---
_id: '12817'
abstract:
- lang: eng
text: 3D-reconstruction of living brain tissue down to individual synapse level
would create opportunities for decoding the dynamics and structure-function relationships
of the brain’s complex and dense information processing network. However, it has
been hindered by insufficient 3D-resolution, inadequate signal-to-noise-ratio,
and prohibitive light burden in optical imaging, whereas electron microscopy is
inherently static. Here we solved these challenges by developing an integrated
optical/machine learning technology, LIONESS (Live Information-Optimized Nanoscopy
Enabling Saturated Segmentation). It leverages optical modifications to stimulated
emission depletion (STED) microscopy in comprehensively, extracellularly labelled
tissue and prior information on sample structure via machine learning to simultaneously
achieve isotropic super-resolution, high signal-to-noise-ratio, and compatibility
with living tissue. This allows dense deep-learning-based instance segmentation
and 3D-reconstruction at synapse level incorporating molecular, activity, and
morphodynamic information. LIONESS opens up avenues for studying the dynamic functional
(nano-)architecture of living brain tissue.
acknowledged_ssus:
- _id: ScienComp
- _id: Bio
- _id: PreCl
- _id: LifeSc
- _id: M-Shop
- _id: E-Lib
acknowledgement: 'We thank J. Vorlaufer, N. Agudelo, A. Wartak for microscope maintenance
and troubleshooting, C. Kreuzinger and A. Freeman for technical assistance, and
M. Šuplata for hardware control support, and Márcia Cunha dos Santos for initial
exploration of software. We thank Paul Henderson for advice on deep-learning training
and Michael Sixt, Scott Boyd, and Tamara Weiss for discussions and critical reading
of the manuscript. Luke Lavis (Janelia Research Campus) generously provided JF585-HaloTag
ligand. '
article_processing_charge: No
author:
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Danzl JG. Research data for the publication “Dense 4D nanoscale reconstruction
of living brain tissue.” 2023. doi:10.15479/AT:ISTA:12817
apa: Danzl, J. G. (2023). Research data for the publication “Dense 4D nanoscale
reconstruction of living brain tissue.” Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:12817
chicago: Danzl, Johann G. “Research Data for the Publication ‘Dense 4D Nanoscale
Reconstruction of Living Brain Tissue.’” Institute of Science and Technology Austria,
2023. https://doi.org/10.15479/AT:ISTA:12817.
ieee: J. G. Danzl, “Research data for the publication ‘Dense 4D nanoscale reconstruction
of living brain tissue.’” Institute of Science and Technology Austria, 2023.
ista: Danzl JG. 2023. Research data for the publication ‘Dense 4D nanoscale reconstruction
of living brain tissue’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:12817.
mla: Danzl, Johann G. Research Data for the Publication “Dense 4D Nanoscale Reconstruction
of Living Brain Tissue.” Institute of Science and Technology Austria, 2023,
doi:10.15479/AT:ISTA:12817.
short: J.G. Danzl, (2023).
contributor:
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last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Eder
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last_name: Miguel Villalba
- first_name: Julia M
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last_name: Michalska
- first_name: Julia
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last_name: Lyudchik
- first_name: Donglai
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- first_name: Zudi
last_name: Lin
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last_name: Watson
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last_name: Ben Simon
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last_name: Sommer
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last_name: Grant
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last_name: Jonas
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id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
date_created: 2023-04-07T11:37:40Z
date_published: 2023-05-19T00:00:00Z
date_updated: 2024-01-10T08:37:48Z
day: '19'
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---
_id: '12497'
abstract:
- lang: eng
text: Aromatic side chains are important reporters of the plasticity of proteins,
and often form important contacts in protein–protein interactions. We studied
aromatic residues in the two structurally homologous cross-β amyloid fibrils HET-s,
and HELLF by employing a specific isotope-labeling approach and magic-angle-spinning
NMR. The dynamic behavior of the aromatic residues Phe and Tyr indicates that
the hydrophobic amyloid core is rigid, without any sign of "breathing motions"
over hundreds of milliseconds at least. Aromatic residues exposed at the fibril
surface have a rigid ring axis but undergo ring flips on a variety of time scales
from nanoseconds to microseconds. Our approach provides direct insight into hydrophobic-core
motions, enabling a better evaluation of the conformational heterogeneity generated
from an NMR structural ensemble of such amyloid cross-β architecture.
article_processing_charge: No
author:
- first_name: Lea Marie
full_name: Becker, Lea Marie
id: 36336939-eb97-11eb-a6c2-c83f1214ca79
last_name: Becker
orcid: 0000-0002-6401-5151
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
citation:
ama: 'Becker LM, Schanda P. Research data to: The rigid core and flexible surface
of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of aromatic
residues. 2023. doi:10.15479/AT:ISTA:12497'
apa: 'Becker, L. M., & Schanda, P. (2023). Research data to: The rigid core
and flexible surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy
of aromatic residues. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12497'
chicago: 'Becker, Lea Marie, and Paul Schanda. “Research Data to: The Rigid Core
and Flexible Surface of Amyloid Fibrils Probed by Magic-Angle-Spinning NMR Spectroscopy
of Aromatic Residues.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:12497.'
ieee: 'L. M. Becker and P. Schanda, “Research data to: The rigid core and flexible
surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of
aromatic residues.” Institute of Science and Technology Austria, 2023.'
ista: 'Becker LM, Schanda P. 2023. Research data to: The rigid core and flexible
surface of amyloid fibrils probed by magic-angle-spinning NMR spectroscopy of
aromatic residues, Institute of Science and Technology Austria, 10.15479/AT:ISTA:12497.'
mla: 'Becker, Lea Marie, and Paul Schanda. Research Data to: The Rigid Core and
Flexible Surface of Amyloid Fibrils Probed by Magic-Angle-Spinning NMR Spectroscopy
of Aromatic Residues. Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:12497.'
short: L.M. Becker, P. Schanda, (2023).
contributor:
- contributor_type: researcher
first_name: Mélanie
last_name: Berbon
- contributor_type: researcher
first_name: Alicia
last_name: Vallet
- contributor_type: researcher
first_name: Axelle
last_name: Grelard
- contributor_type: researcher
first_name: Estelle
last_name: Morvan
- contributor_type: researcher
first_name: Benjamin
last_name: Bardiaux
- contributor_type: researcher
first_name: Roman
last_name: Lichtenecker
- contributor_type: researcher
first_name: Matthias
last_name: Ernst
- contributor_type: researcher
first_name: Antoine
last_name: Loquet
- contributor_type: contact_person
first_name: Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- contributor_type: researcher
first_name: Lea Marie
id: 36336939-eb97-11eb-a6c2-c83f1214ca79
last_name: Becker
orcid: 0000-0002-6401-5151
date_created: 2023-02-03T08:08:02Z
date_published: 2023-03-23T00:00:00Z
date_updated: 2024-02-21T12:14:06Z
day: '23'
ddc:
- '572'
department:
- _id: GradSch
- _id: PaSc
doi: 10.15479/AT:ISTA:12497
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has_accepted_license: '1'
keyword:
- aromatic side chains
- isotopic labeling
- protein dynamics
- ring flips
- spin relaxation
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12675'
relation: used_in_publication
status: public
status: public
title: 'Research data to: The rigid core and flexible surface of amyloid fibrils probed
by magic-angle-spinning NMR spectroscopy of aromatic residues'
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13126'
abstract:
- lang: eng
text: Mapping the complex and dense arrangement of cells and their connectivity
in brain tissue demands nanoscale spatial resolution imaging. Super-resolution
optical microscopy excels at visualizing specific molecules and individual cells
but fails to provide tissue context. Here, we developed Comprehensive Analysis
of Tissues across Scales (CATS), a technology to densely map brain tissue architecture
from millimeter regional to nanometer synaptic scales in diverse chemically fixed
brain preparations, including rodent and human. CATS uses fixation-compatible
extracellular labeling and optical imaging, including stimulated emission depletion
or expansion microscopy, to comprehensively delineate cellular structures. It
enables three-dimensional reconstruction of single synapses and mapping of synaptic
connectivity by identification and analysis of putative synaptic cleft regions.
Applying CATS to the mouse hippocampal mossy fiber circuitry, we reconstructed
and quantified the synaptic input and output structure of identified neurons.
We furthermore demonstrate applicability to clinically derived human tissue samples,
including formalin-fixed paraffin-embedded routine diagnostic specimens, for visualizing
the cellular architecture of brain tissue in health and disease.
acknowledged_ssus:
- _id: ScienComp
- _id: Bio
- _id: PreCl
- _id: LifeSc
- _id: M-Shop
- _id: E-Lib
acknowledgement: "We thank Jakob Vorlaufer, Nathalie Agudelo-Dueñas, Wiebke Jahr,
Andreas Wartak for microscope maintenance and troubleshooting, Caroline Kreuzinger,
Anna Freeman, and Irene Erber for technical assistance and Matthias Tomschik for
support with obtaining human samples. We gratefully acknowledge Eder Miguel for
setting up webKnossos and Marek Šuplata for computational support and hardware control.
We are grateful to Ryuichi Shigemoto and Bernd Bickel for generous support, and
Michael Sixt and Scott Boyd (Stanford University) for discussions and critical reading
of the manuscript. PSD95-HaloTag mice were kindly provided by Seth Grant (University
of Edinburgh). We acknowledge expert support by IST Austria’s scientific computing,
imaging and optics, preclinical, and lab support facilities, and by the Library
and Miba machine shop.\r\nWe gratefully acknowledge funding by the following sources:
\r\nAustrian Science Fund (FWF) grant I3600-B27 (JGD)\r\nAustrian Science Fund (FWF)
grant DK W1232 (JGD, JMM)\r\nAustrian Science Fund (FWF) grant Z 312-B27, Wittgenstein
award (PJ)\r\nAustrian Science Funds (FWF) projects I4685-B, I6565-B (SYNABS) and
DOC 33-B27 (RH)\r\nGesellschaft für Forschungsförderung NÖ (NFB) grant LSC18-022
(JGD)\r\nEuropean Union’s Horizon 2020 research and innovation programme, European
Research Council (ERC) grant 715508 – REVERSEAUTISM (GN)\r\nEuropean Union’s Horizon
2020 research and innovation programme, European Research Council (ERC) grant 692692
– GIANTSYN (PJ)\r\nMarie Skłodowska-Curie Actions Fellowship GA no. 665385 under
the EU Horizon 2020 program (JMM, JL)\r\nMarie Skłodowska-Curie Actions Individual
Fellowship 101026635 under the EU Horizon 2020 program (JFW)"
article_processing_charge: No
author:
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
citation:
ama: Danzl JG. Research data for the publication “Imaging brain tissue architecture
across millimeter to nanometer scales.” 2023. doi:10.15479/AT:ISTA:13126
apa: Danzl, J. G. (2023). Research data for the publication “Imaging brain tissue
architecture across millimeter to nanometer scales.” Institute of Science and
Technology Austria. https://doi.org/10.15479/AT:ISTA:13126
chicago: Danzl, Johann G. “Research Data for the Publication ‘Imaging Brain Tissue
Architecture across Millimeter to Nanometer Scales.’” Institute of Science and
Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13126.
ieee: J. G. Danzl, “Research data for the publication ‘Imaging brain tissue architecture
across millimeter to nanometer scales.’” Institute of Science and Technology Austria,
2023.
ista: Danzl JG. 2023. Research data for the publication ‘Imaging brain tissue architecture
across millimeter to nanometer scales’, Institute of Science and Technology Austria,
10.15479/AT:ISTA:13126.
mla: Danzl, Johann G. Research Data for the Publication “Imaging Brain Tissue
Architecture across Millimeter to Nanometer Scales.” Institute of Science
and Technology Austria, 2023, doi:10.15479/AT:ISTA:13126.
short: J.G. Danzl, (2023).
contributor:
- first_name: Julia M
id: 443DB6DE-F248-11E8-B48F-1D18A9856A87
last_name: Michalska
- first_name: Julia
id: 46E28B80-F248-11E8-B48F-1D18A9856A87
last_name: Lyudchik
- first_name: Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Hana
id: ee3cb6ca-ec98-11ea-ae11-ff703e2254ed
last_name: Stefanickova
- first_name: Jake
id: 63836096-4690-11EA-BD4E-32803DDC885E
last_name: Watson
orcid: 0000-0002-8698-3823
- first_name: Alban
id: 9ac8f577-2357-11eb-997a-e566c5550886
last_name: Cenameri
- first_name: Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Karl
last_name: Roessler
- first_name: Thomas
last_name: Czech
- first_name: Romana
last_name: Höftberger
- first_name: Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
- first_name: Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
- first_name: Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
date_created: 2023-06-07T07:15:12Z
date_published: 2023-08-04T00:00:00Z
date_updated: 2024-02-21T12:18:19Z
day: '04'
ddc:
- '610'
department:
- _id: JoDa
- _id: SaSi
- _id: GaNo
- _id: PeJo
- _id: Bio
- _id: RySh
doi: 10.15479/AT:ISTA:13126
ec_funded: 1
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related_material:
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- description: 'Original data for Fig. 5d, Fig. 5d (N2V) and Fig. 5f-i, provided
via an external link due to the large size (>10GB) of the datasets. '
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title: Research data for the publication "Imaging brain tissue architecture across
millimeter to nanometer scales"
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image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13116'
abstract:
- lang: eng
text: 'The emergence of large-scale order in self-organized systems relies on local
interactions between individual components. During bacterial cell division, FtsZ
-- a prokaryotic homologue of the eukaryotic protein tubulin -- polymerizes into
treadmilling filaments that further organize into a cytoskeletal ring. In vitro,
FtsZ filaments can form dynamic chiral assemblies. However, how the active and
passive properties of individual filaments relate to these large-scale self-organized
structures remains poorly understood. Here, we connect single filament properties
with the mesoscopic scale by combining minimal active matter simulations and biochemical
reconstitution experiments. We show that density and flexibility of active chiral
filaments define their global order. At intermediate densities, curved, flexible
filaments organize into chiral rings and polar bands. An effectively nematic organization
dominates for high densities and for straight, mutant filaments with increased
rigidity. Our predicted phase diagram captures these features quantitatively,
demonstrating how the flexibility, density and chirality of active filaments affect
their collective behaviour. Our findings shed light on the fundamental properties
of active chiral matter and explain how treadmilling FtsZ filaments organize during
bacterial cell division. '
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: 'This work was supported by the European Research Council through
grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607
to M.L., B. P.M. was also supported by the Kanazawa University WPI- NanoLSI Bio-SPM
collaborative research program. Z.D. has received funding from Doctoral Programme
of the Austrian Academy of Sciences (OeAW): Grant agreement 26360. We thank Jan
Brugues (MPI CBG, Dresden, Germany), Andela Saric (ISTA, Klosterneuburg, Austria),
Daniel Pearce (Uni Geneva, Switzerland) for valuable scientific input and comments
on the manuscript. We are also thankful for the support by the Scientific Service
Units (SSU) of IST Austria through resources provided by the Imaging and Optics
Facility (IOF) and the Lab Support Facility (LSF). '
article_processing_charge: No
author:
- first_name: Zuzana
full_name: Dunajova, Zuzana
id: 4B39F286-F248-11E8-B48F-1D18A9856A87
last_name: Dunajova
- first_name: Batirtze
full_name: Prats Mateu, Batirtze
id: 299FE892-F248-11E8-B48F-1D18A9856A87
last_name: Prats Mateu
- first_name: Philipp
full_name: Radler, Philipp
id: 40136C2A-F248-11E8-B48F-1D18A9856A87
last_name: Radler
orcid: '0000-0001-9198-2182 '
- first_name: Keesiang
full_name: Lim, Keesiang
last_name: Lim
- first_name: Dörte
full_name: Brandis, Dörte
last_name: Brandis
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Johann G
full_name: Danzl, Johann G
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last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Richard W.
full_name: Wong, Richard W.
last_name: Wong
- first_name: Jens
full_name: Elgeti, Jens
last_name: Elgeti
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Martin
full_name: Loose, Martin
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last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: Dunajova Z, Prats Mateu B, Radler P, et al. Chiral and nematic phases of flexible
active filaments. 2023. doi:10.15479/AT:ISTA:13116
apa: Dunajova, Z., Prats Mateu, B., Radler, P., Lim, K., Brandis, D., Velicky, P.,
… Loose, M. (2023). Chiral and nematic phases of flexible active filaments. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13116
chicago: Dunajova, Zuzana, Batirtze Prats Mateu, Philipp Radler, Keesiang Lim, Dörte
Brandis, Philipp Velicky, Johann G Danzl, et al. “Chiral and Nematic Phases of
Flexible Active Filaments.” Institute of Science and Technology Austria, 2023.
https://doi.org/10.15479/AT:ISTA:13116.
ieee: Z. Dunajova et al., “Chiral and nematic phases of flexible active filaments.”
