---
_id: '6607'
abstract:
- lang: eng
text: Acute myeloid leukemia (AML) is a heterogeneous disease with respect to its
genetic and molecular basis and to patients´ outcome. Clinical, cytogenetic, and
mutational data are used to classify patients into risk groups with different
survival, however, within-group heterogeneity is still an issue. Here, we used
a robust likelihood-based survival modeling approach and publicly available gene
expression data to identify a minimal number of genes whose combined expression
values were prognostic of overall survival. The resulting gene expression signature
(4-GES) consisted of 4 genes (SOCS2, IL2RA, NPDC1, PHGDH), predicted patient survival
as an independent prognostic parameter in several cohorts of AML patients (total,
1272 patients), and further refined prognostication based on the European Leukemia
Net classification. An oncogenic role of the top scoring gene in this signature,
SOCS2, was investigated using MLL-AF9 and Flt3-ITD/NPM1c driven mouse models of
AML. SOCS2 promoted leukemogenesis as well as the abundance, quiescence, and activity
of AML stem cells. Overall, the 4-GES represents a highly discriminating prognostic
parameter in AML, whose clinical applicability is greatly enhanced by its small
number of genes. The newly established role of SOCS2 in leukemia aggressiveness
and stemness raises the possibility that the signature might even be exploitable
therapeutically.
article_number: '9139'
article_processing_charge: No
author:
- first_name: Chi Huu
full_name: Nguyen, Chi Huu
last_name: Nguyen
- first_name: Tobias
full_name: Glüxam, Tobias
last_name: Glüxam
- first_name: Angela
full_name: Schlerka, Angela
last_name: Schlerka
- first_name: Katharina
full_name: Bauer, Katharina
id: 2ED6B14C-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
- first_name: Alexander M.
full_name: Grandits, Alexander M.
last_name: Grandits
- first_name: Hubert
full_name: Hackl, Hubert
last_name: Hackl
- first_name: Oliver
full_name: Dovey, Oliver
last_name: Dovey
- first_name: Sabine
full_name: Zöchbauer-Müller, Sabine
last_name: Zöchbauer-Müller
- first_name: Jonathan L.
full_name: Cooper, Jonathan L.
last_name: Cooper
- first_name: George S.
full_name: Vassiliou, George S.
last_name: Vassiliou
- first_name: Dagmar
full_name: Stoiber, Dagmar
last_name: Stoiber
- first_name: Rotraud
full_name: Wieser, Rotraud
last_name: Wieser
- first_name: Gerwin
full_name: Heller, Gerwin
last_name: Heller
citation:
ama: Nguyen CH, Glüxam T, Schlerka A, et al. SOCS2 is part of a highly prognostic
4-gene signature in AML and promotes disease aggressiveness. Scientific Reports.
2019;9(1). doi:10.1038/s41598-019-45579-0
apa: Nguyen, C. H., Glüxam, T., Schlerka, A., Bauer, K., Grandits, A. M., Hackl,
H., … Heller, G. (2019). SOCS2 is part of a highly prognostic 4-gene signature
in AML and promotes disease aggressiveness. Scientific Reports. Nature
Publishing Group. https://doi.org/10.1038/s41598-019-45579-0
chicago: Nguyen, Chi Huu, Tobias Glüxam, Angela Schlerka, Katharina Bauer, Alexander
M. Grandits, Hubert Hackl, Oliver Dovey, et al. “SOCS2 Is Part of a Highly Prognostic
4-Gene Signature in AML and Promotes Disease Aggressiveness.” Scientific Reports.
Nature Publishing Group, 2019. https://doi.org/10.1038/s41598-019-45579-0.
ieee: C. H. Nguyen et al., “SOCS2 is part of a highly prognostic 4-gene signature
in AML and promotes disease aggressiveness,” Scientific Reports, vol. 9,
no. 1. Nature Publishing Group, 2019.
ista: Nguyen CH, Glüxam T, Schlerka A, Bauer K, Grandits AM, Hackl H, Dovey O, Zöchbauer-Müller
S, Cooper JL, Vassiliou GS, Stoiber D, Wieser R, Heller G. 2019. SOCS2 is part
of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness.
Scientific Reports. 9(1), 9139.
mla: Nguyen, Chi Huu, et al. “SOCS2 Is Part of a Highly Prognostic 4-Gene Signature
in AML and Promotes Disease Aggressiveness.” Scientific Reports, vol. 9,
no. 1, 9139, Nature Publishing Group, 2019, doi:10.1038/s41598-019-45579-0.
short: C.H. Nguyen, T. Glüxam, A. Schlerka, K. Bauer, A.M. Grandits, H. Hackl, O.
Dovey, S. Zöchbauer-Müller, J.L. Cooper, G.S. Vassiliou, D. Stoiber, R. Wieser,
G. Heller, Scientific Reports 9 (2019).
date_created: 2019-07-07T21:59:19Z
date_published: 2019-06-24T00:00:00Z
date_updated: 2023-08-28T12:26:51Z
day: '24'
ddc:
- '576'
department:
- _id: PreCl
doi: 10.1038/s41598-019-45579-0
external_id:
isi:
- '000472597400042'
file:
- access_level: open_access
checksum: 3283522fffadf4b5fc8c7adfe3ba4564
content_type: application/pdf
creator: kschuh
date_created: 2019-07-08T15:15:28Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6623'
file_name: nature_2019_Nguyen.pdf
file_size: 2017352
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
issue: '1'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_status: published
publisher: Nature Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease
aggressiveness
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2019'
...
---
_id: '6608'
abstract:
- lang: eng
text: We use the canonical bases produced by the tri-partition algorithm in (Edelsbrunner
and Ölsböck, 2018) to open and close holes in a polyhedral complex, K. In a concrete
application, we consider the Delaunay mosaic of a finite set, we let K be an Alpha
complex, and we use the persistence diagram of the distance function to guide
the hole opening and closing operations. The dependences between the holes define
a partial order on the cells in K that characterizes what can and what cannot
be constructed using the operations. The relations in this partial order reveal
structural information about the underlying filtration of complexes beyond what
is expressed by the persistence diagram.
article_processing_charge: No
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Katharina
full_name: Ölsböck, Katharina
id: 4D4AA390-F248-11E8-B48F-1D18A9856A87
last_name: Ölsböck
orcid: 0000-0002-4672-8297
citation:
ama: Edelsbrunner H, Ölsböck K. Holes and dependences in an ordered complex. Computer
Aided Geometric Design. 2019;73:1-15. doi:10.1016/j.cagd.2019.06.003
apa: Edelsbrunner, H., & Ölsböck, K. (2019). Holes and dependences in an ordered
complex. Computer Aided Geometric Design. Elsevier. https://doi.org/10.1016/j.cagd.2019.06.003
chicago: Edelsbrunner, Herbert, and Katharina Ölsböck. “Holes and Dependences in
an Ordered Complex.” Computer Aided Geometric Design. Elsevier, 2019. https://doi.org/10.1016/j.cagd.2019.06.003.
ieee: H. Edelsbrunner and K. Ölsböck, “Holes and dependences in an ordered complex,”
Computer Aided Geometric Design, vol. 73. Elsevier, pp. 1–15, 2019.
ista: Edelsbrunner H, Ölsböck K. 2019. Holes and dependences in an ordered complex.
Computer Aided Geometric Design. 73, 1–15.
mla: Edelsbrunner, Herbert, and Katharina Ölsböck. “Holes and Dependences in an
Ordered Complex.” Computer Aided Geometric Design, vol. 73, Elsevier, 2019,
pp. 1–15, doi:10.1016/j.cagd.2019.06.003.
short: H. Edelsbrunner, K. Ölsböck, Computer Aided Geometric Design 73 (2019) 1–15.
date_created: 2019-07-07T21:59:20Z
date_published: 2019-08-01T00:00:00Z
date_updated: 2026-04-08T07:23:21Z
day: '01'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.1016/j.cagd.2019.06.003
ec_funded: 1
external_id:
isi:
- '000485207800001'
file:
- access_level: open_access
checksum: 7c99be505dc7533257d42eb1830cef04
content_type: application/pdf
creator: kschuh
date_created: 2019-07-08T15:24:26Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6624'
file_name: Elsevier_2019_Edelsbrunner.pdf
file_size: 2665013
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 73'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 1-15
project:
- _id: 266A2E9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '788183'
name: Alpha Shape Theory Extended
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: Computer Aided Geometric Design
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '7460'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Holes and dependences in an ordered complex
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 73
year: '2019'
...
---
_id: '6611'
abstract:
- lang: eng
text: 'Cell polarity is crucial for the coordinated development of all multicellular
organisms. In plants, this is exemplified by the PIN-FORMED (PIN) efflux carriers
of the phytohormone auxin: The polar subcellular localization of the PINs is instructive
to the directional intercellular auxin transport, and thus to a plethora of auxin-regulated
growth and developmental processes. Despite its importance, the regulation of
PIN polar subcellular localization remains poorly understood. Here, we have employed
advanced live-cell imaging techniques to study the roles of microtubules and actin
microfilaments in the establishment of apical polar localization of PIN2 in the
epidermis of the Arabidopsis root meristem. We report that apical PIN2 polarity
requires neither intact actin microfilaments nor microtubules, suggesting that
the primary spatial cue for polar PIN distribution is likely independent of cytoskeleton-guided
endomembrane trafficking.'
acknowledged_ssus:
- _id: Bio
article_number: '222'
article_processing_charge: No
author:
- first_name: Matous
full_name: Glanc, Matous
id: 1AE1EA24-02D0-11E9-9BAA-DAF4881429F2
last_name: Glanc
orcid: 0000-0003-0619-7783
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Glanc M, Fendrych M, Friml J. PIN2 polarity establishment in arabidopsis in
the absence of an intact cytoskeleton. Biomolecules. 2019;9(6). doi:10.3390/biom9060222
apa: Glanc, M., Fendrych, M., & Friml, J. (2019). PIN2 polarity establishment
in arabidopsis in the absence of an intact cytoskeleton. Biomolecules.
