---
_id: '15239'
abstract:
- lang: eng
text: Using images from the Hubble Space Telescope Advanced Camera for Surveys,
we measure the rate of cooling of white dwarfs in the globular cluster 47 Tucanae
and compare it to modelled cooling curves. We examine the effects of the outer
convective envelope reaching the nearly isothermal degenerate core and the release
of latent heat during core crystallization on the white dwarf cooling rates. For
white dwarfs typical of 47 Tuc, the onset of these effects occur at similar times.
The latent heat released during crystallization is a small heat source. In contrast,
the heat reservoir of the degenerate core is substantially larger. When the convective
envelope reaches the nearly isothermal interior of the white dwarf, the star becomes
brighter than it would be in the absence of this effect. Our modelled cooling
curves that include this convective coupling closely match the observed luminosity
function of the white dwarfs in 47 Tuc.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alysa
full_name: Obertas, Alysa
last_name: Obertas
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: Jeremy
full_name: Heyl, Jeremy
last_name: Heyl
- first_name: Harvey
full_name: Richer, Harvey
last_name: Richer
- first_name: Jason
full_name: Kalirai, Jason
last_name: Kalirai
- first_name: Pier-Emmanuel
full_name: Tremblay, Pier-Emmanuel
last_name: Tremblay
citation:
ama: Obertas A, Caiazzo I, Heyl J, Richer H, Kalirai J, Tremblay P-E. The onset
of convective coupling and freezing in the white dwarfs of 47 Tucanae. Monthly
Notices of the Royal Astronomical Society. 2017;474(1):677-682. doi:10.1093/mnras/stx2759
apa: Obertas, A., Caiazzo, I., Heyl, J., Richer, H., Kalirai, J., & Tremblay,
P.-E. (2017). The onset of convective coupling and freezing in the white dwarfs
of 47 Tucanae. Monthly Notices of the Royal Astronomical Society. Oxford
University Press. https://doi.org/10.1093/mnras/stx2759
chicago: Obertas, Alysa, Ilaria Caiazzo, Jeremy Heyl, Harvey Richer, Jason Kalirai,
and Pier-Emmanuel Tremblay. “The Onset of Convective Coupling and Freezing in
the White Dwarfs of 47 Tucanae.” Monthly Notices of the Royal Astronomical
Society. Oxford University Press, 2017. https://doi.org/10.1093/mnras/stx2759.
ieee: A. Obertas, I. Caiazzo, J. Heyl, H. Richer, J. Kalirai, and P.-E. Tremblay,
“The onset of convective coupling and freezing in the white dwarfs of 47 Tucanae,”
Monthly Notices of the Royal Astronomical Society, vol. 474, no. 1. Oxford
University Press, pp. 677–682, 2017.
ista: Obertas A, Caiazzo I, Heyl J, Richer H, Kalirai J, Tremblay P-E. 2017. The
onset of convective coupling and freezing in the white dwarfs of 47 Tucanae. Monthly
Notices of the Royal Astronomical Society. 474(1), 677–682.
mla: Obertas, Alysa, et al. “The Onset of Convective Coupling and Freezing in the
White Dwarfs of 47 Tucanae.” Monthly Notices of the Royal Astronomical Society,
vol. 474, no. 1, Oxford University Press, 2017, pp. 677–82, doi:10.1093/mnras/stx2759.
short: A. Obertas, I. Caiazzo, J. Heyl, H. Richer, J. Kalirai, P.-E. Tremblay, Monthly
Notices of the Royal Astronomical Society 474 (2017) 677–682.
date_created: 2024-03-26T10:40:05Z
date_published: 2017-10-24T00:00:00Z
date_updated: 2024-04-08T07:04:10Z
day: '24'
doi: 10.1093/mnras/stx2759
extern: '1'
external_id:
arxiv:
- '1709.08097'
intvolume: ' 474'
issue: '1'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1709.08097
month: '10'
oa: 1
oa_version: Preprint
page: 677-682
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: The onset of convective coupling and freezing in the white dwarfs of 47 Tucanae
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 474
year: '2017'
...
---
_id: '15240'
abstract:
- lang: eng
text: "Multi-epoch observations with the Advanced Camera Survey and WFC3 on the
Hubble Space Telescope provide a unique and comprehensive probe of stellar dynamics
within 47 Tucanae. We confront analytic models of the globular cluster with the
observed stellar proper motions that probe along the main sequence from just above
0.8–0.1M⊙ as well as white dwarfs younger than 1 Gyr. One field lies just beyond
the half-light radius where dynamical models (e.g., lowered Maxwellian distributions)
make robust predictions for the stellar proper motions. The observed proper motions
in this outer field show evidence for anisotropy in the velocity distribution
as well as skewness; the latter is evidence of rotation. The measured velocity
dispersions and surface brightness distributions agree in detail with a rotating
anisotropic model of the stellar distribution function with mild dependence of
the proper-motion dispersion on mass. However, the best-fitting models underpredict
the rotation and skewness of the stellar velocities. In the second field, centered
on the core of the cluster, the mass segregation in proper motion is much stronger.
Nevertheless the model developed in the outer field can be extended inward by
taking this mass segregation into account in a heuristic fashion. The proper motions
of the main-sequence stars yield a mass estimate of the cluster of \r\n at a distance
of 4.7 kpc. By comparing the proper motions of a sample of giant and subgiant
stars with the observed radial velocities we estimate the distance to the cluster
kinematically to be 4.29 ± 0.47 kpc."
article_number: '186'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: J.
full_name: Heyl, J.
last_name: Heyl
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: H.
full_name: Richer, H.
last_name: Richer
- first_name: J.
full_name: Anderson, J.
last_name: Anderson
- first_name: J.
full_name: Kalirai, J.
last_name: Kalirai
- first_name: J.
full_name: Parada, J.
last_name: Parada
citation:
ama: 'Heyl J, Caiazzo I, Richer H, Anderson J, Kalirai J, Parada J. Deep HST imaging
in 47 Tucanae: A global dynamical model. The Astrophysical Journal. 2017;850(2).
doi:10.3847/1538-4357/aa974f'
apa: 'Heyl, J., Caiazzo, I., Richer, H., Anderson, J., Kalirai, J., & Parada,
J. (2017). Deep HST imaging in 47 Tucanae: A global dynamical model. The Astrophysical
Journal. American Astronomical Society. https://doi.org/10.3847/1538-4357/aa974f'
chicago: 'Heyl, J., Ilaria Caiazzo, H. Richer, J. Anderson, J. Kalirai, and J. Parada.
“Deep HST Imaging in 47 Tucanae: A Global Dynamical Model.” The Astrophysical
Journal. American Astronomical Society, 2017. https://doi.org/10.3847/1538-4357/aa974f.'
ieee: 'J. Heyl, I. Caiazzo, H. Richer, J. Anderson, J. Kalirai, and J. Parada, “Deep
HST imaging in 47 Tucanae: A global dynamical model,” The Astrophysical Journal,
vol. 850, no. 2. American Astronomical Society, 2017.'
ista: 'Heyl J, Caiazzo I, Richer H, Anderson J, Kalirai J, Parada J. 2017. Deep
HST imaging in 47 Tucanae: A global dynamical model. The Astrophysical Journal.
850(2), 186.'
mla: 'Heyl, J., et al. “Deep HST Imaging in 47 Tucanae: A Global Dynamical Model.”
The Astrophysical Journal, vol. 850, no. 2, 186, American Astronomical
Society, 2017, doi:10.3847/1538-4357/aa974f.'
short: J. Heyl, I. Caiazzo, H. Richer, J. Anderson, J. Kalirai, J. Parada, The Astrophysical
Journal 850 (2017).
date_created: 2024-03-26T10:40:23Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2024-04-08T07:04:35Z
day: '01'
doi: 10.3847/1538-4357/aa974f
extern: '1'
external_id:
arxiv:
- '1710.10666'
intvolume: ' 850'
issue: '2'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1710.10666
month: '12'
oa: 1
oa_version: Preprint
publication: The Astrophysical Journal
publication_identifier:
eissn:
- 1538-4357
issn:
- 0004-637X
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Deep HST imaging in 47 Tucanae: A global dynamical model'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 850
year: '2017'
...
---
_id: '15241'
abstract:
- lang: eng
text: We present a model to account for the observed debris discs around young white
dwarfs and the presence of metal lines in their spectra. Stellar evolution models
predict that the mass-loss on the AGB will be pulsed; furthermore, observations
indicate that the bulk of the mass-loss occurs on the AGB. In this case, if the
progenitors of the white dwarfs had remnants of planetary formation like the Sun’s
Oort cloud or the Kuiper Belt and a planet lying within that cloud or nearby,
we find that up to 2 per cent of the planetesimals will fall either into planet-crossing
orbits or into chaotic regions after the mass-loss, depending on the location
and mass of the planet (from Mars to Neptune). This yields a sufficient mass of
comets that can be scattered towards the star, form a debris disc and pollute
the atmosphere.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: Jeremy S.
full_name: Heyl, Jeremy S.
last_name: Heyl
citation:
ama: Caiazzo I, Heyl JS. Polluting white dwarfs with perturbed exo-comets. Monthly
Notices of the Royal Astronomical Society. 2017;469(3):2750-2759. doi:10.1093/mnras/stx1036
apa: Caiazzo, I., & Heyl, J. S. (2017). Polluting white dwarfs with perturbed
exo-comets. Monthly Notices of the Royal Astronomical Society. Oxford University
Press. https://doi.org/10.1093/mnras/stx1036
chicago: Caiazzo, Ilaria, and Jeremy S. Heyl. “Polluting White Dwarfs with Perturbed
Exo-Comets.” Monthly Notices of the Royal Astronomical Society. Oxford
University Press, 2017. https://doi.org/10.1093/mnras/stx1036.
ieee: I. Caiazzo and J. S. Heyl, “Polluting white dwarfs with perturbed exo-comets,”
Monthly Notices of the Royal Astronomical Society, vol. 469, no. 3. Oxford
University Press, pp. 2750–2759, 2017.
ista: Caiazzo I, Heyl JS. 2017. Polluting white dwarfs with perturbed exo-comets.
