasiou-Fragkouli
- first_name: Tamer
full_name: Celik, Tamer
last_name: Celik
- first_name: Nejat
full_name: Narli, Nejat
last_name: Narli
- first_name: Sebastiano
full_name: Bianca, Sebastiano
last_name: Bianca
- first_name: David
full_name: Murphy, David
last_name: Murphy
- first_name: Francisco Martins De Carvalho
full_name: Moreira, Francisco Martins De Carvalho
last_name: Moreira
- first_name: Andrea
full_name: Accogli, Andrea
last_name: Accogli
- first_name: Cassidy
full_name: Petree, Cassidy
last_name: Petree
- first_name: Kevin
full_name: Huang, Kevin
id: 3b3d2888-1ff6-11ee-9fa6-8f209ca91fe3
last_name: Huang
orcid: 0000-0002-2512-7812
- first_name: Kamel
full_name: Monastiri, Kamel
last_name: Monastiri
- first_name: Masoud
full_name: Edizadeh, Masoud
last_name: Edizadeh
- first_name: Rosaria
full_name: Nardello, Rosaria
last_name: Nardello
- first_name: Marzia
full_name: Ognibene, Marzia
last_name: Ognibene
- first_name: Patrizia
full_name: De Marco, Patrizia
last_name: De Marco
- first_name: Martino
full_name: Ruggieri, Martino
last_name: Ruggieri
- first_name: Federico
full_name: Zara, Federico
last_name: Zara
- first_name: Pasquale
full_name: Striano, Pasquale
last_name: Striano
- first_name: Yavuz
full_name: Sahin, Yavuz
last_name: Sahin
- first_name: Lihadh
full_name: Al-Gazali, Lihadh
last_name: Al-Gazali
- first_name: Marie Therese Abi
full_name: Warde, Marie Therese Abi
last_name: Warde
- first_name: Benedicte
full_name: Gerard, Benedicte
last_name: Gerard
- first_name: Giovanni
full_name: Zifarelli, Giovanni
last_name: Zifarelli
- first_name: Christian
full_name: Beetz, Christian
last_name: Beetz
- first_name: Sara
full_name: Fortuna, Sara
last_name: Fortuna
- first_name: Miguel
full_name: Soler, Miguel
last_name: Soler
- first_name: Enza Maria
full_name: Valente, Enza Maria
last_name: Valente
- first_name: Gaurav
full_name: Varshney, Gaurav
last_name: Varshney
- first_name: Reza
full_name: Maroofian, Reza
last_name: Maroofian
- first_name: Vincenzo
full_name: Salpietro, Vincenzo
last_name: Salpietro
- first_name: Henry
full_name: Houlden, Henry
last_name: Houlden
- first_name: SYNaPS Study
full_name: Grp, SYNaPS Study
last_name: Grp
citation:
ama: Cali E, Lin S-J, Rocca C, et al. A homozygous MED11 C-terminal variant causes
a lethal neurodegenerative disease. Genetics in Medicine. 2022;24(10):2194-2203.
doi:10.1016/j.gim.2022.07.013
apa: Cali, E., Lin, S.-J., Rocca, C., Sahin, Y., Al Shamsi, A., El Chehadeh, S.,
… Grp, Syn. S. (2022). A homozygous MED11 C-terminal variant causes a lethal neurodegenerative
disease. Genetics in Medicine. Elsevier. https://doi.org/10.1016/j.gim.2022.07.013
chicago: Cali, Elisa, Sheng-Jia Lin, Clarissa Rocca, Yavuz Sahin, Aisha Al Shamsi,
Salima El Chehadeh, Myriam Chaabouni, et al. “A Homozygous MED11 C-Terminal Variant
Causes a Lethal Neurodegenerative Disease.” Genetics in Medicine. Elsevier,
2022. https://doi.org/10.1016/j.gim.2022.07.013.
ieee: E. Cali et al., “A homozygous MED11 C-terminal variant causes a lethal
neurodegenerative disease,” Genetics in Medicine, vol. 24, no. 10. Elsevier,
pp. 2194–2203, 2022.
ista: Cali E, Lin S-J, Rocca C, Sahin Y, Al Shamsi A, El Chehadeh S, Chaabouni M,
Mankad K, Galanaki E, Efthymiou S, Sudhakar S, Athanasiou-Fragkouli A, Celik T,
Narli N, Bianca S, Murphy D, Moreira FMDC, Accogli A, Petree C, Huang K, Monastiri
K, Edizadeh M, Nardello R, Ognibene M, De Marco P, Ruggieri M, Zara F, Striano
P, Sahin Y, Al-Gazali L, Warde MTA, Gerard B, Zifarelli G, Beetz C, Fortuna S,
Soler M, Valente EM, Varshney G, Maroofian R, Salpietro V, Houlden H, Grp SynS.