MDPI. https://doi.org/10.3390/biom9060222
chicago: Glanc, Matous, Matyas Fendrych, and Jiří Friml. “PIN2 Polarity Establishment
in Arabidopsis in the Absence of an Intact Cytoskeleton.” Biomolecules.
MDPI, 2019. https://doi.org/10.3390/biom9060222.
ieee: M. Glanc, M. Fendrych, and J. Friml, “PIN2 polarity establishment in arabidopsis
in the absence of an intact cytoskeleton,” Biomolecules, vol. 9, no. 6.
MDPI, 2019.
ista: Glanc M, Fendrych M, Friml J. 2019. PIN2 polarity establishment in arabidopsis
in the absence of an intact cytoskeleton. Biomolecules. 9(6), 222.
mla: Glanc, Matous, et al. “PIN2 Polarity Establishment in Arabidopsis in the Absence
of an Intact Cytoskeleton.” Biomolecules, vol. 9, no. 6, 222, MDPI, 2019,
doi:10.3390/biom9060222.
short: M. Glanc, M. Fendrych, J. Friml, Biomolecules 9 (2019).
date_created: 2019-07-07T21:59:21Z
date_published: 2019-06-07T00:00:00Z
date_updated: 2025-04-14T07:45:04Z
day: '07'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.3390/biom9060222
ec_funded: 1
external_id:
isi:
- '000475301500018'
pmid:
- '31181636'
file:
- access_level: open_access
checksum: 1ce1bd36038fe5381057a1bcc6760083
content_type: application/pdf
creator: kschuh
date_created: 2019-07-08T15:46:32Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6625'
file_name: biomolecules-2019-Matous.pdf
file_size: 1066773
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
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
publication: Biomolecules
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2019'
...
---
_id: '6617'
abstract:
- lang: eng
text: 'The effective large-scale properties of materials with random heterogeneities
on a small scale are typically determined by the method of representative volumes:
a sample of the random material is chosen—the representative volume—and its effective
properties are computed by the cell formula. Intuitively, for a fixed sample size
it should be possible to increase the accuracy of the method by choosing a material
sample which captures the statistical properties of the material particularly
well; for example, for a composite material consisting of two constituents, one
would select a representative volume in which the volume fraction of the constituents
matches closely with their volume fraction in the overall material. Inspired by
similar attempts in materials science, Le Bris, Legoll and Minvielle have designed
a selection approach for representative volumes which performs remarkably well
in numerical examples of linear materials with moderate contrast. In the present
work, we provide a rigorous analysis of this selection approach for representative
volumes in the context of stochastic homogenization of linear elliptic equations.
In particular, we prove that the method essentially never performs worse than
a random selection of the material sample and may perform much better if the selection
criterion for the material samples is chosen suitably.'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
citation:
ama: Fischer JL. The choice of representative volumes in the approximation of effective
properties of random materials. Archive for Rational Mechanics and Analysis.
2019;234(2):635–726. doi:10.1007/s00205-019-01400-w
apa: Fischer, J. L. (2019). The choice of representative volumes in the approximation
of effective properties of random materials. Archive for Rational Mechanics
and Analysis. Springer. https://doi.org/10.1007/s00205-019-01400-w
chicago: Fischer, Julian L. “The Choice of Representative Volumes in the Approximation
of Effective Properties of Random Materials.” Archive for Rational Mechanics
and Analysis. Springer, 2019. https://doi.org/10.1007/s00205-019-01400-w.
ieee: J. L. Fischer, “The choice of representative volumes in the approximation
of effective properties of random materials,” Archive for Rational Mechanics
and Analysis, vol. 234, no. 2. Springer, pp. 635–726, 2019.
ista: Fischer JL. 2019. The choice of representative volumes in the approximation
of effective properties of random materials. Archive for Rational Mechanics and
Analysis. 234(2), 635–726.
mla: Fischer, Julian L. “The Choice of Representative Volumes in the Approximation
of Effective Properties of Random Materials.” Archive for Rational Mechanics
and Analysis, vol. 234, no. 2, Springer, 2019, pp. 635–726, doi:10.1007/s00205-019-01400-w.
short: J.L. Fischer, Archive for Rational Mechanics and Analysis 234 (2019) 635–726.
corr_author: '1'
date_created: 2019-07-07T21:59:23Z
date_published: 2019-11-01T00:00:00Z
date_updated: 2025-04-15T06:53:15Z
day: '01'
ddc:
- '500'
department:
- _id: JuFi
doi: 10.1007/s00205-019-01400-w
external_id:
arxiv:
- '1807.00834'
isi:
- '000482386000006'
file:
- access_level: open_access
checksum: 4cff75fa6addb0770991ad9c474ab404
content_type: application/pdf
creator: kschuh
date_created: 2019-07-08T15:56:47Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6626'
file_name: Springer_2019_Fischer.pdf
file_size: 1377659
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 234'
isi: 1
issue: '2'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 635–726
project:
- _id: B67AFEDC-15C9-11EA-A837-991A96BB2854
name: IST Austria Open Access Fund
publication: Archive for Rational Mechanics and Analysis
publication_identifier:
eissn:
- 1432-0673
issn:
- 0003-9527
publication_status: published
publisher: Springer
quality_controlled: '1'
scopus_import: '1'
status: public
title: The choice of representative volumes in the approximation of effective properties
of random materials
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 234
year: '2019'
...
---
_id: '6621'
abstract:
- lang: eng
text: We read with great interest the recent work in PNAS by Bergero et al. (1)
describing differences in male and female recombination patterns on the guppy
(Poecilia reticulata) sex chromosome. We fully agree that recombination in males
is largely confined to the ends of the sex chromosome. Bergero et al. interpret
these results to suggest that our previous findings of population-level variation
in the degree of sex chromosome differentiation in this species (2) are incorrect.
However, we suggest that their results are entirely consistent with our previous
report, and that their interpretation presents a false controversy.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Alison E.
full_name: Wright, Alison E.
last_name: Wright
- first_name: Iulia
full_name: Darolti, Iulia
last_name: Darolti
- first_name: Natasha I.
full_name: Bloch, Natasha I.
last_name: Bloch
- first_name: Vicencio
full_name: Oostra, Vicencio
last_name: Oostra
- first_name: Benjamin A.
full_name: Sandkam, Benjamin A.
last_name: Sandkam
- first_name: Séverine D.
full_name: Buechel, Séverine D.
last_name: Buechel
- first_name: Niclas
full_name: Kolm, Niclas
last_name: Kolm
- first_name: Felix
full_name: Breden, Felix
last_name: Breden
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Judith E.
full_name: Mank, Judith E.
last_name: Mank
citation:
ama: Wright AE, Darolti I, Bloch NI, et al. On the power to detect rare recombination
events. Proceedings of the National Academy of Sciences of the United States
of America. 2019;116(26):12607-12608. doi:10.1073/pnas.1905555116
apa: Wright, A. E., Darolti, I., Bloch, N. I., Oostra, V., Sandkam, B. A., Buechel,
S. D., … Mank, J. E. (2019). On the power to detect rare recombination events.
Proceedings of the National Academy of Sciences of the United States of America.
National Academy of Sciences. https://doi.org/10.1073/pnas.1905555116
chicago: Wright, Alison E., Iulia Darolti, Natasha I. Bloch, Vicencio Oostra, Benjamin
A. Sandkam, Séverine D. Buechel, Niclas Kolm, Felix Breden, Beatriz Vicoso, and
Judith E. Mank. “On the Power to Detect Rare Recombination Events.” Proceedings
of the National Academy of Sciences of the United States of America. National
Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1905555116.
ieee: A. E. Wright et al., “On the power to detect rare recombination events,”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 116, no. 26. National Academy of Sciences, pp. 12607–12608, 2019.
ista: Wright AE, Darolti I, Bloch NI, Oostra V, Sandkam BA, Buechel SD, Kolm N,
Breden F, Vicoso B, Mank JE. 2019. On the power to detect rare recombination events.
Proceedings of the National Academy of Sciences of the United States of America.
116(26), 12607–12608.
mla: Wright, Alison E., et al. “On the Power to Detect Rare Recombination Events.”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 116, no. 26, National Academy of Sciences, 2019, pp. 12607–08, doi:10.1073/pnas.1905555116.
short: A.E. Wright, I. Darolti, N.I. Bloch, V. Oostra, B.A. Sandkam, S.D. Buechel,
N. Kolm, F. Breden, B. Vicoso, J.E. Mank, Proceedings of the National Academy
of Sciences of the United States of America 116 (2019) 12607–12608.
date_created: 2019-07-07T21:59:25Z
date_published: 2019-06-25T00:00:00Z
date_updated: 2026-06-18T19:10:26Z
day: '25'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.1073/pnas.1905555116
external_id:
isi:
- '000472719100010'
pmid:
- '31213531'
intvolume: ' 116'
isi: 1
issue: '26'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1905555116
month: '06'
oa: 1
oa_version: Published Version
page: 12607-12608
pmid: 1
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the power to detect rare recombination events
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 116
year: '2019'
...