Monthly Notices of the Royal Astronomical Society. 469(3), 2750–2759.
mla: Caiazzo, Ilaria, and Jeremy S. Heyl. “Polluting White Dwarfs with Perturbed
Exo-Comets.” Monthly Notices of the Royal Astronomical Society, vol. 469,
no. 3, Oxford University Press, 2017, pp. 2750–59, doi:10.1093/mnras/stx1036.
short: I. Caiazzo, J.S. Heyl, Monthly Notices of the Royal Astronomical Society
469 (2017) 2750–2759.
date_created: 2024-03-26T10:40:45Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2024-10-14T12:33:43Z
day: '01'
doi: 10.1093/mnras/stx1036
extern: '1'
external_id:
arxiv:
- '1702.07682'
intvolume: ' 469'
issue: '3'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1702.07682
month: '05'
oa: 1
oa_version: Preprint
page: 2750-2759
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Polluting white dwarfs with perturbed exo-comets
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 469
year: '2017'
...
---
_id: '15243'
abstract:
- lang: eng
text: High-energy (>250 keV) emission has been detected persisting for several tens
of seconds after the initial spike of magnetar giant flares (GFs). It has been
conjectured that this emission might arise via inverse Compton scattering in a
highly extended corona generated by super-Eddington outflows high up in the magnetosphere.
In this paper, we undertake a detailed examination of this model. We investigate
the properties of the required scatterers, and whether the mechanism is consistent
with the degree of pulsed emission observed in the tail of the GF. We conclude
that the mechanism is consistent with current data, although the origin of the
scattering population remains an open question. We propose an alternative picture
in which the emission is closer to that star and is dominated by synchrotron radiation.
The Reuven Ramaty High Energy Solar Spectroscopic Imager observations of the 2004
December flare modestly favour this latter picture. We assess the prospects for
the Fermi Gamma-ray Space Telescope to detect and characterize a similar high-energy
component in a future GF. Such a detection should help to resolve some of the
outstanding issues.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: C.
full_name: Elenbaas, C.
last_name: Elenbaas
- first_name: D.
full_name: Huppenkothen, D.
last_name: Huppenkothen
- first_name: C.
full_name: Omand, C.
last_name: Omand
- first_name: A. L.
full_name: Watts, A. L.
last_name: Watts
- first_name: E.
full_name: Bissaldi, E.
last_name: Bissaldi
- first_name: Ilaria
full_name: Caiazzo, Ilaria
id: 8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d
last_name: Caiazzo
orcid: 0000-0002-4770-5388
- first_name: J.
full_name: Heyl, J.
last_name: Heyl
citation:
ama: Elenbaas C, Huppenkothen D, Omand C, et al. Magnetar giant flare high-energy
emission. Monthly Notices of the Royal Astronomical Society. 2017;471(2):1856-1872.
doi:10.1093/mnras/stx1727
apa: Elenbaas, C., Huppenkothen, D., Omand, C., Watts, A. L., Bissaldi, E., Caiazzo,
I., & Heyl, J. (2017). Magnetar giant flare high-energy emission. Monthly
Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/stx1727
chicago: Elenbaas, C., D. Huppenkothen, C. Omand, A. L. Watts, E. Bissaldi, Ilaria
Caiazzo, and J. Heyl. “Magnetar Giant Flare High-Energy Emission.” Monthly
Notices of the Royal Astronomical Society. Oxford University Press, 2017.
https://doi.org/10.1093/mnras/stx1727.
ieee: C. Elenbaas et al., “Magnetar giant flare high-energy emission,” Monthly
Notices of the Royal Astronomical Society, vol. 471, no. 2. Oxford University
Press, pp. 1856–1872, 2017.
ista: Elenbaas C, Huppenkothen D, Omand C, Watts AL, Bissaldi E, Caiazzo I, Heyl
J. 2017. Magnetar giant flare high-energy emission. Monthly Notices of the Royal
Astronomical Society. 471(2), 1856–1872.
mla: Elenbaas, C., et al. “Magnetar Giant Flare High-Energy Emission.” Monthly
Notices of the Royal Astronomical Society, vol. 471, no. 2, Oxford University
Press, 2017, pp. 1856–72, doi:10.1093/mnras/stx1727.
short: C. Elenbaas, D. Huppenkothen, C. Omand, A.L. Watts, E. Bissaldi, I. Caiazzo,
J. Heyl, Monthly Notices of the Royal Astronomical Society 471 (2017) 1856–1872.
date_created: 2024-03-26T10:41:24Z
date_published: 2017-07-13T00:00:00Z
date_updated: 2024-04-08T07:05:47Z
day: '13'
doi: 10.1093/mnras/stx1727
extern: '1'
external_id:
arxiv:
- '1707.02922'
intvolume: ' 471'
issue: '2'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1707.02922
month: '07'
oa: 1
oa_version: Preprint
page: 1856-1872
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Magnetar giant flare high-energy emission
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 471
year: '2017'
...
---
_id: '1528'
abstract:
- lang: eng
text: 'We consider N×N Hermitian random matrices H consisting of blocks of size
M≥N6/7. The matrix elements are i.i.d. within the blocks, close to a Gaussian
in the four moment matching sense, but their distribution varies from block to
block to form a block-band structure, with an essential band width M. We show
that the entries of the Green’s function G(z)=(H−z)−1 satisfy the local semicircle
law with spectral parameter z=E+iη down to the real axis for any η≫N−1, using
a combination of the supersymmetry method inspired by Shcherbina (J Stat Phys
155(3): 466–499, 2014) and the Green’s function comparison strategy. Previous
estimates were valid only for η≫M−1. The new estimate also implies that the eigenvectors
in the middle of the spectrum are fully delocalized.'
acknowledgement: "Z. Bao was supported by ERC Advanced Grant RANMAT No. 338804; L.
Erdős was partially supported by ERC Advanced Grant RANMAT No. 338804.\r\nOpen access
funding provided by Institute of Science and Technology (IST Austria). The authors
are very grateful to the anonymous referees for careful reading and valuable comments,
which helped to improve the organization."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Zhigang
full_name: Bao, Zhigang
id: 442E6A6C-F248-11E8-B48F-1D18A9856A87
last_name: Bao
orcid: 0000-0003-3036-1475
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: Bao Z, Erdös L. Delocalization for a class of random block band matrices. Probability
Theory and Related Fields. 2017;167(3-4):673-776. doi:10.1007/s00440-015-0692-y
apa: Bao, Z., & Erdös, L. (2017). Delocalization for a class of random block
band matrices. Probability Theory and Related Fields. Springer. https://doi.org/10.1007/s00440-015-0692-y
chicago: Bao, Zhigang, and László Erdös. “Delocalization for a Class of Random Block
Band Matrices.” Probability Theory and Related Fields. Springer, 2017.
https://doi.org/10.1007/s00440-015-0692-y.
ieee: Z. Bao and L. Erdös, “Delocalization for a class of random block band matrices,”
Probability Theory and Related Fields, vol. 167, no. 3–4. Springer, pp.
673–776, 2017.
ista: Bao Z, Erdös L. 2017. Delocalization for a class of random block band matrices.
Probability Theory and Related Fields. 167(3–4), 673–776.
mla: Bao, Zhigang, and László Erdös. “Delocalization for a Class of Random Block
Band Matrices.” Probability Theory and Related Fields, vol. 167, no. 3–4,
Springer, 2017, pp. 673–776, doi:10.1007/s00440-015-0692-y.
short: Z. Bao, L. Erdös, Probability Theory and Related Fields 167 (2017) 673–776.
corr_author: '1'
date_created: 2018-12-11T11:52:32Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2025-04-15T08:05:02Z
day: '01'
ddc:
- '530'
department:
- _id: LaEr
doi: 10.1007/s00440-015-0692-y
ec_funded: 1
external_id:
isi:
- '000398842700004'
file:
- access_level: open_access
checksum: 67afa85ff1e220cbc1f9f477a828513c
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:05Z
date_updated: 2020-07-14T12:45:00Z
file_id: '4665'
file_name: IST-2016-489-v1+1_s00440-015-0692-y.pdf
file_size: 1615755
relation: main_file
file_date_updated: 2020-07-14T12:45:00Z
has_accepted_license: '1'
intvolume: ' 167'
isi: 1
issue: 3-4
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '04'
oa: 1
oa_version: Published Version
page: 673 - 776
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Probability Theory and Related Fields
publication_identifier:
issn:
- '01788051'
publication_status: published
publisher: Springer
publist_id: '5644'
pubrep_id: '489'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Delocalization for a class of random block band matrices
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: 167
year: '2017'
...
---
_id: '1061'
abstract:
- lang: eng
text: 'Background: Metabolic engineering and synthetic biology of cyanobacteria
offer a promising sustainable alternative approach for fossil-based ethylene production,
by using sunlight via oxygenic photosynthesis, to convert carbon dioxide directly
into ethylene. Towards this, both well-studied cyanobacteria, i.e., Synechocystis
sp PCC 6803 and Synechococcus elongatus PCC 7942, have been engineered to produce
ethylene by introducing the ethylene-forming enzyme (Efe) from Pseudomonas syringae
pv. phaseolicola PK2 (the Kudzu strain), which catalyzes the conversion of the
ubiquitous tricarboxylic acid cycle intermediate 2-oxoglutarate into ethylene.