Institute of Science and Technology Austria, 2023.
ista: Dunajova Z, Prats Mateu B, Radler P, Lim K, Brandis D, Velicky P, Danzl JG,
Wong RW, Elgeti J, Hannezo EB, Loose M. 2023. Chiral and nematic phases of flexible
active filaments, Institute of Science and Technology Austria, 10.15479/AT:ISTA:13116.
mla: Dunajova, Zuzana, et al. Chiral and Nematic Phases of Flexible Active Filaments.
Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13116.
short: Z. Dunajova, B. Prats Mateu, P. Radler, K. Lim, D. Brandis, P. Velicky, J.G.
Danzl, R.W. Wong, J. Elgeti, E.B. Hannezo, M. Loose, (2023).
date_created: 2023-06-02T12:30:40Z
date_published: 2023-07-26T00:00:00Z
date_updated: 2024-02-21T12:19:09Z
day: '26'
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department:
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- _id: JoDa
doi: 10.15479/AT:ISTA:13116
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file_size: 59166206
relation: main_file
success: 1
file_date_updated: 2023-08-08T11:17:28Z
has_accepted_license: '1'
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '679239'
name: Self-Organization of the Bacterial Cell
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
- _id: 34d75525-11ca-11ed-8bc3-89b6307fee9d
grant_number: '26360'
name: Motile active matter models of migrating cells and chiral filaments
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '13314'
relation: used_in_publication
status: public
status: public
title: Chiral and nematic phases of flexible active filaments
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '14614'
abstract:
- lang: eng
text: 'Many insects carry an ancient X chromosome—the Drosophila Muller element
F—that likely predates their origin. Interestingly, the X has undergone turnover
in multiple fly species (Diptera) after being conserved for more than 450 My.
The long evolutionary distance between Diptera and other sequenced insect clades
makes it difficult to infer what could have contributed to this sudden increase
in rate of turnover. Here, we produce the first genome and transcriptome of scorpionflies
(genus Panorpa), an insect belonging to a long overlooked sister-order to Diptera:
Mecoptera. Combining our genome assembly with genomic short-read data, we obtain
genome coverage and identify X-linked super-scaffolds. We further perform a gene
homology analysis between the Panorpa X and a closely related Diptera species,
and we assess the conservation of the Panorpa X-linked gene content with that
of more distantly related insect species. We explored the structure of the Panorpa
X by determining its repeat content, GC content, and nucleotide diversity. Finally,
we used RNAseq data to detect the presence of dosage compensation in somatic tissues,
as well as to explore gene expression tissue-specificity, and sex-bias in gene
expression. We find high conservation of gene content between the mecopteran X
and the dipteran Muller F element, as well as several shared biological features,
such as the presence of dosage compensation and a low amount of genetic diversity,
consistent with a low recombination rate. However, the 2 homologous X chromosomes
differ strikingly in their size and number of genes they carry. Our results therefore
support a common ancestry of the mecopteran and ancestral dipteran X chromosomes,
and suggest that Muller element F shrank in size and gene content after the split
of Diptera and Mecoptera, which may have contributed to its turnover in dipteran
insects.'
article_processing_charge: No
author:
- first_name: Clementine
full_name: Lasne, Clementine
id: 02225f57-50d2-11eb-9ed8-8c92b9a34237
last_name: Lasne
orcid: 0000-0002-1197-8616
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Lasne C, Elkrewi MN. The scorpionfly (Panorpa cognata) genome highlights conserved
and derived features of the peculiar dipteran X chromosome. 2023. doi:10.15479/AT:ISTA:14614
apa: Lasne, C., & Elkrewi, M. N. (2023). The scorpionfly (Panorpa cognata) genome
highlights conserved and derived features of the peculiar dipteran X chromosome.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:14614
chicago: Lasne, Clementine, and Marwan N Elkrewi. “The Scorpionfly (Panorpa Cognata)
Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.”
Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:14614.
ieee: C. Lasne and M. N. Elkrewi, “The scorpionfly (Panorpa cognata) genome highlights
conserved and derived features of the peculiar dipteran X chromosome.” Institute
of Science and Technology Austria, 2023.
ista: Lasne C, Elkrewi MN. 2023. The scorpionfly (Panorpa cognata) genome highlights
conserved and derived features of the peculiar dipteran X chromosome, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:14614.
mla: Lasne, Clementine, and Marwan N. Elkrewi. The Scorpionfly (Panorpa Cognata)
Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.
Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:14614.
short: C. Lasne, M.N. Elkrewi, (2023).
contributor:
- contributor_type: researcher
first_name: Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
date_created: 2023-11-27T16:39:19Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2024-02-21T12:18:35Z
day: '01'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:14614
file:
- access_level: open_access
checksum: cd0f13322b5156819ecaebd2bc8e7d12
content_type: application/zip
creator: clasne
date_created: 2023-11-28T13:15:26Z
date_updated: 2023-11-28T13:15:26Z
file_id: '14625'
file_name: panorpaX.zip
file_size: 404968272
relation: main_file
success: 1
- access_level: open_access
checksum: 9ff600416577687a737cb3c96dfcb26c
content_type: text/plain
creator: clasne
date_created: 2023-11-30T14:16:59Z
date_updated: 2023-11-30T14:16:59Z
file_id: '14634'
file_name: panorpa_readme.txt
file_size: 2625
relation: main_file
success: 1
file_date_updated: 2023-11-30T14:16:59Z
has_accepted_license: '1'
keyword:
- Panorpa
- scorpionfly
- genome
- transcriptome
month: '12'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '14613'
relation: used_in_publication
status: public
status: public
title: The scorpionfly (Panorpa cognata) genome highlights conserved and derived features
of the peculiar dipteran X chromosome
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13173'
abstract:
- lang: eng
text: GABAB receptor (GBR) activation inhibits neurotransmitter release in axon
terminals in the brain, except in medial habenula (MHb) terminals, which show
robust potentiation. However, mechanisms underlying this enigmatic potentiation
remain elusive. Here, we report that GBR activation on MHb terminals induces an
activity-dependent transition from a facilitating, tonic to a depressing, phasic
neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase
in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked
synaptic vesicles at the presynaptic active zone (AZ). Strikingly, tonic and phasic
release exhibit distinct coupling distances and are selectively affected by deletion
of synaptoporin (SPO) and Ca2+-dependent activator protein for secretion 2 (CAPS2),
respectively. SPO modulates augmentation, the short-term plasticity associated
with tonic release, and CAPS2 retains the increased RRP for initial responses
in phasic response trains. Double pre-embedding immunolabeling confirmed the co-localization
of CAPS2 and SPO inside the same terminal. The cytosolic protein CAPS2 showed
a synaptic vesicle (SV)-associated distribution similar to the vesicular transmembrane
protein SPO. A newly developed “Flash and Freeze-fracture” method revealed the
release of SPO-associated vesicles in both tonic and phasic modes and activity-dependent
recruitment of CAPS2 to the AZ during phasic release, which lasted several minutes.
Overall, these results indicate that GBR activation translocates CAPS2 to the
AZ along with the fusion of CAPS2-associated SVs, contributing to a persistent
RRP increase. Thus, we discovered structural and molecular mechanisms underlying
tonic and phasic neurotransmitter release and their transition by GBR activation
in MHb terminals.
article_processing_charge: No
author:
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Shigemoto R. Transition from tonic to phasic neurotransmitter release by presynaptic
GABAB receptor activation in medial habenula terminals. 2023. doi:10.15479/AT:ISTA:13173
apa: Shigemoto, R. (2023). Transition from tonic to phasic neurotransmitter release
by presynaptic GABAB receptor activation in medial habenula terminals. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13173
chicago: Shigemoto, Ryuichi. “Transition from Tonic to Phasic Neurotransmitter Release
by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals.” Institute
of Science and Technology Austria, 2023. https://doi.org/10.15479/AT:ISTA:13173.
ieee: R. Shigemoto, “Transition from tonic to phasic neurotransmitter release by
presynaptic GABAB receptor activation in medial habenula terminals.” Institute
of Science and Technology Austria, 2023.
ista: Shigemoto R. 2023. Transition from tonic to phasic neurotransmitter release
by presynaptic GABAB receptor activation in medial habenula terminals, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:13173.
mla: Shigemoto, Ryuichi. Transition from Tonic to Phasic Neurotransmitter Release
by Presynaptic GABAB Receptor Activation in Medial Habenula Terminals. Institute
of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13173.
short: R. Shigemoto, (2023).
date_created: 2023-06-29T13:16:42Z
date_published: 2023-07-29T00:00:00Z
date_updated: 2024-03-12T13:44:18Z
day: '29'
ddc:
- '571'
department:
- _id: RySh
doi: 10.15479/AT:ISTA:13173
file:
- access_level: closed
checksum: ed59170869ba621f89f7c1894092192f
content_type: application/x-zip-compressed
creator: shigemot
date_created: 2023-06-29T13:11:22Z
date_updated: 2023-11-17T14:30:44Z
description: After review an updated version of the data is provided
file_id: '13174'
file_name: Raw data for Koppensteiner et al.zip
file_size: 542873672
relation: main_file
title: Outdated Version
- access_level: open_access
checksum: c07860eb82b4d367245f1b589fe5c250
content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
creator: patrickd
date_created: 2023-11-17T14:13:02Z
date_updated: 2023-11-17T14:13:02Z
file_id: '14550'
file_name: 11-17-23 Updated Koppensteiner et al. raw data.xlsx
file_size: 915079
relation: main_file
success: 1
- access_level: open_access
checksum: abf84b1699edac4349dc3a92d466fb7b
content_type: application/x-zip-compressed
creator: dernst
date_created: 2024-02-06T07:21:43Z
date_updated: 2024-02-06T07:21:43Z
file_id: '14942'
file_name: EM_Images.zip
file_size: 544868924
relation: main_file
success: 1
file_date_updated: 2024-02-06T07:21:43Z
has_accepted_license: '1'
keyword:
- medial habenula
- GABAB receptor
- vesicle release
- Flash and Freeze
- Flash and Freeze-fracture
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '15084'
relation: used_in_publication
status: public
status: public
title: Transition from tonic to phasic neurotransmitter release by presynaptic GABAB
receptor activation in medial habenula terminals
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '10934'
abstract:
- lang: eng
text: 'FtsA is crucial for assembly of the E. coli divisome, as it dynamically links
cytoplasmic FtsZ filaments with transmembrane cell division proteins. FtsA allegedly
initiates cell division by switching from an inactive polymeric to an active monomeric
confirmation, which recruits downstream proteins and stabilizes FtsZ filaments.
Here, we use biochemical reconstitution experiments combined with quantitative
fluorescence microscopy to study divisome activation in vitro. We compare wildtype-FtsA
with FtsA-R286W, a constantly active gain-of-function mutant and find that R286W
outperforms the wildtype protein in replicating FtsZ treadmilling dynamics, stabilizing
FtsZ filaments and recruiting FtsN. We attribute these differences to a faster
membrane exchange of FtsA-R286W and its higher packing density below FtsZ filaments. Using
FRET microscopy, we find that FtsN binding does not compete with, but promotes
FtsA self-interaction. Our findings suggest a model where FtsA always forms dynamic
polymers on the membrane, which re-organize during assembly and activation of
the divisome. '
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: We acknowledge members of the Loose laboratory at IST Austria for
helpful discussions—in particular L. Lindorfer for his assistance with cloning and
purifications. We thank J. Löwe and T. Nierhaus (MRC-LMB Cambridge, UK) for sharing
unpublished work and helpful discussions, as well as D. Vavylonis and D. Rutkowski
(Lehigh University, Bethlehem, PA, USA) as well as S. Martin (University of Lausanne,
Switzerland) for sharing their code for FRAP analysis. We are also thankful for
the support by the Scientific Service Units (SSU) of IST Austria through resources
provided by the Imaging and Optics Facility (IOF) and the Lab Support Facility (LSF).
This work was supported by the European Research Council through grant ERC 2015-StG-679239
and by the Austrian Science Fund (FWF) StandAlone P34607 to M.L. and HFSP LT 000824/2016-L4
to N.B. For the purpose of open access, we have applied a CC BY public copyright
licence to any Author Accepted Manuscript version arising from this submission.
article_processing_charge: No
author:
- first_name: Philipp
full_name: Radler, Philipp
id: 40136C2A-F248-11E8-B48F-1D18A9856A87
last_name: Radler
orcid: ' 0000-0001-9198-2182 '
citation:
ama: Radler P. In vitro reconstitution of Escherichia coli divisome activation.
2022. doi:10.15479/AT:ISTA:10934
apa: Radler, P. (2022). In vitro reconstitution of Escherichia coli divisome activation.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:10934
chicago: Radler, Philipp. “In Vitro Reconstitution of Escherichia Coli Divisome
Activation.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:10934.
ieee: P. Radler, “In vitro reconstitution of Escherichia coli divisome activation.”
Institute of Science and Technology Austria, 2022.
ista: Radler P. 2022. In vitro reconstitution of Escherichia coli divisome activation,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:10934.
mla: Radler, Philipp. In Vitro Reconstitution of Escherichia Coli Divisome Activation.
Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:10934.
short: P. Radler, (2022).
contributor:
- contributor_type: supervisor
first_name: Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- contributor_type: researcher
first_name: Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
- contributor_type: researcher
first_name: Paulo
last_name: Caldas
- contributor_type: researcher
first_name: David
id: B9577E20-AA38-11E9-AC9A-0930E6697425
last_name: Michalik
- contributor_type: researcher
first_name: Natalia
last_name: Baranova
date_created: 2022-03-31T11:32:32Z
date_published: 2022-04-05T00:00:00Z
date_updated: 2024-02-21T12:35:18Z
day: '05'
ddc:
- '572'
department:
- _id: GradSch
- _id: MaLo
doi: 10.15479/AT:ISTA:10934
ec_funded: 1
file:
- access_level: open_access
checksum: 52d50202e04e9daa618a58e686d8ab58
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: pradler
date_created: 2022-04-22T10:15:19Z
date_updated: 2022-04-22T10:15:19Z
file_id: '11328'
file_name: Inventory for Data repository.docx
file_size: 13469
relation: main_file
success: 1
- access_level: open_access
checksum: 3e1518dd9fe9266b9bcc67695cb5015c
content_type: application/x-zip-compressed
creator: pradler
date_created: 2022-03-31T12:57:36Z
date_updated: 2022-03-31T12:57:36Z
file_id: '10935'
file_name: Raw Data Micrographs.zip
file_size: 2406478929
relation: main_file
success: 1
- access_level: open_access
checksum: 78049c82785fcdded36327f3845cb05f
content_type: application/x-zip-compressed
creator: pradler
date_created: 2022-04-04T08:23:52Z
date_updated: 2022-04-04T08:23:52Z
file_id: '10941'
file_name: Supplementary Movie S1-S5.zip
file_size: 3790894919
relation: main_file
success: 1
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content_type: application/x-zip-compressed
creator: pradler
date_created: 2022-04-04T08:25:41Z
date_updated: 2022-04-04T08:25:41Z
file_id: '10942'
file_name: Supplementary Movie S6-S9.zip
file_size: 3542799490
relation: main_file
success: 1
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content_type: application/x-zip-compressed
creator: pradler
date_created: 2022-03-31T19:20:03Z
date_updated: 2022-03-31T19:20:03Z
file_id: '10936'
file_name: Supplementary Movie S10-S18.zip
file_size: 4116732289
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date_created: 2022-04-22T09:17:01Z
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file_size: 4294960000
relation: main_file
success: 1
file_date_updated: 2022-04-22T10:15:19Z
has_accepted_license: '1'
keyword:
- Bacterial cell division
- in vitro reconstitution
- FtsZ
- FtsN
- FtsA
month: '04'
oa: 1
oa_version: Submitted Version
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '679239'
name: Self-Organization of the Bacterial Cell
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
publisher: Institute of Science and Technology Austria
related_material:
link:
- description: A custom written code (FRAPdiff) to quantify the Off binding rate
and Diffusion coefficient of membrane bound proteins. Written by Christoph Sommer.
relation: software
url: https://doi.org/10.5281/zenodo.6400639
record:
- id: '11373'
relation: used_in_publication
status: public
- id: '14280'
relation: used_in_publication
status: public
status: public
title: In vitro reconstitution of Escherichia coli divisome activation
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
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article_processing_charge: No
author:
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full_name: Schulz, Rouven
id: 4C5E7B96-F248-11E8-B48F-1D18A9856A87
last_name: Schulz
orcid: 0000-0001-5297-733X
citation:
ama: Schulz R. Source Data (Chimeric GPCRs mimic distinct signaling pathways and
modulate microglia responses). 2022. doi:10.15479/AT:ISTA:11542
apa: Schulz, R. (2022). Source Data (Chimeric GPCRs mimic distinct signaling pathways
and modulate microglia responses). Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:11542
chicago: Schulz, Rouven. “Source Data (Chimeric GPCRs Mimic Distinct Signaling Pathways
and Modulate Microglia Responses).” Institute of Science and Technology Austria,
2022. https://doi.org/10.15479/AT:ISTA:11542.
ieee: R. Schulz, “Source Data (Chimeric GPCRs mimic distinct signaling pathways
and modulate microglia responses).” Institute of Science and Technology Austria,
2022.
ista: Schulz R. 2022. Source Data (Chimeric GPCRs mimic distinct signaling pathways
and modulate microglia responses), Institute of Science and Technology Austria,
10.15479/AT:ISTA:11542.
mla: Schulz, Rouven. Source Data (Chimeric GPCRs Mimic Distinct Signaling Pathways
and Modulate Microglia Responses). Institute of Science and Technology Austria,
2022, doi:10.15479/AT:ISTA:11542.
short: R. Schulz, (2022).
contributor:
- contributor_type: contact_person
first_name: Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
date_created: 2022-07-08T11:03:02Z
date_published: 2022-01-01T00:00:00Z
date_updated: 2024-02-21T12:34:51Z
department:
- _id: GradSch
- _id: SaSi
doi: 10.15479/AT:ISTA:11542
file:
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checksum: 71e8186583f3adbb6c69a88ac9e6e49b
content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
creator: rschulz
date_created: 2022-07-08T10:56:52Z
date_updated: 2022-07-08T10:56:52Z
file_id: '11543'
file_name: Source Data.xlsx
file_size: 135784571
relation: main_file
success: 1
file_date_updated: 2022-07-08T10:56:52Z
has_accepted_license: '1'
oa: 1
oa_version: None
publisher: Institute of Science and Technology Austria
related_material:
link:
- relation: contains
url: https://www.biorxiv.org/content/10.1101/2021.06.21.449162v1
record:
- id: '11995'
relation: used_in_publication
status: public
status: public
title: Source Data (Chimeric GPCRs mimic distinct signaling pathways and modulate
microglia responses)
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12522'
abstract:
- lang: eng
text: This .zip File contains the transport data, the codes for the data analysis,
the microscopy analysis and the codes for the theoretical simulations for "Majorana-like
Coulomb spectroscopy in the absence of zero bias peaks" by M. Valentini, et. al.
