---
_id: '17'
abstract:
- lang: eng
text: Creeping flow of polymeric fluid without inertia exhibits elastic instabilities
and elastic turbulence accompanied by drag enhancement due to elastic stress produced
by flow-stretched polymers. However, in inertia-dominated flow at high Re and
low fluid elasticity El, a reduction in turbulent frictional drag is caused by
an intricate competition between inertial and elastic stresses. Here we explore
the effect of inertia on the stability of viscoelastic flow in a broad range of
control parameters El and (Re,Wi). We present the stability diagram of observed
flow regimes in Wi-Re coordinates and find that the instabilities' onsets show
an unexpectedly nonmonotonic dependence on El. Further, three distinct regions
in the diagram are identified based on El. Strikingly, for high-elasticity fluids
we discover a complete relaminarization of flow at Reynolds number in the range
of 1 to 10, different from a well-known turbulent drag reduction. These counterintuitive
effects may be explained by a finite polymer extensibility and a suppression of
vorticity at high Wi. Our results call for further theoretical and numerical development
to uncover the role of inertial effect on elastic turbulence in a viscoelastic
flow.
article_number: '103302 '
article_processing_charge: No
author:
- first_name: Atul
full_name: Varshney, Atul
id: 2A2006B2-F248-11E8-B48F-1D18A9856A87
last_name: Varshney
orcid: 0000-0002-3072-5999
- first_name: Victor
full_name: Steinberg, Victor
last_name: Steinberg
citation:
ama: Varshney A, Steinberg V. Drag enhancement and drag reduction in viscoelastic
flow. Physical Review Fluids. 2018;3(10). doi:10.1103/PhysRevFluids.3.103302
apa: Varshney, A., & Steinberg, V. (2018). Drag enhancement and drag reduction
in viscoelastic flow. Physical Review Fluids. American Physical Society.
https://doi.org/10.1103/PhysRevFluids.3.103302
chicago: Varshney, Atul, and Victor Steinberg. “Drag Enhancement and Drag Reduction
in Viscoelastic Flow.” Physical Review Fluids. American Physical Society,
2018. https://doi.org/10.1103/PhysRevFluids.3.103302.
ieee: A. Varshney and V. Steinberg, “Drag enhancement and drag reduction in viscoelastic
flow,” Physical Review Fluids, vol. 3, no. 10. American Physical Society,
2018.
ista: Varshney A, Steinberg V. 2018. Drag enhancement and drag reduction in viscoelastic
flow. Physical Review Fluids. 3(10), 103302.
mla: Varshney, Atul, and Victor Steinberg. “Drag Enhancement and Drag Reduction
in Viscoelastic Flow.” Physical Review Fluids, vol. 3, no. 10, 103302,
American Physical Society, 2018, doi:10.1103/PhysRevFluids.3.103302.
short: A. Varshney, V. Steinberg, Physical Review Fluids 3 (2018).
date_created: 2018-12-11T11:44:11Z
date_published: 2018-10-15T00:00:00Z
date_updated: 2025-04-14T07:43:59Z
day: '15'
ddc:
- '532'
department:
- _id: BjHo
doi: 10.1103/PhysRevFluids.3.103302
ec_funded: 1
external_id:
isi:
- '000447311500001'
file:
- access_level: open_access
checksum: e1445be33e8165114e96246275600750
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:14Z
date_updated: 2020-07-14T12:45:12Z
file_id: '4800'
file_name: IST-2018-1061-v1+1_PhysRevFluids.3.103302.pdf
file_size: 1409040
relation: main_file
file_date_updated: 2020-07-14T12:45:12Z
has_accepted_license: '1'
intvolume: ' 3'
isi: 1
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Physical Review Fluids
publication_status: published
publisher: American Physical Society
publist_id: '8038'
pubrep_id: '1061'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Drag enhancement and drag reduction in viscoelastic flow
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 3
year: '2018'
...
---
_id: '185'
abstract:
- lang: eng
text: We resolve in the affirmative conjectures of A. Skopenkov and Repovš (1998),
and M. Skopenkov (2003) generalizing the classical Hanani-Tutte theorem to the
setting of approximating maps of graphs on 2-dimensional surfaces by embeddings.
Our proof of this result is constructive and almost immediately implies an efficient
algorithm for testing whether a given piecewise linear map of a graph in a surface
is approximable by an embedding. More precisely, an instance of this problem consists
of (i) a graph G whose vertices are partitioned into clusters and whose inter-cluster
edges are partitioned into bundles, and (ii) a region R of a 2-dimensional compact
surface M given as the union of a set of pairwise disjoint discs corresponding
to the clusters and a set of pairwise disjoint "pipes" corresponding
to the bundles, connecting certain pairs of these discs. We are to decide whether
G can be embedded inside M so that the vertices in every cluster are drawn in
the corresponding disc, the edges in every bundle pass only through its corresponding
pipe, and every edge crosses the boundary of each disc at most once.
alternative_title:
- Leibniz International Proceedings in Information, LIPIcs
article_number: '39'
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
citation:
ama: 'Fulek R, Kynčl J. Hanani-Tutte for approximating maps of graphs. In: Vol 99.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:10.4230/LIPIcs.SoCG.2018.39'
apa: 'Fulek, R., & Kynčl, J. (2018). Hanani-Tutte for approximating maps of
graphs (Vol. 99). Presented at the SoCG: Symposium on Computational Geometry,
Budapest, Hungary: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2018.39'
chicago: Fulek, Radoslav, and Jan Kynčl. “Hanani-Tutte for Approximating Maps of
Graphs,” Vol. 99. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPIcs.SoCG.2018.39.
ieee: 'R. Fulek and J. Kynčl, “Hanani-Tutte for approximating maps of graphs,” presented
at the SoCG: Symposium on Computational Geometry, Budapest, Hungary, 2018, vol.
99.'
ista: 'Fulek R, Kynčl J. 2018. Hanani-Tutte for approximating maps of graphs. SoCG:
Symposium on Computational Geometry, Leibniz International Proceedings in Information,
LIPIcs, vol. 99, 39.'
mla: Fulek, Radoslav, and Jan Kynčl. Hanani-Tutte for Approximating Maps of Graphs.
Vol. 99, 39, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, doi:10.4230/LIPIcs.SoCG.2018.39.
short: R. Fulek, J. Kynčl, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2018.
conference:
end_date: 2018-06-14
location: Budapest, Hungary
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2018-06-11
date_created: 2018-12-11T11:45:04Z
date_published: 2018-01-01T00:00:00Z
date_updated: 2021-01-12T06:53:36Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2018.39
file:
- access_level: open_access
checksum: f1b94f1a75b37c414a1f61d59fb2cd4c
content_type: application/pdf
creator: dernst
date_created: 2018-12-17T12:33:52Z
date_updated: 2020-07-14T12:45:19Z
file_id: '5701'
file_name: 2018_LIPIcs_Fulek.pdf
file_size: 718857
relation: main_file
file_date_updated: 2020-07-14T12:45:19Z
has_accepted_license: '1'
intvolume: ' 99'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication_identifier:
isbn:
- 978-3-95977-066-8
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7735'
quality_controlled: '1'
scopus_import: 1
status: public
title: Hanani-Tutte for approximating maps of graphs
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: 99
year: '2018'
...
---
_id: '186'
abstract:
- lang: eng
text: 'A drawing of a graph on a surface is independently even if every pair of
nonadjacent edges in the drawing crosses an even number of times. The ℤ2-genus
of a graph G is the minimum g such that G has an independently even drawing on
the orientable surface of genus g. An unpublished result by Robertson and Seymour
implies that for every t, every graph of sufficiently large genus contains as
a minor a projective t × t grid or one of the following so-called t-Kuratowski
graphs: K3, t, or t copies of K5 or K3,3 sharing at most 2 common vertices. We
show that the ℤ2-genus of graphs in these families is unbounded in t; in fact,
equal to their genus. Together, this implies that the genus of a graph is bounded
from above by a function of its ℤ2-genus, solving a problem posed by Schaefer
and Štefankovič, and giving an approximate version of the Hanani-Tutte theorem
on orientable surfaces.'
alternative_title:
- LIPIcs
article_processing_charge: No
arxiv: 1
author:
- first_name: Radoslav
full_name: Fulek, Radoslav
id: 39F3FFE4-F248-11E8-B48F-1D18A9856A87
last_name: Fulek
orcid: 0000-0001-8485-1774
- first_name: Jan
full_name: Kynčl, Jan
last_name: Kynčl
citation:
ama: 'Fulek R, Kynčl J. The ℤ2-Genus of Kuratowski minors. In: Vol 99. Schloss Dagstuhl
- Leibniz-Zentrum für Informatik; 2018:40.1-40.14. doi:10.4230/LIPIcs.SoCG.2018.40'
apa: 'Fulek, R., & Kynčl, J. (2018). The ℤ2-Genus of Kuratowski minors (Vol.
99, p. 40.1-40.14). Presented at the SoCG: Symposium on Computational Geometry,
Budapest, Hungary: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2018.40'
chicago: Fulek, Radoslav, and Jan Kynčl. “The ℤ2-Genus of Kuratowski Minors,” 99:40.1-40.14.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPIcs.SoCG.2018.40.
ieee: 'R. Fulek and J. Kynčl, “The ℤ2-Genus of Kuratowski minors,” presented at
the SoCG: Symposium on Computational Geometry, Budapest, Hungary, 2018, vol. 99,
p. 40.1-40.14.'
ista: 'Fulek R, Kynčl J. 2018. The ℤ2-Genus of Kuratowski minors. SoCG: Symposium
on Computational Geometry, LIPIcs, vol. 99, 40.1-40.14.'
mla: Fulek, Radoslav, and Jan Kynčl. The ℤ2-Genus of Kuratowski Minors. Vol.
99, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2018, p. 40.1-40.14, doi:10.4230/LIPIcs.SoCG.2018.40.
short: R. Fulek, J. Kynčl, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2018, p. 40.1-40.14.
conference:
end_date: 2018-06-14
location: Budapest, Hungary
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2018-06-11
date_created: 2018-12-11T11:45:05Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2025-04-14T13:52:37Z
day: '11'
department:
- _id: UlWa
doi: 10.4230/LIPIcs.SoCG.2018.40
external_id:
arxiv:
- '1803.05085'
intvolume: ' 99'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1803.05085
month: '06'
oa: 1
oa_version: Submitted Version
page: 40.1 - 40.14
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7734'
quality_controlled: '1'
related_material:
record:
- id: '11593'
relation: later_version
status: public
scopus_import: '1'
status: public
title: The ℤ2-Genus of Kuratowski minors
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 99
year: '2018'
...