Results: This study focuses on Synechocystis sp PCC 6803 and shows stable ethylene
production through the integration of a codon-optimized version of the efe gene
under control of the Ptrc promoter and the core Shine-Dalgarno sequence (5\''-AGGAGG-3\'')
as the ribosome-binding site (RBS), at the slr0168 neutral site. We have increased
ethylene production twofold by RBS screening and further investigated improving
ethylene production from a single gene copy of efe, using multiple tandem promoters
and by putting our best construct on an RSF1010-based broad-host-self-replicating
plasmid, which has a higher copy number than the genome. Moreover, to raise the
intracellular amounts of the key Efe substrate, 2-oxoglutarate, from which ethylene
is formed, we constructed a glycogen-synthesis knockout mutant (glgC) and introduced
the ethylene biosynthetic pathway in it. Under nitrogen limiting conditions, the
glycogen knockout strain has increased intracellular 2-oxoglutarate levels; however,
surprisingly, ethylene production was lower in this strain than in the wild-type
background. Conclusion: Making use of different RBS sequences, production of ethylene
ranging over a 20-fold difference has been achieved. However, a further increase
of production through multiple tandem promoters and a broad-host plasmid was not
achieved speculating that the transcription strength and the gene copy number
are not the limiting factors in our system.'
article_number: '34'
article_processing_charge: No
author:
- first_name: Vinod
full_name: Veetil, Vinod
last_name: Veetil
- first_name: Andreas
full_name: Angermayr, Andreas
id: 4677C796-F248-11E8-B48F-1D18A9856A87
last_name: Angermayr
orcid: 0000-0001-8619-2223
- first_name: Klaas
full_name: Hellingwerf, Klaas
last_name: Hellingwerf
citation:
ama: Veetil V, Angermayr A, Hellingwerf K. Ethylene production with engineered Synechocystis
sp PCC 6803 strains. Microbial Cell Factories. 2017;16(1). doi:10.1186/s12934-017-0645-5
apa: Veetil, V., Angermayr, A., & Hellingwerf, K. (2017). Ethylene production
with engineered Synechocystis sp PCC 6803 strains. Microbial Cell Factories.
BioMed Central. https://doi.org/10.1186/s12934-017-0645-5
chicago: Veetil, Vinod, Andreas Angermayr, and Klaas Hellingwerf. “Ethylene Production
with Engineered Synechocystis Sp PCC 6803 Strains.” Microbial Cell Factories.
BioMed Central, 2017. https://doi.org/10.1186/s12934-017-0645-5.
ieee: V. Veetil, A. Angermayr, and K. Hellingwerf, “Ethylene production with engineered
Synechocystis sp PCC 6803 strains,” Microbial Cell Factories, vol. 16,
no. 1. BioMed Central, 2017.
ista: Veetil V, Angermayr A, Hellingwerf K. 2017. Ethylene production with engineered
Synechocystis sp PCC 6803 strains. Microbial Cell Factories. 16(1), 34.
mla: Veetil, Vinod, et al. “Ethylene Production with Engineered Synechocystis Sp
PCC 6803 Strains.” Microbial Cell Factories, vol. 16, no. 1, 34, BioMed
Central, 2017, doi:10.1186/s12934-017-0645-5.
short: V. Veetil, A. Angermayr, K. Hellingwerf, Microbial Cell Factories 16 (2017).
date_created: 2018-12-11T11:49:56Z
date_published: 2017-02-23T00:00:00Z
date_updated: 2023-09-20T12:09:21Z
day: '23'
ddc:
- '579'
doi: 10.1186/s12934-017-0645-5
extern: '1'
external_id:
isi:
- '000397733000001'
pmid:
- '28231787'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:50Z
date_updated: 2018-12-12T10:16:50Z
file_id: '5240'
file_name: IST-2017-792-v1+1_s12934-017-0645-5.pdf
file_size: 1361313
relation: main_file
file_date_updated: 2018-12-12T10:16:50Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
issue: '1'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: Microbial Cell Factories
publication_identifier:
issn:
- '14752859'
publication_status: published
publisher: BioMed Central
publist_id: '6325'
pubrep_id: '792'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ethylene production with engineered Synechocystis sp PCC 6803 strains
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: 16
year: '2017'
...
---
_id: '1062'
abstract:
- lang: eng
text: Mouse chromaffin cells (MCCs) generate action potential (AP) firing that regulates
the Ca2+‐dependent release of catecholamines (CAs). Recent findings indicate that
MCCs possess a variety of spontaneous firing modes that span from the common ‘tonic‐irregular’
to the less frequent ‘burst’ firing. This latter is evident in a small fraction
of MCCs but occurs regularly when Nav1.3/1.7 channels are made less available
or when the Slo1β2‐subunit responsible for BK channel inactivation is deleted.
Burst firing causes large increases of Ca2+‐entry and potentiates CA release by
∼3.5‐fold and thus may be a key mechanism for regulating MCC function. With the
aim to uncover a physiological role for burst‐firing we investigated the effects
of acidosis on MCC activity. Lowering the extracellular pH (pHo) from 7.4 to 7.0
and 6.6 induces cell depolarizations of 10–15 mV that generate repeated bursts.
Bursts at pHo 6.6 lasted ∼330 ms, occurred at 1–2 Hz and caused an ∼7‐fold increase
of CA cumulative release. Burst firing originates from the inhibition of the pH‐sensitive
TASK‐1/TASK‐3 channels and from a 40% BK channel conductance reduction at pHo
7.0. The same pHo had little or no effect on Nav, Cav, Kv and SK channels that
support AP firing in MCCs. Burst firing of pHo 6.6 could be mimicked by mixtures
of the TASK‐1 blocker A1899 (300 nm) and BK blocker paxilline (300 nm) and could
be prevented by blocking L‐type channels by adding 3 μm nifedipine. Mixtures of
the two blockers raised cumulative CA‐secretion even more than low pHo (∼12‐fold),
showing that the action of protons on vesicle release is mainly a result of the
ionic conductance changes that increase Ca2+‐entry during bursts. Our data provide
direct evidence suggesting that MCCs respond to low pHo with sustained depolarization,
burst firing and enhanced CA‐secretion, thus mimicking the physiological response
of CCs to acute acidosis and hyperkalaemia generated during heavy exercise and
muscle fatigue.
article_processing_charge: No
author:
- first_name: Laura
full_name: Guarina, Laura
last_name: Guarina
- first_name: David H
full_name: Vandael, David H
id: 3AE48E0A-F248-11E8-B48F-1D18A9856A87
last_name: Vandael
orcid: 0000-0001-7577-1676
- first_name: Valentina
full_name: Carabelli, Valentina
last_name: Carabelli
- first_name: Emilio
full_name: Carbone, Emilio
last_name: Carbone
citation:
ama: Guarina L, Vandael DH, Carabelli V, Carbone E. Low pH inf o boosts burst firing
and catecholamine release by blocking TASK-1 and BK channels while preserving
Cav1 channels in mouse chromaffin cells. Journal of Physiology. 2017;595(8):2587-2609.
doi:10.1113/JP273735
apa: Guarina, L., Vandael, D. H., Carabelli, V., & Carbone, E. (2017). Low pH
inf o boosts burst firing and catecholamine release by blocking TASK-1 and BK
channels while preserving Cav1 channels in mouse chromaffin cells. Journal
of Physiology. Wiley-Blackwell. https://doi.org/10.1113/JP273735
chicago: Guarina, Laura, David H Vandael, Valentina Carabelli, and Emilio Carbone.
“Low PH Inf o Boosts Burst Firing and Catecholamine Release by Blocking TASK-1
and BK Channels While Preserving Cav1 Channels in Mouse Chromaffin Cells.” Journal
of Physiology. Wiley-Blackwell, 2017. https://doi.org/10.1113/JP273735.
ieee: L. Guarina, D. H. Vandael, V. Carabelli, and E. Carbone, “Low pH inf o boosts
burst firing and catecholamine release by blocking TASK-1 and BK channels while
preserving Cav1 channels in mouse chromaffin cells,” Journal of Physiology,
vol. 595, no. 8. Wiley-Blackwell, pp. 2587–2609, 2017.
ista: Guarina L, Vandael DH, Carabelli V, Carbone E. 2017. Low pH inf o boosts burst
firing and catecholamine release by blocking TASK-1 and BK channels while preserving
Cav1 channels in mouse chromaffin cells. Journal of Physiology. 595(8), 2587–2609.
mla: Guarina, Laura, et al. “Low PH Inf o Boosts Burst Firing and Catecholamine
Release by Blocking TASK-1 and BK Channels While Preserving Cav1 Channels in Mouse
Chromaffin Cells.” Journal of Physiology, vol. 595, no. 8, Wiley-Blackwell,
2017, pp. 2587–609, doi:10.1113/JP273735.
short: L. Guarina, D.H. Vandael, V. Carabelli, E. Carbone, Journal of Physiology
595 (2017) 2587–2609.
date_created: 2018-12-11T11:49:56Z
date_published: 2017-04-15T00:00:00Z
date_updated: 2023-09-20T12:09:47Z
day: '15'
doi: 10.1113/JP273735
extern: '1'
external_id:
isi:
- '000399430300022'
intvolume: ' 595'
isi: 1
issue: '8'
language:
- iso: eng
month: '04'
oa_version: None
page: '2587 - 2609 '
publication: Journal of Physiology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6326'
quality_controlled: '1'
status: public
title: Low pH inf o boosts burst firing and catecholamine release by blocking TASK-1
and BK channels while preserving Cav1 channels in mouse chromaffin cells
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 595
year: '2017'
...