The transport data are saved with hdf5 file format. The files can be open with
the log browser of Labber.
article_processing_charge: No
author:
- first_name: Marco
full_name: Valentini, Marco
id: C0BB2FAC-D767-11E9-B658-BC13E6697425
last_name: Valentini
- first_name: Pablo
full_name: San-Jose, Pablo
last_name: San-Jose
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Sara
full_name: Marti-Sanchez, Sara
last_name: Marti-Sanchez
- first_name: Marc
full_name: Botifoll, Marc
last_name: Botifoll
citation:
ama: Valentini M, San-Jose P, Arbiol J, Marti-Sanchez S, Botifoll M. Data for “Majorana-like
Coulomb spectroscopy in the absence of zero bias peaks.” 2022. doi:10.15479/AT:ISTA:12102
apa: Valentini, M., San-Jose, P., Arbiol, J., Marti-Sanchez, S., & Botifoll,
M. (2022). Data for “Majorana-like Coulomb spectroscopy in the absence of zero
bias peaks.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:12102
chicago: Valentini, Marco, Pablo San-Jose, Jordi Arbiol, Sara Marti-Sanchez, and
Marc Botifoll. “Data for ‘Majorana-like Coulomb Spectroscopy in the Absence of
Zero Bias Peaks.’” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:12102.
ieee: M. Valentini, P. San-Jose, J. Arbiol, S. Marti-Sanchez, and M. Botifoll, “Data
for ‘Majorana-like Coulomb spectroscopy in the absence of zero bias peaks.’” Institute
of Science and Technology Austria, 2022.
ista: Valentini M, San-Jose P, Arbiol J, Marti-Sanchez S, Botifoll M. 2022. Data
for ‘Majorana-like Coulomb spectroscopy in the absence of zero bias peaks’, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:12102.
mla: Valentini, Marco, et al. Data for “Majorana-like Coulomb Spectroscopy in
the Absence of Zero Bias Peaks.” Institute of Science and Technology Austria,
2022, doi:10.15479/AT:ISTA:12102.
short: M. Valentini, P. San-Jose, J. Arbiol, S. Marti-Sanchez, M. Botifoll, (2022).
contributor:
- contributor_type: contact_person
first_name: Marco
id: C0BB2FAC-D767-11E9-B658-BC13E6697425
last_name: Valentini
date_created: 2023-02-07T08:13:39Z
date_published: 2022-09-25T00:00:00Z
date_updated: 2024-02-21T12:35:34Z
day: '25'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.15479/AT:ISTA:12102
file:
- access_level: open_access
checksum: 0dbd6327bf84c7e81b295c4bc9d12826
content_type: application/x-zip-compressed
creator: dernst
date_created: 2023-02-07T08:18:24Z
date_updated: 2023-02-07T08:18:24Z
file_id: '12523'
file_name: Majorana_like.zip
file_size: 3609122411
relation: main_file
success: 1
file_date_updated: 2023-02-07T08:18:24Z
has_accepted_license: '1'
month: '09'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12118'
relation: used_in_publication
status: public
- id: '13286'
relation: used_in_publication
status: public
status: public
title: Data for "Majorana-like Coulomb spectroscopy in the absence of zero bias peaks"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11321'
abstract:
- lang: eng
text: 'Here are the research data underlying the publication "Effects of fine-scale
population structure on the distribution of heterozygosity in a long-term study
of Antirrhinum majus" Further information are summed up in the README document. '
article_processing_charge: No
author:
- first_name: Parvathy
full_name: Surendranadh, Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
- first_name: Louise S
full_name: Arathoon, Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
orcid: 0000-0003-1771-714X
- first_name: Carina
full_name: Baskett, Carina
id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87
last_name: Baskett
orcid: 0000-0002-7354-8574
- first_name: David
full_name: Field, David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- first_name: Melinda
full_name: Pickup, Melinda
id: 2C78037E-F248-11E8-B48F-1D18A9856A87
last_name: Pickup
orcid: 0000-0001-6118-0541
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. Effects
of fine-scale population structure on the distribution of heterozygosity in a
long-term study of Antirrhinum majus. 2022. doi:10.15479/at:ista:11321
apa: Surendranadh, P., Arathoon, L. S., Baskett, C., Field, D., Pickup, M., &
Barton, N. H. (2022). Effects of fine-scale population structure on the distribution
of heterozygosity in a long-term study of Antirrhinum majus. Institute of Science
and Technology Austria. https://doi.org/10.15479/at:ista:11321
chicago: Surendranadh, Parvathy, Louise S Arathoon, Carina Baskett, David Field,
Melinda Pickup, and Nicholas H Barton. “Effects of Fine-Scale Population Structure
on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.”
Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:11321.
ieee: P. Surendranadh, L. S. Arathoon, C. Baskett, D. Field, M. Pickup, and N. H.
Barton, “Effects of fine-scale population structure on the distribution of heterozygosity
in a long-term study of Antirrhinum majus.” Institute of Science and Technology
Austria, 2022.
ista: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. 2022.
Effects of fine-scale population structure on the distribution of heterozygosity
in a long-term study of Antirrhinum majus, Institute of Science and Technology
Austria, 10.15479/at:ista:11321.
mla: Surendranadh, Parvathy, et al. Effects of Fine-Scale Population Structure
on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.
Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:11321.
short: P. Surendranadh, L.S. Arathoon, C. Baskett, D. Field, M. Pickup, N.H. Barton,
(2022).
contributor:
- contributor_type: project_member
first_name: Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
- contributor_type: project_member
first_name: Carina
id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87
last_name: Baskett
orcid: 0000-0002-7354-8574
- contributor_type: project_member
first_name: David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- contributor_type: project_member
first_name: Melinda
id: 2C78037E-F248-11E8-B48F-1D18A9856A87
last_name: Pickup
orcid: 0000-0001-6118-0541
- contributor_type: project_member
first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
date_created: 2022-04-22T09:42:24Z
date_published: 2022-04-28T00:00:00Z
date_updated: 2024-02-21T12:41:09Z
day: '28'
ddc:
- '570'
department:
- _id: GradSch
- _id: NiBa
doi: 10.15479/at:ista:11321
file:
- access_level: open_access
checksum: 96c1b86cdf25481f2a52972fcc45ca7f
content_type: application/x-zip-compressed
creator: larathoo
date_created: 2022-04-22T09:39:03Z
date_updated: 2022-04-22T09:39:03Z
file_id: '11326'
file_name: Data_Code.zip
file_size: 13260571
relation: main_file
success: 1
file_date_updated: 2022-04-22T09:39:03Z
has_accepted_license: '1'
month: '04'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '11411'
relation: used_in_publication
status: public
- id: '9192'
relation: earlier_version
status: public
- id: '8254'
relation: earlier_version
status: public
status: public
title: Effects of fine-scale population structure on the distribution of heterozygosity
in a long-term study of Antirrhinum majus
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '11653'
abstract:
- lang: eng
text: Eurasian brine shrimp (genus Artemia) have closely related sexual and asexual
lineages of parthenogenetic females, which produce rare males at low frequencies.
Although they are known to have ZW chromosomes, these are not well characterized,
and it is unclear whether they are shared across the clade. Furthermore, the underlying
genetic architecture of the transmission of asexuality, which can occur when rare
males mate with closely related sexual females, is not well understood. We produced
a chromosome-level assembly for the sexual Eurasian species A. sinica and characterized
in detail the pair of sex chromosomes of this species. We combined this new assembly
with short-read genomic data for the sexual species A. sp. Kazakhstan and several
asexual lineages of A. parthenogenetica, allowing us to perform an in-depth characterization
of sex-chromosome evolution across the genus. We identified a small differentiated
region of the ZW pair that is shared by all sexual and asexual lineages, supporting
the shared ancestry of the sex chromosomes. We also inferred that recombination
suppression has spread to larger sections of the chromosome independently in the
American and Eurasian lineages. Finally, we took advantage of a rare male, which
we backcrossed to sexual females, to explore the genetic basis of asexuality.
Our results suggest that parthenogenesis is likely partly controlled by a locus
on the Z chromosome, highlighting the interplay between sex determination and
asexuality.
article_processing_charge: No
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Elkrewi MN. Data from Elkrewi, Khauratovich, Toups et al. 2022, “ZW sex-chromosome
evolution and contagious parthenogenesis in Artemia brine shrimp.” 2022. doi:10.15479/AT:ISTA:11653
apa: Elkrewi, M. N. (2022). Data from Elkrewi, Khauratovich, Toups et al. 2022,
“ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:11653
chicago: Elkrewi, Marwan N. “Data from Elkrewi, Khauratovich, Toups et Al. 2022,
‘ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.’”
Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/AT:ISTA:11653.
ieee: M. N. Elkrewi, “Data from Elkrewi, Khauratovich, Toups et al. 2022, ‘ZW sex-chromosome
evolution and contagious parthenogenesis in Artemia brine shrimp.’” Institute
of Science and Technology Austria, 2022.
ista: Elkrewi MN. 2022. Data from Elkrewi, Khauratovich, Toups et al. 2022, ‘ZW
sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:11653.
mla: Elkrewi, Marwan N. Data from Elkrewi, Khauratovich, Toups et Al. 2022, “ZW
Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.”
Institute of Science and Technology Austria, 2022, doi:10.15479/AT:ISTA:11653.
short: M.N. Elkrewi, (2022).
contributor:
- first_name: Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Uladzislava
last_name: Khauratovich
- first_name: Melissa A
id: 4E099E4E-F248-11E8-B48F-1D18A9856A87
last_name: Toups
- first_name: Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- first_name: Andrea
id: 353FAC84-AE61-11E9-8BFC-00D3E5697425
last_name: Mrnjavac
- first_name: Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- first_name: Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
- first_name: Luca
last_name: Sax
- first_name: Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
- first_name: Francisco
last_name: 'Hontoria '
- first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
date_created: 2022-07-26T11:01:47Z
date_published: 2022-08-05T00:00:00Z
date_updated: 2024-02-21T12:35:53Z
day: '05'
ddc:
- '570'
department:
- _id: GradSch
- _id: BeVi
doi: 10.15479/AT:ISTA:11653
file:
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checksum: 5f1d7c6d7ab5375ed2564521432bed0c
content_type: application/x-zip-compressed
creator: melkrewi
date_created: 2022-07-26T12:37:52Z
date_updated: 2022-08-08T22:30:04Z
description: |
The folder contains the following datasets (fasta files, and text files):
Sup. Dataset 1: Genome assemblies: A. sinica male high quality assembly, A. sp. Kazakhstan
male draft assembly
Sup. Dataset 2: Male transcriptome assemblies for A. sinica and A. franciscana
Sup. Dataset 3: Male and female coverage for A. sinica, A. sp. Kazakhstan, A. urmiana, and
A. parthenogenetica females and rare male.
Sup. Dataset 4: Artemia sinica Male:female FST per 1Kb window
Sup. Dataset 5: FASTA file with candidate W scaffolds
Sup. Dataset 6: Candidate W-derived transcripts and alignments
Sup. Dataset 7: Gene expression with genomic location
Sup. Dataset 8: VCF for asexual female and rare male
Sup. Dataset 9: FST between backcrossed asexual and control females (pooled analysis)
Sup. Dataset 10: VCF of backcrossed asexual and control females (individual analysis using
A. sp. Kazakhstan as the reference), and inferred ancestry
Sup. Dataset 11: GO and DE annotations of all the Artemia sinica transcripts and their
locations in the Artemia sinica male genome.
embargo: 2022-08-07
file_id: '11655'
file_name: Data.zip
file_size: 2209382998
relation: main_file
title: Supplementary Datasets
file_date_updated: 2022-08-08T22:30:04Z
has_accepted_license: '1'
month: '08'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '12248'
relation: used_in_publication
status: public
status: public
title: Data from Elkrewi, Khauratovich, Toups et al. 2022, "ZW sex-chromosome evolution
and contagious parthenogenesis in Artemia brine shrimp"
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: research_data
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year: '2022'
...
---
_id: '9291'
abstract:
- lang: eng
text: "This .zip File contains the transport data for figures presented in the main
text and supplementary material of \"Enhancement of Proximity Induced Superconductivity
in Planar Germanium\" by K. Aggarwal, et. al. \r\nThe measurements were done using
Labber Software and the data is stored in the hdf5 file format. The files can
be opened using either the Labber Log Browser (https://labber.org/overview/) or
Labber Python API (http://labber.org/online-doc/api/LogFile.html)."
article_processing_charge: No
author:
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: 'Katsaros G. Raw transport data for: Enhancement of proximity induced superconductivity
in planar germanium. 2021. doi:10.15479/AT:ISTA:9291'
apa: 'Katsaros, G. (2021). Raw transport data for: Enhancement of proximity induced
superconductivity in planar germanium. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:9291'
chicago: 'Katsaros, Georgios. “Raw Transport Data for: Enhancement of Proximity
Induced Superconductivity in Planar Germanium.” Institute of Science and Technology
Austria, 2021. https://doi.org/10.15479/AT:ISTA:9291.'
ieee: 'G. Katsaros, “Raw transport data for: Enhancement of proximity induced superconductivity
in planar germanium.” Institute of Science and Technology Austria, 2021.'
ista: 'Katsaros G. 2021. Raw transport data for: Enhancement of proximity induced
superconductivity in planar germanium, Institute of Science and Technology Austria,
10.15479/AT:ISTA:9291.'
mla: 'Katsaros, Georgios. Raw Transport Data for: Enhancement of Proximity Induced
Superconductivity in Planar Germanium. Institute of Science and Technology
Austria, 2021, doi:10.15479/AT:ISTA:9291.'
short: G. Katsaros, (2021).
date_created: 2021-03-27T13:47:49Z
date_published: 2021-03-29T00:00:00Z
date_updated: 2024-02-21T12:37:14Z
day: '29'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.15479/AT:ISTA:9291
file:
- access_level: open_access
checksum: 635df3c08fc13c3dac008cd421aefbe4
content_type: application/x-zip-compressed
creator: gkatsaro
date_created: 2021-03-27T13:46:17Z
date_updated: 2021-03-27T13:46:17Z
file_id: '9292'
file_name: Raw Data- Enhancement of Superconductivity in a Planar Ge hole gas.zip
file_size: 10616071
relation: main_file
success: 1
- access_level: open_access
checksum: 12b3ca69ae7509a346711baae0b02a75
content_type: text/plain
creator: dernst
date_created: 2021-04-01T07:52:56Z
date_updated: 2021-04-01T07:52:56Z
file_id: '9302'
file_name: README.txt
file_size: 470
relation: main_file
success: 1
file_date_updated: 2021-04-01T07:52:56Z
has_accepted_license: '1'
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: 'Raw transport data for: Enhancement of proximity induced superconductivity
in planar germanium'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
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...