---
_id: '187'
abstract:
- lang: eng
text: 'Given a locally finite X ⊆ ℝd and a radius r ≥ 0, the k-fold cover of X and
r consists of all points in ℝd that have k or more points of X within distance
r. We consider two filtrations - one in scale obtained by fixing k and increasing
r, and the other in depth obtained by fixing r and decreasing k - and we compute
the persistence diagrams of both. While standard methods suffice for the filtration
in scale, we need novel geometric and topological concepts for the filtration
in depth. In particular, we introduce a rhomboid tiling in ℝd+1 whose horizontal
integer slices are the order-k Delaunay mosaics of X, and construct a zigzag module
from Delaunay mosaics that is isomorphic to the persistence module of the multi-covers. '
acknowledgement: This work is partially supported by the DFG Collaborative Research
Center TRR 109, ‘Discretization in Geometry and Dynamics’, through grant no. I02979-N35
of the Austrian Science Fund (FWF).
alternative_title:
- LIPIcs
article_number: '34'
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Georg F
full_name: Osang, Georg F
id: 464B40D6-F248-11E8-B48F-1D18A9856A87
last_name: Osang
orcid: 0000-0002-8882-5116
citation:
ama: 'Edelsbrunner H, Osang GF. The multi-cover persistence of Euclidean balls.
In: Vol 99. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2018. doi:10.4230/LIPIcs.SoCG.2018.34'
apa: 'Edelsbrunner, H., & Osang, G. F. (2018). The multi-cover persistence of
Euclidean balls (Vol. 99). Presented at the SoCG: Symposium on Computational Geometry,
Budapest, Hungary: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2018.34'
chicago: Edelsbrunner, Herbert, and Georg F Osang. “The Multi-Cover Persistence
of Euclidean Balls,” Vol. 99. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2018. https://doi.org/10.4230/LIPIcs.SoCG.2018.34.
ieee: 'H. Edelsbrunner and G. F. Osang, “The multi-cover persistence of Euclidean
balls,” presented at the SoCG: Symposium on Computational Geometry, Budapest,
Hungary, 2018, vol. 99.'
ista: 'Edelsbrunner H, Osang GF. 2018. The multi-cover persistence of Euclidean
balls. SoCG: Symposium on Computational Geometry, LIPIcs, vol. 99, 34.'
mla: Edelsbrunner, Herbert, and Georg F. Osang. The Multi-Cover Persistence of
Euclidean Balls. Vol. 99, 34, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2018, doi:10.4230/LIPIcs.SoCG.2018.34.
short: H. Edelsbrunner, G.F. Osang, in:, Schloss Dagstuhl - Leibniz-Zentrum für
Informatik, 2018.
conference:
end_date: 2018-06-14
location: Budapest, Hungary
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2018-06-11
date_created: 2018-12-11T11:45:05Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2026-04-08T07:01:29Z
day: '11'
ddc:
- '516'
department:
- _id: HeEd
doi: 10.4230/LIPIcs.SoCG.2018.34
file:
- access_level: open_access
checksum: d8c0533ad0018eb4ed1077475eb8fc18
content_type: application/pdf
creator: dernst
date_created: 2018-12-18T09:27:22Z
date_updated: 2020-07-14T12:45:19Z
file_id: '5738'
file_name: 2018_LIPIcs_Edelsbrunner_Osang.pdf
file_size: 528018
relation: main_file
file_date_updated: 2020-07-14T12:45:19Z
has_accepted_license: '1'
intvolume: ' 99'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7732'
quality_controlled: '1'
related_material:
record:
- id: '9317'
relation: later_version
status: public
- id: '9056'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: The multi-cover persistence of Euclidean balls
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: 99
year: '2018'
...
---
_id: '188'
abstract:
- lang: eng
text: Smallest enclosing spheres of finite point sets are central to methods in
topological data analysis. Focusing on Bregman divergences to measure dissimilarity,
we prove bounds on the location of the center of a smallest enclosing sphere.
These bounds depend on the range of radii for which Bregman balls are convex.
acknowledgement: This research is partially supported by the Office of Naval Research,
through grant no. N62909-18-1-2038, and the DFG Collaborative Research Center TRR
109, ‘Discretization in Geometry and Dynamics’, through grant no. I02979-N35 of
the Austrian Science Fund
alternative_title:
- Leibniz International Proceedings in Information, LIPIcs
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Ziga
full_name: Virk, Ziga
last_name: Virk
- first_name: Hubert
full_name: Wagner, Hubert
id: 379CA8B8-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
citation:
ama: 'Edelsbrunner H, Virk Z, Wagner H. Smallest enclosing spheres and Chernoff
points in Bregman geometry. In: Vol 99. Schloss Dagstuhl - Leibniz-Zentrum für
Informatik; 2018:35:1-35:13. doi:10.4230/LIPIcs.SoCG.2018.35'
apa: 'Edelsbrunner, H., Virk, Z., & Wagner, H. (2018). Smallest enclosing spheres
and Chernoff points in Bregman geometry (Vol. 99, p. 35:1-35:13). Presented at
the SoCG: Symposium on Computational Geometry, Budapest, Hungary: Schloss Dagstuhl
- Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.SoCG.2018.35'
chicago: Edelsbrunner, Herbert, Ziga Virk, and Hubert Wagner. “Smallest Enclosing
Spheres and Chernoff Points in Bregman Geometry,” 99:35:1-35:13. Schloss Dagstuhl
- Leibniz-Zentrum für Informatik, 2018. https://doi.org/10.4230/LIPIcs.SoCG.2018.35.
ieee: 'H. Edelsbrunner, Z. Virk, and H. Wagner, “Smallest enclosing spheres and
Chernoff points in Bregman geometry,” presented at the SoCG: Symposium on Computational
Geometry, Budapest, Hungary, 2018, vol. 99, p. 35:1-35:13.'
ista: 'Edelsbrunner H, Virk Z, Wagner H. 2018. Smallest enclosing spheres and Chernoff
points in Bregman geometry. SoCG: Symposium on Computational Geometry, Leibniz
International Proceedings in Information, LIPIcs, vol. 99, 35:1-35:13.'
mla: Edelsbrunner, Herbert, et al. Smallest Enclosing Spheres and Chernoff Points
in Bregman Geometry. Vol. 99, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2018, p. 35:1-35:13, doi:10.4230/LIPIcs.SoCG.2018.35.
short: H. Edelsbrunner, Z. Virk, H. Wagner, in:, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2018, p. 35:1-35:13.
conference:
end_date: 2018-06-14
location: Budapest, Hungary
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2018-06-11
date_created: 2018-12-11T11:45:05Z
date_published: 2018-06-11T00:00:00Z
date_updated: 2021-01-12T06:53:48Z
day: '11'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.4230/LIPIcs.SoCG.2018.35
file:
- access_level: open_access
checksum: 7509403803b3ac1aee94bbc2ad293d21
content_type: application/pdf
creator: dernst
date_created: 2018-12-17T16:31:31Z
date_updated: 2020-07-14T12:45:20Z
file_id: '5724'
file_name: 2018_LIPIcs_Edelsbrunner.pdf
file_size: 489080
relation: main_file
file_date_updated: 2020-07-14T12:45:20Z
has_accepted_license: '1'
intvolume: ' 99'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 35:1 - 35:13
project:
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '7733'
quality_controlled: '1'
scopus_import: 1
status: public
title: Smallest enclosing spheres and Chernoff points in Bregman geometry
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: 99
year: '2018'
...
---
_id: '19'
abstract:
- lang: eng
text: Bacteria regulate genes to survive antibiotic stress, but regulation can be
far from perfect. When regulation is not optimal, mutations that change gene expression
can contribute to antibiotic resistance. It is not systematically understood to
what extent natural gene regulation is or is not optimal for distinct antibiotics,
and how changes in expression of specific genes quantitatively affect antibiotic
resistance. Here we discover a simple quantitative relation between fitness, gene
expression, and antibiotic potency, which rationalizes our observation that a
multitude of genes and even innate antibiotic defense mechanisms have expression
that is critically nonoptimal under antibiotic treatment. First, we developed
a pooled-strain drug-diffusion assay and screened Escherichia coli overexpression
and knockout libraries, finding that resistance to a range of 31 antibiotics could
result from changing expression of a large and functionally diverse set of genes,
in a primarily but not exclusively drug-specific manner. Second, by synthetically
controlling the expression of single-drug and multidrug resistance genes, we observed
that their fitness-expression functions changed dramatically under antibiotic
treatment in accordance with a log-sensitivity relation. Thus, because many genes
are nonoptimally expressed under antibiotic treatment, many regulatory mutations
can contribute to resistance by altering expression and by activating latent defenses.
article_processing_charge: No
article_type: original
author:
- first_name: Adam
full_name: Palmer, Adam
last_name: Palmer
- first_name: Remy P
full_name: Chait, Remy P
id: 3464AE84-F248-11E8-B48F-1D18A9856A87
last_name: Chait
orcid: 0000-0003-0876-3187
- first_name: Roy
full_name: Kishony, Roy
last_name: Kishony
citation:
ama: Palmer A, Chait RP, Kishony R. Nonoptimal gene expression creates latent potential
for antibiotic resistance. Molecular Biology and Evolution. 2018;35(11):2669-2684.
doi:10.1093/molbev/msy163
apa: Palmer, A., Chait, R. P., & Kishony, R. (2018). Nonoptimal gene expression
creates latent potential for antibiotic resistance. Molecular Biology and Evolution.