---
_id: '6628'
abstract:
- lang: eng
text: Fejes Tóth [5] and Schneider [9] studied approximations of smooth convex hypersurfaces
in Euclidean space by piecewise flat triangular meshes with a given number
of vertices on the hypersurface that are optimal with respect to Hausdorff distance. They proved that this
Hausdorff distance decreases inversely proportional with m 2/(d−1), where m is the number of vertices and
d is the dimension of Euclidean space. Moreover the pro-portionality constant
can be expressed in terms of the Gaussian curvature, an intrinsic quantity. In
this short note, we prove the extrinsic nature of this constant for manifolds
of sufficiently high codimension. We do so by constructing an family of isometric
embeddings of the flat torus in Euclidean space.
author:
- first_name: Gert
full_name: Vegter, Gert
last_name: Vegter
- first_name: Mathijs
full_name: Wintraecken, Mathijs
id: 307CFBC8-F248-11E8-B48F-1D18A9856A87
last_name: Wintraecken
orcid: 0000-0002-7472-2220
citation:
ama: 'Vegter G, Wintraecken M. The extrinsic nature of the Hausdorff distance of
optimal triangulations of manifolds. In: The 31st Canadian Conference in Computational
Geometry. ; 2019:275-279.'
apa: Vegter, G., & Wintraecken, M. (2019). The extrinsic nature of the Hausdorff
distance of optimal triangulations of manifolds. In The 31st Canadian Conference
in Computational Geometry (pp. 275–279). Edmonton, Canada.
chicago: Vegter, Gert, and Mathijs Wintraecken. “The Extrinsic Nature of the Hausdorff
Distance of Optimal Triangulations of Manifolds.” In The 31st Canadian Conference
in Computational Geometry, 275–79, 2019.
ieee: G. Vegter and M. Wintraecken, “The extrinsic nature of the Hausdorff distance
of optimal triangulations of manifolds,” in The 31st Canadian Conference in
Computational Geometry, Edmonton, Canada, 2019, pp. 275–279.
ista: 'Vegter G, Wintraecken M. 2019. The extrinsic nature of the Hausdorff distance
of optimal triangulations of manifolds. The 31st Canadian Conference in Computational
Geometry. CCCG: Canadian Conference in Computational Geometry, 275–279.'
mla: Vegter, Gert, and Mathijs Wintraecken. “The Extrinsic Nature of the Hausdorff
Distance of Optimal Triangulations of Manifolds.” The 31st Canadian Conference
in Computational Geometry, 2019, pp. 275–79.
short: G. Vegter, M. Wintraecken, in:, The 31st Canadian Conference in Computational
Geometry, 2019, pp. 275–279.
conference:
end_date: 2019-08-10
location: Edmonton, Canada
name: 'CCCG: Canadian Conference in Computational Geometry'
start_date: 2019-08-08
date_created: 2019-07-12T08:34:57Z
date_published: 2019-08-01T00:00:00Z
date_updated: 2021-01-12T08:08:16Z
day: '01'
ddc:
- '004'
department:
- _id: HeEd
ec_funded: 1
file:
- access_level: open_access
checksum: ceabd152cfa55170d57763f9c6c60a53
content_type: application/pdf
creator: mwintrae
date_created: 2019-07-12T08:32:46Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6629'
file_name: IntrinsicExtrinsicCCCG2019.pdf
file_size: 321176
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Submitted Version
page: 275-279
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: The 31st Canadian Conference in Computational Geometry
publication_status: published
quality_controlled: '1'
scopus_import: 1
status: public
title: The extrinsic nature of the Hausdorff distance of optimal triangulations of
manifolds
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '6631'
abstract:
- lang: eng
text: The spatiotemporal organization of cell divisions constitutes an integral
part in the development of multicellular organisms, and mis-regulation of cell
divisions can lead to severe developmental defects. Cell divisions have an important
morphogenetic function in development by regulating growth and shape acquisition
of developing tissues, and, conversely, tissue morphogenesis is known to affect
both the rate and orientation of cell divisions. Moreover, cell divisions are
associated with an extensive reorganization of the cytoskeleton and adhesion apparatus
in the dividing cells that in turn can affect large-scale tissue rheological properties.
Thus, the interplay between cell divisions and tissue morphogenesis plays a key
role in embryo and tissue morphogenesis.
article_processing_charge: No
author:
- first_name: Benoit G
full_name: Godard, Benoit G
id: 33280250-F248-11E8-B48F-1D18A9856A87
last_name: Godard
- 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
citation:
ama: Godard BG, Heisenberg C-PJ. Cell division and tissue mechanics. Current
Opinion in Cell Biology. 2019;60:114-120. doi:10.1016/j.ceb.2019.05.007
apa: Godard, B. G., & Heisenberg, C.-P. J. (2019). Cell division and tissue
mechanics. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2019.05.007
chicago: Godard, Benoit G, and Carl-Philipp J Heisenberg. “Cell Division and Tissue
Mechanics.” Current Opinion in Cell Biology. Elsevier, 2019. https://doi.org/10.1016/j.ceb.2019.05.007.
ieee: B. G. Godard and C.-P. J. Heisenberg, “Cell division and tissue mechanics,”
Current Opinion in Cell Biology, vol. 60. Elsevier, pp. 114–120, 2019.
ista: Godard BG, Heisenberg C-PJ. 2019. Cell division and tissue mechanics. Current
Opinion in Cell Biology. 60, 114–120.
mla: Godard, Benoit G., and Carl-Philipp J. Heisenberg. “Cell Division and Tissue
Mechanics.” Current Opinion in Cell Biology, vol. 60, Elsevier, 2019, pp.
114–20, doi:10.1016/j.ceb.2019.05.007.
short: B.G. Godard, C.-P.J. Heisenberg, Current Opinion in Cell Biology 60 (2019)
114–120.
date_created: 2019-07-14T21:59:17Z
date_published: 2019-10-01T00:00:00Z
date_updated: 2023-08-29T06:33:14Z
day: '01'
department:
- _id: CaHe
doi: 10.1016/j.ceb.2019.05.007
external_id:
isi:
- '000486545800016'
intvolume: ' 60'
isi: 1
language:
- iso: eng
month: '10'
oa_version: None
page: 114-120
publication: Current Opinion in Cell Biology
publication_identifier:
issn:
- 0955-0674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cell division and tissue mechanics
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 60
year: '2019'
...
---
_id: '6632'
abstract:
- lang: eng
text: We consider a two-component Bose gas in two dimensions at a low temperature
with short-range repulsive interaction. In the coexistence phase where both components
are superfluid, interspecies interactions induce a nondissipative drag between
the two superfluid flows (Andreev-Bashkin effect). We show that this behavior
leads to a modification of the usual Berezinskii-Kosterlitz-Thouless (BKT) transition
in two dimensions. We extend the renormalization of the superfluid densities at
finite temperature using the renormalization-group approach and find that the
vortices of one component have a large influence on the superfluid properties
of the other, mediated by the nondissipative drag. The extended BKT flow equations indicate that the occurrence of the
vortex unbinding transition in one of the components can induce the breakdown
of superfluidity also in the other, leading to a locking phenomenon for the critical
temperatures of the two gases.
article_number: '063627'
article_processing_charge: No
arxiv: 1
author:
- first_name: Volker
full_name: Karle, Volker
id: D7C012AE-D7ED-11E9-95E8-1EC5E5697425
last_name: Karle
orcid: 0000-0002-6963-0129
- first_name: Nicolò
full_name: Defenu, Nicolò
last_name: Defenu
- first_name: Tilman
full_name: Enss, Tilman
last_name: Enss
citation:
ama: Karle V, Defenu N, Enss T. Coupled superfluidity of binary Bose mixtures in
two dimensions. Physical Review A. 2019;99(6). doi:10.1103/PhysRevA.99.063627
apa: Karle, V., Defenu, N., & Enss, T. (2019). Coupled superfluidity of binary
Bose mixtures in two dimensions. Physical Review A. American Physical Society.
https://doi.org/10.1103/PhysRevA.99.063627
chicago: Karle, Volker, Nicolò Defenu, and Tilman Enss. “Coupled Superfluidity of
Binary Bose Mixtures in Two Dimensions.” Physical Review A. American Physical
Society, 2019. https://doi.org/10.1103/PhysRevA.99.063627.
ieee: V. Karle, N. Defenu, and T. Enss, “Coupled superfluidity of binary Bose mixtures
in two dimensions,” Physical Review A, vol. 99, no. 6. American Physical
Society, 2019.
ista: Karle V, Defenu N, Enss T. 2019. Coupled superfluidity of binary Bose mixtures
in two dimensions. Physical Review A. 99(6), 063627.
mla: Karle, Volker, et al. “Coupled Superfluidity of Binary Bose Mixtures in Two
Dimensions.” Physical Review A, vol. 99, no. 6, 063627, American Physical
Society, 2019, doi:10.1103/PhysRevA.99.063627.
short: V. Karle, N. Defenu, T. Enss, Physical Review A 99 (2019).
date_created: 2019-07-14T21:59:17Z
date_published: 2019-06-28T00:00:00Z
date_updated: 2025-07-10T11:53:40Z
day: '28'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.99.063627
external_id:
arxiv:
- '1903.06759'
isi:
- '000473133600007'
intvolume: ' 99'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1903.06759
month: '06'
oa: 1
oa_version: Preprint
publication: Physical Review A
publication_identifier:
eissn:
- 2469-9934
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coupled superfluidity of binary Bose mixtures in two dimensions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 99
year: '2019'
...
---
_id: '6634'
abstract:
- lang: eng
text: In this paper we prove several new results around Gromov's waist theorem.