---
_id: '9636'
article_processing_charge: No
author:
- first_name: Andrew P
full_name: Higginbotham, Andrew P
id: 4AD6785A-F248-11E8-B48F-1D18A9856A87
last_name: Higginbotham
orcid: 0000-0003-2607-2363
citation:
ama: Higginbotham AP. Data for “Breakdown of induced p ± ip pairing in a superconductor-semiconductor
hybrid.” 2021.
apa: Higginbotham, A. P. (2021). Data for “Breakdown of induced p ± ip pairing in
a superconductor-semiconductor hybrid.” Institute of Science and Technology Austria.
chicago: Higginbotham, Andrew P. “Data for ‘Breakdown of Induced p ± Ip Pairing
in a Superconductor-Semiconductor Hybrid.’” Institute of Science and Technology
Austria, 2021.
ieee: A. P. Higginbotham, “Data for ‘Breakdown of induced p ± ip pairing in a superconductor-semiconductor
hybrid.’” Institute of Science and Technology Austria, 2021.
ista: Higginbotham AP. 2021. Data for ‘Breakdown of induced p ± ip pairing in a
superconductor-semiconductor hybrid’, Institute of Science and Technology Austria.
mla: Higginbotham, Andrew P. Data for “Breakdown of Induced p ± Ip Pairing in
a Superconductor-Semiconductor Hybrid.” Institute of Science and Technology
Austria, 2021.
short: A.P. Higginbotham, (2021).
date_created: 2021-07-07T20:43:10Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2024-02-21T12:36:52Z
department:
- _id: AnHi
file:
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content_type: application/zip
creator: ahigginb
date_created: 2021-07-07T20:37:28Z
date_updated: 2021-07-07T20:37:28Z
file_id: '9637'
file_name: figures_data.zip
file_size: 3345244
relation: main_file
success: 1
file_date_updated: 2021-07-07T20:37:28Z
has_accepted_license: '1'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10029'
relation: used_in_publication
status: public
status: public
title: Data for "Breakdown of induced p ± ip pairing in a superconductor-semiconductor
hybrid"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9323'
abstract:
- lang: eng
text: This .zip File contains the data for figures presented in the main text and
supplementary material of "A singlet triplet hole spin qubit in planar Ge" by
D. Jirovec, et. al. The measurements were done using Labber Software and the data
is stored in the hdf5 file format. The files can be opened using either the Labber
Log Browser (https://labber.org/overview/) or Labber Python API (http://labber.org/online-doc/api/LogFile.html).
A single file is acquired with QCodes and features the corresponding data type.
XRD data are in .dat format and a code to open the data is provided. The code
for simulations is as well provided in Python.
article_processing_charge: No
author:
- first_name: Daniel
full_name: Jirovec, Daniel
id: 4C473F58-F248-11E8-B48F-1D18A9856A87
last_name: Jirovec
orcid: 0000-0002-7197-4801
citation:
ama: Jirovec D. Research data for “A singlet-triplet hole spin qubit planar Ge.”
2021. doi:10.15479/AT:ISTA:9323
apa: Jirovec, D. (2021). Research data for “A singlet-triplet hole spin qubit planar
Ge.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:9323
chicago: Jirovec, Daniel. “Research Data for ‘A Singlet-Triplet Hole Spin Qubit
Planar Ge.’” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9323.
ieee: D. Jirovec, “Research data for ‘A singlet-triplet hole spin qubit planar Ge.’”
Institute of Science and Technology Austria, 2021.
ista: Jirovec D. 2021. Research data for ‘A singlet-triplet hole spin qubit planar
Ge’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:9323.
mla: Jirovec, Daniel. Research Data for “A Singlet-Triplet Hole Spin Qubit Planar
Ge.” Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9323.
short: D. Jirovec, (2021).
contributor:
- contributor_type: project_member
first_name: Daniel
id: 4C473F58-F248-11E8-B48F-1D18A9856A87
last_name: Jirovec
date_created: 2021-04-14T09:50:22Z
date_published: 2021-04-14T00:00:00Z
date_updated: 2024-02-21T12:39:15Z
day: '14'
ddc:
- '530'
department:
- _id: GradSch
- _id: GeKa
doi: 10.15479/AT:ISTA:9323
file:
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checksum: c569d2a2ce1694445cdbca19cf8ae023
content_type: application/x-zip-compressed
creator: djirovec
date_created: 2021-04-14T09:48:47Z
date_updated: 2021-04-14T09:48:47Z
file_id: '9324'
file_name: DataRepositorySTqubit.zip
file_size: 221832287
relation: main_file
success: 1
- access_level: open_access
checksum: 845bdf87430718ad6aff47eda7b5fc92
content_type: application/octet-stream
creator: djirovec
date_created: 2021-04-14T09:49:30Z
date_updated: 2021-04-14T09:49:30Z
file_id: '9325'
file_name: ReadMe
file_size: 4323
relation: main_file
success: 1
file_date_updated: 2021-04-14T09:49:30Z
has_accepted_license: '1'
month: '04'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8909'
relation: used_in_publication
status: public
status: public
title: Research data for "A singlet-triplet hole spin qubit planar Ge"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9389'
abstract:
- lang: eng
text: "This .zip File contains the transport data for \"Non-topological zero bias
peaks in full-shell nanowires induced by flux tunable Andreev states\" by M. Valentini,
et. al. \r\nThe measurements were done using Labber Software and the data is
stored in the hdf5 file format.\r\nInstructions of how to read the data are in
\"Notebook_Valentini.pdf\"."
acknowledged_ssus:
- _id: NanoFab
article_processing_charge: No
author:
- first_name: Marco
full_name: Valentini, Marco
id: C0BB2FAC-D767-11E9-B658-BC13E6697425
last_name: Valentini
citation:
ama: Valentini M. Research data for “Non-topological zero bias peaks in full-shell
nanowires induced by flux tunable Andreev states.” 2021. doi:10.15479/AT:ISTA:9389
apa: Valentini, M. (2021). Research data for “Non-topological zero bias peaks in
full-shell nanowires induced by flux tunable Andreev states.” Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:9389
chicago: Valentini, Marco. “Research Data for ‘Non-Topological Zero Bias Peaks in
Full-Shell Nanowires Induced by Flux Tunable Andreev States.’” Institute of Science
and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9389.
ieee: M. Valentini, “Research data for ‘Non-topological zero bias peaks in full-shell
nanowires induced by flux tunable Andreev states.’” Institute of Science and Technology
Austria, 2021.
ista: Valentini M. 2021. Research data for ‘Non-topological zero bias peaks in full-shell
nanowires induced by flux tunable Andreev states’, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:9389.
mla: Valentini, Marco. Research Data for “Non-Topological Zero Bias Peaks in
Full-Shell Nanowires Induced by Flux Tunable Andreev States.” Institute of
Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9389.
short: M. Valentini, (2021).
contributor:
- contributor_type: contact_person
first_name: Marco
id: C0BB2FAC-D767-11E9-B658-BC13E6697425
last_name: Valentini
date_created: 2021-05-14T12:07:53Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2024-02-21T12:40:09Z
ddc:
- '530'
department:
- _id: GradSch
- _id: GeKa
doi: 10.15479/AT:ISTA:9389
file:
- access_level: open_access
checksum: 80a905c4eef24dab6fb247e81a3d67f5
content_type: application/pdf
creator: mvalenti
date_created: 2021-05-14T11:42:23Z
date_updated: 2021-05-14T11:42:23Z
file_id: '9390'
file_name: Notebook_Valentini.pdf
file_size: 10572981
relation: main_file
- access_level: open_access
checksum: 1e61a7e63949448a8db0091cdac23570
content_type: application/x-zip-compressed
creator: mvalenti
date_created: 2021-05-14T11:56:48Z
date_updated: 2021-05-14T11:56:48Z
file_id: '9391'
file_name: Experimental_data.zip
file_size: 99076111
relation: main_file
file_date_updated: 2021-05-14T11:56:48Z
has_accepted_license: '1'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8910'
relation: used_in_publication
status: public
status: public
title: Research data for "Non-topological zero bias peaks in full-shell nanowires
induced by flux tunable Andreev states"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9192'
abstract:
- lang: eng
text: Here are the research data underlying the publication " Effects of fine-scale
population structure on inbreeding in a long-term study of snapdragons (Antirrhinum
majus)." Further information are summed up in the README document.
article_processing_charge: No
author:
- first_name: Parvathy
full_name: Surendranadh, Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
- first_name: Louise S
full_name: Arathoon, Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
orcid: 0000-0003-1771-714X
- first_name: Carina
full_name: Baskett, Carina
id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87
last_name: Baskett
orcid: 0000-0002-7354-8574
- first_name: David
full_name: Field, David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- first_name: Melinda
full_name: Pickup, Melinda
id: 2C78037E-F248-11E8-B48F-1D18A9856A87
last_name: Pickup
orcid: 0000-0001-6118-0541
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. Effects
of fine-scale population structure on the distribution of heterozygosity in a
long-term study of Antirrhinum majus. 2021. doi:10.15479/AT:ISTA:9192
apa: Surendranadh, P., Arathoon, L. S., Baskett, C., Field, D., Pickup, M., &
Barton, N. H. (2021). Effects of fine-scale population structure on the distribution
of heterozygosity in a long-term study of Antirrhinum majus. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:9192
chicago: Surendranadh, Parvathy, Louise S Arathoon, Carina Baskett, David Field,
Melinda Pickup, and Nicholas H Barton. “Effects of Fine-Scale Population Structure
on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.”
Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9192.
ieee: P. Surendranadh, L. S. Arathoon, C. Baskett, D. Field, M. Pickup, and N. H.
Barton, “Effects of fine-scale population structure on the distribution of heterozygosity
in a long-term study of Antirrhinum majus.” Institute of Science and Technology
Austria, 2021.
ista: Surendranadh P, Arathoon LS, Baskett C, Field D, Pickup M, Barton NH. 2021.
Effects of fine-scale population structure on the distribution of heterozygosity
in a long-term study of Antirrhinum majus, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:9192.
mla: Surendranadh, Parvathy, et al. Effects of Fine-Scale Population Structure
on the Distribution of Heterozygosity in a Long-Term Study of Antirrhinum Majus.
Institute of Science and Technology Austria, 2021, doi:10.15479/AT:ISTA:9192.
short: P. Surendranadh, L.S. Arathoon, C. Baskett, D. Field, M. Pickup, N.H. Barton,
(2021).
contributor:
- contributor_type: project_member
first_name: Parvathy
id: 455235B8-F248-11E8-B48F-1D18A9856A87
last_name: Surendranadh
- contributor_type: project_member
first_name: Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
last_name: Arathoon
- contributor_type: project_member
first_name: Carina
id: 3B4A7CE2-F248-11E8-B48F-1D18A9856A87
last_name: Baskett
- contributor_type: project_member
first_name: David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- contributor_type: project_member
first_name: Melinda
id: 2C78037E-F248-11E8-B48F-1D18A9856A87
last_name: Pickup
orcid: 0000-0001-6118-0541
- contributor_type: project_leader
first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
date_created: 2021-02-24T17:49:21Z
date_published: 2021-02-26T00:00:00Z
date_updated: 2024-02-21T12:41:09Z
day: '26'
ddc:
- '576'
department:
- _id: GradSch
- _id: NiBa
doi: 10.15479/AT:ISTA:9192
file:
- access_level: open_access
checksum: f85537815809a8a4b7da9d01163f88c0
content_type: application/x-zip-compressed
creator: larathoo
date_created: 2021-02-24T17:45:13Z
date_updated: 2021-02-24T17:45:13Z
file_id: '9193'
file_name: Data_Code.zip
file_size: 5934452
relation: main_file
success: 1
file_date_updated: 2021-02-24T17:45:13Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
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relation: used_in_publication
status: public
- id: '11321'
relation: later_version
status: public
- id: '8254'
relation: earlier_version
status: public
status: public
title: Effects of fine-scale population structure on the distribution of heterozygosity
in a long-term study of Antirrhinum majus
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9949'
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Data from Hyulmans et al 2021, “Transitions to asexuality and evolution
of gene expression in Artemia brine shrimp.” 2021. doi:10.15479/AT:ISTA:9949
apa: Vicoso, B. (2021). Data from Hyulmans et al 2021, “Transitions to asexuality
and evolution of gene expression in Artemia brine shrimp.” Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:9949
chicago: Vicoso, Beatriz. “Data from Hyulmans et Al 2021, ‘Transitions to Asexuality
and Evolution of Gene Expression in Artemia Brine Shrimp.’” Institute of Science
and Technology Austria, 2021. https://doi.org/10.15479/AT:ISTA:9949.
ieee: B. Vicoso, “Data from Hyulmans et al 2021, ‘Transitions to asexuality and
evolution of gene expression in Artemia brine shrimp.’” Institute of Science and
Technology Austria, 2021.
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and Technology Austria, 2021, doi:10.15479/AT:ISTA:9949.
short: B. Vicoso, (2021).
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apa: Katsaros, G. (2020). Enhancement of proximity induced superconductivity in
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status: public
title: Enhancement of proximity induced superconductivity in planar Germanium
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
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...
---
_id: '8097'
abstract:
- lang: eng
text: 'Antibiotics that interfere with translation, when combined, interact in diverse
and difficult-to-predict ways. Here, we explain these interactions by "translation
bottlenecks": points in the translation cycle where antibiotics block ribosomal
progression. To elucidate the underlying mechanisms of drug interactions between
translation inhibitors, we generate translation bottlenecks genetically using
inducible control of translation factors that regulate well-defined translation
cycle steps. These perturbations accurately mimic antibiotic action and drug interactions,
supporting that the interplay of different translation bottlenecks causes these
interactions. We further show that growth laws, combined with drug uptake and
binding kinetics, enable the direct prediction of a large fraction of observed
interactions, yet fail to predict suppression. However, varying two translation
bottlenecks simultaneously supports that dense traffic of ribosomes and competition
for translation factors account for the previously unexplained suppression. These
results highlight the importance of "continuous epistasis" in bacterial physiology.'
acknowledged_ssus:
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article_processing_charge: No
author:
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full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
citation:
ama: Kavcic B. Analysis scripts and research data for the paper “Mechanisms of drug
interactions between translation-inhibiting antibiotics.” 2020. doi:10.15479/AT:ISTA:8097
apa: Kavcic, B. (2020). Analysis scripts and research data for the paper “Mechanisms
of drug interactions between translation-inhibiting antibiotics.” Institute of
Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8097
chicago: Kavcic, Bor. “Analysis Scripts and Research Data for the Paper ‘Mechanisms
of Drug Interactions between Translation-Inhibiting Antibiotics.’” Institute of
Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8097.
ieee: B. Kavcic, “Analysis scripts and research data for the paper ‘Mechanisms of
drug interactions between translation-inhibiting antibiotics.’” Institute of Science
and Technology Austria, 2020.
ista: Kavcic B. 2020. Analysis scripts and research data for the paper ‘Mechanisms
of drug interactions between translation-inhibiting antibiotics’, Institute of
Science and Technology Austria, 10.15479/AT:ISTA:8097.
mla: Kavcic, Bor. Analysis Scripts and Research Data for the Paper “Mechanisms
of Drug Interactions between Translation-Inhibiting Antibiotics.” Institute
of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8097.
short: B. Kavcic, (2020).
contributor:
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id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
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first_name: Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
date_created: 2020-07-06T20:40:19Z
date_published: 2020-07-15T00:00:00Z
date_updated: 2024-02-21T12:40:51Z
day: '15'
department:
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file_name: natComm_2020_scripts.zip
file_size: 255770756
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
keyword:
- Escherichia coli
- antibiotic combinations
- translation
- growth laws
- drug interactions
- bacterial physiology
- translation inhibitors
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Analysis scripts and research data for the paper "Mechanisms of drug interactions
between translation-inhibiting antibiotics"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
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...
---
_id: '8254'
abstract:
- lang: eng
text: "Here are the research data underlying the publication \"Estimating inbreeding
and its effects in a long-term study of snapdragons (Antirrhinum majus)\". Further
information are summed up in the README document.\r\nThe files for this record
have been updated and are now found in the linked DOI https://doi.org/10.15479/AT:ISTA:9192."
article_processing_charge: No
author:
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full_name: Arathoon, Louise S
id: 2CFCFF98-F248-11E8-B48F-1D18A9856A87
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orcid: 0000-0003-1771-714X
citation:
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snapdragons (Antirrhinum majus). 2020. doi:10.15479/AT:ISTA:8254
apa: Arathoon, L. S. (2020). Estimating inbreeding and its effects in a long-term
study of snapdragons (Antirrhinum majus). Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:8254
chicago: Arathoon, Louise S. “Estimating Inbreeding and Its Effects in a Long-Term
Study of Snapdragons (Antirrhinum Majus).” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:8254.
ieee: L. S. Arathoon, “Estimating inbreeding and its effects in a long-term study
of snapdragons (Antirrhinum majus).” Institute of Science and Technology Austria,
2020.
ista: Arathoon LS. 2020. Estimating inbreeding and its effects in a long-term study
of snapdragons (Antirrhinum majus), Institute of Science and Technology Austria,
10.15479/AT:ISTA:8254.
mla: Arathoon, Louise S. Estimating Inbreeding and Its Effects in a Long-Term
Study of Snapdragons (Antirrhinum Majus). Institute of Science and Technology
Austria, 2020, doi:10.15479/AT:ISTA:8254.
short: L.S. Arathoon, (2020).