---
_id: '1063'
abstract:
- lang: eng
text: Severe environmental change can drive a population extinct unless the population
adapts in time to the new conditions (“evolutionary rescue”). How does biparental
sexual reproduction influence the chances of population persistence compared to
clonal reproduction or selfing? In this article, we set up a one‐locus two‐allele
model for adaptation in diploid species, where rescue is contingent on the establishment
of the mutant homozygote. Reproduction can occur by random mating, selfing, or
clonally. Random mating generates and destroys the rescue mutant; selfing is efficient
at generating it but at the same time depletes the heterozygote, which can lead
to a low mutant frequency in the standing genetic variation. Due to these (and
other) antagonistic effects, we find a nontrivial dependence of population survival
on the rate of sex/selfing, which is strongly influenced by the dominance coefficient
of the mutation before and after the environmental change. Importantly, since
mating with the wild‐type breaks the mutant homozygote up, a slow decay of the
wild‐type population size can impede rescue in randomly mating populations.
article_processing_charge: No
author:
- first_name: Hildegard
full_name: Uecker, Hildegard
id: 2DB8F68A-F248-11E8-B48F-1D18A9856A87
last_name: Uecker
orcid: 0000-0001-9435-2813
citation:
ama: Uecker H. Evolutionary rescue in randomly mating, selfing, and clonal populations.
Evolution. 2017;71(4):845-858. doi:10.1111/evo.13191
apa: Uecker, H. (2017). Evolutionary rescue in randomly mating, selfing, and clonal
populations. Evolution. Wiley-Blackwell. https://doi.org/10.1111/evo.13191
chicago: Uecker, Hildegard. “Evolutionary Rescue in Randomly Mating, Selfing, and
Clonal Populations.” Evolution. Wiley-Blackwell, 2017. https://doi.org/10.1111/evo.13191.
ieee: H. Uecker, “Evolutionary rescue in randomly mating, selfing, and clonal populations,”
Evolution, vol. 71, no. 4. Wiley-Blackwell, pp. 845–858, 2017.
ista: Uecker H. 2017. Evolutionary rescue in randomly mating, selfing, and clonal
populations. Evolution. 71(4), 845–858.
mla: Uecker, Hildegard. “Evolutionary Rescue in Randomly Mating, Selfing, and Clonal
Populations.” Evolution, vol. 71, no. 4, Wiley-Blackwell, 2017, pp. 845–58,
doi:10.1111/evo.13191.
short: H. Uecker, Evolution 71 (2017) 845–858.
date_created: 2018-12-11T11:49:57Z
date_published: 2017-04-01T00:00:00Z
date_updated: 2025-07-10T11:49:52Z
day: '01'
department:
- _id: NiBa
doi: 10.1111/evo.13191
ec_funded: 1
external_id:
isi:
- '000398545200003'
intvolume: ' 71'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://biorxiv.org/content/early/2016/10/14/081042
month: '04'
oa: 1
oa_version: Submitted Version
page: 845 - 858
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Evolution
publication_identifier:
issn:
- 0014-3820
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6327'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Evolutionary rescue in randomly mating, selfing, and clonal populations
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 71
year: '2017'
...
---
_id: '1065'
abstract:
- lang: eng
text: 'We consider the problem of reachability in pushdown graphs. We study the
problem for pushdown graphs with constant treewidth. Even for pushdown graphs
with treewidth 1, for the reachability problem we establish the following: (i)
the problem is PTIME-complete, and (ii) any subcubic algorithm for the problem
would contradict the k-clique conjecture and imply faster combinatorial algorithms
for cliques in graphs.'
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Georg F
full_name: Osang, Georg F
id: 464B40D6-F248-11E8-B48F-1D18A9856A87
last_name: Osang
orcid: 0000-0002-8882-5116
citation:
ama: Chatterjee K, Osang GF. Pushdown reachability with constant treewidth. Information
Processing Letters. 2017;122:25-29. doi:10.1016/j.ipl.2017.02.003
apa: Chatterjee, K., & Osang, G. F. (2017). Pushdown reachability with constant
treewidth. Information Processing Letters. Elsevier. https://doi.org/10.1016/j.ipl.2017.02.003
chicago: Chatterjee, Krishnendu, and Georg F Osang. “Pushdown Reachability with
Constant Treewidth.” Information Processing Letters. Elsevier, 2017. https://doi.org/10.1016/j.ipl.2017.02.003.
ieee: K. Chatterjee and G. F. Osang, “Pushdown reachability with constant treewidth,”
Information Processing Letters, vol. 122. Elsevier, pp. 25–29, 2017.
ista: Chatterjee K, Osang GF. 2017. Pushdown reachability with constant treewidth.
Information Processing Letters. 122, 25–29.
mla: Chatterjee, Krishnendu, and Georg F. Osang. “Pushdown Reachability with Constant
Treewidth.” Information Processing Letters, vol. 122, Elsevier, 2017, pp.
25–29, doi:10.1016/j.ipl.2017.02.003.
short: K. Chatterjee, G.F. Osang, Information Processing Letters 122 (2017) 25–29.
date_created: 2018-12-11T11:49:57Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2025-07-10T11:49:53Z
day: '01'
ddc:
- '000'
department:
- _id: KrCh
- _id: HeEd
doi: 10.1016/j.ipl.2017.02.003
ec_funded: 1
external_id:
isi:
- '000399506600005'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:17Z
date_updated: 2019-10-15T07:44:51Z
file_id: '4998'
file_name: IST-2018-991-v1+2_2018_Chatterjee_Pushdown_PREPRINT.pdf
file_size: 247657
relation: main_file
file_date_updated: 2019-10-15T07:44:51Z
has_accepted_license: '1'
intvolume: ' 122'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 25 - 29
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Information Processing Letters
publication_identifier:
issn:
- 0020-0190
publication_status: published
publisher: Elsevier
publist_id: '6323'
pubrep_id: '991'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Pushdown reachability with constant treewidth
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 122
year: '2017'
...
---
OA_place: publisher
OA_type: free access
_id: '1066'
abstract:
- lang: eng
text: "Simulation is an attractive alternative to language inclusion for automata
as it is an under-approximation of language inclusion, but usually has much lower
complexity. Simulation has also been extended in two orthogonal directions, namely,
(1) fair simulation, for simulation over specified set of infinite runs; and (2)
quantitative simulation, for simulation between weighted automata. While fair
trace inclusion is PSPACE-complete, fair simulation can be computed in polynomial
time. For weighted automata, the (quantitative) language inclusion problem is
undecidable in general, whereas the (quantitative) simulation reduces to quantitative
games, which admit pseudo-polynomial time algorithms.\r\n\r\nIn this work, we
study (quantitative) simulation for weighted automata with Büchi acceptance conditions,
i.e., we generalize fair simulation from non-weighted automata to weighted automata.
We show that imposing Büchi acceptance conditions on weighted automata changes
many fundamental properties of the simulation games, yet they still admit pseudo-polynomial
time algorithms."
acknowledgement: This research was funded in part by the European Research Council
(ERC) under grant agreements 267989 (QUAREM), 279307 (Graph Games), by the Austrian
Science Fund (FWF) projects S11402-N23 (RiSE), S11407-N23 (RiSE), P23499-N23, and
Microsoft faculty fellows award.
article_processing_charge: No
article_type: original
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Jan
full_name: Otop, Jan
id: 2FC5DA74-F248-11E8-B48F-1D18A9856A87
last_name: Otop
- first_name: Yaron
full_name: Velner, Yaron
last_name: Velner
citation:
ama: Chatterjee K, Henzinger TA, Otop J, Velner Y. Quantitative fair simulation
games. Information and Computation. 2017;254(2):143-166. doi:10.1016/j.ic.2016.10.006
apa: Chatterjee, K., Henzinger, T. A., Otop, J., & Velner, Y. (2017). Quantitative
fair simulation games. Information and Computation. Elsevier. https://doi.org/10.1016/j.ic.2016.10.006
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, Jan Otop, and Yaron Velner.
“Quantitative Fair Simulation Games.” Information and Computation. Elsevier,
2017. https://doi.org/10.1016/j.ic.2016.10.006.
ieee: K. Chatterjee, T. A. Henzinger, J. Otop, and Y. Velner, “Quantitative fair
simulation games,” Information and Computation, vol. 254, no. 2. Elsevier,
pp. 143–166, 2017.
ista: Chatterjee K, Henzinger TA, Otop J, Velner Y. 2017. Quantitative fair simulation
games. Information and Computation. 254(2), 143–166.
mla: Chatterjee, Krishnendu, et al. “Quantitative Fair Simulation Games.” Information
and Computation, vol. 254, no. 2, Elsevier, 2017, pp. 143–66, doi:10.1016/j.ic.2016.10.006.
short: K. Chatterjee, T.A. Henzinger, J. Otop, Y. Velner, Information and Computation
254 (2017) 143–166.
corr_author: '1'
date_created: 2018-12-11T11:49:58Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2025-06-25T11:18:09Z
day: '01'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1016/j.ic.2016.10.006
ec_funded: 1
external_id:
isi:
- '000402025600002'
intvolume: ' 254'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.ic.2016.10.006
month: '06'
oa: 1
oa_version: Published Version
page: 143 - 166
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2587B514-B435-11E9-9278-68D0E5697425
name: Microsoft Research Faculty Fellowship
publication: Information and Computation
publication_status: published
publisher: Elsevier
publist_id: '6322'
quality_controlled: '1'
related_material:
record:
- id: '5428'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Quantitative fair simulation games
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 254
year: '2017'
...