We give a simple proof of Vaaler's theorem on sections of the unit cube using
the Borsuk-Ulam-Crofton technique, consider waists of real and complex projective
spaces, flat tori, convex bodies in Euclidean space; and establish waist-type
results in terms of the Hausdorff measure.
article_processing_charge: No
arxiv: 1
author:
- first_name: Arseniy
full_name: Akopyan, Arseniy
id: 430D2C90-F248-11E8-B48F-1D18A9856A87
last_name: Akopyan
orcid: 0000-0002-2548-617X
- first_name: Alfredo
full_name: Hubard, Alfredo
last_name: Hubard
- first_name: Roman
full_name: Karasev, Roman
last_name: Karasev
citation:
ama: Akopyan A, Hubard A, Karasev R. Lower and upper bounds for the waists of different
spaces. Topological Methods in Nonlinear Analysis. 2019;53(2):457-490.
doi:10.12775/TMNA.2019.008
apa: Akopyan, A., Hubard, A., & Karasev, R. (2019). Lower and upper bounds for
the waists of different spaces. Topological Methods in Nonlinear Analysis.
Akademicka Platforma Czasopism. https://doi.org/10.12775/TMNA.2019.008
chicago: Akopyan, Arseniy, Alfredo Hubard, and Roman Karasev. “Lower and Upper Bounds
for the Waists of Different Spaces.” Topological Methods in Nonlinear Analysis.
Akademicka Platforma Czasopism, 2019. https://doi.org/10.12775/TMNA.2019.008.
ieee: A. Akopyan, A. Hubard, and R. Karasev, “Lower and upper bounds for the waists
of different spaces,” Topological Methods in Nonlinear Analysis, vol. 53,
no. 2. Akademicka Platforma Czasopism, pp. 457–490, 2019.
ista: Akopyan A, Hubard A, Karasev R. 2019. Lower and upper bounds for the waists
of different spaces. Topological Methods in Nonlinear Analysis. 53(2), 457–490.
mla: Akopyan, Arseniy, et al. “Lower and Upper Bounds for the Waists of Different
Spaces.” Topological Methods in Nonlinear Analysis, vol. 53, no. 2, Akademicka
Platforma Czasopism, 2019, pp. 457–90, doi:10.12775/TMNA.2019.008.
short: A. Akopyan, A. Hubard, R. Karasev, Topological Methods in Nonlinear Analysis
53 (2019) 457–490.
date_created: 2019-07-14T21:59:19Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2025-04-15T06:50:28Z
day: '01'
department:
- _id: HeEd
doi: 10.12775/TMNA.2019.008
ec_funded: 1
external_id:
arxiv:
- '1612.06926'
isi:
- '000472541600004'
intvolume: ' 53'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1612.06926
month: '06'
oa: 1
oa_version: Preprint
page: 457-490
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Topological Methods in Nonlinear Analysis
publication_status: published
publisher: Akademicka Platforma Czasopism
quality_controlled: '1'
scopus_import: '1'
status: public
title: Lower and upper bounds for the waists of different spaces
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 53
year: '2019'
...
---
_id: '6637'
abstract:
- lang: eng
text: The environment changes constantly at various time scales and, in order to
survive, species need to keep adapting. Whether these species succeed in avoiding
extinction is a major evolutionary question. Using a multilocus evolutionary model
of a mutation‐limited population adapting under strong selection, we investigate
the effects of the frequency of environmental fluctuations on adaptation. Our
results rely on an “adaptive‐walk” approximation and use mathematical methods
from evolutionary computation theory to investigate the interplay between fluctuation
frequency, the similarity of environments, and the number of loci contributing
to adaptation. First, we assume a linear additive fitness function, but later
generalize our results to include several types of epistasis. We show that frequent
environmental changes prevent populations from reaching a fitness peak, but they
may also prevent the large fitness loss that occurs after a single environmental
change. Thus, the population can survive, although not thrive, in a wide range
of conditions. Furthermore, we show that in a frequently changing environment,
the similarity of threats that a population faces affects the level of adaptation
that it is able to achieve. We check and supplement our analytical results with
simulations.
acknowledgement: The authors would like to thank to Tiago Paixao and Nick Barton for
useful comments and advice.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Barbora
full_name: Trubenova, Barbora
id: 42302D54-F248-11E8-B48F-1D18A9856A87
last_name: Trubenova
orcid: 0000-0002-6873-2967
- first_name: 'Martin '
full_name: 'Krejca, Martin '
last_name: Krejca
- first_name: Per Kristian
full_name: Lehre, Per Kristian
last_name: Lehre
- first_name: Timo
full_name: Kötzing, Timo
last_name: Kötzing
citation:
ama: 'Trubenova B, Krejca M, Lehre PK, Kötzing T. Surfing on the seascape: Adaptation
in a changing environment. Evolution. 2019;73(7):1356-1374. doi:10.1111/evo.13784'
apa: 'Trubenova, B., Krejca, M., Lehre, P. K., & Kötzing, T. (2019). Surfing
on the seascape: Adaptation in a changing environment. Evolution. Wiley.
https://doi.org/10.1111/evo.13784'
chicago: 'Trubenova, Barbora, Martin Krejca, Per Kristian Lehre, and Timo Kötzing.
“Surfing on the Seascape: Adaptation in a Changing Environment.” Evolution.
Wiley, 2019. https://doi.org/10.1111/evo.13784.'
ieee: 'B. Trubenova, M. Krejca, P. K. Lehre, and T. Kötzing, “Surfing on the seascape:
Adaptation in a changing environment,” Evolution, vol. 73, no. 7. Wiley,
pp. 1356–1374, 2019.'
ista: 'Trubenova B, Krejca M, Lehre PK, Kötzing T. 2019. Surfing on the seascape:
Adaptation in a changing environment. Evolution. 73(7), 1356–1374.'
mla: 'Trubenova, Barbora, et al. “Surfing on the Seascape: Adaptation in a Changing
Environment.” Evolution, vol. 73, no. 7, Wiley, 2019, pp. 1356–74, doi:10.1111/evo.13784.'
short: B. Trubenova, M. Krejca, P.K. Lehre, T. Kötzing, Evolution 73 (2019) 1356–1374.
date_created: 2019-07-14T21:59:20Z
date_published: 2019-07-01T00:00:00Z
date_updated: 2025-04-14T07:22:28Z
day: '01'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1111/evo.13784
ec_funded: 1
external_id:
isi:
- '000474031600001'
file:
- access_level: open_access
checksum: 9831ca65def2d62498c7b08338b6d237
content_type: application/pdf
creator: apreinsp
date_created: 2019-07-16T06:08:31Z
date_updated: 2020-07-14T12:47:34Z
file_id: '6643'
file_name: 2019_Evolution_TrubenovaBarbora.pdf
file_size: 815416
relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: ' 73'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1356-1374
project:
- _id: 25AEDD42-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '704172'
name: Rate of Adaptation in Changing Environment
- _id: 25B1EC9E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618091'
name: Speed of Adaptation in Population Genetics and Evolutionary Computation
publication: Evolution
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Surfing on the seascape: Adaptation in a changing environment'
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 73
year: '2019'
...
---
_id: '6638'
abstract:
- lang: eng
text: The crossing number of a graph G is the least number of crossings over all
possible drawings of G. We present a structural characterization of graphs with
crossing number one.
article_processing_charge: No
arxiv: 1
author:
- first_name: 'André '
full_name: 'Silva, André '
last_name: Silva
- first_name: Alan M
full_name: Arroyo Guevara, Alan M
id: 3207FDC6-F248-11E8-B48F-1D18A9856A87
last_name: Arroyo Guevara
orcid: 0000-0003-2401-8670
- first_name: Bruce
full_name: Richter, Bruce
last_name: Richter
- first_name: Orlando
full_name: Lee, Orlando
last_name: Lee
citation:
ama: Silva A, Arroyo Guevara AM, Richter B, Lee O. Graphs with at most one crossing.
Discrete Mathematics. 2019;342(11):3201-3207. doi:10.1016/j.disc.2019.06.031
apa: Silva, A., Arroyo Guevara, A. M., Richter, B., & Lee, O. (2019). Graphs
with at most one crossing. Discrete Mathematics. Elsevier. https://doi.org/10.1016/j.disc.2019.06.031
chicago: Silva, André , Alan M Arroyo Guevara, Bruce Richter, and Orlando Lee. “Graphs
with at Most One Crossing.” Discrete Mathematics. Elsevier, 2019. https://doi.org/10.1016/j.disc.2019.06.031.
ieee: A. Silva, A. M. Arroyo Guevara, B. Richter, and O. Lee, “Graphs with at most
one crossing,” Discrete Mathematics, vol. 342, no. 11. Elsevier, pp. 3201–3207,
2019.
ista: Silva A, Arroyo Guevara AM, Richter B, Lee O. 2019. Graphs with at most one
crossing. Discrete Mathematics. 342(11), 3201–3207.
mla: Silva, André, et al. “Graphs with at Most One Crossing.” Discrete Mathematics,
vol. 342, no. 11, Elsevier, 2019, pp. 3201–07, doi:10.1016/j.disc.2019.06.031.
short: A. Silva, A.M. Arroyo Guevara, B. Richter, O. Lee, Discrete Mathematics 342
(2019) 3201–3207.
date_created: 2019-07-14T21:59:20Z
date_published: 2019-11-01T00:00:00Z
date_updated: 2025-04-14T07:44:06Z
day: '01'
department:
- _id: UlWa
doi: 10.1016/j.disc.2019.06.031
ec_funded: 1
external_id:
arxiv:
- '1901.09955'
isi:
- '000486358100025'
intvolume: ' 342'
isi: 1
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1901.09955
month: '11'
oa: 1
oa_version: Preprint
page: 3201-3207
project:
- _id: 26366136-B435-11E9-9278-68D0E5697425
name: Reglas de Conectividad funcional en el hipocampo
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Discrete Mathematics
publication_identifier:
issn:
- 0012-365X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Graphs with at most one crossing
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 342
year: '2019'
...