Oxford University Press. https://doi.org/10.1093/molbev/msy163
chicago: Palmer, Adam, Remy P Chait, and Roy Kishony. “Nonoptimal Gene Expression
Creates Latent Potential for Antibiotic Resistance.” Molecular Biology and
Evolution. Oxford University Press, 2018. https://doi.org/10.1093/molbev/msy163.
ieee: A. Palmer, R. P. Chait, and R. Kishony, “Nonoptimal gene expression creates
latent potential for antibiotic resistance,” Molecular Biology and Evolution,
vol. 35, no. 11. Oxford University Press, pp. 2669–2684, 2018.
ista: Palmer A, Chait RP, Kishony R. 2018. Nonoptimal gene expression creates latent
potential for antibiotic resistance. Molecular Biology and Evolution. 35(11),
2669–2684.
mla: Palmer, Adam, et al. “Nonoptimal Gene Expression Creates Latent Potential for
Antibiotic Resistance.” Molecular Biology and Evolution, vol. 35, no. 11,
Oxford University Press, 2018, pp. 2669–84, doi:10.1093/molbev/msy163.
short: A. Palmer, R.P. Chait, R. Kishony, Molecular Biology and Evolution 35 (2018)
2669–2684.
date_created: 2018-12-11T11:44:11Z
date_published: 2018-08-28T00:00:00Z
date_updated: 2023-10-17T11:51:06Z
day: '28'
department:
- _id: CaGu
- _id: GaTk
doi: 10.1093/molbev/msy163
external_id:
isi:
- '000452567200006'
pmid:
- '30169679'
intvolume: ' 35'
isi: 1
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pubmed/30169679
month: '08'
oa: 1
oa_version: Submitted Version
page: 2669 - 2684
pmid: 1
publication: Molecular Biology and Evolution
publication_identifier:
issn:
- 0737-4038
publication_status: published
publisher: Oxford University Press
publist_id: '8036'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nonoptimal gene expression creates latent potential for antibiotic resistance
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2018'
...
---
_id: '190'
abstract:
- lang: eng
text: The German cockroach, Blattella germanica, is a worldwide pest that infests
buildings, including homes, restaurants, and hospitals, often living in unsanitary
conditions. As a disease vector and producer of allergens, this species has major
health and economic impacts on humans. Factors contributing to the success of
the German cockroach include its resistance to a broad range of insecticides,
immunity to many pathogens, and its ability, as an extreme generalist omnivore,
to survive on most food sources. The recently published genome shows that B. germanica
has an exceptionally high number of protein coding genes. In this study, we investigate
the functions of the 93 significantly expanded gene families with the aim to better
understand the success of B. germanica as a major pest despite such inhospitable
conditions. We find major expansions in gene families with functions related to
the detoxification of insecticides and allelochemicals, defense against pathogens,
digestion, sensory perception, and gene regulation. These expansions might have
allowed B. germanica to develop multiple resistance mechanisms to insecticides
and pathogens, and enabled a broad, flexible diet, thus explaining its success
in unsanitary conditions and under recurrent chemical control. The findings and
resources presented here provide insights for better understanding molecular mechanisms
that will facilitate more effective cockroach control.
article_processing_charge: No
article_type: original
author:
- first_name: Mark
full_name: Harrison, Mark
last_name: Harrison
- first_name: Nicolas
full_name: Arning, Nicolas
last_name: Arning
- first_name: Lucas
full_name: Kremer, Lucas
last_name: Kremer
- first_name: Guillem
full_name: Ylla, Guillem
last_name: Ylla
- first_name: Xavier
full_name: Belles, Xavier
last_name: Belles
- first_name: Erich
full_name: Bornberg Bauer, Erich
last_name: Bornberg Bauer
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Evelien
full_name: Jongepier, Evelien
last_name: Jongepier
- first_name: Maria
full_name: Puilachs, Maria
last_name: Puilachs
- first_name: Stephen
full_name: Richards, Stephen
last_name: Richards
- first_name: Coby
full_name: Schal, Coby
last_name: Schal
citation:
ama: 'Harrison M, Arning N, Kremer L, et al. Expansions of key protein families
in the German cockroach highlight the molecular basis of its remarkable success
as a global indoor pest. Journal of Experimental Zoology Part B: Molecular
and Developmental Evolution. 2018;330:254-264. doi:10.1002/jez.b.22824'
apa: 'Harrison, M., Arning, N., Kremer, L., Ylla, G., Belles, X., Bornberg Bauer,
E., … Schal, C. (2018). Expansions of key protein families in the German cockroach
highlight the molecular basis of its remarkable success as a global indoor pest.
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution.
Wiley. https://doi.org/10.1002/jez.b.22824'
chicago: 'Harrison, Mark, Nicolas Arning, Lucas Kremer, Guillem Ylla, Xavier Belles,
Erich Bornberg Bauer, Ann K Huylmans, et al. “Expansions of Key Protein Families
in the German Cockroach Highlight the Molecular Basis of Its Remarkable Success
as a Global Indoor Pest.” Journal of Experimental Zoology Part B: Molecular
and Developmental Evolution. Wiley, 2018. https://doi.org/10.1002/jez.b.22824.'
ieee: 'M. Harrison et al., “Expansions of key protein families in the German
cockroach highlight the molecular basis of its remarkable success as a global
indoor pest,” Journal of Experimental Zoology Part B: Molecular and Developmental
Evolution, vol. 330. Wiley, pp. 254–264, 2018.'
ista: 'Harrison M, Arning N, Kremer L, Ylla G, Belles X, Bornberg Bauer E, Huylmans
AK, Jongepier E, Puilachs M, Richards S, Schal C. 2018. Expansions of key protein
families in the German cockroach highlight the molecular basis of its remarkable
success as a global indoor pest. Journal of Experimental Zoology Part B: Molecular
and Developmental Evolution. 330, 254–264.'
mla: 'Harrison, Mark, et al. “Expansions of Key Protein Families in the German Cockroach
Highlight the Molecular Basis of Its Remarkable Success as a Global Indoor Pest.”
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution,
vol. 330, Wiley, 2018, pp. 254–64, doi:10.1002/jez.b.22824.'
short: 'M. Harrison, N. Arning, L. Kremer, G. Ylla, X. Belles, E. Bornberg Bauer,
A.K. Huylmans, E. Jongepier, M. Puilachs, S. Richards, C. Schal, Journal of Experimental
Zoology Part B: Molecular and Developmental Evolution 330 (2018) 254–264.'
date_created: 2018-12-11T11:45:06Z
date_published: 2018-07-11T00:00:00Z
date_updated: 2023-09-11T13:59:54Z
day: '11'
department:
- _id: BeVi
doi: 10.1002/jez.b.22824
external_id:
isi:
- '000443231000002'
pmid:
- '29998472'
intvolume: ' 330'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://onlinelibrary.wiley.com/doi/am-pdf/10.1002/jez.b.22824
month: '07'
oa: 1
oa_version: Submitted Version
page: 254-264
pmid: 1
publication: 'Journal of Experimental Zoology Part B: Molecular and Developmental
Evolution'
publication_status: published
publisher: Wiley
publist_id: '7730'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Expansions of key protein families in the German cockroach highlight the molecular
basis of its remarkable success as a global indoor pest
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 330
year: '2018'
...
---
_id: '192'
abstract:
- lang: eng
text: The phytohormone auxin is the information carrier in a plethora of developmental
and physiological processes in plants(1). It has been firmly established that
canonical, nuclear auxin signalling acts through regulation of gene transcription(2).
Here, we combined microfluidics, live imaging, genetic engineering and computational
modelling to reanalyse the classical case of root growth inhibition(3) by auxin.
We show that Arabidopsis roots react to addition and removal of auxin by extremely
rapid adaptation of growth rate. This process requires intracellular auxin perception
but not transcriptional reprogramming. The formation of the canonical TIR1/AFB-Aux/IAA
co-receptor complex is required for the growth regulation, hinting to a novel,
non-transcriptional branch of this signalling pathway. Our results challenge the
current understanding of root growth regulation by auxin and suggest another,
presumably non-transcriptional, signalling output of the canonical auxin pathway.
article_processing_charge: No
article_type: original
author:
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Maria
full_name: Akhmanova, Maria
id: 3425EC26-F248-11E8-B48F-1D18A9856A87
last_name: Akhmanova
orcid: 0000-0003-1522-3162
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Matous
full_name: Glanc, Matous
last_name: Glanc
- first_name: Shinya
full_name: Hagihara, Shinya
last_name: Hagihara
- first_name: Koji
full_name: Takahashi, Koji
last_name: Takahashi
- first_name: Naoyuki
full_name: Uchida, Naoyuki
last_name: Uchida
- first_name: Keiko U
full_name: Torii, Keiko U
last_name: Torii
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Fendrych M, Akhmanova M, Merrin J, et al. Rapid and reversible root growth
inhibition by TIR1 auxin signalling. Nature Plants. 2018;4(7):453-459.
doi:10.1038/s41477-018-0190-1
apa: Fendrych, M., Akhmanova, M., Merrin, J., Glanc, M., Hagihara, S., Takahashi,
K., … Friml, J. (2018). Rapid and reversible root growth inhibition by TIR1 auxin
signalling. Nature Plants. Springer Nature. https://doi.org/10.1038/s41477-018-0190-1
chicago: Fendrych, Matyas, Maria Akhmanova, Jack Merrin, Matous Glanc, Shinya Hagihara,
Koji Takahashi, Naoyuki Uchida, Keiko U Torii, and Jiří Friml. “Rapid and Reversible
Root Growth Inhibition by TIR1 Auxin Signalling.” Nature Plants. Springer
Nature, 2018. https://doi.org/10.1038/s41477-018-0190-1.
ieee: M. Fendrych et al., “Rapid and reversible root growth inhibition by
TIR1 auxin signalling,” Nature Plants, vol. 4, no. 7. Springer Nature,
pp. 453–459, 2018.
ista: Fendrych M, Akhmanova M, Merrin J, Glanc M, Hagihara S, Takahashi K, Uchida
N, Torii KU, Friml J. 2018. Rapid and reversible root growth inhibition by TIR1
auxin signalling. Nature Plants. 4(7), 453–459.
mla: Fendrych, Matyas, et al. “Rapid and Reversible Root Growth Inhibition by TIR1
Auxin Signalling.” Nature Plants, vol. 4, no. 7, Springer Nature, 2018,
pp. 453–59, doi:10.1038/s41477-018-0190-1.
short: M. Fendrych, M. Akhmanova, J. Merrin, M. Glanc, S. Hagihara, K. Takahashi,
N. Uchida, K.U. Torii, J. Friml, Nature Plants 4 (2018) 453–459.
date_created: 2018-12-11T11:45:07Z
date_published: 2018-06-25T00:00:00Z
date_updated: 2023-09-15T12:11:03Z
day: '25'
department:
- _id: JiFr
- _id: DaSi
- _id: NanoFab
doi: 10.1038/s41477-018-0190-1
external_id:
isi:
- '000443221200017'
pmid:
- '29942048'
intvolume: ' 4'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pubmed/29942048
month: '06'
oa: 1
oa_version: Submitted Version
page: 453 - 459
pmid: 1
publication: Nature Plants
publication_status: published
publisher: Springer Nature
publist_id: '7728'
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/new-mechanism-for-the-plant-hormone-auxin-discovered/
scopus_import: '1'
status: public
title: Rapid and reversible root growth inhibition by TIR1 auxin signalling
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 4
year: '2018'
...