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last_name: Baskett
date_created: 2020-08-12T12:49:23Z
date_published: 2020-08-18T00:00:00Z
date_updated: 2024-02-21T12:41:09Z
day: '18'
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title: Estimating inbreeding and its effects in a long-term study of snapdragons (Antirrhinum
majus)
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
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short: CC BY (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8930'
abstract:
- lang: eng
text: Phenomenological relations such as Ohm’s or Fourier’s law have a venerable
history in physics but are still scarce in biology. This situation restrains predictive
theory. Here, we build on bacterial “growth laws,” which capture physiological
feedback between translation and cell growth, to construct a minimal biophysical
model for the combined action of ribosome-targeting antibiotics. Our model predicts
drug interactions like antagonism or synergy solely from responses to individual
drugs. We provide analytical results for limiting cases, which agree well with
numerical results. We systematically refine the model by including direct physical
interactions of different antibiotics on the ribosome. In a limiting case, our
model provides a mechanistic underpinning for recent predictions of higher-order
interactions that were derived using entropy maximization. We further refine the
model to include the effects of antibiotics that mimic starvation and the presence
of resistance genes. We describe the impact of a starvation-mimicking antibiotic
on drug interactions analytically and verify it experimentally. Our extended model
suggests a change in the type of drug interaction that depends on the strength
of resistance, which challenges established rescaling paradigms. We experimentally
show that the presence of unregulated resistance genes can lead to altered drug
interaction, which agrees with the prediction of the model. While minimal, the
model is readily adaptable and opens the door to predicting interactions of second
and higher-order in a broad range of biological systems.
article_processing_charge: No
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
citation:
ama: Kavcic B. Analysis scripts and research data for the paper “Minimal biophysical
model of combined antibiotic action.” 2020. doi:10.15479/AT:ISTA:8930
apa: Kavcic, B. (2020). Analysis scripts and research data for the paper “Minimal
biophysical model of combined antibiotic action.” Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:8930
chicago: Kavcic, Bor. “Analysis Scripts and Research Data for the Paper ‘Minimal
Biophysical Model of Combined Antibiotic Action.’” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:8930.
ieee: B. Kavcic, “Analysis scripts and research data for the paper ‘Minimal biophysical
model of combined antibiotic action.’” Institute of Science and Technology Austria,
2020.
ista: Kavcic B. 2020. Analysis scripts and research data for the paper ‘Minimal
biophysical model of combined antibiotic action’, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:8930.
mla: Kavcic, Bor. Analysis Scripts and Research Data for the Paper “Minimal Biophysical
Model of Combined Antibiotic Action.” Institute of Science and Technology
Austria, 2020, doi:10.15479/AT:ISTA:8930.
short: B. Kavcic, (2020).
contributor:
- contributor_type: supervisor
first_name: Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- contributor_type: supervisor
first_name: Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
date_created: 2020-12-09T15:04:02Z
date_published: 2020-12-10T00:00:00Z
date_updated: 2024-02-21T12:41:42Z
day: '10'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.15479/AT:ISTA:8930
file:
- access_level: open_access
checksum: 60a818edeffaa7da1ebf5f8fbea9ba18
content_type: application/zip
creator: bkavcic
date_created: 2020-12-09T15:00:19Z
date_updated: 2020-12-09T15:00:19Z
file_id: '8932'
file_name: PLoSCompBiol2020_datarep.zip
file_size: 315494370
relation: main_file
success: 1
file_date_updated: 2020-12-09T15:00:19Z
has_accepted_license: '1'
keyword:
- Escherichia coli
- antibiotic combinations
- translation
- growth laws
- drug interactions
- bacterial physiology
- translation inhibitors
month: '12'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8997'
relation: used_in_publication
status: public
status: public
title: Analysis scripts and research data for the paper "Minimal biophysical model
of combined antibiotic action"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8951'
abstract:
- lang: eng
text: Gene expression levels are influenced by multiple coexisting molecular mechanisms.
Some of these interactions, such as those of transcription factors and promoters
have been studied extensively. However, predicting phenotypes of gene regulatory
networks remains a major challenge. Here, we use a well-defined synthetic gene
regulatory network to study how network phenotypes depend on local genetic context,
i.e. the genetic neighborhood of a transcription factor and its relative position.
We show that one gene regulatory network with fixed topology can display not only
quantitatively but also qualitatively different phenotypes, depending solely on
the local genetic context of its components. Our results demonstrate that changes
in local genetic context can place a single transcriptional unit within two separate
regulons without the need for complex regulatory sequences. We propose that relative
order of individual transcriptional units, with its potential for combinatorial
complexity, plays an important role in shaping phenotypes of gene regulatory networks.
article_processing_charge: No
author:
- first_name: Anna A
full_name: Nagy-Staron, Anna A
id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87
last_name: Nagy-Staron
orcid: 0000-0002-1391-8377
citation:
ama: Nagy-Staron AA. Sequences of gene regulatory network permutations for the article
“Local genetic context shapes the function of a gene regulatory network.” 2020.
doi:10.15479/AT:ISTA:8951
apa: Nagy-Staron, A. A. (2020). Sequences of gene regulatory network permutations
for the article “Local genetic context shapes the function of a gene regulatory
network.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8951
chicago: Nagy-Staron, Anna A. “Sequences of Gene Regulatory Network Permutations
for the Article ‘Local Genetic Context Shapes the Function of a Gene Regulatory
Network.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8951.
ieee: A. A. Nagy-Staron, “Sequences of gene regulatory network permutations for
the article ‘Local genetic context shapes the function of a gene regulatory network.’”
Institute of Science and Technology Austria, 2020.
ista: Nagy-Staron AA. 2020. Sequences of gene regulatory network permutations for
the article ‘Local genetic context shapes the function of a gene regulatory network’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:8951.
mla: Nagy-Staron, Anna A. Sequences of Gene Regulatory Network Permutations for
the Article “Local Genetic Context Shapes the Function of a Gene Regulatory Network.”
Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8951.
short: A.A. Nagy-Staron, (2020).
contributor:
- contributor_type: project_member
first_name: Anna A
id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87
last_name: Nagy-Staron
- contributor_type: project_member
first_name: Kathrin
id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
last_name: Tomasek
- contributor_type: project_member
first_name: Caroline
last_name: Caruso Carter
- contributor_type: project_member
first_name: Elisabeth
last_name: Sonnleitner
- contributor_type: project_member
first_name: Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- contributor_type: project_member
first_name: Tiago
last_name: Paixão
- contributor_type: project_manager
first_name: Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
date_created: 2020-12-20T10:00:26Z
date_published: 2020-12-21T00:00:00Z
date_updated: 2024-02-21T12:41:57Z
day: '21'
ddc:
- '570'
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:8951
file:
- access_level: open_access
checksum: f57862aeee1690c7effd2b1117d40ed1
content_type: text/plain
creator: bkavcic
date_created: 2020-12-20T09:52:52Z
date_updated: 2020-12-20T09:52:52Z
file_id: '8952'
file_name: readme.txt
file_size: 523
relation: main_file
success: 1
- access_level: open_access
checksum: f2c6d5232ec6d551b6993991e8689e9f
content_type: application/octet-stream
creator: bkavcic
date_created: 2020-12-20T22:01:44Z
date_updated: 2020-12-20T22:01:44Z
file_id: '8954'
file_name: GRNs Research depository.gb
file_size: 379228
relation: main_file
success: 1
file_date_updated: 2020-12-20T22:01:44Z
has_accepted_license: '1'
keyword:
- Gene regulatory networks
- Gene expression
- Escherichia coli
- Synthetic Biology
month: '12'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '9283'
relation: used_in_publication
status: public
status: public
title: Sequences of gene regulatory network permutations for the article "Local genetic
context shapes the function of a gene regulatory network"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7383'
abstract:
- lang: eng
text: Organisms cope with change by employing transcriptional regulators. However,
when faced with rare environments, the evolution of transcriptional regulators
and their promoters may be too slow. We ask whether the intrinsic instability
of gene duplication and amplification provides a generic alternative to canonical
gene regulation. By real-time monitoring of gene copy number mutations in E. coli,
we show that gene duplications and amplifications enable adaptation to fluctuating
environments by rapidly generating copy number, and hence expression level, polymorphism.
This ‘amplification-mediated gene expression tuning’ occurs on timescales similar
to canonical gene regulation and can deal with rapid environmental changes. Mathematical
modeling shows that amplifications also tune gene expression in stochastic environments
where transcription factor-based schemes are hard to evolve or maintain. The fleeting
nature of gene amplifications gives rise to a generic population-level mechanism
that relies on genetic heterogeneity to rapidly tune expression of any gene, without
leaving any genomic signature.
article_processing_charge: No
author:
- first_name: Rok
full_name: Grah, Rok
id: 483E70DE-F248-11E8-B48F-1D18A9856A87
last_name: Grah
orcid: 0000-0003-2539-3560
citation:
ama: 'Grah R. Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level
Gene Expression regulation. 2020. doi:10.15479/AT:ISTA:7383'
apa: 'Grah, R. (2020). Matlab scripts for the Paper: Gene Amplification as a Form
of Population-Level Gene Expression regulation. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:7383'
chicago: 'Grah, Rok. “Matlab Scripts for the Paper: Gene Amplification as a Form
of Population-Level Gene Expression Regulation.” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:7383.'
ieee: 'R. Grah, “Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level
Gene Expression regulation.” Institute of Science and Technology Austria, 2020.'
ista: 'Grah R. 2020. Matlab scripts for the Paper: Gene Amplification as a Form
of Population-Level Gene Expression regulation, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:7383.'
mla: 'Grah, Rok. Matlab Scripts for the Paper: Gene Amplification as a Form of
Population-Level Gene Expression Regulation. Institute of Science and Technology
Austria, 2020, doi:10.15479/AT:ISTA:7383.'
short: R. Grah, (2020).
contributor:
- contributor_type: project_leader
first_name: Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
date_created: 2020-01-28T10:41:49Z
date_published: 2020-01-28T00:00:00Z
date_updated: 2024-02-21T12:42:31Z
day: '28'
department:
- _id: CaGu
- _id: GaTk
doi: 10.15479/AT:ISTA:7383
file:
- access_level: open_access
checksum: 9d292cf5207b3829225f44c044cdb3fd
content_type: application/zip
creator: rgrah
date_created: 2020-01-28T10:39:40Z
date_updated: 2020-07-14T12:47:57Z
file_id: '7384'
file_name: Scripts.zip
file_size: 73363365
relation: main_file
- access_level: open_access
checksum: 4076ceab32ef588cc233802bab24c1ab
content_type: text/plain
creator: rgrah
date_created: 2020-01-28T10:39:30Z
date_updated: 2020-07-14T12:47:57Z
file_id: '7385'
file_name: READ_ME_MAIN.txt
file_size: 962
relation: main_file
file_date_updated: 2020-07-14T12:47:57Z
has_accepted_license: '1'
keyword:
- Matlab scripts
- analysis of microfluidics
- mathematical model
month: '01'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7652'
relation: used_in_publication
status: public
status: public
title: 'Matlab scripts for the Paper: Gene Amplification as a Form of Population-Level
Gene Expression regulation'
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '9222'
article_processing_charge: No
author:
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: 'Katsaros G. Transport data for: Site‐controlled uniform Ge/Si Hut wires with
electrically tunable spin–orbit coupling. 2020. doi:10.15479/AT:ISTA:9222'
apa: 'Katsaros, G. (2020). Transport data for: Site‐controlled uniform Ge/Si Hut
wires with electrically tunable spin–orbit coupling. Institute of Science and
Technology Austria. https://doi.org/10.15479/AT:ISTA:9222'
chicago: 'Katsaros, Georgios. “Transport Data for: Site‐controlled Uniform Ge/Si
Hut Wires with Electrically Tunable Spin–Orbit Coupling.” Institute of Science
and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:9222.'
ieee: 'G. Katsaros, “Transport data for: Site‐controlled uniform Ge/Si Hut wires
with electrically tunable spin–orbit coupling.” Institute of Science and Technology
Austria, 2020.'
ista: 'Katsaros G. 2020. Transport data for: Site‐controlled uniform Ge/Si Hut wires
with electrically tunable spin–orbit coupling, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:9222.'
mla: 'Katsaros, Georgios. Transport Data for: Site‐controlled Uniform Ge/Si Hut
Wires with Electrically Tunable Spin–Orbit Coupling. Institute of Science
and Technology Austria, 2020, doi:10.15479/AT:ISTA:9222.'
short: G. Katsaros, (2020).
contributor:
- contributor_type: research_group
first_name: Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
date_created: 2021-03-05T18:00:47Z
date_published: 2020-03-16T00:00:00Z
date_updated: 2024-02-21T12:42:13Z
day: '16'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.15479/AT:ISTA:9222
file:
- access_level: open_access
checksum: 41b66e195ed3dbd73077feee77b05652
content_type: application/x-zip-compressed
creator: gkatsaro
date_created: 2021-03-05T17:50:45Z
date_updated: 2021-03-05T17:50:45Z
file_id: '9223'
file_name: DOI_SiteControlledHWs.zip
file_size: 13317557
relation: main_file
- access_level: open_access
checksum: a1dc5f710ba4b3bb7f248195ba754ab2
content_type: text/plain
creator: dernst
date_created: 2021-03-10T07:31:50Z
date_updated: 2021-03-10T07:31:50Z
file_id: '9233'
file_name: Readme.txt
file_size: 3515
relation: main_file
success: 1
file_date_updated: 2021-03-10T07:31:50Z
has_accepted_license: '1'
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7541'
relation: used_in_publication
status: public
status: public
title: 'Transport data for: Site‐controlled uniform Ge/Si Hut wires with electrically
tunable spin–orbit coupling'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8375'
abstract:
- lang: eng
text: 'Supplementary movies showing the following sequences for spatio-temporarily
programmed shells: input geometry and actuation time landscape; comparison of
morphing processes from a camera recording and a simulation; final actuated shape.'
article_processing_charge: No
author:
- first_name: Ruslan
full_name: Guseinov, Ruslan
id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87
last_name: Guseinov
orcid: 0000-0001-9819-5077
citation:
ama: 'Guseinov R. Supplementary data for “Computational design of curved thin shells:
from glass façades to programmable matter.” 2020. doi:10.15479/AT:ISTA:8375'
apa: 'Guseinov, R. (2020). Supplementary data for “Computational design of curved
thin shells: from glass façades to programmable matter.” Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:8375'
chicago: 'Guseinov, Ruslan. “Supplementary Data for ‘Computational Design of Curved
Thin Shells: From Glass Façades to Programmable Matter.’” Institute of Science
and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8375.'
ieee: 'R. Guseinov, “Supplementary data for ‘Computational design of curved thin
shells: from glass façades to programmable matter.’” Institute of Science and
Technology Austria, 2020.'
ista: 'Guseinov R. 2020. Supplementary data for ‘Computational design of curved
thin shells: from glass façades to programmable matter’, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:8375.'
mla: 'Guseinov, Ruslan. Supplementary Data for “Computational Design of Curved
Thin Shells: From Glass Façades to Programmable Matter.” Institute of Science
and Technology Austria, 2020, doi:10.15479/AT:ISTA:8375.'
short: R. Guseinov, (2020).