---
_id: '6642'
abstract:
- lang: eng
text: We present a thermodynamically based approach to the design of models for
viscoelastic fluids with stress diffusion effect. In particular, we show how to
add a stress diffusion term to some standard viscoelastic rate-type models (Giesekus,
FENE-P, Johnson–Segalman, Phan-Thien–Tanner and Bautista–Manero–Puig) so that
the resulting models with the added stress diffusion term are thermodynamically
consistent in the sense that they obey the first and the second law of thermodynamics.
We point out the potential applications of the provided thermodynamical background
in the study of flows of fluids described by the proposed models.
article_number: '020002'
article_processing_charge: No
arxiv: 1
author:
- first_name: Mark
full_name: Dostalík, Mark
last_name: Dostalík
- first_name: Vít
full_name: Pruša, Vít
last_name: Pruša
- first_name: Tomas
full_name: Skrivan, Tomas
id: 486A5A46-F248-11E8-B48F-1D18A9856A87
last_name: Skrivan
citation:
ama: 'Dostalík M, Pruša V, Skrivan T. On diffusive variants of some classical viscoelastic
rate-type models. In: AIP Conference Proceedings. Vol 2107. AIP Publishing;
2019. doi:10.1063/1.5109493'
apa: 'Dostalík, M., Pruša, V., & Skrivan, T. (2019). On diffusive variants of
some classical viscoelastic rate-type models. In AIP Conference Proceedings
(Vol. 2107). Zlin, Czech Republic: AIP Publishing. https://doi.org/10.1063/1.5109493'
chicago: Dostalík, Mark, Vít Pruša, and Tomas Skrivan. “On Diffusive Variants of
Some Classical Viscoelastic Rate-Type Models.” In AIP Conference Proceedings,
Vol. 2107. AIP Publishing, 2019. https://doi.org/10.1063/1.5109493.
ieee: M. Dostalík, V. Pruša, and T. Skrivan, “On diffusive variants of some classical
viscoelastic rate-type models,” in AIP Conference Proceedings, Zlin, Czech
Republic, 2019, vol. 2107.
ista: Dostalík M, Pruša V, Skrivan T. 2019. On diffusive variants of some classical
viscoelastic rate-type models. AIP Conference Proceedings. 8th International Conference
on Novel Trends in Rheology vol. 2107, 020002.
mla: Dostalík, Mark, et al. “On Diffusive Variants of Some Classical Viscoelastic
Rate-Type Models.” AIP Conference Proceedings, vol. 2107, 020002, AIP Publishing,
2019, doi:10.1063/1.5109493.
short: M. Dostalík, V. Pruša, T. Skrivan, in:, AIP Conference Proceedings, AIP Publishing,
2019.
conference:
end_date: 2019-07-31
location: Zlin, Czech Republic
name: 8th International Conference on Novel Trends in Rheology
start_date: 2019-07-30
date_created: 2019-07-15T10:07:09Z
date_published: 2019-05-21T00:00:00Z
date_updated: 2024-02-28T13:01:28Z
day: '21'
department:
- _id: ChWo
doi: 10.1063/1.5109493
external_id:
arxiv:
- '1902.07983'
isi:
- '000479303100002'
intvolume: ' 2107'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1902.07983
month: '05'
oa: 1
oa_version: Preprint
publication: AIP Conference Proceedings
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: On diffusive variants of some classical viscoelastic rate-type models
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2107
year: '2019'
...
---
_id: '6646'
abstract:
- lang: eng
text: We demonstrate robust retention of valley coherence and its control via polariton
pseudospin precession through the optical TE-TM splitting in bilayer WS2 microcavity
exciton polaritons at room temperature.
article_number: paper JTu2A.52
article_processing_charge: No
author:
- first_name: Mandeep
full_name: Khatoniar, Mandeep
last_name: Khatoniar
- first_name: Nicholas
full_name: Yama, Nicholas
last_name: Yama
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Sriram
full_name: Guddala, Sriram
last_name: Guddala
- first_name: Pouyan
full_name: Ghaemi, Pouyan
last_name: Ghaemi
- first_name: Vinod
full_name: Menon, Vinod
last_name: Menon
citation:
ama: 'Khatoniar M, Yama N, Ghazaryan A, Guddala S, Ghaemi P, Menon V. Room temperature
control of valley coherence in bilayer WS2 exciton polaritons. In: CLEO: Applications
and Technology. Optica Publishing Group; 2019. doi:10.1364/cleo_at.2019.jtu2a.52'
apa: 'Khatoniar, M., Yama, N., Ghazaryan, A., Guddala, S., Ghaemi, P., & Menon,
V. (2019). Room temperature control of valley coherence in bilayer WS2 exciton
polaritons. In CLEO: Applications and Technology. San Jose, CA, United
States: Optica Publishing Group. https://doi.org/10.1364/cleo_at.2019.jtu2a.52'
chicago: 'Khatoniar, Mandeep, Nicholas Yama, Areg Ghazaryan, Sriram Guddala, Pouyan
Ghaemi, and Vinod Menon. “Room Temperature Control of Valley Coherence in Bilayer
WS2 Exciton Polaritons.” In CLEO: Applications and Technology. Optica Publishing
Group, 2019. https://doi.org/10.1364/cleo_at.2019.jtu2a.52.'
ieee: 'M. Khatoniar, N. Yama, A. Ghazaryan, S. Guddala, P. Ghaemi, and V. Menon,
“Room temperature control of valley coherence in bilayer WS2 exciton polaritons,”
in CLEO: Applications and Technology, San Jose, CA, United States, 2019.'
ista: 'Khatoniar M, Yama N, Ghazaryan A, Guddala S, Ghaemi P, Menon V. 2019. Room
temperature control of valley coherence in bilayer WS2 exciton polaritons. CLEO:
Applications and Technology. CLEO: Conference on Lasers and Electro-Optics, paper
JTu2A.52.'
mla: 'Khatoniar, Mandeep, et al. “Room Temperature Control of Valley Coherence in
Bilayer WS2 Exciton Polaritons.” CLEO: Applications and Technology, paper
JTu2A.52, Optica Publishing Group, 2019, doi:10.1364/cleo_at.2019.jtu2a.52.'
short: 'M. Khatoniar, N. Yama, A. Ghazaryan, S. Guddala, P. Ghaemi, V. Menon, in:,
CLEO: Applications and Technology, Optica Publishing Group, 2019.'
conference:
end_date: 2019-05-10
location: San Jose, CA, United States
name: 'CLEO: Conference on Lasers and Electro-Optics'
start_date: 2019-05-05
date_created: 2019-07-17T09:40:44Z
date_published: 2019-05-01T00:00:00Z
date_updated: 2025-05-14T11:09:35Z
day: '01'
department:
- _id: MiLe
doi: 10.1364/cleo_at.2019.jtu2a.52
language:
- iso: eng
month: '05'
oa_version: None
publication: 'CLEO: Applications and Technology'
publication_identifier:
isbn:
- '9781943580576'
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: Room temperature control of valley coherence in bilayer WS2 exciton polaritons
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '6647'
abstract:
- lang: eng
text: The Tverberg theorem is one of the cornerstones of discrete geometry. It states
that, given a set X of at least (d+1)(r-1)+1 points in R^d, one can find a partition
X=X_1 cup ... cup X_r of X, such that the convex hulls of the X_i, i=1,...,r,
all share a common point. In this paper, we prove a strengthening of this theorem
that guarantees a partition which, in addition to the above, has the property
that the boundaries of full-dimensional convex hulls have pairwise nonempty intersections.
Possible generalizations and algorithmic aspects are also discussed. As a concrete
application, we show that any n points in the plane in general position span floor[n/3]
vertex-disjoint triangles that are pairwise crossing, meaning that their boundaries
have pairwise nonempty intersections; this number is clearly best possible. A
previous result of Alvarez-Rebollar et al. guarantees floor[n/6] pairwise crossing
triangles. Our result generalizes to a result about simplices in R^d,d >=2.
alternative_title:
- LIPIcs
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: Bernd
full_name: Gärtner, Bernd
last_name: Gärtner
- first_name: Andrey
full_name: Kupavskii, Andrey
last_name: Kupavskii
- first_name: Pavel
full_name: Valtr, Pavel
last_name: Valtr
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. The crossing Tverberg
theorem. In: 35th International Symposium on Computational Geometry. Vol
129. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2019:38:1-38:13. doi:10.4230/LIPICS.SOCG.2019.38'
apa: 'Fulek, R., Gärtner, B., Kupavskii, A., Valtr, P., & Wagner, U. (2019).