2022. A homozygous MED11 C-terminal variant causes a lethal neurodegenerative
disease. Genetics in Medicine. 24(10), 2194–2203.
mla: Cali, Elisa, et al. “A Homozygous MED11 C-Terminal Variant Causes a Lethal
Neurodegenerative Disease.” Genetics in Medicine, vol. 24, no. 10, Elsevier,
2022, pp. 2194–203, doi:10.1016/j.gim.2022.07.013.
short: E. Cali, S.-J. Lin, C. Rocca, Y. Sahin, A. Al Shamsi, S. El Chehadeh, M.
Chaabouni, K. Mankad, E. Galanaki, S. Efthymiou, S. Sudhakar, A. Athanasiou-Fragkouli,
T. Celik, N. Narli, S. Bianca, D. Murphy, F.M.D.C. Moreira, A. Accogli, C. Petree,
K. Huang, K. Monastiri, M. Edizadeh, R. Nardello, M. Ognibene, P. De Marco, M.
Ruggieri, F. Zara, P. Striano, Y. Sahin, L. Al-Gazali, M.T.A. Warde, B. Gerard,
G. Zifarelli, C. Beetz, S. Fortuna, M. Soler, E.M. Valente, G. Varshney, R. Maroofian,
V. Salpietro, H. Houlden, Syn.S. Grp, Genetics in Medicine 24 (2022) 2194–2203.
date_created: 2023-09-20T20:57:18Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-09-25T08:57:07Z
day: '01'
ddc:
- '570'
department:
- _id: GradSch
doi: 10.1016/j.gim.2022.07.013
extern: '1'
file:
- access_level: open_access
checksum: 8117175a89129eb5022d81ffe7625f9f
content_type: application/pdf
creator: dernst
date_created: 2023-09-25T08:56:06Z
date_updated: 2023-09-25T08:56:06Z
file_id: '14371'
file_name: 2022_GeneticsMedicine_Calin.pdf
file_size: 1434037
relation: main_file
success: 1
file_date_updated: 2023-09-25T08:56:06Z
has_accepted_license: '1'
intvolume: ' 24'
issue: '10'
keyword:
- Human mediator complex
- MED11
- MEDopathies
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 2194-2203
publication: Genetics in Medicine
publication_identifier:
issn:
- 1098-3600
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: A homozygous MED11 C-terminal variant causes a lethal neurodegenerative disease
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2022'
...
---
_id: '9311'
abstract:
- lang: eng
text: 'Partially observable Markov decision processes (POMDPs) are standard models
for dynamic systems with probabilistic and nondeterministic behaviour in uncertain
environments. We prove that in POMDPs with long-run average objective, the decision
maker has approximately optimal strategies with finite memory. This implies notably
that approximating the long-run value is recursively enumerable, as well as a
weak continuity property of the value with respect to the transition function. '
acknowledgement: "Partially supported by Austrian Science Fund (FWF) NFN Grant No
RiSE/SHiNE S11407, by CONICYT Chile through grant PII 20150140, and by ECOS-CONICYT
through grant C15E03.\r\n"
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Raimundo J
full_name: Saona Urmeneta, Raimundo J
id: BD1DF4C4-D767-11E9-B658-BC13E6697425
last_name: Saona Urmeneta
orcid: 0000-0001-5103-038X
- first_name: Bruno
full_name: Ziliotto, Bruno
last_name: Ziliotto
citation:
ama: Chatterjee K, Saona Urmeneta RJ, Ziliotto B. Finite-memory strategies in POMDPs
with long-run average objectives. Mathematics of Operations Research. 2022;47(1):100-119.
doi:10.1287/moor.2020.1116
apa: Chatterjee, K., Saona Urmeneta, R. J., & Ziliotto, B. (2022). Finite-memory
strategies in POMDPs with long-run average objectives. Mathematics of Operations
Research. Institute for Operations Research and the Management Sciences. https://doi.org/10.1287/moor.2020.1116
chicago: Chatterjee, Krishnendu, Raimundo J Saona Urmeneta, and Bruno Ziliotto.