contributor:
- contributor_type: researcher
first_name: Ruslan
id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87
last_name: Guseinov
orcid: 0000-0001-9819-5077
- contributor_type: researcher
first_name: Connor
last_name: McMahan
- contributor_type: researcher
first_name: Jesus
id: 2DC83906-F248-11E8-B48F-1D18A9856A87
last_name: Perez Rodriguez
- contributor_type: researcher
first_name: Chiara
last_name: Daraio
- contributor_type: researcher
first_name: Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
date_created: 2020-09-11T09:52:54Z
date_published: 2020-09-21T00:00:00Z
date_updated: 2024-02-21T12:44:29Z
day: '21'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.15479/AT:ISTA:8375
ec_funded: 1
file:
- access_level: open_access
checksum: 4029ffd65fb82ef2366b2fc2a4908e16
content_type: video/mp4
creator: rguseino
date_created: 2020-09-11T09:45:21Z
date_updated: 2020-09-11T09:45:21Z
file_id: '8376'
file_name: supplementary_movie_1.mp4
file_size: 29214988
relation: main_file
success: 1
- access_level: open_access
checksum: 8ed03b04d80f1a4e622cb22e6100afd8
content_type: video/mp4
creator: rguseino
date_created: 2020-09-11T09:45:25Z
date_updated: 2020-09-11T09:45:25Z
file_id: '8377'
file_name: supplementary_movie_2.mp4
file_size: 28449475
relation: main_file
success: 1
- access_level: open_access
checksum: ad6864afb5e694e5c52a88fba4e02eea
content_type: video/mp4
creator: rguseino
date_created: 2020-09-11T09:45:28Z
date_updated: 2020-09-11T09:45:28Z
file_id: '8378'
file_name: supplementary_movie_3.mp4
file_size: 26315853
relation: main_file
success: 1
- access_level: open_access
checksum: b079cef7871fe1afb69af0e2b099f3b1
content_type: video/mp4
creator: rguseino
date_created: 2020-09-11T09:45:33Z
date_updated: 2020-09-11T09:45:33Z
file_id: '8379'
file_name: supplementary_movie_4.mp4
file_size: 25198755
relation: main_file
success: 1
- access_level: open_access
checksum: 9d1d48a8ed5c109a999c51b044ee523d
content_type: video/mp4
creator: rguseino
date_created: 2020-09-11T09:45:36Z
date_updated: 2020-09-11T09:45:36Z
file_id: '8380'
file_name: supplementary_movie_5.mp4
file_size: 29011354
relation: main_file
success: 1
- access_level: open_access
checksum: d414d0059e982d752d218756b3c3ce05
content_type: text/plain
creator: rguseino
date_created: 2020-09-11T09:52:36Z
date_updated: 2020-09-11T09:52:36Z
file_id: '8381'
file_name: readme.txt
file_size: 586
relation: main_file
success: 1
file_date_updated: 2020-09-11T09:52:36Z
has_accepted_license: '1'
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8366'
relation: used_in_publication
status: public
status: public
title: 'Supplementary data for "Computational design of curved thin shells: from glass
façades to programmable matter"'
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7689'
abstract:
- lang: eng
text: "These are the supplementary research data to the publication \"Zero field
splitting of heavy-hole states in quantum dots\". All matrix files have the same
format. Within each column the bias voltage is changed. Each column corresponds
to either a different gate voltage or magnetic field. The voltage values are given
in mV, the current values in pA. Find a specific description in the included Readme
file.\r\n"
article_processing_charge: No
author:
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Katsaros G. Supplementary data for “Zero field splitting of heavy-hole states
in quantum dots.” 2020. doi:10.15479/AT:ISTA:7689
apa: Katsaros, G. (2020). Supplementary data for “Zero field splitting of heavy-hole
states in quantum dots.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7689
chicago: Katsaros, Georgios. “Supplementary Data for ‘Zero Field Splitting of Heavy-Hole
States in Quantum Dots.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7689.
ieee: G. Katsaros, “Supplementary data for ‘Zero field splitting of heavy-hole states
in quantum dots.’” Institute of Science and Technology Austria, 2020.
ista: Katsaros G. 2020. Supplementary data for ‘Zero field splitting of heavy-hole
states in quantum dots’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7689.
mla: Katsaros, Georgios. Supplementary Data for “Zero Field Splitting of Heavy-Hole
States in Quantum Dots.” Institute of Science and Technology Austria, 2020,
doi:10.15479/AT:ISTA:7689.
short: G. Katsaros, (2020).
contributor:
- contributor_type: contact_person
first_name: Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
date_created: 2020-05-01T15:14:46Z
date_published: 2020-05-01T00:00:00Z
date_updated: 2024-02-21T12:44:02Z
day: '01'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.15479/AT:ISTA:7689
ec_funded: 1
file:
- access_level: open_access
checksum: d23c0cb9e2d19e14e2f902b88b97c05d
content_type: application/x-zip-compressed
creator: gkatsaro
date_created: 2020-05-01T15:13:28Z
date_updated: 2020-07-14T12:48:02Z
file_id: '7786'
file_name: DOI_ZeroFieldSplitting.zip
file_size: 5514403
relation: main_file
file_date_updated: 2020-07-14T12:48:02Z
has_accepted_license: '1'
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 237E5020-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '862046'
name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS
- _id: 237B3DA4-32DE-11EA-91FC-C7463DDC885E
call_identifier: FWF
grant_number: P32235
name: Towards scalable hut wire quantum devices
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8203'
relation: used_in_publication
status: public
status: public
title: Supplementary data for "Zero field splitting of heavy-hole states in quantum
dots"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8761'
acknowledged_ssus:
- _id: ScienComp
article_processing_charge: No
author:
- first_name: Ruslan
full_name: Guseinov, Ruslan
id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87
last_name: Guseinov
orcid: 0000-0001-9819-5077
citation:
ama: Guseinov R. Supplementary data for “Computational design of cold bent glass
façades.” 2020. doi:10.15479/AT:ISTA:8761
apa: Guseinov, R. (2020). Supplementary data for “Computational design of cold bent
glass façades.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8761
chicago: Guseinov, Ruslan. “Supplementary Data for ‘Computational Design of Cold
Bent Glass Façades.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8761.
ieee: R. Guseinov, “Supplementary data for ‘Computational design of cold bent glass
façades.’” Institute of Science and Technology Austria, 2020.
ista: Guseinov R. 2020. Supplementary data for ‘Computational design of cold bent
glass façades’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8761.
mla: Guseinov, Ruslan. Supplementary Data for “Computational Design of Cold Bent
Glass Façades.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8761.
short: R. Guseinov, (2020).
contributor:
- contributor_type: researcher
first_name: Konstantinos
last_name: Gavriil
- contributor_type: researcher
first_name: Ruslan
id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87
last_name: Guseinov
orcid: 0000-0001-9819-5077
- contributor_type: researcher
first_name: Jesus
id: 2DC83906-F248-11E8-B48F-1D18A9856A87
last_name: Perez Rodriguez
- contributor_type: researcher
first_name: Davide
last_name: Pellis
- contributor_type: researcher
first_name: Paul M
id: 13C09E74-18D9-11E9-8878-32CFE5697425
last_name: Henderson
orcid: 0000-0002-5198-7445
- contributor_type: researcher
first_name: Florian
last_name: Rist
- contributor_type: researcher
first_name: Helmut
last_name: Pottmann
- contributor_type: researcher
first_name: Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
date_created: 2020-11-16T10:47:18Z
date_published: 2020-11-23T00:00:00Z
date_updated: 2024-02-21T12:43:22Z
day: '23'
ddc:
- '000'
department:
- _id: BeBi
doi: 10.15479/AT:ISTA:8761
ec_funded: 1
file:
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content_type: application/x-gzip
creator: rguseino
date_created: 2020-11-16T10:31:29Z
date_updated: 2020-11-16T10:31:29Z
file_id: '8762'
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relation: main_file
success: 1
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content_type: application/x-gzip
creator: rguseino
date_created: 2020-11-16T10:43:23Z
date_updated: 2020-11-16T10:43:23Z
file_id: '8763'
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content_type: text/plain
creator: rguseino
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date_updated: 2020-11-18T10:04:59Z
file_id: '8770'
file_name: readme.txt
file_size: 1228
relation: main_file
success: 1
file_date_updated: 2020-11-18T10:04:59Z
has_accepted_license: '1'
month: '11'
oa: 1
oa_version: Published Version
project:
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publisher: Institute of Science and Technology Austria
related_material:
link:
- relation: software
url: https://github.com/russelmann/cold-glass-acm
record:
- id: '8562'
relation: used_in_publication
status: public
status: public
title: Supplementary data for "Computational design of cold bent glass façades"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '8563'
abstract:
- lang: eng
text: "Supplementary data provided for the provided for the publication:\r\nIgor
Gridchyn , Philipp Schoenenberger , Joseph O'Neill , Jozsef Csicsvari (2020) Optogenetic
inhibition-mediated activity-dependent modification of CA1 pyramidal-interneuron
connections during behavior. Elife."
article_processing_charge: No
author:
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Igor
full_name: Gridchyn, Igor
id: 4B60654C-F248-11E8-B48F-1D18A9856A87
last_name: Gridchyn
orcid: 0000-0002-1807-1929
- first_name: Philipp
full_name: Schönenberger, Philipp
id: 3B9D816C-F248-11E8-B48F-1D18A9856A87
last_name: Schönenberger
citation:
ama: Csicsvari JL, Gridchyn I, Schönenberger P. Optogenetic alteration of hippocampal
network activity. 2020. doi:10.15479/AT:ISTA:8563
apa: Csicsvari, J. L., Gridchyn, I., & Schönenberger, P. (2020). Optogenetic
alteration of hippocampal network activity. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:8563
chicago: Csicsvari, Jozsef L, Igor Gridchyn, and Philipp Schönenberger. “Optogenetic
Alteration of Hippocampal Network Activity.” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:8563.
ieee: J. L. Csicsvari, I. Gridchyn, and P. Schönenberger, “Optogenetic alteration
of hippocampal network activity.” Institute of Science and Technology Austria,
2020.
ista: Csicsvari JL, Gridchyn I, Schönenberger P. 2020. Optogenetic alteration of
hippocampal network activity, Institute of Science and Technology Austria, 10.15479/AT:ISTA:8563.
mla: Csicsvari, Jozsef L., et al. Optogenetic Alteration of Hippocampal Network
Activity. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8563.
short: J.L. Csicsvari, I. Gridchyn, P. Schönenberger, (2020).
contributor:
- contributor_type: project_leader
first_name: Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
date_created: 2020-09-23T14:39:54Z
date_published: 2020-10-19T00:00:00Z
date_updated: 2024-02-21T12:43:41Z
day: '19'
ddc:
- '570'
department:
- _id: JoCs
doi: 10.15479/AT:ISTA:8563
file:
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checksum: a16098a6d172f9c42ab5af5f6991668c
content_type: application/x-compressed
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date_updated: 2020-09-23T14:36:17Z
file_id: '8564'
file_name: upload.tgz
file_size: 145243906
relation: main_file
success: 1
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checksum: 0bfc54b7e14c0694cd081617318ba606
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: jozsef
date_created: 2020-10-19T10:12:29Z
date_updated: 2020-10-19T10:12:29Z
file_id: '8675'
file_name: redme.docx
file_size: 11648
relation: main_file
success: 1
file_date_updated: 2020-10-19T10:12:29Z
has_accepted_license: '1'
month: '10'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
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relation: used_in_publication
status: public
status: public
title: Optogenetic alteration of hippocampal network activity
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '14592'
abstract:
- lang: eng
text: Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights
into biological processes and structures within a native context. However, a major
challenge still lies in the efficient and reproducible preparation of adherent
cells for subsequent cryo-EM analysis. This is due to the sensitivity of many
cellular specimens to the varying seeding and culturing conditions required for
EM experiments, the often limited amount of cellular material and also the fragility
of EM grids and their substrate. Here, we present low-cost and reusable 3D printed
grid holders, designed to improve specimen preparation when culturing challenging
cellular samples directly on grids. The described grid holders increase cell culture
reproducibility and throughput, and reduce the resources required for cell culturing.
We show that grid holders can be integrated into various cryo-EM workflows, including
micro-patterning approaches to control cell seeding on grids, and for generating
samples for cryo-focused ion beam milling and cryo-electron tomography experiments.
Their adaptable design allows for the generation of specialized grid holders customized
to a large variety of applications.
article_processing_charge: No
author:
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
citation:
ama: Schur FK. STL-files for 3D-printed grid holders described in Fäßler F, Zens
B, et al.; 3D printed cell culture grid holders for improved cellular specimen
preparation in cryo-electron microscopy. 2020. doi:10.15479/AT:ISTA:14592
apa: Schur, F. K. (2020). STL-files for 3D-printed grid holders described in Fäßler
F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular
specimen preparation in cryo-electron microscopy. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:14592
chicago: Schur, Florian KM. “STL-Files for 3D-Printed Grid Holders Described in
Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular
Specimen Preparation in Cryo-Electron Microscopy.” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:14592.
ieee: F. K. Schur, “STL-files for 3D-printed grid holders described in Fäßler F,
Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen
preparation in cryo-electron microscopy.” Institute of Science and Technology
Austria, 2020.
ista: Schur FK. 2020. STL-files for 3D-printed grid holders described in Fäßler
F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular
specimen preparation in cryo-electron microscopy, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:14592.
mla: Schur, Florian KM. STL-Files for 3D-Printed Grid Holders Described in Fäßler
F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular
Specimen Preparation in Cryo-Electron Microscopy. Institute of Science and
Technology Austria, 2020, doi:10.15479/AT:ISTA:14592.
short: F.K. Schur, (2020).
contributor:
- contributor_type: researcher
first_name: Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- contributor_type: researcher
first_name: Bettina
id: 45FD126C-F248-11E8-B48F-1D18A9856A87
last_name: Zens
- contributor_type: researcher
first_name: Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
- contributor_type: researcher
first_name: Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
date_created: 2023-11-22T15:00:57Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2024-02-21T12:44:48Z
day: '01'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.15479/AT:ISTA:14592
file:
- access_level: open_access
checksum: 0108616e2a59e51879ea51299a29b091
content_type: application/zip
creator: fschur
date_created: 2023-11-22T14:58:44Z
date_updated: 2023-11-22T14:58:44Z
file_id: '14593'
file_name: 3Dprint-files_download_v2.zip
file_size: 49297
relation: main_file
success: 1
- access_level: open_access
checksum: 4c66ddedee4d01c1c4a7978208350cfc
content_type: text/plain
creator: cchlebak
date_created: 2023-12-01T10:39:59Z
date_updated: 2023-12-01T10:39:59Z
file_id: '14637'
file_name: readme.txt
file_size: 641
relation: main_file
success: 1
file_date_updated: 2023-12-01T10:39:59Z
has_accepted_license: '1'
month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 9B954C5C-BA93-11EA-9121-9846C619BF3A
grant_number: P33367
name: Structure and isoform diversity of the Arp2/3 complex
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8586'
relation: research_data
status: public
status: public
title: STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.;
3D printed cell culture grid holders for improved cellular specimen preparation
in cryo-electron microscopy
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '7016'
abstract:
- lang: eng
text: Organisms cope with change by employing transcriptional regulators. However,
when faced with rare environments, the evolution of transcriptional regulators
and their promoters may be too slow. We ask whether the intrinsic instability
of gene duplication and amplification provides a generic alternative to canonical
gene regulation. By real-time monitoring of gene copy number mutations in E. coli,
we show that gene duplications and amplifications enable adaptation to fluctuating
environments by rapidly generating copy number, and hence expression level, polymorphism.