The crossing Tverberg theorem. In 35th International Symposium on Computational
Geometry (Vol. 129, p. 38:1-38:13). Portland, OR, United States: Schloss Dagstuhl
- Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPICS.SOCG.2019.38'
chicago: Fulek, Radoslav, Bernd Gärtner, Andrey Kupavskii, Pavel Valtr, and Uli
Wagner. “The Crossing Tverberg Theorem.” In 35th International Symposium on
Computational Geometry, 129:38:1-38:13. Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2019. https://doi.org/10.4230/LIPICS.SOCG.2019.38.
ieee: R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, and U. Wagner, “The crossing
Tverberg theorem,” in 35th International Symposium on Computational Geometry,
Portland, OR, United States, 2019, vol. 129, p. 38:1-38:13.
ista: 'Fulek R, Gärtner B, Kupavskii A, Valtr P, Wagner U. 2019. The crossing Tverberg
theorem. 35th International Symposium on Computational Geometry. SoCG 2019: Symposium
on Computational Geometry, LIPIcs, vol. 129, 38:1-38:13.'
mla: Fulek, Radoslav, et al. “The Crossing Tverberg Theorem.” 35th International
Symposium on Computational Geometry, vol. 129, Schloss Dagstuhl - Leibniz-Zentrum
für Informatik, 2019, p. 38:1-38:13, doi:10.4230/LIPICS.SOCG.2019.38.
short: R. Fulek, B. Gärtner, A. Kupavskii, P. Valtr, U. Wagner, in:, 35th International
Symposium on Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2019, p. 38:1-38:13.
conference:
end_date: 2019-06-21
location: Portland, OR, United States
name: 'SoCG 2019: Symposium on Computational Geometry'
start_date: 2019-06-18
corr_author: '1'
date_created: 2019-07-17T10:35:04Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2025-04-14T13:52:36Z
day: '01'
ddc:
- '000'
- '510'
department:
- _id: UlWa
doi: 10.4230/LIPICS.SOCG.2019.38
external_id:
arxiv:
- '1812.04911'
file:
- access_level: open_access
checksum: d6d017f8b41291b94d102294fa96ae9c
content_type: application/pdf
creator: dernst
date_created: 2019-07-24T06:54:52Z
date_updated: 2020-07-14T12:47:35Z
file_id: '6667'
file_name: 2019_LIPICS_Fulek.pdf
file_size: 559837
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 129'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 38:1-38:13
project:
- _id: 261FA626-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02281
name: Eliminating intersections in drawings of graphs
publication: 35th International Symposium on Computational Geometry
publication_identifier:
isbn:
- '9783959771047'
issn:
- 1868-8969
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
related_material:
record:
- id: '13974'
relation: later_version
status: public
scopus_import: 1
status: public
title: The crossing Tverberg theorem
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: 129
year: '2019'
...
---
_id: '6648'
abstract:
- lang: eng
text: "Various kinds of data are routinely represented as discrete probability distributions.
Examples include text documents summarized by histograms of word occurrences and
images represented as histograms of oriented gradients. Viewing a discrete probability
distribution as a point in the standard simplex of the appropriate dimension,
we can understand collections of such objects in geometric and topological terms.
Importantly, instead of using the standard Euclidean distance, we look into dissimilarity
measures with information-theoretic justification, and we develop the theory\r\nneeded
for applying topological data analysis in this setting. In doing so, we emphasize
constructions that enable the usage of existing computational topology software
in this context."
alternative_title:
- LIPIcs
arxiv: 1
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. Topological data analysis in information
space. In: 35th International Symposium on Computational Geometry. Vol
129. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2019:31:1-31:14. doi:10.4230/LIPICS.SOCG.2019.31'
apa: 'Edelsbrunner, H., Virk, Z., & Wagner, H. (2019). Topological data analysis
in information space. In 35th International Symposium on Computational Geometry
(Vol. 129, p. 31:1-31:14). Portland, OR, United States: Schloss Dagstuhl - Leibniz-Zentrum
für Informatik. https://doi.org/10.4230/LIPICS.SOCG.2019.31'
chicago: Edelsbrunner, Herbert, Ziga Virk, and Hubert Wagner. “Topological Data
Analysis in Information Space.” In 35th International Symposium on Computational
Geometry, 129:31:1-31:14. Schloss Dagstuhl - Leibniz-Zentrum für Informatik,
2019. https://doi.org/10.4230/LIPICS.SOCG.2019.31.
ieee: H. Edelsbrunner, Z. Virk, and H. Wagner, “Topological data analysis in information
space,” in 35th International Symposium on Computational Geometry, Portland,
OR, United States, 2019, vol. 129, p. 31:1-31:14.
ista: 'Edelsbrunner H, Virk Z, Wagner H. 2019. Topological data analysis in information
space. 35th International Symposium on Computational Geometry. SoCG 2019: Symposium
on Computational Geometry, LIPIcs, vol. 129, 31:1-31:14.'
mla: Edelsbrunner, Herbert, et al. “Topological Data Analysis in Information Space.”
35th International Symposium on Computational Geometry, vol. 129, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2019, p. 31:1-31:14, doi:10.4230/LIPICS.SOCG.2019.31.
short: H. Edelsbrunner, Z. Virk, H. Wagner, in:, 35th International Symposium on
Computational Geometry, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019,
p. 31:1-31:14.
conference:
end_date: 2019-06-21
location: Portland, OR, United States
name: 'SoCG 2019: Symposium on Computational Geometry'
start_date: 2019-06-18
corr_author: '1'
date_created: 2019-07-17T10:36:09Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2024-10-09T20:58:55Z
day: '01'
ddc:
- '510'
department:
- _id: HeEd
doi: 10.4230/LIPICS.SOCG.2019.31
external_id:
arxiv:
- '1903.08510'
file:
- access_level: open_access
checksum: 8ec8720730d4c789bf7b06540f1c29f4
content_type: application/pdf
creator: dernst
date_created: 2019-07-24T06:40:01Z
date_updated: 2020-07-14T12:47:35Z
file_id: '6666'
file_name: 2019_LIPICS_Edelsbrunner.pdf
file_size: 1355179
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 129'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 31:1-31:14
project:
- _id: 2561EBF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I02979-N35
name: Persistence and stability of geometric complexes
publication: 35th International Symposium on Computational Geometry
publication_identifier:
isbn:
- '9783959771047'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
quality_controlled: '1'
scopus_import: 1
status: public
title: Topological data analysis in information space
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: 129
year: '2019'
...
---
_id: '6650'
abstract:
- lang: eng
text: We propose a novel technique for the automatic design of molds to cast highly
complex shapes. The technique generates composite, two-piece molds. Each mold
piece is made up of a hard plastic shell and a flexible silicone part. Thanks
to the thin, soft, and smartly shaped silicone part, which is kept in place by
a hard plastic shell, we can cast objects of unprecedented complexity. An innovative
algorithm based on a volumetric analysis defines the layout of the internal cuts
in the silicone mold part. Our approach can robustly handle thin protruding features
and intertwined topologies that have caused previous methods to fail. We compare
our results with state of the art techniques, and we demonstrate the casting of
shapes with extremely complex geometry.
article_number: '110'
article_processing_charge: No
author:
- first_name: Thomas
full_name: Alderighi, Thomas
last_name: Alderighi
- first_name: Luigi
full_name: Malomo, Luigi
last_name: Malomo
- first_name: Daniela
full_name: Giorgi, Daniela
last_name: Giorgi
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Paolo
full_name: Cignoni, Paolo
last_name: Cignoni
- first_name: Nico
full_name: Pietroni, Nico
last_name: Pietroni
citation:
ama: Alderighi T, Malomo L, Giorgi D, Bickel B, Cignoni P, Pietroni N. Volume-aware
design of composite molds. ACM Transactions on Graphics. 2019;38(4). doi:10.1145/3306346.3322981
apa: Alderighi, T., Malomo, L., Giorgi, D., Bickel, B., Cignoni, P., & Pietroni,
N. (2019). Volume-aware design of composite molds. ACM Transactions on Graphics.
ACM. https://doi.org/10.1145/3306346.3322981
chicago: Alderighi, Thomas, Luigi Malomo, Daniela Giorgi, Bernd Bickel, Paolo Cignoni,
and Nico Pietroni. “Volume-Aware Design of Composite Molds.” ACM Transactions
on Graphics. ACM, 2019. https://doi.org/10.1145/3306346.3322981.
ieee: T. Alderighi, L. Malomo, D. Giorgi, B. Bickel, P. Cignoni, and N. Pietroni,
“Volume-aware design of composite molds,” ACM Transactions on Graphics,
vol. 38, no. 4. ACM, 2019.
ista: Alderighi T, Malomo L, Giorgi D, Bickel B, Cignoni P, Pietroni N. 2019. Volume-aware
design of composite molds. ACM Transactions on Graphics. 38(4), 110.
mla: Alderighi, Thomas, et al. “Volume-Aware Design of Composite Molds.” ACM
Transactions on Graphics, vol. 38, no. 4, 110, ACM, 2019, doi:10.1145/3306346.3322981.
short: T. Alderighi, L. Malomo, D. Giorgi, B. Bickel, P. Cignoni, N. Pietroni, ACM
Transactions on Graphics 38 (2019).
date_created: 2019-07-19T06:18:15Z
date_published: 2019-07-01T00:00:00Z
date_updated: 2025-04-14T07:28:58Z
day: '01'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1145/3306346.3322981
ec_funded: 1
external_id:
isi:
- '000475740600084'
file:
- access_level: open_access
checksum: b4562af94672b44d2a501046427412af
content_type: application/pdf
creator: dernst
date_created: 2019-07-19T06:18:53Z
date_updated: 2020-07-14T12:47:35Z
file_id: '6651'
file_name: 2019_ACM_Alderighi_AuthorVersion.pdf
file_size: 74316182
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 38'
isi: 1
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publication: ACM Transactions on Graphics
publication_identifier:
issn:
- 0730-0301
publication_status: published
publisher: ACM
quality_controlled: '1'
related_material:
link:
- description: YouTube Video
relation: supplementary_material
url: https://youtu.be/SO349S8-x_w
scopus_import: '1'
status: public
title: Volume-aware design of composite molds
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 38
year: '2019'
...