---
_id: '193'
abstract:
- lang: eng
text: 'We show attacks on five data-independent memory-hard functions (iMHF) that
were submitted to the password hashing competition (PHC). Informally, an MHF is
a function which cannot be evaluated on dedicated hardware, like ASICs, at significantly
lower hardware and/or energy cost than evaluating a single instance on a standard
single-core architecture. Data-independent means the memory access pattern of
the function is independent of the input; this makes iMHFs harder to construct
than data-dependent ones, but the latter can be attacked by various side-channel
attacks. Following [Alwen-Blocki''16], we capture the evaluation of an iMHF as
a directed acyclic graph (DAG). The cumulative parallel pebbling complexity of
this DAG is a measure for the hardware cost of evaluating the iMHF on an ASIC.
Ideally, one would like the complexity of a DAG underlying an iMHF to be as close
to quadratic in the number of nodes of the graph as possible. Instead, we show
that (the DAGs underlying) the following iMHFs are far from this bound: Rig.v2,
TwoCats and Gambit each having an exponent no more than 1.75. Moreover, we show
that the complexity of the iMHF modes of the PHC finalists Pomelo and Lyra2 have
exponents at most 1.83 and 1.67 respectively. To show this we investigate a combinatorial
property of each underlying DAG (called its depth-robustness. By establishing
upper bounds on this property we are then able to apply the general technique
of [Alwen-Block''16] for analyzing the hardware costs of an iMHF.'
acknowledgement: Leonid Reyzin was supported in part by IST Austria and by US NSF
grants 1012910, 1012798, and 1422965; this research was performed while he was visiting
IST Austria.
article_processing_charge: No
author:
- first_name: Joel F
full_name: Alwen, Joel F
id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87
last_name: Alwen
- first_name: Peter
full_name: Gazi, Peter
last_name: Gazi
- first_name: Chethan
full_name: Kamath Hosdurg, Chethan
id: 4BD3F30E-F248-11E8-B48F-1D18A9856A87
last_name: Kamath Hosdurg
- first_name: Karen
full_name: Klein, Karen
id: 3E83A2F8-F248-11E8-B48F-1D18A9856A87
last_name: Klein
- first_name: Georg F
full_name: Osang, Georg F
id: 464B40D6-F248-11E8-B48F-1D18A9856A87
last_name: Osang
orcid: 0000-0002-8882-5116
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
- first_name: Lenoid
full_name: Reyzin, Lenoid
last_name: Reyzin
- first_name: Michal
full_name: Rolinek, Michal
id: 3CB3BC06-F248-11E8-B48F-1D18A9856A87
last_name: Rolinek
- first_name: Michal
full_name: Rybar, Michal
id: 2B3E3DE8-F248-11E8-B48F-1D18A9856A87
last_name: Rybar
citation:
ama: 'Alwen JF, Gazi P, Kamath Hosdurg C, et al. On the memory hardness of data
independent password hashing functions. In: Proceedings of the 2018 on Asia
Conference on Computer and Communication Security. ACM; 2018:51-65. doi:10.1145/3196494.3196534'
apa: 'Alwen, J. F., Gazi, P., Kamath Hosdurg, C., Klein, K., Osang, G. F., Pietrzak,
K. Z., … Rybar, M. (2018). On the memory hardness of data independent password
hashing functions. In Proceedings of the 2018 on Asia Conference on Computer
and Communication Security (pp. 51–65). Incheon, Republic of Korea: ACM. https://doi.org/10.1145/3196494.3196534'
chicago: Alwen, Joel F, Peter Gazi, Chethan Kamath Hosdurg, Karen Klein, Georg F
Osang, Krzysztof Z Pietrzak, Lenoid Reyzin, Michal Rolinek, and Michal Rybar.
“On the Memory Hardness of Data Independent Password Hashing Functions.” In Proceedings
of the 2018 on Asia Conference on Computer and Communication Security, 51–65.
ACM, 2018. https://doi.org/10.1145/3196494.3196534.
ieee: J. F. Alwen et al., “On the memory hardness of data independent password
hashing functions,” in Proceedings of the 2018 on Asia Conference on Computer
and Communication Security, Incheon, Republic of Korea, 2018, pp. 51–65.
ista: 'Alwen JF, Gazi P, Kamath Hosdurg C, Klein K, Osang GF, Pietrzak KZ, Reyzin
L, Rolinek M, Rybar M. 2018. On the memory hardness of data independent password
hashing functions. Proceedings of the 2018 on Asia Conference on Computer and
Communication Security. ASIACCS: Asia Conference on Computer and Communications
Security , 51–65.'
mla: Alwen, Joel F., et al. “On the Memory Hardness of Data Independent Password
Hashing Functions.” Proceedings of the 2018 on Asia Conference on Computer
and Communication Security, ACM, 2018, pp. 51–65, doi:10.1145/3196494.3196534.
short: J.F. Alwen, P. Gazi, C. Kamath Hosdurg, K. Klein, G.F. Osang, K.Z. Pietrzak,
L. Reyzin, M. Rolinek, M. Rybar, in:, Proceedings of the 2018 on Asia Conference
on Computer and Communication Security, ACM, 2018, pp. 51–65.
conference:
end_date: 2018-06-08
location: Incheon, Republic of Korea
name: 'ASIACCS: Asia Conference on Computer and Communications Security '
start_date: 2018-06-04
date_created: 2018-12-11T11:45:07Z
date_published: 2018-06-01T00:00:00Z
date_updated: 2024-11-04T13:52:29Z
day: '01'
department:
- _id: KrPi
- _id: HeEd
- _id: VlKo
doi: 10.1145/3196494.3196534
ec_funded: 1
external_id:
isi:
- '000516620100005'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2016/783
month: '06'
oa: 1
oa_version: Submitted Version
page: 51 - 65
project:
- _id: 25FBA906-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '616160'
name: 'Discrete Optimization in Computer Vision: Theory and Practice'
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication: Proceedings of the 2018 on Asia Conference on Computer and Communication
Security
publication_status: published
publisher: ACM
publist_id: '7723'
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the memory hardness of data independent password hashing functions
type: conference
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
year: '2018'
...
---
_id: '194'
abstract:
- lang: eng
text: Ants are emerging model systems to study cellular signaling because distinct
castes possess different physiologic phenotypes within the same colony. Here we
studied the functionality of inotocin signaling, an insect ortholog of mammalian
oxytocin (OT), which was recently discovered in ants. In Lasius ants, we determined
that specialization within the colony, seasonal factors, and physiologic conditions
down-regulated the expression of the OT-like signaling system. Given this natural
variation, we interrogated its function using RNAi knockdowns. Next-generation
RNA sequencing of OT-like precursor knock-down ants highlighted its role in the
regulation of genes involved in metabolism. Knock-down ants exhibited higher walking
activity and increased self-grooming in the brood chamber. We propose that OT-like
signaling in ants is important for regulating metabolic processes and locomotion.
article_processing_charge: No
article_type: original
author:
- first_name: Zita
full_name: Liutkeviciute, Zita
last_name: Liutkeviciute
- first_name: Esther
full_name: Gil Mansilla, Esther
last_name: Gil Mansilla
- first_name: Thomas
full_name: Eder, Thomas
last_name: Eder
- first_name: Barbara E
full_name: Casillas Perez, Barbara E
id: 351ED2AA-F248-11E8-B48F-1D18A9856A87
last_name: Casillas Perez
- first_name: Maria
full_name: Giulia Di Giglio, Maria
last_name: Giulia Di Giglio
- first_name: Edin
full_name: Muratspahić, Edin
last_name: Muratspahić
- first_name: Florian
full_name: Grebien, Florian
last_name: Grebien
- first_name: Thomas
full_name: Rattei, Thomas
last_name: Rattei
- first_name: Markus
full_name: Muttenthaler, Markus
last_name: Muttenthaler
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Christian
full_name: Gruber, Christian
last_name: Gruber
citation:
ama: Liutkeviciute Z, Gil Mansilla E, Eder T, et al. Oxytocin-like signaling in
ants influences metabolic gene expression and locomotor activity. The FASEB
Journal. 2018;32(12):6808-6821. doi:10.1096/fj.201800443
apa: Liutkeviciute, Z., Gil Mansilla, E., Eder, T., Casillas Perez, B. E., Giulia
Di Giglio, M., Muratspahić, E., … Gruber, C. (2018). Oxytocin-like signaling in
ants influences metabolic gene expression and locomotor activity. The FASEB
Journal. FASEB. https://doi.org/10.1096/fj.201800443
chicago: Liutkeviciute, Zita, Esther Gil Mansilla, Thomas Eder, Barbara E Casillas
Perez, Maria Giulia Di Giglio, Edin Muratspahić, Florian Grebien, et al. “Oxytocin-like
Signaling in Ants Influences Metabolic Gene Expression and Locomotor Activity.”
The FASEB Journal. FASEB, 2018. https://doi.org/10.1096/fj.201800443.
ieee: Z. Liutkeviciute et al., “Oxytocin-like signaling in ants influences
metabolic gene expression and locomotor activity,” The FASEB Journal, vol.
32, no. 12. FASEB, pp. 6808–6821, 2018.
ista: Liutkeviciute Z, Gil Mansilla E, Eder T, Casillas Perez BE, Giulia Di Giglio
M, Muratspahić E, Grebien F, Rattei T, Muttenthaler M, Cremer S, Gruber C. 2018.
Oxytocin-like signaling in ants influences metabolic gene expression and locomotor
activity. The FASEB Journal. 32(12), 6808–6821.
mla: Liutkeviciute, Zita, et al. “Oxytocin-like Signaling in Ants Influences Metabolic
Gene Expression and Locomotor Activity.” The FASEB Journal, vol. 32, no.