“Finite-Memory Strategies in POMDPs with Long-Run Average Objectives.” Mathematics
of Operations Research. Institute for Operations Research and the Management
Sciences, 2022. https://doi.org/10.1287/moor.2020.1116.
ieee: K. Chatterjee, R. J. Saona Urmeneta, and B. Ziliotto, “Finite-memory strategies
in POMDPs with long-run average objectives,” Mathematics of Operations Research,
vol. 47, no. 1. Institute for Operations Research and the Management Sciences,
pp. 100–119, 2022.
ista: Chatterjee K, Saona Urmeneta RJ, Ziliotto B. 2022. Finite-memory strategies
in POMDPs with long-run average objectives. Mathematics of Operations Research.
47(1), 100–119.
mla: Chatterjee, Krishnendu, et al. “Finite-Memory Strategies in POMDPs with Long-Run
Average Objectives.” Mathematics of Operations Research, vol. 47, no. 1,
Institute for Operations Research and the Management Sciences, 2022, pp. 100–19,
doi:10.1287/moor.2020.1116.
short: K. Chatterjee, R.J. Saona Urmeneta, B. Ziliotto, Mathematics of Operations
Research 47 (2022) 100–119.
date_created: 2021-04-08T09:33:31Z
date_published: 2022-02-01T00:00:00Z
date_updated: 2023-09-05T13:16:11Z
day: '01'
department:
- _id: GradSch
- _id: KrCh
doi: 10.1287/moor.2020.1116
external_id:
arxiv:
- '1904.13360'
isi:
- '000731918100001'
intvolume: ' 47'
isi: 1
issue: '1'
keyword:
- Management Science and Operations Research
- General Mathematics
- Computer Science Applications
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1904.13360
month: '02'
oa: 1
oa_version: Preprint
page: 100-119
project:
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
publication: Mathematics of Operations Research
publication_identifier:
eissn:
- 1526-5471
issn:
- 0364-765X
publication_status: published
publisher: Institute for Operations Research and the Management Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Finite-memory strategies in POMDPs with long-run average objectives
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 47
year: '2022'
...
---
_id: '10007'
abstract:
- lang: eng
text: The present thesis is concerned with the derivation of weak-strong uniqueness
principles for curvature driven interface evolution problems not satisfying a
comparison principle. The specific examples being treated are two-phase Navier-Stokes
flow with surface tension, modeling the evolution of two incompressible, viscous
and immiscible fluids separated by a sharp interface, and multiphase mean curvature
flow, which serves as an idealized model for the motion of grain boundaries in
an annealing polycrystalline material. Our main results - obtained in joint works
with Julian Fischer, Tim Laux and Theresa M. Simon - state that prior to the formation
of geometric singularities due to topology changes, the weak solution concept
of Abels (Interfaces Free Bound. 9, 2007) to two-phase Navier-Stokes flow with
surface tension and the weak solution concept of Laux and Otto (Calc. Var. Partial
Differential Equations 55, 2016) to multiphase mean curvature flow (for networks
in R^2 or double bubbles in R^3) represents the unique solution to these interface
evolution problems within the class of classical solutions, respectively. To the
best of the author's knowledge, for interface evolution problems not admitting
a geometric comparison principle the derivation of a weak-strong uniqueness principle
represented an open problem, so that the works contained in the present thesis
constitute the first positive results in this direction. The key ingredient of
our approach consists of the introduction of a novel concept of relative entropies
for a class of curvature driven interface evolution problems, for which the associated
energy contains an interfacial contribution being proportional to the surface
area of the evolving (network of) interface(s). The interfacial part of the relative
entropy gives sufficient control on the interface error between a weak and a classical
solution, and its time evolution can be computed, at least in principle, for any
energy dissipating weak solution concept. A resulting stability estimate for the
relative entropy essentially entails the above mentioned weak-strong uniqueness
principles. The present thesis contains a detailed introduction to our relative
entropy approach, which in particular highlights potential applications to other
problems in curvature driven interface evolution not treated in this thesis.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Sebastian
full_name: Hensel, Sebastian
id: 4D23B7DA-F248-11E8-B48F-1D18A9856A87
last_name: Hensel
orcid: 0000-0001-7252-8072
citation:
ama: 'Hensel S. Curvature driven interface evolution: Uniqueness properties of weak
solution concepts. 2021. doi:10.15479/at:ista:10007'
apa: 'Hensel, S. (2021). Curvature driven interface evolution: Uniqueness properties
of weak solution concepts. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10007'
chicago: 'Hensel, Sebastian. “Curvature Driven Interface Evolution: Uniqueness Properties
of Weak Solution Concepts.” Institute of Science and Technology Austria, 2021.