This ‘amplification-mediated gene expression tuning’ occurs on timescales similar
to canonical gene regulation and can deal with rapid environmental changes. Mathematical
modeling shows that amplifications also tune gene expression in stochastic environments
where transcription factor-based schemes are hard to evolve or maintain. The fleeting
nature of gene amplifications gives rise to a generic population-level mechanism
that relies on genetic heterogeneity to rapidly tune expression of any gene, without
leaving any genomic signature.
article_processing_charge: No
author:
- first_name: Isabella
full_name: Tomanek, Isabella
id: 3981F020-F248-11E8-B48F-1D18A9856A87
last_name: Tomanek
orcid: 0000-0001-6197-363X
citation:
ama: Tomanek I. Data for the paper “Gene amplification as a form of population-level
gene expression regulation.” 2019. doi:10.15479/AT:ISTA:7016
apa: Tomanek, I. (2019). Data for the paper “Gene amplification as a form of population-level
gene expression regulation.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7016
chicago: Tomanek, Isabella. “Data for the Paper ‘Gene Amplification as a Form of
Population-Level Gene Expression Regulation.’” Institute of Science and Technology
Austria, 2019. https://doi.org/10.15479/AT:ISTA:7016.
ieee: I. Tomanek, “Data for the paper ‘Gene amplification as a form of population-level
gene expression regulation.’” Institute of Science and Technology Austria, 2019.
ista: Tomanek I. 2019. Data for the paper ‘Gene amplification as a form of population-level
gene expression regulation’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7016.
mla: Tomanek, Isabella. Data for the Paper “Gene Amplification as a Form of Population-Level
Gene Expression Regulation.” Institute of Science and Technology Austria,
2019, doi:10.15479/AT:ISTA:7016.
short: I. Tomanek, (2019).
contributor:
- contributor_type: project_leader
first_name: Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
date_created: 2019-11-13T09:07:31Z
date_published: 2019-11-13T00:00:00Z
date_updated: 2024-02-21T12:45:25Z
day: '13'
ddc:
- '576'
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:7016
file:
- access_level: open_access
checksum: 72441055043eda4cbf1398a422e2c118
content_type: application/octet-stream
creator: itomanek
date_created: 2019-11-13T08:52:21Z
date_updated: 2020-07-14T12:47:47Z
description: Illumina whole genome sequence data for Locus 1 - amplified.
file_id: '7017'
file_name: D8_S35_R2_001.fastq
file_size: 2456192500
relation: main_file
title: Locus1_amplified
- access_level: open_access
checksum: a4ac50bf655d9c751f0305ade5c2ee16
content_type: application/octet-stream
creator: itomanek
date_created: 2019-11-13T08:52:59Z
date_updated: 2020-07-14T12:47:47Z
description: Illumina whole genome sequence data for Locus 1 - ancestral.
file_id: '7018'
file_name: IT028_S11_R2_001.fastq
file_size: 2833452234
relation: main_file
title: Locus1_ancestral
- access_level: open_access
checksum: 5b227708ff478ca06e3f0448a4efdc2f
content_type: application/octet-stream
creator: itomanek
date_created: 2019-11-13T08:54:10Z
date_updated: 2020-07-14T12:47:47Z
description: Illumina whole genome sequence data for Locus 1 - amplified, after
DOG-selection.
file_id: '7019'
file_name: D8-DOG1_S47_R2_001.fastq
file_size: 2878017264
relation: main_file
title: Locus1_amplified_DOG
- access_level: open_access
checksum: d9550a4c044116075fa83f8f2ea31d6f
content_type: application/octet-stream
creator: itomanek
date_created: 2019-11-13T08:54:27Z
date_updated: 2020-07-14T12:47:47Z
description: Illumina whole genome sequence data for Locus 2 - amplified.
file_id: '7020'
file_name: D4_S71_R2_001.fastq
file_size: 2180826995
relation: main_file
title: Locus2_amplified
- access_level: open_access
checksum: 466ceb302c020ac013007a879fcde69d
content_type: application/octet-stream
creator: itomanek
date_created: 2019-11-13T08:55:58Z
date_updated: 2020-07-14T12:47:47Z
description: Illumina whole genome sequence data for Locus 2 - ancestral.
file_id: '7021'
file_name: IT030_S23_R2_001.fastq
file_size: 2108826444
relation: main_file
title: Locus2_ancestral
- access_level: open_access
checksum: 8aeb1da771713c7baa5a847eff889604
content_type: application/octet-stream
creator: itomanek
date_created: 2019-11-21T12:31:01Z
date_updated: 2020-07-14T12:47:47Z
description: Illumina whole genome sequence data for Locus 2 - amplified, after
DOG-selection.
file_id: '7092'
file_name: D4-DOG1_S83_R2_001.fastq
file_size: 3144330494
relation: main_file
title: Locus2_amplified_DOG
- access_level: open_access
checksum: bf7d4b053f14af4655fb5574209fdb2d
content_type: application/zip
creator: itomanek
date_created: 2020-01-14T11:22:27Z
date_updated: 2020-07-14T12:47:47Z
description: Compressed genbank file format containing the sequence of the chromosomal
reporter gene cassette.
file_id: '7273'
file_name: galK_dual_reporter_cassette.gb.zip
file_size: 4179
relation: main_file
title: DNA sequence of the chromosomal reporter gene cassette
- access_level: open_access
checksum: 5e91cee2eff6f4a7cde456c6fb07c2ff
content_type: text/plain
creator: dernst
date_created: 2020-01-15T14:15:55Z
date_updated: 2020-07-14T12:47:47Z
file_id: '7335'
file_name: Readme_7016.txt
file_size: 435
relation: main_file
title: Read_me_sequence_data
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checksum: 5e6745dcfb9c1b11dd935ac3ee45fe33
content_type: application/zip
creator: itomanek
date_created: 2020-01-22T15:44:16Z
date_updated: 2020-07-14T12:47:47Z
description: FACS data associated with Fig. 2c - see read_me_FACS
file_id: '7351'
file_name: FACS_data.xlsx.zip
file_size: 3765861
relation: main_file
title: FACS data
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checksum: a85caf092ae4b17668f70af2d93fad00
content_type: text/rtf
creator: itomanek
date_created: 2020-01-22T15:44:16Z
date_updated: 2020-07-14T12:47:47Z
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file_size: 4996
relation: main_file
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checksum: fd8ba5d75d24e47ddf7e70bfdadb40d4
content_type: text/rtf
creator: itomanek
date_created: 2020-01-22T15:44:16Z
date_updated: 2020-07-14T12:47:47Z
file_id: '7353'
file_name: read_me_microfluidics.rtf
file_size: 868
relation: main_file
- access_level: open_access
checksum: 69c5dc5ca5c069a138183c934acc1778
content_type: application/zip
creator: itomanek
date_created: 2020-01-22T15:44:17Z
date_updated: 2020-07-14T12:47:47Z
description: microfluidics time trace data - see read_me_microfluidics
file_id: '7354'
file_name: microfuidics_data.zip
file_size: 8141727
relation: main_file
title: microfluidics data
file_date_updated: 2020-07-14T12:47:47Z
has_accepted_license: '1'
keyword:
- Escherichia coli
- gene amplification
- galactose
- DOG
- experimental evolution
- Illumina sequence data
- FACS data
- microfluidics data
month: '11'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7652'
relation: used_in_publication
status: public
status: public
title: Data for the paper "Gene amplification as a form of population-level gene expression
regulation"
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2019'
...
---
_id: '7154'
article_processing_charge: No
author:
- first_name: Ruslan
full_name: Guseinov, Ruslan
id: 3AB45EE2-F248-11E8-B48F-1D18A9856A87
last_name: Guseinov
orcid: 0000-0001-9819-5077
citation:
ama: Guseinov R. Supplementary data for “Programming temporal morphing of self-actuated
shells.” 2019. doi:10.15479/AT:ISTA:7154
apa: Guseinov, R. (2019). Supplementary data for “Programming temporal morphing
of self-actuated shells.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7154
chicago: Guseinov, Ruslan. “Supplementary Data for ‘Programming Temporal Morphing
of Self-Actuated Shells.’” Institute of Science and Technology Austria, 2019.
https://doi.org/10.15479/AT:ISTA:7154.
ieee: R. Guseinov, “Supplementary data for ‘Programming temporal morphing of self-actuated
shells.’” Institute of Science and Technology Austria, 2019.
ista: Guseinov R. 2019. Supplementary data for ‘Programming temporal morphing of
self-actuated shells’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7154.
mla: Guseinov, Ruslan. Supplementary Data for “Programming Temporal Morphing
of Self-Actuated Shells.” Institute of Science and Technology Austria, 2019,
doi:10.15479/AT:ISTA:7154.
short: R. Guseinov, (2019).
contributor:
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last_name: Perez Rodriguez
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last_name: Daraio
- first_name: Bernd
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last_name: Bickel
orcid: 0000-0001-6511-9385
date_created: 2019-12-09T07:52:46Z
date_published: 2019-12-06T00:00:00Z
date_updated: 2024-02-21T12:45:03Z
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department:
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ec_funded: 1
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month: '12'
oa: 1
oa_version: Published Version
project:
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call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publisher: Institute of Science and Technology Austria
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last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Supplementary data for “Sex-biased gene expression and dosage compensation
on the Artemia franciscana Z-chromosome” (Huylman, Toups et al., 2019). . 2019.
doi:10.15479/AT:ISTA:6060
apa: Vicoso, B. (2019). Supplementary data for “Sex-biased gene expression and dosage
compensation on the Artemia franciscana Z-chromosome” (Huylman, Toups et al.,
2019). . Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6060
chicago: Vicoso, Beatriz. “Supplementary Data for ‘Sex-Biased Gene Expression and
Dosage Compensation on the Artemia Franciscana Z-Chromosome’ (Huylman, Toups et
Al., 2019). .” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:6060.
ieee: B. Vicoso, “Supplementary data for ‘Sex-biased gene expression and dosage
compensation on the Artemia franciscana Z-chromosome’ (Huylman, Toups et al.,
2019). .” Institute of Science and Technology Austria, 2019.
ista: Vicoso B. 2019. Supplementary data for ‘Sex-biased gene expression and dosage
compensation on the Artemia franciscana Z-chromosome’ (Huylman, Toups et al.,
2019). , Institute of Science and Technology Austria, 10.15479/AT:ISTA:6060.
mla: Vicoso, Beatriz. Supplementary Data for “Sex-Biased Gene Expression and
Dosage Compensation on the Artemia Franciscana Z-Chromosome” (Huylman, Toups et
Al., 2019). . Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:6060.
short: B. Vicoso, (2019).
date_created: 2019-02-28T10:55:15Z
date_published: 2019-02-28T00:00:00Z
date_updated: 2024-02-21T12:45:42Z
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oa: 1
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publisher: Institute of Science and Technology Austria
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status: public
title: 'Supplementary data for "Sex-biased gene expression and dosage compensation
on the Artemia franciscana Z-chromosome" (Huylman, Toups et al., 2019). '
type: research_data
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---
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abstract:
- lang: eng
text: "This dataset contains the supplementary data for the research paper \"Haploinsufficiency
of the intellectual disability gene SETD5 disturbs developmental gene expression
and cognition\".\r\n\r\nThe contained files have the following content:\r\n'Supplementary
Figures.pdf'\r\n\tAdditional figures (as referenced in the paper).\r\n'Supplementary
Table 1. Statistics.xlsx'\r\n\tDetails on statistical tests performed in the paper.\r\n'Supplementary
Table 2. Differentially expressed gene analysis.xlsx'\r\n\tResults for the differential
gene expression analysis for embryonic (E9.5; analysis with edgeR) and in vitro
(ESCs, EBs, NPCs; analysis with DESeq2) samples.\r\n'Supplementary Table 3. Gene
Ontology (GO) term enrichment analysis.xlsx'\r\n\tResults for the GO term enrichment
analysis for differentially expressed genes in embryonic (GO E9.5) and in vitro
(GO ESC, GO EBs, GO NPCs) samples. Differentially expressed genes for in vitro
samples were split into upregulated and downregulated genes (up/down) and the
analysis was performed on each subset (e.g. GO ESC up / GO ESC down).\r\n'Supplementary
Table 4. Differentially expressed gene analysis for CFC samples.xlsx'\r\n\tResults
for the differential gene expression analysis for samples from adult mice before
(HC - Homecage) and 1h and 3h after contextual fear conditioning (1h and 3h, respectively).
Each sheet shows the results for a different comparison. Sheets 1-3 show results
for comparisons between timepoints for wild type (WT) samples only and sheets
4-6 for the same comparisons in mutant (Het) samples. Sheets 7-9 show results
for comparisons between genotypes at each time point and sheet 10 contains the
results for the analysis of differential expression trajectories between wild
type and mutant.\r\n'Supplementary Table 5. Cluster identification.xlsx'\r\n\tResults
for k-means clustering of genes by expression. Sheet 1 shows clustering of just
the genes with significantly different expression trajectories between genotypes.
Sheet 2 shows clustering of all genes that are significantly differentially expressed
in any of the comparisons (includes also genes with same trajectories).\r\n'Supplementary
Table 6. GO term cluster analysis.xlsx'\r\n\tResults for the GO term enrichment
analysis and EWCE analysis for enrichment of cell type specific genes for each
cluster identified by clustering genes with different expression trajectories
(see Table S5, sheet 1).\r\n'Supplementary Table 7. Setd5 mass spectrometry results.xlsx'\r\n\tResults
showing proteins interacting with Setd5 as identified by mass spectrometry. Sheet
1 shows protein protein interaction data generated from these results (combined
with data from the STRING database. Sheet 2 shows the results of the statistical
analysis with limma.\r\n'Supplementary Table 8. PolII ChIP-seq analysis.xlsx'\r\n\tResults
for the Chip-Seq analysis for binding of RNA polymerase II (PolII). Sheet 1 shows
results for differential binding of PolII at the transcription start site (TSS)
between genotypes and sheets 2+3 show the corresponding GO enrichment analysis
for these differentially bound genes. Sheet 4 shows RNAseq counts for genes with
increased binding of PolII at the TSS."
article_processing_charge: No
author:
- first_name: Christoph
full_name: Dotter, Christoph
id: 4C66542E-F248-11E8-B48F-1D18A9856A87
last_name: Dotter
orcid: 0000-0002-9033-9096
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Dotter C, Novarino G. Supplementary data for the research paper “Haploinsufficiency
of the intellectual disability gene SETD5 disturbs developmental gene expression
and cognition.” 2019. doi:10.15479/AT:ISTA:6074
apa: Dotter, C., & Novarino, G. (2019). Supplementary data for the research
paper “Haploinsufficiency of the intellectual disability gene SETD5 disturbs developmental
gene expression and cognition.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:6074
chicago: Dotter, Christoph, and Gaia Novarino. “Supplementary Data for the Research
Paper ‘Haploinsufficiency of the Intellectual Disability Gene SETD5 Disturbs Developmental
Gene Expression and Cognition.’” Institute of Science and Technology Austria,
2019. https://doi.org/10.15479/AT:ISTA:6074.
ieee: C. Dotter and G. Novarino, “Supplementary data for the research paper ‘Haploinsufficiency
of the intellectual disability gene SETD5 disturbs developmental gene expression
and cognition.’” Institute of Science and Technology Austria, 2019.
ista: Dotter C, Novarino G. 2019. Supplementary data for the research paper ‘Haploinsufficiency
of the intellectual disability gene SETD5 disturbs developmental gene expression
and cognition’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:6074.
mla: Dotter, Christoph, and Gaia Novarino. Supplementary Data for the Research
Paper “Haploinsufficiency of the Intellectual Disability Gene SETD5 Disturbs Developmental
Gene Expression and Cognition.” Institute of Science and Technology Austria,
2019, doi:10.15479/AT:ISTA:6074.
short: C. Dotter, G. Novarino, (2019).
date_created: 2019-03-07T13:32:35Z
date_published: 2019-01-09T00:00:00Z
date_updated: 2024-02-21T13:41:01Z
day: '09'
ddc:
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doi: 10.15479/AT:ISTA:6074
file:
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content_type: application/zip
creator: dernst
date_created: 2019-03-07T13:37:19Z
date_updated: 2020-07-14T12:47:18Z
file_id: '6084'
file_name: Setd5_paper.zip
file_size: 33202743
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month: '01'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
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relation: research_paper
status: public
status: public
title: Supplementary data for the research paper "Haploinsufficiency of the intellectual
disability gene SETD5 disturbs developmental gene expression and cognition"
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
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...
---
_id: '6062'
abstract:
- lang: eng
text: Open the files in Jupyter Notebook (reccomended https://www.anaconda.com/distribution/#download-section
with Python 3.7).
article_processing_charge: No
author:
- first_name: Michele
full_name: Nardin, Michele
id: 30BD0376-F248-11E8-B48F-1D18A9856A87
last_name: Nardin
orcid: 0000-0001-8849-6570
citation:
ama: Nardin M. Supplementary Code and Data for the paper “The Entorhinal Cognitive
Map is Attracted to Goals.” 2019. doi:10.15479/AT:ISTA:6062
apa: Nardin, M. (2019). Supplementary Code and Data for the paper “The Entorhinal
Cognitive Map is Attracted to Goals.” Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:6062
chicago: Nardin, Michele. “Supplementary Code and Data for the Paper ‘The Entorhinal
Cognitive Map Is Attracted to Goals.’” Institute of Science and Technology Austria,
2019. https://doi.org/10.15479/AT:ISTA:6062.
ieee: M. Nardin, “Supplementary Code and Data for the paper ‘The Entorhinal Cognitive
Map is Attracted to Goals.’” Institute of Science and Technology Austria, 2019.
ista: Nardin M. 2019. Supplementary Code and Data for the paper ‘The Entorhinal
Cognitive Map is Attracted to Goals’, Institute of Science and Technology Austria,
10.15479/AT:ISTA:6062.
mla: Nardin, Michele. Supplementary Code and Data for the Paper “The Entorhinal
Cognitive Map Is Attracted to Goals.” Institute of Science and Technology
Austria, 2019, doi:10.15479/AT:ISTA:6062.
short: M. Nardin, (2019).
date_created: 2019-03-04T14:20:58Z
date_published: 2019-03-29T00:00:00Z
date_updated: 2024-02-21T12:46:04Z
day: '29'
department:
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doi: 10.15479/AT:ISTA:6062
file:
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checksum: 48e7b9a02939b763417733239522a236
content_type: application/zip
creator: mnardin
date_created: 2019-03-05T09:29:37Z
date_updated: 2020-07-14T12:47:18Z
file_id: '6068'
file_name: Online_data.zip
file_size: 37002186
relation: main_file
title: Data for the paper "The Entorhinal Cognitive Map is Attracted to Goals"
file_date_updated: 2020-07-14T12:47:18Z
has_accepted_license: '1'
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
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status: public
status: public
title: Supplementary Code and Data for the paper "The Entorhinal Cognitive Map is
Attracted to Goals"
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...