12, FASEB, 2018, pp. 6808–21, doi:10.1096/fj.201800443.
short: Z. Liutkeviciute, E. Gil Mansilla, T. Eder, B.E. Casillas Perez, M. Giulia
Di Giglio, E. Muratspahić, F. Grebien, T. Rattei, M. Muttenthaler, S. Cremer,
C. Gruber, The FASEB Journal 32 (2018) 6808–6821.
date_created: 2018-12-11T11:45:08Z
date_published: 2018-11-29T00:00:00Z
date_updated: 2026-06-18T18:15:11Z
day: '29'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.1096/fj.201800443
external_id:
isi:
- '000449359700035'
pmid:
- '29939785'
intvolume: ' 32'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.1096/fj.201800443'
month: '11'
oa: 1
oa_version: Published Version
page: 6808-6821
pmid: 1
project:
- _id: 25E3D34E-B435-11E9-9278-68D0E5697425
name: Individual function and social role of oxytocin-like neuropeptides in ants
publication: The FASEB Journal
publication_identifier:
issn:
- 0892-6638
publication_status: published
publisher: FASEB
publist_id: '7721'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Oxytocin-like signaling in ants influences metabolic gene expression and locomotor
activity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2018'
...
---
OA_place: repository
OA_type: green
_id: '19494'
abstract:
- lang: eng
text: Starting from any given rational-sided, right triangle, for example, the (3,4,5)-triangle
with area 6, we use Euclidean geometry to show that there are infinitely many
other rational-sided, right triangles of the same area. We show further that the
set of all such triangles of a given area is finitely generated under our geometric
construction. Such areas are known as “congruent numbers” and have a rich history
in which all the results in this article have been proved and far more. Yet, as
far as we can tell, this seems to be the first exploration using this kind of
geometric technique.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Yik Tung
full_name: Chan, Yik Tung
id: c4c0afc8-9262-11ed-9231-d8b0bc743af1
last_name: Chan
orcid: 0000-0001-8467-4106
citation:
ama: Chan S. Rational right triangles of a given area. The American Mathematical
Monthly. 2018;125(8):689-703. doi:10.1080/00029890.2018.1495491
apa: Chan, S. (2018). Rational right triangles of a given area. The American
Mathematical Monthly. Taylor & Francis. https://doi.org/10.1080/00029890.2018.1495491
chicago: Chan, Stephanie. “Rational Right Triangles of a given Area.” The American
Mathematical Monthly. Taylor & Francis, 2018. https://doi.org/10.1080/00029890.2018.1495491.
ieee: S. Chan, “Rational right triangles of a given area,” The American Mathematical
Monthly, vol. 125, no. 8. Taylor & Francis, pp. 689–703, 2018.
ista: Chan S. 2018. Rational right triangles of a given area. The American Mathematical
Monthly. 125(8), 689–703.
mla: Chan, Stephanie. “Rational Right Triangles of a given Area.” The American
Mathematical Monthly, vol. 125, no. 8, Taylor & Francis, 2018, pp. 689–703,
doi:10.1080/00029890.2018.1495491.
short: S. Chan, The American Mathematical Monthly 125 (2018) 689–703.
date_created: 2025-04-05T10:51:16Z
date_published: 2018-09-28T00:00:00Z
date_updated: 2025-07-10T11:51:49Z
day: '28'
doi: 10.1080/00029890.2018.1495491
extern: '1'
external_id:
arxiv:
- '1706.05919'
intvolume: ' 125'
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1706.05919
month: '09'
oa: 1
oa_version: Preprint
page: 689-703
publication: The American Mathematical Monthly
publication_identifier:
eissn:
- 1930-0972
issn:
- 0002-9890
publication_status: published
publisher: Taylor & Francis
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rational right triangles of a given area
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 125
year: '2018'
...
---
_id: '195'
abstract:
- lang: eng
text: We demonstrate that identical impurities immersed in a two-dimensional many-particle
bath can be viewed as flux-tube-charged-particle composites described by fractional
statistics. In particular, we find that the bath manifests itself as an external
magnetic flux tube with respect to the impurities, and hence the time-reversal
symmetry is broken for the effective Hamiltonian describing the impurities. The
emerging flux tube acts as a statistical gauge field after a certain critical
coupling. This critical coupling corresponds to the intersection point between
the quasiparticle state and the phonon wing, where the angular momentum is transferred
from the impurity to the bath. This amounts to a novel configuration with emerging
anyons. The proposed setup paves the way to realizing anyons using electrons interacting
with superfluid helium or lattice phonons, as well as using atomic impurities
in ultracold gases.
article_number: '045402'
article_processing_charge: No
arxiv: 1
author:
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Yakaboylu E, Lemeshko M. Anyonic statistics of quantum impurities in two dimensions.
Physical Review B - Condensed Matter and Materials Physics. 2018;98(4).
doi:10.1103/PhysRevB.98.045402
apa: Yakaboylu, E., & Lemeshko, M. (2018). Anyonic statistics of quantum impurities
in two dimensions. Physical Review B - Condensed Matter and Materials Physics.
American Physical Society. https://doi.org/10.1103/PhysRevB.98.045402
chicago: Yakaboylu, Enderalp, and Mikhail Lemeshko. “Anyonic Statistics of Quantum
Impurities in Two Dimensions.” Physical Review B - Condensed Matter and Materials
Physics. American Physical Society, 2018. https://doi.org/10.1103/PhysRevB.98.045402.
ieee: E. Yakaboylu and M. Lemeshko, “Anyonic statistics of quantum impurities in
two dimensions,” Physical Review B - Condensed Matter and Materials Physics,
vol. 98, no. 4. American Physical Society, 2018.
ista: Yakaboylu E, Lemeshko M. 2018. Anyonic statistics of quantum impurities in
two dimensions. Physical Review B - Condensed Matter and Materials Physics. 98(4),
045402.
mla: Yakaboylu, Enderalp, and Mikhail Lemeshko. “Anyonic Statistics of Quantum Impurities
in Two Dimensions.” Physical Review B - Condensed Matter and Materials Physics,
vol. 98, no. 4, 045402, American Physical Society, 2018, doi:10.1103/PhysRevB.98.045402.
short: E. Yakaboylu, M. Lemeshko, Physical Review B - Condensed Matter and Materials
Physics 98 (2018).
corr_author: '1'
date_created: 2018-12-11T11:45:08Z
date_published: 2018-07-15T00:00:00Z
date_updated: 2025-04-15T06:50:28Z
day: '15'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.98.045402
ec_funded: 1
external_id:
arxiv:
- '1712.00308'
isi:
- '000436939100007'
intvolume: ' 98'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1712.00308
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 26031614-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29902
name: Quantum rotations in the presence of a many-body environment
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Anyonic statistics of quantum impurities in two dimensions
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 98
year: '2018'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '19544'
abstract:
- lang: eng
text: Medicinal bioinorganic chemistry is a thriving field of drug research for
cancer treatment. Transition metal complexes coordinated to essential biological
scaffolds represent a highly promising class of compounds for design of novel
target-specific therapeutics. We report here the biological evaluation of a novel
Isatin-Schiff base derivative and its Cu(II) complex in several tumor cell lines
by assessing their effects on cellular metabolism, real-time cell proliferation
and induction of apoptosis. Further, the impact of compounds on the p53 protein
and expression of its target genes, including MDM2, p21/CDKN1A, and PUMA was evaluated.
Results obtained in this study provide further evidence in support of our prior
data suggesting the p53-mediated mechanism of action for Isatin-Schiff base derivatives
and their complexes and also shed light on potential use of these compounds for
stimulation of apoptosis in breast cancer cells via activation of the pro-apoptotic
PUMA gene.
article_number: '103'
article_processing_charge: Yes
article_type: original
author:
- first_name: Emil
full_name: Bulatov, Emil
last_name: Bulatov
- first_name: Regina
full_name: Sayarova, Regina
last_name: Sayarova
- first_name: Rimma
full_name: Mingaleeva, Rimma
last_name: Mingaleeva
- first_name: Regina
full_name: Miftakhova, Regina
last_name: Miftakhova
- first_name: Marina
full_name: Gomzikova, Marina
last_name: Gomzikova
- first_name: Iurii
full_name: Ignatev, Iurii
id: 2ac71786-dc7d-11ea-9b2f-c5ad4b9faff6
last_name: Ignatev
- first_name: Alexey
full_name: Petukhov, Alexey
last_name: Petukhov
- first_name: Pavel
full_name: Davidovich, Pavel
last_name: Davidovich
- first_name: Albert
full_name: Rizvanov, Albert
last_name: Rizvanov
- first_name: Nickolai A.
full_name: Barlev, Nickolai A.
last_name: Barlev
citation:
ama: Bulatov E, Sayarova R, Mingaleeva R, et al. Isatin-Schiff base-copper (II)
complex induces cell death in p53-positive tumors. Cell Death Discovery.
2018;4. doi:10.1038/s41420-018-0120-z
apa: Bulatov, E., Sayarova, R., Mingaleeva, R., Miftakhova, R., Gomzikova, M., Ignatev,
I., … Barlev, N. A. (2018). Isatin-Schiff base-copper (II) complex induces cell
death in p53-positive tumors. Cell Death Discovery. Springer Nature. https://doi.org/10.1038/s41420-018-0120-z
chicago: Bulatov, Emil, Regina Sayarova, Rimma Mingaleeva, Regina Miftakhova, Marina
Gomzikova, Iurii Ignatev, Alexey Petukhov, Pavel Davidovich, Albert Rizvanov,
and Nickolai A. Barlev. “Isatin-Schiff Base-Copper (II) Complex Induces Cell Death
in P53-Positive Tumors.” Cell Death Discovery. Springer Nature, 2018. https://doi.org/10.1038/s41420-018-0120-z.
ieee: E. Bulatov et al., “Isatin-Schiff base-copper (II) complex induces
cell death in p53-positive tumors,” Cell Death Discovery, vol. 4. Springer
Nature, 2018.
ista: Bulatov E, Sayarova R, Mingaleeva R, Miftakhova R, Gomzikova M, Ignatev I,
Petukhov A, Davidovich P, Rizvanov A, Barlev NA. 2018. Isatin-Schiff base-copper
(II) complex induces cell death in p53-positive tumors. Cell Death Discovery.
4, 103.
mla: Bulatov, Emil, et al. “Isatin-Schiff Base-Copper (II) Complex Induces Cell
Death in P53-Positive Tumors.” Cell Death Discovery, vol. 4, 103, Springer
Nature, 2018, doi:10.1038/s41420-018-0120-z.
short: E. Bulatov, R. Sayarova, R. Mingaleeva, R. Miftakhova, M. Gomzikova, I. Ignatev,
A. Petukhov, P. Davidovich, A. Rizvanov, N.A. Barlev, Cell Death Discovery 4 (2018).
date_created: 2025-04-11T01:31:42Z
date_published: 2018-11-13T00:00:00Z
date_updated: 2025-07-10T11:51:52Z
day: '13'
ddc:
- '570'
department:
- _id: GradSch
- _id: LoSw
doi: 10.1038/s41420-018-0120-z
extern: '1'
external_id:
pmid:
- '30455989 '
has_accepted_license: '1'
intvolume: ' 4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41420-018-0120-z
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Cell Death Discovery
publication_identifier:
issn:
- 2058-7716
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Isatin-Schiff base-copper (II) complex induces cell death in p53-positive tumors
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: 4
year: '2018'
...