---
_id: '10663'
abstract:
- lang: eng
text: 'The superconducting state of matter enables one to observe quantum effects
on the macroscopic scale and hosts many fascinating phenomena. Topological defects
of the superconducting order parameter, such as vortices and fluxoid states in
multiply connected structures, are often the key ingredients of these phenomena.
This dissertation describes a new mode of magnetic force microscopy (Φ0-MFM) for
investigating vortex and fluxoid sates in mesoscopic superconducting (SC) structures.
The technique relies on the magneto-mechanical coupling of a MFM cantilever to
the motion of fluxons. The novelty of the technique is that a magnetic particle
attached to the cantilever is used not only to sense the state of a SC structure,
but also as a primary source of the inhomogeneous magnetic field which induces
that state. Φ0-MFM enables us to map the transitions between tip-induced states
during a scan: at the positions of the tip, where the two lowest energy states
become degenerate, small oscillations of the tip drive the transitions between
these states, which causes a significant shift in the resonant frequency and dissipation
of the cantilever. For narrow-wall aluminum rings, the mapped fluxoid transitions
form concentric contours on a scan. We show that the changes in the cantilever
resonant frequency and dissipation are well-described by a stochastic resonance
(SR) of cantilever-driven thermally activated phase slips (TAPS). The SR model
allows us to experimentally determine the rate of TAPS and compare it to the Langer-Ambegaokar-McCumber-Halperin
(LAMH) theory for TAPS in 1D superconducting structures. Further, we use the SR
model to qualitatively study the effects of a locally applied magnetic field on
the phase slip rate in rings containing constrictions. The states with multiple
vortices or winding numbers could be useful for the development of novel superconducting
devices, or the study of vortex interactions and interference effects. Using Φ0-MFM
allows us to induce, probe and control fluxoid states in thin wall structures
comprised of multiple loops. We show that Φ0-MFM images of the fluxoid transitions
allow us to identify the underlying states and to investigate their energetics
and dynamics even in complicated structures.'
alternative_title:
- Graduate Dissertations and Theses at Illinois
article_processing_charge: No
author:
- first_name: Hryhoriy
full_name: Polshyn, Hryhoriy
id: edfc7cb1-526e-11ec-b05a-e6ecc27e4e48
last_name: Polshyn
orcid: 0000-0001-8223-8896
citation:
ama: Polshyn H. Magnetic force microscopy studies of mesoscopic superconducting
structures. 2017.
apa: Polshyn, H. (2017). Magnetic force microscopy studies of mesoscopic superconducting
structures. University of Illinois at Urbana-Champaign.
chicago: Polshyn, Hryhoriy. “Magnetic Force Microscopy Studies of Mesoscopic Superconducting
Structures.” University of Illinois at Urbana-Champaign, 2017.
ieee: H. Polshyn, “Magnetic force microscopy studies of mesoscopic superconducting
structures,” University of Illinois at Urbana-Champaign, 2017.
ista: Polshyn H. 2017. Magnetic force microscopy studies of mesoscopic superconducting
structures. University of Illinois at Urbana-Champaign.
mla: Polshyn, Hryhoriy. Magnetic Force Microscopy Studies of Mesoscopic Superconducting
Structures. University of Illinois at Urbana-Champaign, 2017.
short: H. Polshyn, Magnetic Force Microscopy Studies of Mesoscopic Superconducting
Structures, University of Illinois at Urbana-Champaign, 2017.
date_created: 2022-01-25T14:54:14Z
date_published: 2017-09-18T00:00:00Z
date_updated: 2024-10-14T11:13:43Z
day: '18'
degree_awarded: PhD
extern: '1'
keyword:
- physics
- superconductivity
- magnetic force microscopy
- phase slips
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://hdl.handle.net/2142/99178
month: '09'
oa: 1
oa_version: Published Version
page: '103'
publication_status: published
publisher: University of Illinois at Urbana-Champaign
status: public
supervisor:
- first_name: Raffi
full_name: Budakian, Raffi
last_name: Budakian
title: Magnetic force microscopy studies of mesoscopic superconducting structures
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '1067'
abstract:
- lang: eng
text: Embryo morphogenesis relies on highly coordinated movements of different tissues.
However, remarkably little is known about how tissues coordinate their movements
to shape the embryo. In zebrafish embryogenesis, coordinated tissue movements
first become apparent during “doming,” when the blastoderm begins to spread over
the yolk sac, a process involving coordinated epithelial surface cell layer expansion
and mesenchymal deep cell intercalations. Here, we find that active surface cell
expansion represents the key process coordinating tissue movements during doming.
By using a combination of theory and experiments, we show that epithelial surface
cells not only trigger blastoderm expansion by reducing tissue surface tension,
but also drive blastoderm thinning by inducing tissue contraction through radial
deep cell intercalations. Thus, coordinated tissue expansion and thinning during
doming relies on surface cells simultaneously controlling tissue surface tension
and radial tissue contraction.
acknowledged_ssus:
- _id: PreCl
article_processing_charge: No
author:
- first_name: Hitoshi
full_name: Morita, Hitoshi
id: 4C6E54C6-F248-11E8-B48F-1D18A9856A87
last_name: Morita
- first_name: Silvia
full_name: Grigolon, Silvia
last_name: Grigolon
- first_name: Martin
full_name: Bock, Martin
last_name: Bock
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Guillaume
full_name: Salbreux, Guillaume
last_name: Salbreux
- 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: Morita H, Grigolon S, Bock M, Krens G, Salbreux G, Heisenberg C-PJ. The physical
basis of coordinated tissue spreading in zebrafish gastrulation. Developmental
Cell. 2017;40(4):354-366. doi:10.1016/j.devcel.2017.01.010
apa: Morita, H., Grigolon, S., Bock, M., Krens, G., Salbreux, G., & Heisenberg,
C.-P. J. (2017). The physical basis of coordinated tissue spreading in zebrafish
gastrulation. Developmental Cell. Cell Press. https://doi.org/10.1016/j.devcel.2017.01.010
chicago: Morita, Hitoshi, Silvia Grigolon, Martin Bock, Gabriel Krens, Guillaume
Salbreux, and Carl-Philipp J Heisenberg. “The Physical Basis of Coordinated Tissue
Spreading in Zebrafish Gastrulation.” Developmental Cell. Cell Press, 2017.
https://doi.org/10.1016/j.devcel.2017.01.010.
ieee: H. Morita, S. Grigolon, M. Bock, G. Krens, G. Salbreux, and C.-P. J. Heisenberg,
“The physical basis of coordinated tissue spreading in zebrafish gastrulation,”
Developmental Cell, vol. 40, no. 4. Cell Press, pp. 354–366, 2017.
ista: Morita H, Grigolon S, Bock M, Krens G, Salbreux G, Heisenberg C-PJ. 2017.
The physical basis of coordinated tissue spreading in zebrafish gastrulation.
Developmental Cell. 40(4), 354–366.
mla: Morita, Hitoshi, et al. “The Physical Basis of Coordinated Tissue Spreading
in Zebrafish Gastrulation.” Developmental Cell, vol. 40, no. 4, Cell Press,
2017, pp. 354–66, doi:10.1016/j.devcel.2017.01.010.
short: H. Morita, S. Grigolon, M. Bock, G. Krens, G. Salbreux, C.-P.J. Heisenberg,
Developmental Cell 40 (2017) 354–366.
corr_author: '1'
date_created: 2018-12-11T11:49:58Z
date_published: 2017-02-27T00:00:00Z
date_updated: 2025-07-10T11:49:55Z
day: '27'
ddc:
- '572'
- '597'
department:
- _id: CaHe
doi: 10.1016/j.devcel.2017.01.010
ec_funded: 1
external_id:
isi:
- '000395368300007'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:57Z
date_updated: 2018-12-12T10:10:57Z
file_id: '4849'
file_name: IST-2017-869-v1+1_1-s2.0-S1534580717300370-main.pdf
file_size: 6866187
relation: main_file
file_date_updated: 2018-12-12T10:10:57Z
has_accepted_license: '1'
intvolume: ' 40'
isi: 1
issue: '4'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 354 - 366
project:
- _id: 2524F500-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '201439'
name: Developing High-Throughput Bioassays for Human Cancers in Zebrafish
publication: Developmental Cell
publication_identifier:
issn:
- 1534-5807
publication_status: published
publisher: Cell Press
publist_id: '6320'
pubrep_id: '869'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The physical basis of coordinated tissue spreading in zebrafish gastrulation
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: 40
year: '2017'
...
---
_id: '1072'
abstract:
- lang: eng
text: Given a finite set of points in Rn and a radius parameter, we study the Čech,
Delaunay–Čech, Delaunay (or alpha), and Wrap complexes in the light of generalized
discrete Morse theory. Establishing the Čech and Delaunay complexes as sublevel
sets of generalized discrete Morse functions, we prove that the four complexes
are simple-homotopy equivalent by a sequence of simplicial collapses, which are
explicitly described by a single discrete gradient field.
acknowledgement: This research has been supported by the EU project Toposys(FP7-ICT-318493-STREP),
by ESF under the ACAT Research Network Programme, by the Russian Government under
mega project 11.G34.31.0053, and by the DFG Collaborative Research Center SFB/TRR
109 “Discretization in Geometry and Dynamics”.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
citation:
ama: Bauer U, Edelsbrunner H. The Morse theory of Čech and delaunay complexes. Transactions
of the American Mathematical Society. 2017;369(5):3741-3762. doi:10.1090/tran/6991
apa: Bauer, U., & Edelsbrunner, H. (2017). The Morse theory of Čech and delaunay
complexes. Transactions of the American Mathematical Society. American
Mathematical Society. https://doi.org/10.1090/tran/6991
chicago: Bauer, Ulrich, and Herbert Edelsbrunner. “The Morse Theory of Čech and
Delaunay Complexes.” Transactions of the American Mathematical Society.