---
OA_embargo: 6 months
OA_place: publisher
OA_type: hybrid
_id: '6658'
abstract:
- lang: eng
text: 'New genes are a major source of novelties, and a disproportionate amount
of them are known to show testis expression in later phases of male gametogenesis
in different groups such as mammals and plants. Here, we propose that this enhanced
expression is a consequence of haploid selection during the latter stages of male
gametogenesis. Because emerging adaptive mutations will be fixed faster if their
phenotypes are expressed by haploid rather than diploid genotypes, new genes with
advantageous functions arising during this unique stage of development have a
better chance to become fixed. To test this hypothesis, expression levels of genes
of differing evolutionary age were examined at various stages of Drosophila spermatogenesis.
We found, consistent with a model based on haploid selection, that new Drosophila
genes are both expressed in later haploid phases of spermatogenesis and harbor
a significant enrichment of adaptive mutations. Additionally, the observed overexpression
of new genes in the latter phases of spermatogenesis was limited to the autosomes.
Because all male cells exhibit hemizygous expression for X-linked genes (and therefore
effectively haploid), there is no expectation that selection acting on late spermatogenesis
will have a different effect on X-linked genes in comparison to initial diploid
phases. Together, our proposed hypothesis and the analyzed data suggest that natural
selection in haploid cells elucidates several aspects of the origin of new genes
by explaining the general prevalence of their testis expression, and a parsimonious
solution for new alleles to avoid being lost by genetic drift or pseudogenization. '
article_processing_charge: No
article_type: original
author:
- first_name: Julia
full_name: Raices, Julia
id: 3EE67F22-F248-11E8-B48F-1D18A9856A87
last_name: Raices
- first_name: Paulo
full_name: Otto, Paulo
last_name: Otto
- first_name: Maria
full_name: Vibranovski, Maria
last_name: Vibranovski
citation:
ama: Raices J, Otto P, Vibranovski M. Haploid selection drives new gene male germline
expression. Genome Research. 2019;29(7):1115-1122. doi:10.1101/gr.238824.118
apa: Raices, J., Otto, P., & Vibranovski, M. (2019). Haploid selection drives
new gene male germline expression. Genome Research. Cold Spring Harbor
Laboratory Press. https://doi.org/10.1101/gr.238824.118
chicago: Raices, Julia, Paulo Otto, and Maria Vibranovski. “Haploid Selection Drives
New Gene Male Germline Expression.” Genome Research. Cold Spring Harbor
Laboratory Press, 2019. https://doi.org/10.1101/gr.238824.118.
ieee: J. Raices, P. Otto, and M. Vibranovski, “Haploid selection drives new gene
male germline expression,” Genome Research, vol. 29, no. 7. Cold Spring
Harbor Laboratory Press, pp. 1115–1122, 2019.
ista: Raices J, Otto P, Vibranovski M. 2019. Haploid selection drives new gene male
germline expression. Genome Research. 29(7), 1115–1122.
mla: Raices, Julia, et al. “Haploid Selection Drives New Gene Male Germline Expression.”
Genome Research, vol. 29, no. 7, Cold Spring Harbor Laboratory Press, 2019,
pp. 1115–22, doi:10.1101/gr.238824.118.
short: J. Raices, P. Otto, M. Vibranovski, Genome Research 29 (2019) 1115–1122.
date_created: 2019-07-21T21:59:15Z
date_published: 2019-07-01T00:00:00Z
date_updated: 2025-05-20T06:25:39Z
day: '01'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.1101/gr.238824.118
external_id:
isi:
- '000473730600007'
file:
- access_level: open_access
checksum: 4636f03a6750f90b88bf2bc3eb9d71ae
content_type: application/pdf
creator: apreinsp
date_created: 2019-07-24T08:05:56Z
date_updated: 2020-07-14T12:47:35Z
file_id: '6670'
file_name: 2019_GenomeResearch_Raices.pdf
file_size: 2319022
relation: main_file
file_date_updated: 2020-07-14T12:47:35Z
has_accepted_license: '1'
intvolume: ' 29'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1115-1122
publication: Genome Research
publication_identifier:
eissn:
- ' 1549-5469'
issn:
- 1088-9051
publication_status: published
publisher: Cold Spring Harbor Laboratory Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Haploid selection drives new gene male germline expression
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2019'
...
---
OA_type: free access
_id: '6659'
abstract:
- lang: eng
text: Chemical labeling of proteins with synthetic molecular probes offers the possibility
to probe the functions of proteins of interest in living cells. However, the methods
for covalently labeling targeted proteins using complementary peptide tag-probe
pairs are still limited, irrespective of the versatility of such pairs in biological
research. Herein, we report the new CysHis tag-Ni(II) probe pair for the specific
covalent labeling of proteins. A broad-range evaluation of the reactivity profiles
of the probe and the CysHis peptide tag afforded a tag-probe pair with an optimized
and high labeling selectivity and reactivity. In particular, the labeling specificity
of this pair was notably improved compared to the previously reported one. This
pair was successfully utilized for the fluorescence imaging of membrane proteins
on the surfaces of living cells, demonstrating its potential utility in biological
research.
acknowledgement: his work was supported by the Grant-in-Aid for Scientific Research
B (JSPS KAKENHI grant no. JP17H03090 to A. O.); the Scientific Research on Innovative
Areas “Chemistry for Multimolecular Crowding Biosystems” (JSPS KAKENHI grant no.
JP17H06349 to A. O.); and the European Union (European Research Council Advanced
grant no. 694539 and Human Brain Project Ref. 720270 to R. S.). A. O. acknowledges
the financial support of the Takeda Science Foundation.
article_processing_charge: No
article_type: original
author:
- first_name: Naoki
full_name: Zenmyo, Naoki
last_name: Zenmyo
- first_name: Hiroki
full_name: Tokumaru, Hiroki
last_name: Tokumaru
- first_name: Shohei
full_name: Uchinomiya, Shohei
last_name: Uchinomiya
- first_name: Hirokazu
full_name: Fuchida, Hirokazu
last_name: Fuchida
- first_name: Shigekazu
full_name: Tabata, Shigekazu
id: 4427179E-F248-11E8-B48F-1D18A9856A87
last_name: Tabata
- first_name: Itaru
full_name: Hamachi, Itaru
last_name: Hamachi
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Akio
full_name: Ojida, Akio
last_name: Ojida
citation:
ama: Zenmyo N, Tokumaru H, Uchinomiya S, et al. Optimized reaction pair of the CysHis
tag and Ni(II)-NTA probe for highly selective chemical labeling of membrane proteins.
Bulletin of the Chemical Society of Japan. 2019;92(5):995-1000. doi:10.1246/bcsj.20190034
apa: Zenmyo, N., Tokumaru, H., Uchinomiya, S., Fuchida, H., Tabata, S., Hamachi,
I., … Ojida, A. (2019). Optimized reaction pair of the CysHis tag and Ni(II)-NTA
probe for highly selective chemical labeling of membrane proteins. Bulletin
of the Chemical Society of Japan. Bulletin of the Chemical Society of Japan.
https://doi.org/10.1246/bcsj.20190034
chicago: Zenmyo, Naoki, Hiroki Tokumaru, Shohei Uchinomiya, Hirokazu Fuchida, Shigekazu
Tabata, Itaru Hamachi, Ryuichi Shigemoto, and Akio Ojida. “Optimized Reaction
Pair of the CysHis Tag and Ni(II)-NTA Probe for Highly Selective Chemical Labeling
of Membrane Proteins.” Bulletin of the Chemical Society of Japan. Bulletin
of the Chemical Society of Japan, 2019. https://doi.org/10.1246/bcsj.20190034.
ieee: N. Zenmyo et al., “Optimized reaction pair of the CysHis tag and Ni(II)-NTA
probe for highly selective chemical labeling of membrane proteins,” Bulletin
of the Chemical Society of Japan, vol. 92, no. 5. Bulletin of the Chemical
Society of Japan, pp. 995–1000, 2019.
ista: Zenmyo N, Tokumaru H, Uchinomiya S, Fuchida H, Tabata S, Hamachi I, Shigemoto
R, Ojida A. 2019. Optimized reaction pair of the CysHis tag and Ni(II)-NTA probe
for highly selective chemical labeling of membrane proteins. Bulletin of the Chemical
Society of Japan. 92(5), 995–1000.
mla: Zenmyo, Naoki, et al. “Optimized Reaction Pair of the CysHis Tag and Ni(II)-NTA
Probe for Highly Selective Chemical Labeling of Membrane Proteins.” Bulletin
of the Chemical Society of Japan, vol. 92, no. 5, Bulletin of the Chemical
Society of Japan, 2019, pp. 995–1000, doi:10.1246/bcsj.20190034.
short: N. Zenmyo, H. Tokumaru, S. Uchinomiya, H. Fuchida, S. Tabata, I. Hamachi,
R. Shigemoto, A. Ojida, Bulletin of the Chemical Society of Japan 92 (2019) 995–1000.
date_created: 2019-07-21T21:59:16Z
date_published: 2019-05-15T00:00:00Z
date_updated: 2025-09-10T10:37:21Z
day: '15'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1246/bcsj.20190034
ec_funded: 1
external_id:
isi:
- '000468101800007'
has_accepted_license: '1'
intvolume: ' 92'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1246/bcsj.20190034
month: '05'
oa: 1
oa_version: Published Version
page: 995-1000
project:
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
publication: Bulletin of the Chemical Society of Japan
publication_identifier:
issn:
- 0009-2673
publication_status: published
publisher: Bulletin of the Chemical Society of Japan
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optimized reaction pair of the CysHis tag and Ni(II)-NTA probe for highly selective
chemical labeling of membrane proteins
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 92
year: '2019'
...