---
OA_place: publisher
_id: '197'
abstract:
- lang: eng
text: Modern computer vision systems heavily rely on statistical machine learning
models, which typically require large amounts of labeled data to be learned reliably.
Moreover, very recently computer vision research widely adopted techniques for
representation learning, which further increase the demand for labeled data. However,
for many important practical problems there is relatively small amount of labeled
data available, so it is problematic to leverage full potential of the representation
learning methods. One way to overcome this obstacle is to invest substantial resources
into producing large labelled datasets. Unfortunately, this can be prohibitively
expensive in practice. In this thesis we focus on the alternative way of tackling
the aforementioned issue. We concentrate on methods, which make use of weakly-labeled
or even unlabeled data. Specifically, the first half of the thesis is dedicated
to the semantic image segmentation task. We develop a technique, which achieves
competitive segmentation performance and only requires annotations in a form of
global image-level labels instead of dense segmentation masks. Subsequently, we
present a new methodology, which further improves segmentation performance by
leveraging tiny additional feedback from a human annotator. By using our methods
practitioners can greatly reduce the amount of data annotation effort, which is
required to learn modern image segmentation models. In the second half of the
thesis we focus on methods for learning from unlabeled visual data. We study a
family of autoregressive models for modeling structure of natural images and discuss
potential applications of these models. Moreover, we conduct in-depth study of
one of these applications, where we develop the state-of-the-art model for the
probabilistic image colorization task.
acknowledgement: I also gratefully acknowledge the support of NVIDIA Corporation with
the donation of the GPUs used for this research.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Alexander
full_name: Kolesnikov, Alexander
id: 2D157DB6-F248-11E8-B48F-1D18A9856A87
last_name: Kolesnikov
citation:
ama: Kolesnikov A. Weakly-Supervised Segmentation and Unsupervised Modeling of Natural
Images. 2018. doi:10.15479/AT:ISTA:th_1021
apa: Kolesnikov, A. (2018). Weakly-Supervised Segmentation and Unsupervised Modeling
of Natural Images. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:th_1021
chicago: Kolesnikov, Alexander. “Weakly-Supervised Segmentation and Unsupervised
Modeling of Natural Images.” Institute of Science and Technology Austria, 2018.
https://doi.org/10.15479/AT:ISTA:th_1021.
ieee: A. Kolesnikov, “Weakly-Supervised Segmentation and Unsupervised Modeling of
Natural Images,” Institute of Science and Technology Austria, 2018.
ista: Kolesnikov A. 2018. Weakly-Supervised Segmentation and Unsupervised Modeling
of Natural Images. Institute of Science and Technology Austria.
mla: Kolesnikov, Alexander. Weakly-Supervised Segmentation and Unsupervised Modeling
of Natural Images. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:th_1021.
short: A. Kolesnikov, Weakly-Supervised Segmentation and Unsupervised Modeling of
Natural Images, Institute of Science and Technology Austria, 2018.
corr_author: '1'
date_created: 2018-12-11T11:45:09Z
date_published: 2018-05-25T00:00:00Z
date_updated: 2026-04-08T14:05:16Z
day: '25'
ddc:
- '004'
degree_awarded: PhD
department:
- _id: ChLa
doi: 10.15479/AT:ISTA:th_1021
ec_funded: 1
file:
- access_level: open_access
checksum: bc678e02468d8ebc39dc7267dfb0a1c4
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:57Z
date_updated: 2020-07-14T12:45:22Z
file_id: '5113'
file_name: IST-2018-1021-v1+1_thesis-unsigned-pdfa.pdf
file_size: 12918758
relation: main_file
- access_level: closed
checksum: bc66973b086da5a043f1162dcfb1fde4
content_type: application/zip
creator: dernst
date_created: 2019-04-05T09:34:49Z
date_updated: 2020-07-14T12:45:22Z
file_id: '6225'
file_name: 2018_Thesis_Kolesnikov_source.zip
file_size: 55973760
relation: source_file
file_date_updated: 2020-07-14T12:45:22Z
has_accepted_license: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '113'
project:
- _id: 2532554C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '308036'
name: Lifelong Learning of Visual Scene Understanding
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '7718'
pubrep_id: '1021'
status: public
supervisor:
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
title: Weakly-Supervised Segmentation and Unsupervised Modeling of Natural Images
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2018'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '19706'
abstract:
- lang: eng
text: 'The importance of astrocytic l-lactate (LL) for normal functioning of neural
circuits such as those regulating learning/memory, sleep/wake state, autonomic
homeostasis, or emotional behaviour is being increasingly recognised. l-Lactate
can act on neurones as a metabolic or redox substrate, but transmembrane receptor
targets are also emerging. A comparative review of the hydroxy-carboxylic acid
receptor (HCA1, formerly known as GPR81), Olfactory Receptor Family 51 Subfamily
E Member 2 (OR51E2), and orphan receptor GPR4 highlights differences in their
LL sensitivity, pharmacology, intracellular coupling, and localisation in the
brain. In addition, a putative Gs-coupled receptor on noradrenergic neurones,
LLRx, which we previously postulated, remains to be identified. Next-generation
sequencing revealed several orphan receptors expressed in locus coeruleus neurones.
Screening of a selection of these suggests additional LL-sensitive receptors:
GPR180 which inhibits and GPR137 which activates intracellular cyclic AMP signalling
in response to LL in a heterologous expression system. To further characterise
binding of LL at LLRx, we carried out a structure–activity relationship study
which demonstrates that carboxyl and 2-hydroxyl moieties of LL are essential for
triggering d-lactate-sensitive noradrenaline release in locus coeruleus, and that
the size of the LL binding pocket is limited towards the methyl group position.
The evidence accumulating to date suggests that LL acts via multiple receptor
targets to modulate distinct brain functions.'
acknowledgement: This work was supported by grants from BBSRC BB/L019396/1, and MRC
MR/L020661/1. David Kleinfeld for his gift of CNiFER cells, Lesley Arberry for expert
technical support, Andrew Herman for support with FACS sorting.
article_processing_charge: Yes
article_type: original
author:
- first_name: Valentina
full_name: Mosienko, Valentina
last_name: Mosienko
- first_name: Seyed
full_name: Rasooli-Nejad, Seyed
last_name: Rasooli-Nejad
- first_name: Kasumi
full_name: Kishi, Kasumi
id: 3065DFC4-F248-11E8-B48F-1D18A9856A87
last_name: Kishi
- first_name: Matt
full_name: De Both, Matt
last_name: De Both
- first_name: David
full_name: Jane, David
last_name: Jane
- first_name: Matt J.
full_name: Huentelman, Matt J.
last_name: Huentelman
- first_name: Sergey
full_name: Kasparov, Sergey
last_name: Kasparov
- first_name: Anja G.
full_name: Teschemacher, Anja G.
last_name: Teschemacher
citation:
ama: Mosienko V, Rasooli-Nejad S, Kishi K, et al. Putative receptors underpinning
L-Lactate signalling in locus coeruleus. Neuroglia. 2018;1(2):365-380.
doi:10.3390/neuroglia1020025
apa: Mosienko, V., Rasooli-Nejad, S., Kishi, K., De Both, M., Jane, D., Huentelman,
M. J., … Teschemacher, A. G. (2018). Putative receptors underpinning L-Lactate
signalling in locus coeruleus. Neuroglia. MDPI. https://doi.org/10.3390/neuroglia1020025
chicago: Mosienko, Valentina, Seyed Rasooli-Nejad, Kasumi Kishi, Matt De Both, David
Jane, Matt J. Huentelman, Sergey Kasparov, and Anja G. Teschemacher. “Putative
Receptors Underpinning L-Lactate Signalling in Locus Coeruleus.” Neuroglia.
MDPI, 2018. https://doi.org/10.3390/neuroglia1020025.
ieee: V. Mosienko et al., “Putative receptors underpinning L-Lactate signalling
in locus coeruleus,” Neuroglia, vol. 1, no. 2. MDPI, pp. 365–380, 2018.
ista: Mosienko V, Rasooli-Nejad S, Kishi K, De Both M, Jane D, Huentelman MJ, Kasparov
S, Teschemacher AG. 2018. Putative receptors underpinning L-Lactate signalling
in locus coeruleus. Neuroglia. 1(2), 365–380.
mla: Mosienko, Valentina, et al. “Putative Receptors Underpinning L-Lactate Signalling
in Locus Coeruleus.” Neuroglia, vol. 1, no. 2, MDPI, 2018, pp. 365–80,
doi:10.3390/neuroglia1020025.
short: V. Mosienko, S. Rasooli-Nejad, K. Kishi, M. De Both, D. Jane, M.J. Huentelman,
S. Kasparov, A.G. Teschemacher, Neuroglia 1 (2018) 365–380.
date_created: 2025-05-18T22:02:51Z
date_published: 2018-12-01T00:00:00Z
date_updated: 2025-05-19T08:28:40Z
day: '01'
ddc:
- '570'
department:
- _id: AnKi
doi: 10.3390/neuroglia1020025
file:
- access_level: open_access
checksum: cadb56618f72edf4703b6a9855e84baa
content_type: application/pdf
creator: dernst
date_created: 2025-05-19T08:20:19Z
date_updated: 2025-05-19T08:20:19Z
file_id: '19711'
file_name: 2018_Neuroglia_Mosienko.pdf
file_size: 1909402
relation: main_file
success: 1
file_date_updated: 2025-05-19T08:20:19Z
has_accepted_license: '1'
intvolume: ' 1'
issue: '2'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 365-380
publication: Neuroglia
publication_identifier:
eissn:
- 2571-6980
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Putative receptors underpinning L-Lactate signalling in locus coeruleus
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: 1
year: '2018'
...