https://doi.org/10.15479/at:ista:10007.'
ieee: 'S. Hensel, “Curvature driven interface evolution: Uniqueness properties of
weak solution concepts,” Institute of Science and Technology Austria, 2021.'
ista: 'Hensel S. 2021. Curvature driven interface evolution: Uniqueness properties
of weak solution concepts. Institute of Science and Technology Austria.'
mla: 'Hensel, Sebastian. Curvature Driven Interface Evolution: Uniqueness Properties
of Weak Solution Concepts. Institute of Science and Technology Austria, 2021,
doi:10.15479/at:ista:10007.'
short: 'S. Hensel, Curvature Driven Interface Evolution: Uniqueness Properties of
Weak Solution Concepts, Institute of Science and Technology Austria, 2021.'
date_created: 2021-09-13T11:12:34Z
date_published: 2021-09-14T00:00:00Z
date_updated: 2023-09-07T13:30:45Z
day: '14'
ddc:
- '515'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JuFi
doi: 10.15479/at:ista:10007
ec_funded: 1
file:
- access_level: closed
checksum: c8475faaf0b680b4971f638f1db16347
content_type: application/x-zip-compressed
creator: shensel
date_created: 2021-09-13T11:03:24Z
date_updated: 2021-09-15T14:37:30Z
file_id: '10008'
file_name: thesis_final_Hensel.zip
file_size: 15022154
relation: source_file
- access_level: open_access
checksum: 1a609937aa5275452822f45f2da17f07
content_type: application/pdf
creator: shensel
date_created: 2021-09-13T14:18:56Z
date_updated: 2021-09-14T09:52:47Z
file_id: '10014'
file_name: thesis_final_Hensel.pdf
file_size: 6583638
relation: main_file
file_date_updated: 2021-09-15T14:37:30Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '300'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 0aa76401-070f-11eb-9043-b5bb049fa26d
call_identifier: H2020
grant_number: '948819'
name: Bridging Scales in Random Materials
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10012'
relation: part_of_dissertation
status: public
- id: '10013'
relation: part_of_dissertation
status: public
- id: '7489'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
title: 'Curvature driven interface evolution: Uniqueness properties of weak solution
concepts'
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2021'
...
---
_id: '10030'
abstract:
- lang: eng
text: "This PhD thesis is primarily focused on the study of discrete transport problems,
introduced for the first time in the seminal works of Maas [Maa11] and Mielke
[Mie11] on finite state Markov chains and reaction-diffusion equations, respectively.
More in detail, my research focuses on the study of transport costs on graphs,
in particular the convergence and the stability of such problems in the discrete-to-continuum
limit. This thesis also includes some results concerning\r\nnon-commutative optimal
transport. The first chapter of this thesis consists of a general introduction
to the optimal transport problems, both in the discrete, the continuous, and the
non-commutative setting. Chapters 2 and 3 present the content of two works, obtained
in collaboration with Peter Gladbach, Eva Kopfer, and Jan Maas, where we have
been able to show the convergence of discrete transport costs on periodic graphs
to suitable continuous ones, which can be described by means of a homogenisation
result. We first focus on the particular case of quadratic costs on the real line
and then extending the result to more general costs in arbitrary dimension. Our
results are the first complete characterisation of limits of transport costs on
periodic graphs in arbitrary dimension which do not rely on any additional symmetry.