---
_id: '6660'
abstract:
- lang: eng
text: "Commercially available full-color 3D printing allows for detailed control
of material deposition in a volume, but an exact reproduction of a target surface
appearance is hampered by the strong subsurface scattering that causes nontrivial
volumetric cross-talk at the print surface. Previous work showed how an iterative
optimization scheme based on accumulating absorptive materials at the surface
can be used to find a volumetric distribution of print materials that closely
approximates a given target appearance.\r\n\r\nIn this work, we first revisit
the assumption that pushing the absorptive materials to the surface results in
minimal volumetric cross-talk. We design a full-fledged optimization on a small
domain for this task and confirm this previously reported heuristic. Then, we
extend the above approach that is critically limited to color reproduction on
planar surfaces, to arbitrary 3D shapes. Our method enables high-fidelity color
texture reproduction on 3D prints by effectively compensating for internal light
scattering within arbitrarily shaped objects. In addition, we propose a content-aware
gamut mapping that significantly improves color reproduction for the pathological
case of thin geometric features. Using a wide range of sample objects with complex
textures and geometries, we demonstrate color reproduction whose fidelity is superior
to state-of-the-art drivers for color 3D printers."
article_number: '111'
article_processing_charge: No
author:
- first_name: Denis
full_name: Sumin, Denis
last_name: Sumin
- first_name: Tim
full_name: Weyrich, Tim
last_name: Weyrich
- first_name: Tobias
full_name: Rittig, Tobias
last_name: Rittig
- first_name: Vahid
full_name: Babaei, Vahid
last_name: Babaei
- first_name: Thomas
full_name: Nindel, Thomas
last_name: Nindel
- first_name: Alexander
full_name: Wilkie, Alexander
last_name: Wilkie
- first_name: Piotr
full_name: Didyk, Piotr
last_name: Didyk
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Jaroslav
full_name: Křivánek, Jaroslav
last_name: Křivánek
- first_name: Karol
full_name: Myszkowski, Karol
last_name: Myszkowski
citation:
ama: Sumin D, Weyrich T, Rittig T, et al. Geometry-aware scattering compensation
for 3D printing. ACM Transactions on Graphics. 2019;38(4). doi:10.1145/3306346.3322992
apa: Sumin, D., Weyrich, T., Rittig, T., Babaei, V., Nindel, T., Wilkie, A., … Myszkowski,
K. (2019). Geometry-aware scattering compensation for 3D printing. ACM Transactions
on Graphics. ACM. https://doi.org/10.1145/3306346.3322992
chicago: Sumin, Denis, Tim Weyrich, Tobias Rittig, Vahid Babaei, Thomas Nindel,
Alexander Wilkie, Piotr Didyk, Bernd Bickel, Jaroslav Křivánek, and Karol Myszkowski.
“Geometry-Aware Scattering Compensation for 3D Printing.” ACM Transactions
on Graphics. ACM, 2019. https://doi.org/10.1145/3306346.3322992.
ieee: D. Sumin et al., “Geometry-aware scattering compensation for 3D printing,”
ACM Transactions on Graphics, vol. 38, no. 4. ACM, 2019.
ista: Sumin D, Weyrich T, Rittig T, Babaei V, Nindel T, Wilkie A, Didyk P, Bickel
B, Křivánek J, Myszkowski K. 2019. Geometry-aware scattering compensation for
3D printing. ACM Transactions on Graphics. 38(4), 111.
mla: Sumin, Denis, et al. “Geometry-Aware Scattering Compensation for 3D Printing.”
ACM Transactions on Graphics, vol. 38, no. 4, 111, ACM, 2019, doi:10.1145/3306346.3322992.
short: D. Sumin, T. Weyrich, T. Rittig, V. Babaei, T. Nindel, A. Wilkie, P. Didyk,
B. Bickel, J. Křivánek, K. Myszkowski, ACM Transactions on Graphics 38 (2019).
date_created: 2019-07-22T07:22:28Z
date_published: 2019-07-04T00:00:00Z
date_updated: 2025-03-31T15:58:17Z
day: '04'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.1145/3306346.3322992
ec_funded: 1
external_id:
isi:
- '000475740600085'
file:
- access_level: open_access
checksum: 43c2019d6b48ed9c56e31686c4c2d1f5
content_type: application/pdf
creator: dernst
date_created: 2019-07-24T07:36:08Z
date_updated: 2020-07-14T12:47:36Z
file_id: '6669'
file_name: 2019_ACM_Sumin_AuthorVersion.pdf
file_size: 10109800
relation: main_file
- access_level: open_access
checksum: f80f365a04e35855fa467ea7ab26b16c
content_type: application/zip
creator: dernst
date_created: 2019-10-11T06:51:07Z
date_updated: 2020-07-14T12:47:36Z
file_id: '6938'
file_name: sumin19geometry-aware-suppl.zip
file_size: 11051245
relation: supplementary_material
file_date_updated: 2020-07-14T12:47:36Z
has_accepted_license: '1'
intvolume: ' 38'
isi: 1
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Submitted Version
project:
- _id: 2508E324-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '642841'
name: Distributed 3D Object Design
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publication: ACM Transactions on Graphics
publication_identifier:
issn:
- 0730-0301
publication_status: published
publisher: ACM
quality_controlled: '1'
scopus_import: '1'
status: public
title: Geometry-aware scattering compensation for 3D printing
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 38
year: '2019'
...
---
_id: '6662'
abstract:
- lang: eng
text: "In phase retrieval, we want to recover an unknown signal \U0001D465∈ℂ\U0001D451
from n quadratic measurements of the form \U0001D466\U0001D456=|⟨\U0001D44E\U0001D456,\U0001D465⟩|2+\U0001D464\U0001D456,
where \U0001D44E\U0001D456∈ℂ\U0001D451 are known sensing vectors and \U0001D464\U0001D456
is measurement noise. We ask the following weak recovery question: What is the
minimum number of measurements n needed to produce an estimator \U0001D465^(\U0001D466)
that is positively correlated with the signal \U0001D465? We consider the case
of Gaussian vectors \U0001D44E\U0001D44E\U0001D456. We prove that—in the high-dimensional
limit—a sharp phase transition takes place, and we locate the threshold in the
regime of vanishingly small noise. For \U0001D45B≤\U0001D451−\U0001D45C(\U0001D451),
no estimator can do significantly better than random and achieve a strictly positive
correlation. For \U0001D45B≥\U0001D451+\U0001D45C(\U0001D451), a simple spectral
estimator achieves a positive correlation. Surprisingly, numerical simulations
with the same spectral estimator demonstrate promising performance with realistic
sensing matrices. Spectral methods are used to initialize non-convex optimization
algorithms in phase retrieval, and our approach can boost the performance in this
setting as well. Our impossibility result is based on classical information-theoretic
arguments. The spectral algorithm computes the leading eigenvector of a weighted
empirical covariance matrix. We obtain a sharp characterization of the spectral
properties of this random matrix using tools from free probability and generalizing
a recent result by Lu and Li. Both the upper bound and lower bound generalize
beyond phase retrieval to measurements \U0001D466\U0001D456 produced according
to a generalized linear model. As a by-product of our analysis, we compare the
threshold of the proposed spectral method with that of a message passing algorithm."
article_type: original
arxiv: 1
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Andrea
full_name: Montanari, Andrea
last_name: Montanari
citation:
ama: Mondelli M, Montanari A. Fundamental limits of weak recovery with applications
to phase retrieval. Foundations of Computational Mathematics. 2019;19(3):703-773.
doi:10.1007/s10208-018-9395-y
apa: Mondelli, M., & Montanari, A. (2019). Fundamental limits of weak recovery
with applications to phase retrieval. Foundations of Computational Mathematics.
Springer. https://doi.org/10.1007/s10208-018-9395-y
chicago: Mondelli, Marco, and Andrea Montanari. “Fundamental Limits of Weak Recovery
with Applications to Phase Retrieval.” Foundations of Computational Mathematics.
Springer, 2019. https://doi.org/10.1007/s10208-018-9395-y.
ieee: M. Mondelli and A. Montanari, “Fundamental limits of weak recovery with applications
to phase retrieval,” Foundations of Computational Mathematics, vol. 19,
no. 3. Springer, pp. 703–773, 2019.
ista: Mondelli M, Montanari A. 2019. Fundamental limits of weak recovery with applications
to phase retrieval. Foundations of Computational Mathematics. 19(3), 703–773.
mla: Mondelli, Marco, and Andrea Montanari. “Fundamental Limits of Weak Recovery
with Applications to Phase Retrieval.” Foundations of Computational Mathematics,
vol. 19, no. 3, Springer, 2019, pp. 703–73, doi:10.1007/s10208-018-9395-y.
short: M. Mondelli, A. Montanari, Foundations of Computational Mathematics 19 (2019)
703–773.
date_created: 2019-07-22T13:23:48Z
date_published: 2019-06-01T00:00:00Z
date_updated: 2021-01-12T08:08:28Z
day: '01'
doi: 10.1007/s10208-018-9395-y
extern: '1'
external_id:
arxiv:
- '1708.05932'
intvolume: ' 19'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1708.05932
month: '06'
oa: 1
oa_version: Preprint
page: 703-773
publication: Foundations of Computational Mathematics
publication_identifier:
eissn:
- 1615-3383
publication_status: published
publisher: Springer
quality_controlled: '1'
status: public
title: Fundamental limits of weak recovery with applications to phase retrieval
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2019'
...