---
_id: '435'
abstract:
- lang: eng
text: It is shown that two fundamentally different phenomena, the bound states in
continuum and the spectral singularity (or time-reversed spectral singularity),
can occur simultaneously. This can be achieved in a rectangular core dielectric
waveguide with an embedded active (or absorbing) layer. In such a system a two-dimensional
bound state in a continuum is created in the plane of a waveguide cross section,
and it is emitted or absorbed along the waveguide core. The idea can be used for
experimental implementation of a laser or a coherent-perfect-absorber for a photonic
bound state that resides in a continuous spectrum.
acknowledgement: 'Seventh Framework Programme (FP7) People: Marie-Curie Actions (PEOPLE)
(291734). B. M. acknowledges the financial support by the People Programme (Marie
Curie Actions) of the European Union’s Seventh Framework Programme (FP7/ 2007-2013)
under REA.'
article_processing_charge: No
arxiv: 1
author:
- first_name: Bikashkali
full_name: Midya, Bikashkali
id: 456187FC-F248-11E8-B48F-1D18A9856A87
last_name: Midya
- first_name: Vladimir
full_name: Konotop, Vladimir
last_name: Konotop
citation:
ama: Midya B, Konotop V. Coherent-perfect-absorber and laser for bound states in
a continuum. Optics Letters. 2018;43(3):607-610. doi:10.1364/OL.43.000607
apa: Midya, B., & Konotop, V. (2018). Coherent-perfect-absorber and laser for
bound states in a continuum. Optics Letters. Optica Publishing Group. https://doi.org/10.1364/OL.43.000607
chicago: Midya, Bikashkali, and Vladimir Konotop. “Coherent-Perfect-Absorber and
Laser for Bound States in a Continuum.” Optics Letters. Optica Publishing
Group, 2018. https://doi.org/10.1364/OL.43.000607.
ieee: B. Midya and V. Konotop, “Coherent-perfect-absorber and laser for bound states
in a continuum,” Optics Letters, vol. 43, no. 3. Optica Publishing Group,
pp. 607–610, 2018.
ista: Midya B, Konotop V. 2018. Coherent-perfect-absorber and laser for bound states
in a continuum. Optics Letters. 43(3), 607–610.
mla: Midya, Bikashkali, and Vladimir Konotop. “Coherent-Perfect-Absorber and Laser
for Bound States in a Continuum.” Optics Letters, vol. 43, no. 3, Optica
Publishing Group, 2018, pp. 607–10, doi:10.1364/OL.43.000607.
short: B. Midya, V. Konotop, Optics Letters 43 (2018) 607–610.
corr_author: '1'
date_created: 2018-12-11T11:46:27Z
date_published: 2018-02-01T00:00:00Z
date_updated: 2025-06-03T11:21:56Z
day: '01'
department:
- _id: MiLe
doi: 10.1364/OL.43.000607
ec_funded: 1
external_id:
arxiv:
- '1711.01986'
isi:
- '000423776600066'
intvolume: ' 43'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1711.01986
month: '02'
oa: 1
oa_version: Preprint
page: 607 - 610
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Optics Letters
publication_status: published
publisher: Optica Publishing Group
publist_id: '7388'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coherent-perfect-absorber and laser for bound states in a continuum
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 43
year: '2018'
...
---
_id: '436'
abstract:
- lang: eng
text: There has been significant interest recently in using complex quantum systems
to create effective nonreciprocal dynamics. Proposals have been put forward for
the realization of artificial magnetic fields for photons and phonons; experimental
progress is fast making these proposals a reality. Much work has concentrated
on the use of such systems for controlling the flow of signals, e.g., to create
isolators or directional amplifiers for optical signals. In this Letter, we build
on this work but move in a different direction. We develop the theory of and discuss
a potential realization for the controllable flow of thermal noise in quantum
systems. We demonstrate theoretically that the unidirectional flow of thermal
noise is possible within quantum cascaded systems. Viewing an optomechanical platform
as a cascaded system we show here that one can ultimately control the direction
of the flow of thermal noise. By appropriately engineering the mechanical resonator,
which acts as an artificial reservoir, the flow of thermal noise can be constrained
to a desired direction, yielding a thermal rectifier. The proposed quantum thermal
noise rectifier could potentially be used to develop devices such as a thermal
modulator, a thermal router, and a thermal amplifier for nanoelectronic devices
and superconducting circuits.
article_number: '060601 '
article_processing_charge: No
arxiv: 1
author:
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: Matteo
full_name: Aquilina, Matteo
last_name: Aquilina
- first_name: André
full_name: Xuereb, André
last_name: Xuereb
citation:
ama: Barzanjeh S, Aquilina M, Xuereb A. Manipulating the flow of thermal noise in
quantum devices. Physical Review Letters. 2018;120(6). doi:10.1103/PhysRevLett.120.060601
apa: Barzanjeh, S., Aquilina, M., & Xuereb, A. (2018). Manipulating the flow
of thermal noise in quantum devices. Physical Review Letters. American
Physical Society. https://doi.org/10.1103/PhysRevLett.120.060601
chicago: Barzanjeh, Shabir, Matteo Aquilina, and André Xuereb. “Manipulating the
Flow of Thermal Noise in Quantum Devices.” Physical Review Letters. American
Physical Society, 2018. https://doi.org/10.1103/PhysRevLett.120.060601.
ieee: S. Barzanjeh, M. Aquilina, and A. Xuereb, “Manipulating the flow of thermal
noise in quantum devices,” Physical Review Letters, vol. 120, no. 6. American
Physical Society, 2018.
ista: Barzanjeh S, Aquilina M, Xuereb A. 2018. Manipulating the flow of thermal
noise in quantum devices. Physical Review Letters. 120(6), 060601.
mla: Barzanjeh, Shabir, et al. “Manipulating the Flow of Thermal Noise in Quantum
Devices.” Physical Review Letters, vol. 120, no. 6, 060601, American Physical
Society, 2018, doi:10.1103/PhysRevLett.120.060601.
short: S. Barzanjeh, M. Aquilina, A. Xuereb, Physical Review Letters 120 (2018).
corr_author: '1'
date_created: 2018-12-11T11:46:28Z
date_published: 2018-02-07T00:00:00Z
date_updated: 2024-10-22T09:36:24Z
day: '07'
department:
- _id: JoFi
doi: 10.1103/PhysRevLett.120.060601
ec_funded: 1
external_id:
arxiv:
- '1706.09051'
isi:
- '000424382100004'
intvolume: ' 120'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1706.09051
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: 257EB838-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '732894'
name: Hybrid Optomechanical Technologies
- _id: 258047B6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '707438'
name: 'Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination
with cavity Optomechanics'
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '7387'
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/interference-as-a-new-method-for-cooling-quantum-devices/
scopus_import: '1'
status: public
title: Manipulating the flow of thermal noise in quantum devices
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 120
year: '2018'
...
---
_id: '437'
abstract:
- lang: eng
text: Dendritic cells (DCs) are sentinels of the adaptive immune system that reside
in peripheral organs of mammals. Upon pathogen encounter, they undergo maturation
and up-regulate the chemokine receptor CCR7 that guides them along gradients of
its chemokine ligands CCL19 and 21 to the next draining lymph node. There, DCs
present peripherally acquired antigen to naïve T cells, thereby triggering adaptive
immunity.
acknowledged_ssus:
- _id: SSU
acknowledgement: "This work was supported by grants of the European Research Council
(ERC CoG 724373) and the Austrian Science Fund (FWF) to M.S. We thank the scientific
support units at IST Austria for excellent technical support.\r\nWe thank the scientific
\ support units at IST Austria for excellent technical support. "
article_processing_charge: Yes (via OA deal)
author:
- first_name: Alexander F
full_name: Leithner, Alexander F
id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87
last_name: Leithner
orcid: 0000-0002-1073-744X
- first_name: Jörg
full_name: Renkawitz, Jörg
id: 3F0587C8-F248-11E8-B48F-1D18A9856A87
last_name: Renkawitz
orcid: 0000-0003-2856-3369
- first_name: Ingrid
full_name: De Vries, Ingrid
id: 4C7D837E-F248-11E8-B48F-1D18A9856A87
last_name: De Vries
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Hans
full_name: Haecker, Hans
last_name: Haecker
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Leithner AF, Renkawitz J, de Vries I, Hauschild R, Haecker H, Sixt MK. Fast
and efficient genetic engineering of hematopoietic precursor cells for the study
of dendritic cell migration. European Journal of Immunology. 2018;48(6):1074-1077.
doi:10.1002/eji.201747358
apa: Leithner, A. F., Renkawitz, J., de Vries, I., Hauschild, R., Haecker, H., &
Sixt, M. K. (2018). Fast and efficient genetic engineering of hematopoietic precursor
cells for the study of dendritic cell migration. European Journal of Immunology.
Wiley-Blackwell. https://doi.org/10.1002/eji.201747358
chicago: Leithner, Alexander F, Jörg Renkawitz, Ingrid de Vries, Robert Hauschild,
Hans Haecker, and Michael K Sixt. “Fast and Efficient Genetic Engineering of Hematopoietic
Precursor Cells for the Study of Dendritic Cell Migration.” European Journal
of Immunology. Wiley-Blackwell, 2018. https://doi.org/10.1002/eji.201747358.
ieee: A. F. Leithner, J. Renkawitz, I. de Vries, R. Hauschild, H. Haecker, and M.
K. Sixt, “Fast and efficient genetic engineering of hematopoietic precursor cells
for the study of dendritic cell migration,” European Journal of Immunology,
vol. 48, no. 6. Wiley-Blackwell, pp. 1074–1077, 2018.
ista: Leithner AF, Renkawitz J, de Vries I, Hauschild R, Haecker H, Sixt MK. 2018.
Fast and efficient genetic engineering of hematopoietic precursor cells for the
study of dendritic cell migration. European Journal of Immunology. 48(6), 1074–1077.
mla: Leithner, Alexander F., et al. “Fast and Efficient Genetic Engineering of Hematopoietic
Precursor Cells for the Study of Dendritic Cell Migration.” European Journal
of Immunology, vol. 48, no. 6, Wiley-Blackwell, 2018, pp. 1074–77, doi:10.1002/eji.201747358.
short: A.F. Leithner, J. Renkawitz, I. de Vries, R. Hauschild, H. Haecker, M.K.