In Chapter 4 we turn our attention to one of the intriguing connection between
evolution equations and optimal transport, represented by the theory of gradient
flows. We show that discrete gradient flow structures associated to a finite volume
approximation of a certain class of diffusive equations (Fokker–Planck) is stable
in the limit of vanishing meshes, reproving the convergence of the scheme via
the method of evolutionary Γ-convergence and exploiting a more variational point
of view on the problem. This is based on a collaboration with Dominik Forkert
and Jan Maas. Chapter 5 represents a change of perspective, moving away from the
discrete world and reaching the non-commutative one. As in the discrete case,
we discuss how classical tools coming from the commutative optimal transport can
be translated into the setting of density matrices. In particular, in this final
chapter we present a non-commutative version of the Schrödinger problem (or entropic
regularised optimal transport problem) and discuss existence and characterisation
of minimisers, a duality result, and present a non-commutative version of the
well-known Sinkhorn algorithm to compute the above mentioned optimisers. This
is based on a joint work with Dario Feliciangeli and Augusto Gerolin. Finally,
Appendix A and B contain some additional material and discussions, with particular
attention to Harnack inequalities and the regularity of flows on discrete spaces."
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
acknowledgement: The author gratefully acknowledges support by the Austrian Science
Fund (FWF), grants No W1245.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Lorenzo
full_name: Portinale, Lorenzo
id: 30AD2CBC-F248-11E8-B48F-1D18A9856A87
last_name: Portinale
citation:
ama: Portinale L. Discrete-to-continuum limits of transport problems and gradient
flows in the space of measures. 2021. doi:10.15479/at:ista:10030
apa: Portinale, L. (2021). Discrete-to-continuum limits of transport problems
and gradient flows in the space of measures. Institute of Science and Technology
Austria. https://doi.org/10.15479/at:ista:10030
chicago: Portinale, Lorenzo. “Discrete-to-Continuum Limits of Transport Problems
and Gradient Flows in the Space of Measures.” Institute of Science and Technology
Austria, 2021. https://doi.org/10.15479/at:ista:10030.
ieee: L. Portinale, “Discrete-to-continuum limits of transport problems and gradient
flows in the space of measures,” Institute of Science and Technology Austria,
2021.
ista: Portinale L. 2021. Discrete-to-continuum limits of transport problems and
gradient flows in the space of measures. Institute of Science and Technology Austria.
mla: Portinale, Lorenzo. Discrete-to-Continuum Limits of Transport Problems and
Gradient Flows in the Space of Measures. Institute of Science and Technology
Austria, 2021, doi:10.15479/at:ista:10030.
short: L. Portinale, Discrete-to-Continuum Limits of Transport Problems and Gradient
Flows in the Space of Measures, Institute of Science and Technology Austria, 2021.
date_created: 2021-09-21T09:14:15Z
date_published: 2021-09-22T00:00:00Z
date_updated: 2023-09-07T13:31:06Z
day: '22'
ddc:
- '515'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JaMa
doi: 10.15479/at:ista:10030
file:
- access_level: closed
checksum: 8cd60dcb8762e8f21867e21e8001e183
content_type: application/x-zip-compressed
creator: cchlebak
date_created: 2021-09-21T09:17:34Z
date_updated: 2022-03-10T12:14:42Z
file_id: '10032'
file_name: tex_and_pictures.zip
file_size: 3876668
relation: source_file
- access_level: open_access
checksum: 9789e9d967c853c1503ec7f307170279
content_type: application/pdf
creator: cchlebak
date_created: 2021-09-27T11:14:31Z
date_updated: 2021-09-27T11:14:31Z
file_id: '10047'
file_name: thesis_portinale_Final (1).pdf
file_size: 2532673
relation: main_file
file_date_updated: 2022-03-10T12:14:42Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 260788DE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
name: Dissipation and Dispersion in Nonlinear Partial Differential Equations
- _id: fc31cba2-9c52-11eb-aca3-ff467d239cd2
grant_number: F6504
name: Taming Complexity in Partial Differential Systems
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10022'
relation: part_of_dissertation
status: public
- id: '9792'
relation: part_of_dissertation
status: public
- id: '7573'
relation: part_of_dissertation
status: public
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: Discrete-to-continuum limits of transport problems and gradient flows in the
space of measures
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: '2021'
...