American Mathematical Society, 2017. https://doi.org/10.1090/tran/6991.
ieee: U. Bauer and H. Edelsbrunner, “The Morse theory of Čech and delaunay complexes,”
Transactions of the American Mathematical Society, vol. 369, no. 5. American
Mathematical Society, pp. 3741–3762, 2017.
ista: Bauer U, Edelsbrunner H. 2017. The Morse theory of Čech and delaunay complexes.
Transactions of the American Mathematical Society. 369(5), 3741–3762.
mla: Bauer, Ulrich, and Herbert Edelsbrunner. “The Morse Theory of Čech and Delaunay
Complexes.” Transactions of the American Mathematical Society, vol. 369,
no. 5, American Mathematical Society, 2017, pp. 3741–62, doi:10.1090/tran/6991.
short: U. Bauer, H. Edelsbrunner, Transactions of the American Mathematical Society
369 (2017) 3741–3762.
date_created: 2018-12-11T11:49:59Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2025-04-15T08:37:54Z
day: '01'
department:
- _id: HeEd
doi: 10.1090/tran/6991
ec_funded: 1
external_id:
arxiv:
- '1312.1231'
isi:
- '000398030400024'
intvolume: ' 369'
isi: 1
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1312.1231
month: '05'
oa: 1
oa_version: Preprint
page: 3741 - 3762
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Transactions of the American Mathematical Society
publication_status: published
publisher: American Mathematical Society
publist_id: '6311'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Morse theory of Čech and delaunay complexes
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 369
year: '2017'
...
---
_id: '1073'
abstract:
- lang: eng
text: Let X and Y be finite simplicial sets (e.g. finite simplicial complexes),
both equipped with a free simplicial action of a finite group G. Assuming that
Y is d-connected and dimX≤2d, for some d≥1, we provide an algorithm that computes
the set of all equivariant homotopy classes of equivariant continuous maps |X|→|Y|;
the existence of such a map can be decided even for dimX≤2d+1. This yields the
first algorithm for deciding topological embeddability of a k-dimensional finite
simplicial complex into Rn under the condition k≤23n−1. More generally, we present
an algorithm that, given a lifting-extension problem satisfying an appropriate
stability assumption, computes the set of all homotopy classes of solutions. This
result is new even in the non-equivariant situation.
article_processing_charge: No
arxiv: 1
author:
- first_name: Martin
full_name: Čadek, Martin
last_name: Čadek
- first_name: Marek
full_name: Krcál, Marek
id: 33E21118-F248-11E8-B48F-1D18A9856A87
last_name: Krcál
- first_name: Lukáš
full_name: Vokřínek, Lukáš
last_name: Vokřínek
citation:
ama: Čadek M, Krcál M, Vokřínek L. Algorithmic solvability of the lifting extension
problem. Discrete & Computational Geometry. 2017;54(4):915-965. doi:10.1007/s00454-016-9855-6
apa: Čadek, M., Krcál, M., & Vokřínek, L. (2017). Algorithmic solvability of
the lifting extension problem. Discrete & Computational Geometry. Springer.
https://doi.org/10.1007/s00454-016-9855-6
chicago: Čadek, Martin, Marek Krcál, and Lukáš Vokřínek. “Algorithmic Solvability
of the Lifting Extension Problem.” Discrete & Computational Geometry.
Springer, 2017. https://doi.org/10.1007/s00454-016-9855-6.
ieee: M. Čadek, M. Krcál, and L. Vokřínek, “Algorithmic solvability of the lifting
extension problem,” Discrete & Computational Geometry, vol. 54, no.
4. Springer, pp. 915–965, 2017.
ista: Čadek M, Krcál M, Vokřínek L. 2017. Algorithmic solvability of the lifting
extension problem. Discrete & Computational Geometry. 54(4), 915–965.
mla: Čadek, Martin, et al. “Algorithmic Solvability of the Lifting Extension Problem.”
Discrete & Computational Geometry, vol. 54, no. 4, Springer, 2017,
pp. 915–65, doi:10.1007/s00454-016-9855-6.
short: M. Čadek, M. Krcál, L. Vokřínek, Discrete & Computational Geometry 54
(2017) 915–965.
date_created: 2018-12-11T11:50:00Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2025-06-04T08:11:10Z
day: '01'
department:
- _id: UlWa
doi: 10.1007/s00454-016-9855-6
external_id:
arxiv:
- '1307.6444'
isi:
- '000400072700008'
intvolume: ' 54'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1307.6444
month: '06'
oa: 1
oa_version: Submitted Version
page: 915 - 965
publication: Discrete & Computational Geometry
publication_identifier:
issn:
- '01795376'
publication_status: published
publisher: Springer
publist_id: '6309'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Algorithmic solvability of the lifting extension problem
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2017'
...
---
_id: '10745'
abstract:
- lang: eng
text: New ways to investigate and manipulate fluxoid and vortex states of mesoscopic
superconducting structures are of great interest. The states with multiple vortices
or winding numbers could be useful for the study of vortex interactions and interference
effects, the braiding of Majorana bound states by winding vortices, and the development
of novel superconducting devices. We demonstrate a methodology based on magnetic
force microscopy that allows us to induce, probe and control fluxoid states in
thin wall structures comprised of multiple loops. By using micro-magnet as a source
of inhomogeneous magnetic field, we can efficiently explore the configuration
space of fluxoid states. Scanning over the structure reveals the energy crossing
points of the lowest laying fluxoid states. This is due the strong interaction
of cantilever with thermally activated fluxoid transitions at points of degeneracy.
We show that measured patterns of fluxoid transitions allow to identify the states,
investigate their energetics, and manipulate them. Further, we show that the dynamics
of driven fluxoid transitions can be described by stochastic resonance model,
which provides a unique way of measuring fluxoid transition rate and related energy
barrier for chosen transitions even in complicated structures
alternative_title:
- Bulletin of the American Physical Society
article_number: P39.00011
article_processing_charge: No
author:
- first_name: Hryhoriy
full_name: Polshyn, Hryhoriy
id: edfc7cb1-526e-11ec-b05a-e6ecc27e4e48
last_name: Polshyn
orcid: 0000-0001-8223-8896
- first_name: Tyler
full_name: Naibert, Tyler
last_name: Naibert
- first_name: Raffi
full_name: Budakian, Raffi
last_name: Budakian
citation:
ama: 'Polshyn H, Naibert T, Budakian R. Probing and controlling fluxoid states
in multiply-connected mesoscopic superconducting structures. In: APS March
Meeting 2017. Vol 62. American Physical Society; 2017.'
apa: 'Polshyn, H., Naibert, T., & Budakian, R. (2017). Probing and controlling
fluxoid states in multiply-connected mesoscopic superconducting structures. In
APS March Meeting 2017 (Vol. 62). New Orleans, LA, United States: American
Physical Society.'
chicago: Polshyn, Hryhoriy, Tyler Naibert, and Raffi Budakian. “ Probing and Controlling
Fluxoid States in Multiply-Connected Mesoscopic Superconducting Structures.” In
APS March Meeting 2017, Vol. 62. American Physical Society, 2017.
ieee: H. Polshyn, T. Naibert, and R. Budakian, “ Probing and controlling fluxoid
states in multiply-connected mesoscopic superconducting structures,” in APS
March Meeting 2017, New Orleans, LA, United States, 2017, vol. 62, no. 4.
ista: 'Polshyn H, Naibert T, Budakian R. 2017. Probing and controlling fluxoid
states in multiply-connected mesoscopic superconducting structures. APS March
Meeting 2017. APS: American Physical Society, Bulletin of the American Physical
Society, vol. 62, P39.00011.'
mla: Polshyn, Hryhoriy, et al. “ Probing and Controlling Fluxoid States in Multiply-Connected
Mesoscopic Superconducting Structures.” APS March Meeting 2017, vol. 62,
no. 4, P39.00011, American Physical Society, 2017.
short: H. Polshyn, T. Naibert, R. Budakian, in:, APS March Meeting 2017, American
Physical Society, 2017.
conference:
end_date: 2017-03-17
location: New Orleans, LA, United States
name: 'APS: American Physical Society'
start_date: 2017-03-13
date_created: 2022-02-08T09:49:17Z
date_published: 2017-03-01T00:00:00Z
date_updated: 2022-02-08T10:44:35Z
day: '01'
extern: '1'
intvolume: ' 62'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://meetings.aps.org/Meeting/MAR17/Session/P39.11
month: '03'
oa: 1
oa_version: Published Version
publication: APS March Meeting 2017
publication_identifier:
issn:
- 0003-0503
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
status: public
title: ' Probing and controlling fluxoid states in multiply-connected mesoscopic superconducting
structures'
type: conference
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 62
year: '2017'
...