Sixt, European Journal of Immunology 48 (2018) 1074–1077.
corr_author: '1'
date_created: 2018-12-11T11:46:28Z
date_published: 2018-02-13T00:00:00Z
date_updated: 2025-04-14T07:42:07Z
day: '13'
ddc:
- '570'
department:
- _id: MiSi
- _id: Bio
doi: 10.1002/eji.201747358
ec_funded: 1
external_id:
isi:
- '000434963700016'
file:
- access_level: open_access
checksum: 9d5b74cd016505aeb9a4c2d33bbedaeb
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:56Z
date_updated: 2020-07-14T12:46:27Z
file_id: '5044'
file_name: IST-2018-1067-v1+2_Leithner_et_al-2018-European_Journal_of_Immunology.pdf
file_size: 590106
relation: main_file
file_date_updated: 2020-07-14T12:46:27Z
has_accepted_license: '1'
intvolume: ' 48'
isi: 1
issue: '6'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1074 - 1077
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
publication: European Journal of Immunology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '7386'
pubrep_id: '1067'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Fast and efficient genetic engineering of hematopoietic precursor cells for
the study of dendritic cell migration
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 48
year: '2018'
...
---
_id: '438'
abstract:
- lang: eng
text: The MazF toxin sequence-specifically cleaves single-stranded RNA upon various
stressful conditions, and it is activated as a part of the mazEF toxin–antitoxin
module in Escherichia coli. Although autoregulation of mazEF expression through
the MazE antitoxin-dependent transcriptional repression has been biochemically
characterized, less is known about post-transcriptional autoregulation, as well
as how both of these autoregulatory features affect growth of single cells during
conditions that promote MazF production. Here, we demonstrate post-transcriptional
autoregulation of mazF expression dynamics by MazF cleaving its own transcript.
Single-cell analyses of bacterial populations during ectopic MazF production indicated
that two-level autoregulation of mazEF expression influences cell-to-cell growth
rate heterogeneity. The increase in growth rate heterogeneity is governed by the
MazE antitoxin, and tuned by the MazF-dependent mazF mRNA cleavage. Also, both
autoregulatory features grant rapid exit from the stress caused by mazF overexpression.
Time-lapse microscopy revealed that MazF-mediated cleavage of mazF mRNA leads
to increased temporal variability in length of individual cells during ectopic
mazF overexpression, as explained by a stochastic model indicating that mazEF
mRNA cleavage underlies temporal fluctuations in MazF levels during stress.
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Alexandra
full_name: Vandervelde, Alexandra
last_name: Vandervelde
- first_name: Tanino
full_name: Albanese, Tanino
last_name: Albanese
- first_name: Lendert
full_name: Gelens, Lendert
last_name: Gelens
- first_name: Isabella
full_name: Moll, Isabella
last_name: Moll
citation:
ama: Nikolic N, Bergmiller T, Vandervelde A, Albanese T, Gelens L, Moll I. Autoregulation
of mazEF expression underlies growth heterogeneity in bacterial populations. Nucleic
Acids Research. 2018;46(6):2918-2931. doi:10.1093/nar/gky079
apa: Nikolic, N., Bergmiller, T., Vandervelde, A., Albanese, T., Gelens, L., &
Moll, I. (2018). Autoregulation of mazEF expression underlies growth heterogeneity
in bacterial populations. Nucleic Acids Research. Oxford University Press.
https://doi.org/10.1093/nar/gky079
chicago: Nikolic, Nela, Tobias Bergmiller, Alexandra Vandervelde, Tanino Albanese,
Lendert Gelens, and Isabella Moll. “Autoregulation of MazEF Expression Underlies
Growth Heterogeneity in Bacterial Populations.” Nucleic Acids Research.
Oxford University Press, 2018. https://doi.org/10.1093/nar/gky079.
ieee: N. Nikolic, T. Bergmiller, A. Vandervelde, T. Albanese, L. Gelens, and I.
Moll, “Autoregulation of mazEF expression underlies growth heterogeneity in bacterial
populations,” Nucleic Acids Research, vol. 46, no. 6. Oxford University
Press, pp. 2918–2931, 2018.
ista: Nikolic N, Bergmiller T, Vandervelde A, Albanese T, Gelens L, Moll I. 2018.
Autoregulation of mazEF expression underlies growth heterogeneity in bacterial
populations. Nucleic Acids Research. 46(6), 2918–2931.
mla: Nikolic, Nela, et al. “Autoregulation of MazEF Expression Underlies Growth
Heterogeneity in Bacterial Populations.” Nucleic Acids Research, vol. 46,
no. 6, Oxford University Press, 2018, pp. 2918–31, doi:10.1093/nar/gky079.
short: N. Nikolic, T. Bergmiller, A. Vandervelde, T. Albanese, L. Gelens, I. Moll,
Nucleic Acids Research 46 (2018) 2918–2931.
corr_author: '1'
date_created: 2018-12-11T11:46:29Z
date_published: 2018-04-06T00:00:00Z
date_updated: 2025-04-15T06:28:24Z
day: '06'
ddc:
- '576'
department:
- _id: CaGu
doi: 10.1093/nar/gky079
external_id:
isi:
- '000429009500021'
file:
- access_level: open_access
checksum: 3ff4f545c27e11a4cd20ccb30778793e
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:30Z
date_updated: 2020-07-14T12:46:27Z
file_id: '5151'
file_name: IST-2018-971-v1+1_2018_Nikoloc_Autoregulation_of.pdf
file_size: 5027978
relation: main_file
file_date_updated: 2020-07-14T12:46:27Z
has_accepted_license: '1'
intvolume: ' 46'
isi: 1
issue: '6'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: 2918-2931
project:
- _id: 3AC91DDA-15DF-11EA-824D-93A3E7B544D1
call_identifier: FWF
name: FWF Open Access Fund
publication: Nucleic Acids Research
publication_status: published
publisher: Oxford University Press
pubrep_id: '971'
quality_controlled: '1'
related_material:
record:
- id: '5569'
relation: popular_science
status: public
scopus_import: '1'
status: public
title: Autoregulation of mazEF expression underlies growth heterogeneity in bacterial
populations
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 46
year: '2018'
...
---
_id: '44'
abstract:
- lang: eng
text: 'Recent realization of a kinetically constrained chain of Rydberg atoms by
Bernien et al., [Nature (London) 551, 579 (2017)] resulted in the observation
of unusual revivals in the many-body quantum dynamics. In our previous work [C.
J. Turner et al., Nat. Phys. 14, 745 (2018)], such dynamics was attributed to
the existence of “quantum scarred” eigenstates in the many-body spectrum of the
experimentally realized model. Here, we present a detailed study of the eigenstate
properties of the same model. We find that the majority of the eigenstates exhibit
anomalous thermalization: the observable expectation values converge to their
Gibbs ensemble values, but parametrically slower compared to the predictions of
the eigenstate thermalization hypothesis (ETH). Amidst the thermalizing spectrum,
we identify nonergodic eigenstates that strongly violate the ETH, whose number
grows polynomially with system size. Previously, the same eigenstates were identified
via large overlaps with certain product states, and were used to explain the revivals
observed in experiment. Here, we find that these eigenstates, in addition to highly
atypical expectation values of local observables, also exhibit subthermal entanglement
entropy that scales logarithmically with the system size. Moreover, we identify
an additional class of quantum scarred eigenstates, and discuss their manifestations
in the dynamics starting from initial product states. We use forward scattering
approximation to describe the structure and physical properties of quantum scarred
eigenstates. Finally, we discuss the stability of quantum scars to various perturbations.
We observe that quantum scars remain robust when the introduced perturbation is
compatible with the forward scattering approximation. In contrast, the perturbations
which most efficiently destroy quantum scars also lead to the restoration of “canonical”
thermalization.'
acknowledged_ssus:
- _id: ScienComp
article_number: '155134'
article_processing_charge: No
arxiv: 1
author:
- first_name: C J
full_name: Turner, C J
last_name: Turner
- first_name: Alexios
full_name: Michailidis, Alexios
id: 36EBAD38-F248-11E8-B48F-1D18A9856A87
last_name: Michailidis
orcid: 0000-0002-8443-1064
- first_name: D A
full_name: Abanin, D A
last_name: Abanin
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Z
full_name: Papić, Z
last_name: Papić
citation:
ama: 'Turner CJ, Michailidis A, Abanin DA, Serbyn M, Papić Z. Quantum scarred eigenstates
in a Rydberg atom chain: Entanglement, breakdown of thermalization, and stability
to perturbations. Physical Review B. 2018;98(15). doi:10.1103/PhysRevB.98.155134'
apa: 'Turner, C. J., Michailidis, A., Abanin, D. A., Serbyn, M., & Papić, Z.
(2018). Quantum scarred eigenstates in a Rydberg atom chain: Entanglement, breakdown
of thermalization, and stability to perturbations. Physical Review B. American
Physical Society. https://doi.org/10.1103/PhysRevB.98.155134'
chicago: 'Turner, C J, Alexios Michailidis, D A Abanin, Maksym Serbyn, and Z Papić.
“Quantum Scarred Eigenstates in a Rydberg Atom Chain: Entanglement, Breakdown
of Thermalization, and Stability to Perturbations.” Physical Review B.
American Physical Society, 2018. https://doi.org/10.1103/PhysRevB.98.155134.'
ieee: 'C. J. Turner, A. Michailidis, D. A. Abanin, M. Serbyn, and Z. Papić, “Quantum
scarred eigenstates in a Rydberg atom chain: Entanglement, breakdown of thermalization,
and stability to perturbations,” Physical Review B, vol. 98, no. 15. American
Physical Society, 2018.'
ista: 'Turner CJ, Michailidis A, Abanin DA, Serbyn M, Papić Z. 2018. Quantum scarred
eigenstates in a Rydberg atom chain: Entanglement, breakdown of thermalization,
and stability to perturbations. Physical Review B. 98(15), 155134.'
mla: 'Turner, C. J., et al. “Quantum Scarred Eigenstates in a Rydberg Atom Chain:
Entanglement, Breakdown of Thermalization, and Stability to Perturbations.” Physical
Review B, vol. 98, no. 15, 155134, American Physical Society, 2018, doi:10.1103/PhysRevB.98.155134.'
short: C.J. Turner, A. Michailidis, D.A. Abanin, M. Serbyn, Z. Papić, Physical Review
B 98 (2018).
date_created: 2018-12-11T11:44:19Z
date_published: 2018-10-22T00:00:00Z
date_updated: 2023-10-10T13:28:49Z
day: '22'
department:
- _id: MaSe
doi: 10.1103/PhysRevB.98.155134
external_id:
arxiv:
- '1806.10933'
isi:
- '000447919100001'
intvolume: ' 98'
isi: 1
issue: '15'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1806.10933
month: '10'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_status: published
publisher: American Physical Society
publist_id: '8010'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Quantum scarred eigenstates in a Rydberg atom chain: Entanglement, breakdown
of thermalization, and stability to perturbations'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 98
year: '2018'
...