---
_id: '10035'
abstract:
- lang: eng
text: 'Many security definitions come in two flavors: a stronger “adaptive” flavor,
where the adversary can arbitrarily make various choices during the course of
the attack, and a weaker “selective” flavor where the adversary must commit to
some or all of their choices a-priori. For example, in the context of identity-based
encryption, selective security requires the adversary to decide on the identity
of the attacked party at the very beginning of the game whereas adaptive security
allows the attacker to first see the master public key and some secret keys before
making this choice. Often, it appears to be much easier to achieve selective security
than it is to achieve adaptive security. A series of several recent works shows
how to cleverly achieve adaptive security in several such scenarios including
generalized selective decryption [Pan07][FJP15], constrained PRFs [FKPR14], and
Yao’s garbled circuits [JW16]. Although the above works expressed vague intuition
that they share a common technique, the connection was never made precise. In
this work we present a new framework (published at Crypto ’17 [JKK+17a]) that
connects all of these works and allows us to present them in a unified and simplified
fashion. Having the framework in place, we show how to achieve adaptive security
for proxy re-encryption schemes (published at PKC ’19 [FKKP19]) and provide the
first adaptive security proofs for continuous group key agreement protocols (published
at S&P ’21 [KPW+21]). Questioning optimality of our framework, we then show that
currently used proof techniques cannot lead to significantly better security guarantees
for "graph-building" games (published at TCC ’21 [KKPW21a]). These games cover
generalized selective decryption, as well as the security of prominent constructions
for constrained PRFs, continuous group key agreement, and proxy re-encryption.
Finally, we revisit the adaptive security of Yao’s garbled circuits and extend
the analysis of Jafargholi and Wichs in two directions: While they prove adaptive
security only for a modified construction with increased online complexity, we
provide the first positive results for the original construction by Yao (published
at TCC ’21 [KKP21a]). On the negative side, we prove that the results of Jafargholi
and Wichs are essentially optimal by showing that no black-box reduction can provide
a significantly better security bound (published at Crypto ’21 [KKPW21c]).'
acknowledgement: "I want to acknowledge the funding by the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(682815 - TOCNeT).\r\n"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Karen
full_name: Klein, Karen
id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87
last_name: Klein
citation:
ama: Klein K. On the adaptive security of graph-based games. 2021. doi:10.15479/at:ista:10035
apa: Klein, K. (2021). On the adaptive security of graph-based games. Institute
of Science and Technology Austria. https://doi.org/10.15479/at:ista:10035
chicago: Klein, Karen. “On the Adaptive Security of Graph-Based Games.” Institute
of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10035.
ieee: K. Klein, “On the adaptive security of graph-based games,” Institute of Science
and Technology Austria, 2021.
ista: Klein K. 2021. On the adaptive security of graph-based games. Institute of
Science and Technology Austria.
mla: Klein, Karen. On the Adaptive Security of Graph-Based Games. Institute
of Science and Technology Austria, 2021, doi:10.15479/at:ista:10035.
short: K. Klein, On the Adaptive Security of Graph-Based Games, Institute of Science
and Technology Austria, 2021.
date_created: 2021-09-23T07:31:44Z
date_published: 2021-09-23T00:00:00Z
date_updated: 2023-10-17T09:24:07Z
day: '23'
ddc:
- '519'
degree_awarded: PhD
department:
- _id: GradSch
- _id: KrPi
doi: 10.15479/at:ista:10035
ec_funded: 1
file:
- access_level: open_access
checksum: 73a44345c683e81f3e765efbf86fdcc5
content_type: application/pdf
creator: cchlebak
date_created: 2021-10-04T12:22:33Z
date_updated: 2021-10-04T12:22:33Z
file_id: '10082'
file_name: thesis_pdfa.pdf
file_size: 2104726
relation: main_file
success: 1
- access_level: closed
checksum: 7b80df30a0e686c3ef6a56d4e1c59e29
content_type: application/x-zip-compressed
creator: cchlebak
date_created: 2021-10-05T07:04:37Z
date_updated: 2022-03-10T12:15:18Z
file_id: '10085'
file_name: thesis_final (1).zip
file_size: 9538359
relation: source_file
file_date_updated: 2022-03-10T12:15:18Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '276'
project:
- _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: '10044'
relation: part_of_dissertation
status: public
- id: '10049'
relation: part_of_dissertation
status: public
- id: '637'
relation: part_of_dissertation
status: public
- id: '10041'
relation: part_of_dissertation
status: public
- id: '6430'
relation: part_of_dissertation
status: public
- id: '10048'
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 adaptive security of graph-based games
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: dissertation
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2021'
...