---
_id: '1075'
alternative_title:
- American Studies in Austria
author:
- first_name: Bernhard
full_name: Wenzl, Bernhard
id: 479E9046-F248-11E8-B48F-1D18A9856A87
last_name: Wenzl
citation:
ama: 'Wenzl B. An American in Allied-occupied Austria: John Dos Passos Reports on
"The Vienna Frontier" In: Parker J, Poole R, eds. Austria
and America: 20th-Century Cross-Cultural Encounters. Vol 15. LIT Verlag Berlin-Münster-Wien-Zürich-London;
2017:73-80.'
apa: 'Wenzl, B. (2017). An American in Allied-occupied Austria: John Dos Passos
Reports on "The Vienna Frontier" In J. Parker & R. Poole
(Eds.), Austria and America: 20th-Century Cross-Cultural Encounters (Vol.
15, pp. 73–80). LIT Verlag Berlin-Münster-Wien-Zürich-London.'
chicago: 'Wenzl, Bernhard. “An American in Allied-Occupied Austria: John Dos Passos
Reports on "The Vienna Frontier"” In Austria and America:
20th-Century Cross-Cultural Encounters, edited by Joshua Parker and Ralph
Poole, 15:73–80. LIT Verlag Berlin-Münster-Wien-Zürich-London, 2017.'
ieee: 'B. Wenzl, “An American in Allied-occupied Austria: John Dos Passos Reports
on "The Vienna Frontier",” in Austria and America: 20th-Century
Cross-Cultural Encounters, vol. 15, J. Parker and R. Poole, Eds. LIT Verlag
Berlin-Münster-Wien-Zürich-London, 2017, pp. 73–80.'
ista: 'Wenzl B. 2017.An American in Allied-occupied Austria: John Dos Passos Reports
on "The Vienna Frontier" In: Austria and America: 20th-Century
Cross-Cultural Encounters. American Studies in Austria, vol. 15, 73–80.'
mla: 'Wenzl, Bernhard. “An American in Allied-Occupied Austria: John Dos Passos
Reports on "The Vienna Frontier"” Austria and America: 20th-Century
Cross-Cultural Encounters, edited by Joshua Parker and Ralph Poole, vol. 15,
LIT Verlag Berlin-Münster-Wien-Zürich-London, 2017, pp. 73–80.'
short: 'B. Wenzl, in:, J. Parker, R. Poole (Eds.), Austria and America: 20th-Century
Cross-Cultural Encounters, LIT Verlag Berlin-Münster-Wien-Zürich-London, 2017,
pp. 73–80.'
date_created: 2018-12-11T11:50:00Z
date_published: 2017-02-01T00:00:00Z
date_updated: 2021-01-12T06:48:06Z
day: '01'
ddc:
- '001'
editor:
- first_name: Joshua
full_name: Parker, Joshua
last_name: Parker
- first_name: Ralph
full_name: Poole, Ralph
last_name: Poole
extern: '1'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:06Z
date_updated: 2018-12-12T10:08:06Z
file_id: '4666'
file_name: IST-2017-732-v1+1_Austria_and_America_Cross-Cultural_Encounters.pdf
file_size: 380624
relation: main_file
file_date_updated: 2018-12-12T10:08:06Z
has_accepted_license: '1'
intvolume: ' 15'
language:
- iso: eng
month: '02'
oa: 1
oa_version: None
page: 73 - 80
publication: 'Austria and America: 20th-Century Cross-Cultural Encounters'
publication_identifier:
isbn:
- 978-3643908124
publication_status: published
publisher: LIT Verlag Berlin-Münster-Wien-Zürich-London
publist_id: '6306'
status: public
title: 'An American in Allied-occupied Austria: John Dos Passos Reports on "The
Vienna Frontier"'
type: book_chapter
user_id: 2EBD1598-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2017'
...
---
_id: '1076'
abstract:
- lang: eng
text: Signatures of the Coulomb corrections in the photoelectron momentum distribution
during laser-induced ionization of atoms or ions in tunneling and multiphoton
regimes are investigated analytically in the case of a one-dimensional problem.
A high-order Coulomb-corrected strong-field approximation is applied, where the
exact continuum state in the S matrix is approximated by the eikonal Coulomb-Volkov
state including the second-order corrections to the eikonal. Although without
high-order corrections our theory coincides with the known analytical R-matrix
(ARM) theory, we propose a simplified procedure for the matrix element derivation.
Rather than matching the eikonal Coulomb-Volkov wave function with the bound state
as in the ARM theory to remove the Coulomb singularity, we calculate the matrix
element via the saddle-point integration method by time as well as by coordinate,
and in this way avoiding the Coulomb singularity. The momentum shift in the photoelectron
momentum distribution with respect to the ARM theory due to high-order corrections
is analyzed for tunneling and multiphoton regimes. The relation of the quantum
corrections to the tunneling delay time is discussed.
article_number: '023403'
article_processing_charge: No
arxiv: 1
author:
- first_name: Michael
full_name: Klaiber, Michael
last_name: Klaiber
- first_name: Jiří
full_name: Daněk, Jiří
last_name: Daněk
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
- first_name: Karen
full_name: Hatsagortsyan, Karen
last_name: Hatsagortsyan
- first_name: Christoph
full_name: Keitel, Christoph
last_name: Keitel
citation:
ama: Klaiber M, Daněk J, Yakaboylu E, Hatsagortsyan K, Keitel C. Strong-field ionization
via a high-order Coulomb-corrected strong-field approximation. Physical Review
A - Atomic, Molecular, and Optical Physics. 2017;95(2). doi:10.1103/PhysRevA.95.023403
apa: Klaiber, M., Daněk, J., Yakaboylu, E., Hatsagortsyan, K., & Keitel, C.
(2017). Strong-field ionization via a high-order Coulomb-corrected strong-field
approximation. Physical Review A - Atomic, Molecular, and Optical Physics.
American Physical Society. https://doi.org/10.1103/PhysRevA.95.023403
chicago: Klaiber, Michael, Jiří Daněk, Enderalp Yakaboylu, Karen Hatsagortsyan,
and Christoph Keitel. “Strong-Field Ionization via a High-Order Coulomb-Corrected
Strong-Field Approximation.” Physical Review A - Atomic, Molecular, and Optical
Physics. American Physical Society, 2017. https://doi.org/10.1103/PhysRevA.95.023403.
ieee: M. Klaiber, J. Daněk, E. Yakaboylu, K. Hatsagortsyan, and C. Keitel, “Strong-field
ionization via a high-order Coulomb-corrected strong-field approximation,”
Physical Review A - Atomic, Molecular, and Optical Physics, vol. 95, no. 2.
American Physical Society, 2017.
ista: Klaiber M, Daněk J, Yakaboylu E, Hatsagortsyan K, Keitel C. 2017. Strong-field
ionization via a high-order Coulomb-corrected strong-field approximation. Physical
Review A - Atomic, Molecular, and Optical Physics. 95(2), 023403.
mla: Klaiber, Michael, et al. “Strong-Field Ionization via a High-Order Coulomb-Corrected
Strong-Field Approximation.” Physical Review A - Atomic, Molecular, and Optical
Physics, vol. 95, no. 2, 023403, American Physical Society, 2017, doi:10.1103/PhysRevA.95.023403.
short: M. Klaiber, J. Daněk, E. Yakaboylu, K. Hatsagortsyan, C. Keitel, Physical
Review A - Atomic, Molecular, and Optical Physics 95 (2017).
date_created: 2018-12-11T11:50:01Z
date_published: 2017-02-01T00:00:00Z
date_updated: 2025-06-04T08:11:30Z
day: '01'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.95.023403
ec_funded: 1
external_id:
arxiv:
- '1609.07018'
isi:
- '000400571700011'
intvolume: ' 95'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1609.07018
month: '02'
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
publication: ' Physical Review A - Atomic, Molecular, and Optical Physics'
publication_identifier:
issn:
- 2469-9926
publication_status: published
publisher: American Physical Society
publist_id: '6305'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Strong-field ionization via a high-order Coulomb-corrected strong-field approximation
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 95
year: '2017'
...
---
_id: '1077'
abstract:
- lang: eng
text: Viral capsids are structurally constrained by interactions among the amino
acids (AAs) of their constituent proteins. Therefore, epistasis is expected to
evolve among physically interacting sites and to influence the rates of substitution.
To study the evolution of epistasis, we focused on the major structural protein
of the fX174 phage family by first reconstructing the ancestral protein sequences
of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction
differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each
ancestral haplotype and the extant species, we estimated, in silico, the distribution
of free energies and epistasis of the capsid structure. We found that free energy
has not significantly increased but epistasis has. We decomposed epistasis up
to fifth order and found that higher-order epistasis sometimes compensates pairwise
interactions making the free energy seem additive. The dN/dS ratio is low, suggesting
strong purifying selection, and that structure is under stabilizing selection.
We synthesized phages carrying ancestral haplotypes of the coat protein gene and
measured their fitness experimentally. Our findings indicate that stabilizing
mutations can have higher fitness, and that fitness optima do not necessarily
coincide with energy minima.
article_number: '20160139'
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Rodrigo A
full_name: Fernandes Redondo, Rodrigo A
id: 409D5C96-F248-11E8-B48F-1D18A9856A87
last_name: Fernandes Redondo
orcid: 0000-0002-5837-2793
- first_name: Harold
full_name: Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
- first_name: Tomasz
full_name: Włodarski, Tomasz
last_name: Włodarski
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Evolutionary interplay
between structure, energy and epistasis in the coat protein of the ϕX174 phage
family. Journal of the Royal Society Interface. 2017;14(126). doi:10.1098/rsif.2016.0139
apa: Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., & Bollback, J.
P. (2017). Evolutionary interplay between structure, energy and epistasis in the
coat protein of the ϕX174 phage family. Journal of the Royal Society Interface.
Royal Society of London. https://doi.org/10.1098/rsif.2016.0139
chicago: Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan
P Bollback. “Evolutionary Interplay between Structure, Energy and Epistasis in
the Coat Protein of the ΦX174 Phage Family.” Journal of the Royal Society Interface.
Royal Society of London, 2017. https://doi.org/10.1098/rsif.2016.0139.
ieee: R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Evolutionary
interplay between structure, energy and epistasis in the coat protein of the ϕX174
phage family,” Journal of the Royal Society Interface, vol. 14, no. 126.
Royal Society of London, 2017.
ista: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2017. Evolutionary
interplay between structure, energy and epistasis in the coat protein of the ϕX174
phage family. Journal of the Royal Society Interface. 14(126), 20160139.
mla: Fernandes Redondo, Rodrigo A., et al. “Evolutionary Interplay between Structure,
Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.” Journal
of the Royal Society Interface, vol. 14, no. 126, 20160139, Royal Society
of London, 2017, doi:10.1098/rsif.2016.0139.
short: R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, Journal
of the Royal Society Interface 14 (2017).
date_created: 2018-12-11T11:50:01Z
date_published: 2017-01-04T00:00:00Z
date_updated: 2025-07-10T11:49:59Z
day: '04'
ddc:
- '570'
department:
- _id: NiBa
- _id: JoBo
doi: 10.1098/rsif.2016.0139
ec_funded: 1
external_id:
isi:
- '000393380400001'
file:
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content_type: application/pdf
creator: dernst
date_created: 2019-01-18T09:14:02Z
date_updated: 2019-01-18T09:14:02Z
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file_name: 2017_JRSI_Redondo.pdf
file_size: 1092015
relation: main_file
success: 1
file_date_updated: 2019-01-18T09:14:02Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
issue: '126'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
- _id: 2578D616-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '648440'
name: Selective Barriers to Horizontal Gene Transfer
publication: Journal of the Royal Society Interface
publication_identifier:
issn:
- 1742-5689
publication_status: published
publisher: Royal Society of London
publist_id: '6303'
quality_controlled: '1'
related_material:
record:
- id: '9864'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Evolutionary interplay between structure, energy and epistasis in the coat
protein of the ϕX174 phage family
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: 14
year: '2017'
...
---
_id: '1078'
abstract:
- lang: eng
text: 'One of the key questions in understanding plant development is how single
cells behave in a larger context of the tissue. Therefore, it requires the observation
of the whole organ with a high spatial- as well as temporal resolution over prolonged
periods of time, which may cause photo-toxic effects. This protocol shows a plant
sample preparation method for light-sheet microscopy, which is characterized by
mounting the plant vertically on the surface of a gel. The plant is mounted in
such a way that the roots are submerged in a liquid medium while the leaves remain
in the air. In order to ensure photosynthetic activity of the plant, a custom-made
lighting system illuminates the leaves. To keep the roots in darkness the water
surface is covered with sheets of black plastic foil. This method allows long-term
imaging of plant organ development in standardized conditions. '
acknowledged_ssus:
- _id: M-Shop
- _id: Bio
article_number: e55044
article_processing_charge: No
author:
- first_name: Daniel
full_name: Von Wangenheim, Daniel
id: 49E91952-F248-11E8-B48F-1D18A9856A87
last_name: Von Wangenheim
orcid: 0000-0002-6862-1247
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: von Wangenheim D, Hauschild R, Friml J. Light sheet fluorescence microscopy
of plant roots growing on the surface of a gel. Journal of visualized experiments
JoVE. 2017;2017(119). doi:10.3791/55044
apa: von Wangenheim, D., Hauschild, R., & Friml, J. (2017). Light sheet fluorescence
microscopy of plant roots growing on the surface of a gel. Journal of Visualized
Experiments JoVE. Journal of Visualized Experiments. https://doi.org/10.3791/55044
chicago: Wangenheim, Daniel von, Robert Hauschild, and Jiří Friml. “Light Sheet
Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel.” Journal
of Visualized Experiments JoVE. Journal of Visualized Experiments, 2017. https://doi.org/10.3791/55044.
ieee: D. von Wangenheim, R. Hauschild, and J. Friml, “Light sheet fluorescence microscopy
of plant roots growing on the surface of a gel,” Journal of visualized experiments
JoVE, vol. 2017, no. 119. Journal of Visualized Experiments, 2017.
ista: von Wangenheim D, Hauschild R, Friml J. 2017. Light sheet fluorescence microscopy
of plant roots growing on the surface of a gel. Journal of visualized experiments
JoVE. 2017(119), e55044.
mla: von Wangenheim, Daniel, et al. “Light Sheet Fluorescence Microscopy of Plant
Roots Growing on the Surface of a Gel.” Journal of Visualized Experiments JoVE,
vol. 2017, no. 119, e55044, Journal of Visualized Experiments, 2017, doi:10.3791/55044.
short: D. von Wangenheim, R. Hauschild, J. Friml, Journal of Visualized Experiments
JoVE 2017 (2017).
date_created: 2018-12-11T11:50:01Z
date_published: 2017-01-18T00:00:00Z
date_updated: 2025-04-15T06:50:23Z
day: '18'
ddc:
- '580'
department:
- _id: JiFr
- _id: Bio
doi: 10.3791/55044
ec_funded: 1
external_id:
isi:
- '000397847200041'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:31Z
date_updated: 2018-12-12T10:16:31Z
file_id: '5219'
file_name: IST-2017-808-v1+1_2017_VWangenheim_list.pdf
file_size: 57678
relation: main_file
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:32Z
date_updated: 2018-12-12T10:16:32Z
file_id: '5220'
file_name: IST-2017-808-v1+2_2017_VWangenheim_article.pdf
file_size: 1317820
relation: main_file
file_date_updated: 2018-12-12T10:16:32Z
has_accepted_license: '1'
intvolume: ' 2017'
isi: 1
issue: '119'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: Journal of visualized experiments JoVE
publication_status: published
publisher: Journal of Visualized Experiments
publist_id: '6302'
pubrep_id: '808'
related_material:
record:
- id: '5565'
relation: popular_science
status: public
scopus_import: '1'
status: public
title: Light sheet fluorescence microscopy of plant roots growing on the surface of
a gel
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 2017
year: '2017'
...
---
_id: '1079'
abstract:
- lang: eng
text: We study the ionization problem in the Thomas-Fermi-Dirac-von Weizsäcker theory
for atoms and molecules. We prove the nonexistence of minimizers for the energy
functional when the number of electrons is large and the total nuclear charge
is small. This nonexistence result also applies to external potentials decaying
faster than the Coulomb potential. In the case of arbitrary nuclear charges, we
obtain the nonexistence of stable minimizers and radial minimizers.
article_number: '6'
article_processing_charge: No
arxiv: 1
author:
- first_name: Phan
full_name: Nam, Phan
id: 404092F4-F248-11E8-B48F-1D18A9856A87
last_name: Nam
- first_name: Hanne
full_name: Van Den Bosch, Hanne
last_name: Van Den Bosch
citation:
ama: Nam P, Van Den Bosch H. Nonexistence in Thomas Fermi-Dirac-von Weizsäcker theory
with small nuclear charges. Mathematical Physics, Analysis and Geometry.
2017;20(2). doi:10.1007/s11040-017-9238-0
apa: Nam, P., & Van Den Bosch, H. (2017). Nonexistence in Thomas Fermi-Dirac-von
Weizsäcker theory with small nuclear charges. Mathematical Physics, Analysis
and Geometry. Springer. https://doi.org/10.1007/s11040-017-9238-0
chicago: Nam, Phan, and Hanne Van Den Bosch. “Nonexistence in Thomas Fermi-Dirac-von
Weizsäcker Theory with Small Nuclear Charges.” Mathematical Physics, Analysis
and Geometry. Springer, 2017. https://doi.org/10.1007/s11040-017-9238-0.
ieee: P. Nam and H. Van Den Bosch, “Nonexistence in Thomas Fermi-Dirac-von Weizsäcker
theory with small nuclear charges,” Mathematical Physics, Analysis and Geometry,
vol. 20, no. 2. Springer, 2017.
ista: Nam P, Van Den Bosch H. 2017. Nonexistence in Thomas Fermi-Dirac-von Weizsäcker
theory with small nuclear charges. Mathematical Physics, Analysis and Geometry.
20(2), 6.
mla: Nam, Phan, and Hanne Van Den Bosch. “Nonexistence in Thomas Fermi-Dirac-von
Weizsäcker Theory with Small Nuclear Charges.” Mathematical Physics, Analysis
and Geometry, vol. 20, no. 2, 6, Springer, 2017, doi:10.1007/s11040-017-9238-0.
short: P. Nam, H. Van Den Bosch, Mathematical Physics, Analysis and Geometry 20
(2017).
date_created: 2018-12-11T11:50:02Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2025-06-04T08:11:50Z
day: '01'
department:
- _id: RoSe
doi: 10.1007/s11040-017-9238-0
external_id:
arxiv:
- '1603.07368'
isi:
- '000401270000004'
intvolume: ' 20'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1603.07368
month: '06'
oa: 1
oa_version: Submitted Version
project:
- _id: 25C878CE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27533_N27
name: Structure of the Excitation Spectrum for Many-Body Quantum Systems
publication: Mathematical Physics, Analysis and Geometry
publication_identifier:
issn:
- 1385-0172
publication_status: published
publisher: Springer
publist_id: '6300'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Nonexistence in Thomas Fermi-Dirac-von Weizsäcker theory with small nuclear
charges
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2017'
...