---
_id: '5573'
abstract:
- lang: eng
text: Graph matching problems for large displacement optical flow of RGB-D images.
article_processing_charge: No
author:
- first_name: Hassan
full_name: Alhaija, Hassan
last_name: Alhaija
- first_name: Anita
full_name: Sellent, Anita
last_name: Sellent
- first_name: Daniel
full_name: Kondermann, Daniel
last_name: Kondermann
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
citation:
ama: Alhaija H, Sellent A, Kondermann D, Rother C. Graph matching problems for GraphFlow
– 6D Large Displacement Scene Flow. 2018. doi:10.15479/AT:ISTA:82
apa: Alhaija, H., Sellent, A., Kondermann, D., & Rother, C. (2018). Graph matching
problems for GraphFlow – 6D Large Displacement Scene Flow. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:82
chicago: Alhaija, Hassan, Anita Sellent, Daniel Kondermann, and Carsten Rother.
“Graph Matching Problems for GraphFlow – 6D Large Displacement Scene Flow.” Institute
of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:82.
ieee: H. Alhaija, A. Sellent, D. Kondermann, and C. Rother, “Graph matching problems
for GraphFlow – 6D Large Displacement Scene Flow.” Institute of Science and Technology
Austria, 2018.
ista: Alhaija H, Sellent A, Kondermann D, Rother C. 2018. Graph matching problems
for GraphFlow – 6D Large Displacement Scene Flow, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:82.
mla: Alhaija, Hassan, et al. Graph Matching Problems for GraphFlow – 6D Large
Displacement Scene Flow. Institute of Science and Technology Austria, 2018,
doi:10.15479/AT:ISTA:82.
short: H. Alhaija, A. Sellent, D. Kondermann, C. Rother, (2018).
contributor:
- contributor_type: researcher
first_name: Paul
id: 446560C6-F248-11E8-B48F-1D18A9856A87
last_name: Swoboda
datarep_id: '82'
date_created: 2018-12-12T12:31:36Z
date_published: 2018-01-04T00:00:00Z
date_updated: 2024-02-21T13:41:17Z
day: '04'
ddc:
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department:
- _id: VlKo
doi: 10.15479/AT:ISTA:82
file:
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checksum: 53c17082848e12f3c2e1b4185b578208
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:34Z
date_updated: 2020-07-14T12:47:05Z
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file_name: IST-2018-82-v1+1_GraphFlowMatchingProblems.zip
file_size: 1737958
relation: main_file
file_date_updated: 2020-07-14T12:47:05Z
has_accepted_license: '1'
keyword:
- graph matching
- quadratic assignment problem<
month: '01'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
link:
- relation: research_paper
url: https://doi.org/10.1007/978-3-319-24947-6_23
status: public
title: Graph matching problems for GraphFlow – 6D Large Displacement Scene Flow
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...
---
_id: '5577'
abstract:
- lang: ger
text: Data on Austrian open access publication output at Emerald from 2013-2017
including data analysis.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Villányi M. Emerald Austrian Publications 2013-2017. 2018. doi:10.15479/AT:ISTA:89
apa: Villányi, M. (2018). Emerald Austrian Publications 2013-2017. Institute of
Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:89
chicago: Villányi, Márton. “Emerald Austrian Publications 2013-2017.” Institute
of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:89.
ieee: M. Villányi, “Emerald Austrian Publications 2013-2017.” Institute of Science
and Technology Austria, 2018.
ista: Villányi M. 2018. Emerald Austrian Publications 2013-2017, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:89.
mla: Villányi, Márton. Emerald Austrian Publications 2013-2017. Institute
of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:89.
short: M. Villányi, (2018).
datarep_id: '89'
date_created: 2018-12-12T12:31:37Z
date_published: 2018-01-16T00:00:00Z
date_updated: 2024-02-21T13:41:32Z
day: '16'
ddc:
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department:
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doi: 10.15479/AT:ISTA:89
file:
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file_name: IST-2018-89-v1+1_Emerald_Austrian_Publications_2013-2017.zip
file_size: 222011
relation: main_file
file_date_updated: 2020-07-14T12:47:06Z
has_accepted_license: '1'
keyword:
- Publication analysis
- Bibliography
- Open Access
month: '01'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
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relation: part_of_dissertation
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status: public
title: Emerald Austrian Publications 2013-2017
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year: '2018'
...
---
_id: '5578'
abstract:
- lang: ger
text: Data on Austrian open access publication output at IOP from 2012-2015 including
data analysis.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Villányi M. IOP Austrian Publications 2012-2015. 2018. doi:10.15479/AT:ISTA:90
apa: Villányi, M. (2018). IOP Austrian Publications 2012-2015. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:90
chicago: Villányi, Márton. “IOP Austrian Publications 2012-2015.” Institute of Science
and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:90.
ieee: M. Villányi, “IOP Austrian Publications 2012-2015.” Institute of Science and
Technology Austria, 2018.
ista: Villányi M. 2018. IOP Austrian Publications 2012-2015, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:90.
mla: Villányi, Márton. IOP Austrian Publications 2012-2015. Institute of
Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:90.
short: M. Villányi, (2018).
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date_published: 2018-01-16T00:00:00Z
date_updated: 2024-02-21T13:42:36Z
day: '16'
ddc:
- '020'
department:
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doi: 10.15479/AT:ISTA:90
file:
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date_updated: 2020-07-14T12:47:06Z
file_id: '5624'
file_name: IST-2018-90-v1+1_IOP_Austrian_Publications_2012-2015.zip
file_size: 237067
relation: main_file
file_date_updated: 2020-07-14T12:47:06Z
has_accepted_license: '1'
keyword:
- Publication analysis
- Bibliography
- Open Access
month: '01'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
record:
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relation: part_of_dissertation
status: public
status: public
title: IOP Austrian Publications 2012-2015
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...
---
_id: '5574'
abstract:
- lang: ger
text: 'Comparison of Scopus'' and publisher''s data on Austrian publication output
at IOP. '
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Villányi M. Data Check IOP Scopus vs. Publisher. 2018. doi:10.15479/AT:ISTA:86
apa: Villányi, M. (2018). Data Check IOP Scopus vs. Publisher. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:86
chicago: Villányi, Márton. “Data Check IOP Scopus vs. Publisher.” Institute of Science
and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:86.
ieee: M. Villányi, “Data Check IOP Scopus vs. Publisher.” Institute of Science and
Technology Austria, 2018.
ista: Villányi M. 2018. Data Check IOP Scopus vs. Publisher, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:86.
mla: Villányi, Márton. Data Check IOP Scopus vs. Publisher. Institute of
Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:86.
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abstract:
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text: Script to perform a simple exponential lifetime fit of a ROI on time stacks
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full_name: Hauschild, Robert
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apa: Hauschild, R. (2018). Fluorescence lifetime analysis of FLIM X16 TCSPC data.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:0113
chicago: Hauschild, Robert. “Fluorescence Lifetime Analysis of FLIM X16 TCSPC Data.”
Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:0113.
ieee: R. Hauschild, “Fluorescence lifetime analysis of FLIM X16 TCSPC data.” Institute
of Science and Technology Austria, 2018.
ista: Hauschild R. 2018. Fluorescence lifetime analysis of FLIM X16 TCSPC data,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:0113.
mla: Hauschild, Robert. Fluorescence Lifetime Analysis of FLIM X16 TCSPC Data.
Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:0113.
short: R. Hauschild, (2018).
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date_updated: 2024-02-21T13:44:21Z
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file_size: 47866557
relation: main_file
file_date_updated: 2020-07-14T12:47:08Z
has_accepted_license: '1'
keyword:
- FLIM
- FRET
- fluorescence lifetime imaging
month: '11'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Fluorescence lifetime analysis of FLIM X16 TCSPC data
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...
---
_id: '5582'
abstract:
- lang: eng
text: Data on Austrian open access publication output at Taylor&Francis from 2013-2017
including data analysis.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
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apa: Villányi, M. (2018). Taylor&Francis Austrian Publications 2013-2017. Institute
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chicago: Villányi, Márton. “Taylor&Francis Austrian Publications 2013-2017.”
Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:94.
ieee: M. Villányi, “Taylor&Francis Austrian Publications 2013-2017.” Institute
of Science and Technology Austria, 2018.
ista: Villányi M. 2018. Taylor&Francis Austrian Publications 2013-2017, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:94.
mla: Villányi, Márton. Taylor&Francis Austrian Publications 2013-2017.
Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:94.
short: M. Villányi, (2018).
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...
---
_id: '5581'
abstract:
- lang: ger
text: Data on Austrian open access publication output at Springer from 2013-2016
including data analysis.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
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apa: Villányi, M. (2018). Springer Austrian Publications 2013-2016. Institute of
Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:93
chicago: Villányi, Márton. “Springer Austrian Publications 2013-2016.” Institute
of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:93.
ieee: M. Villányi, “Springer Austrian Publications 2013-2016.” Institute of Science
and Technology Austria, 2018.
ista: Villányi M. 2018. Springer Austrian Publications 2013-2016, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:93.
mla: Villányi, Márton. Springer Austrian Publications 2013-2016. Institute
of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:93.
short: M. Villányi, (2018).
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...
---
_id: '5580'
abstract:
- lang: ger
text: Data on Austrian open access publication output at SAGE from 2013-2017 including
data analysis.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
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apa: Villányi, M. (2018). SAGE Austrian Publications 2013-2017. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:92
chicago: Villányi, Márton. “SAGE Austrian Publications 2013-2017.” Institute of
Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:92.
ieee: M. Villányi, “SAGE Austrian Publications 2013-2017.” Institute of Science
and Technology Austria, 2018.
ista: Villányi M. 2018. SAGE Austrian Publications 2013-2017, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:92.
mla: Villányi, Márton. SAGE Austrian Publications 2013-2017. Institute of
Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:92.
short: M. Villányi, (2018).
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- Open Access
month: '01'
oa: 1
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publisher: Institute of Science and Technology Austria
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...
---
_id: '5579'
abstract:
- lang: eng
text: Data on Austrian open access publication output at RSC from 2013-2017 including
data analysis.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
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apa: Villányi, M. (2018). RSC Austrian Publications 2013-2017. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:91
chicago: Villányi, Márton. “RSC Austrian Publications 2013-2017.” Institute of Science
and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:91.
ieee: M. Villányi, “RSC Austrian Publications 2013-2017.” Institute of Science and
Technology Austria, 2018.
ista: Villányi M. 2018. RSC Austrian Publications 2013-2017, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:91.
mla: Villányi, Márton. RSC Austrian Publications 2013-2017. Institute of
Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:91.
short: M. Villányi, (2018).
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date_updated: 2024-02-21T13:42:53Z
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ddc:
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department:
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- Publication analysis
- Bibliography
- Open Access
month: '01'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
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...
---
_id: '5576'
abstract:
- lang: ger
text: Comparison of Scopus' and FWF's data on Austrian publication output at T&F.
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Villányi M. Data Check T&F Scopus vs. FWF. 2018. doi:10.15479/AT:ISTA:88
apa: Villányi, M. (2018). Data Check T&F Scopus vs. FWF. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:88
chicago: Villányi, Márton. “Data Check T&F Scopus vs. FWF.” Institute of Science
and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:88.
ieee: M. Villányi, “Data Check T&F Scopus vs. FWF.” Institute of Science and
Technology Austria, 2018.
ista: Villányi M. 2018. Data Check T&F Scopus vs. FWF, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:88.
mla: Villányi, Márton. Data Check T&F Scopus vs. FWF. Institute of Science
and Technology Austria, 2018, doi:10.15479/AT:ISTA:88.
short: M. Villányi, (2018).
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date_updated: 2024-02-21T13:43:10Z
day: '16'
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department:
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doi: 10.15479/AT:ISTA:88
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date_updated: 2020-07-14T12:47:05Z
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file_name: IST-2018-88-v1+1_Data_Check_T_F_Scopus_vs._FWF.zip
file_size: 741195
relation: main_file
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keyword:
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- Bibliography
- Open Access
month: '01'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
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...
---
_id: '5575'
abstract:
- lang: ger
text: 'Comparison of Scopus'' and FWF''s data on Austrian publication output at
RSC. '
article_processing_charge: No
author:
- first_name: Márton
full_name: Villányi, Márton
id: 3FFCCD3A-F248-11E8-B48F-1D18A9856A87
last_name: Villányi
orcid: 0000-0001-8126-0426
citation:
ama: Villányi M. Data Check RSC Scopus vs. FWF. 2018. doi:10.15479/AT:ISTA:87
apa: Villányi, M. (2018). Data Check RSC Scopus vs. FWF. Institute of Science and
Technology Austria. https://doi.org/10.15479/AT:ISTA:87
chicago: Villányi, Márton. “Data Check RSC Scopus vs. FWF.” Institute of Science
and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:87.
ieee: M. Villányi, “Data Check RSC Scopus vs. FWF.” Institute of Science and Technology
Austria, 2018.
ista: Villányi M. 2018. Data Check RSC Scopus vs. FWF, Institute of Science and
Technology Austria, 10.15479/AT:ISTA:87.
mla: Villányi, Márton. Data Check RSC Scopus vs. FWF. Institute of Science
and Technology Austria, 2018, doi:10.15479/AT:ISTA:87.
short: M. Villányi, (2018).
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relation: main_file
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keyword:
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- Bibliography
- Open Access
month: '01'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
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...
---
_id: '5584'
abstract:
- lang: eng
text: "This package contains data for the publication \"Nonlinear decoding of a
complex movie from the mammalian retina\" by Deny S. et al, PLOS Comput Biol (2018).
\r\n\r\nThe data consists of\r\n(i) 91 spike sorted, isolated rat retinal ganglion
cells that pass stability and quality criteria, recorded on the multi-electrode
array, in response to the presentation of the complex movie with many randomly
moving dark discs. The responses are represented as 648000 x 91 binary matrix,
where the first index indicates the timebin of duration 12.5 ms, and the second
index the neural identity. The matrix entry is 0/1 if the neuron didn't/did spike
in the particular time bin.\r\n(ii) README file and a graphical illustration of
the structure of the experiment, specifying how the 648000 timebins are split
into epochs where 1, 2, 4, or 10 discs were displayed, and which stimulus segments
are exact repeats or unique ball trajectories.\r\n(iii) a 648000 x 400 matrix
of luminance traces for each of the 20 x 20 positions (\"sites\") in the movie
frame, with time that is locked to the recorded raster. The luminance traces are
produced as described in the manuscript by filtering the raw disc movie with a
small gaussian spatial kernel. "
article_processing_charge: No
author:
- first_name: Stephane
full_name: Deny, Stephane
last_name: Deny
- first_name: Olivier
full_name: Marre, Olivier
last_name: Marre
- first_name: Vicente
full_name: Botella-Soler, Vicente
last_name: Botella-Soler
- first_name: Georg S
full_name: Martius, Georg S
id: 3A276B68-F248-11E8-B48F-1D18A9856A87
last_name: Martius
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
citation:
ama: Deny S, Marre O, Botella-Soler V, Martius GS, Tkačik G. Nonlinear decoding
of a complex movie from the mammalian retina. 2018. doi:10.15479/AT:ISTA:98
apa: Deny, S., Marre, O., Botella-Soler, V., Martius, G. S., & Tkačik, G. (2018).
Nonlinear decoding of a complex movie from the mammalian retina. Institute of
Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:98
chicago: Deny, Stephane, Olivier Marre, Vicente Botella-Soler, Georg S Martius,
and Gašper Tkačik. “Nonlinear Decoding of a Complex Movie from the Mammalian Retina.”
Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:98.
ieee: S. Deny, O. Marre, V. Botella-Soler, G. S. Martius, and G. Tkačik, “Nonlinear
decoding of a complex movie from the mammalian retina.” Institute of Science and
Technology Austria, 2018.
ista: Deny S, Marre O, Botella-Soler V, Martius GS, Tkačik G. 2018. Nonlinear decoding
of a complex movie from the mammalian retina, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:98.
mla: Deny, Stephane, et al. Nonlinear Decoding of a Complex Movie from the Mammalian
Retina. Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:98.
short: S. Deny, O. Marre, V. Botella-Soler, G.S. Martius, G. Tkačik, (2018).
datarep_id: '98'
date_created: 2018-12-12T12:31:39Z
date_published: 2018-03-29T00:00:00Z
date_updated: 2024-02-21T13:45:26Z
day: '29'
ddc:
- '570'
department:
- _id: ChLa
- _id: GaTk
doi: 10.15479/AT:ISTA:98
file:
- access_level: open_access
checksum: 6808748837b9afbbbabc2a356ca2b88a
content_type: application/octet-stream
creator: system
date_created: 2018-12-12T13:02:24Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5590'
file_name: IST-2018-98-v1+1_BBalls_area2_tile2_20x20.mat
file_size: 1142543971
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content_type: application/pdf
creator: system
date_created: 2018-12-12T13:02:25Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5591'
file_name: IST-2018-98-v1+2_ExperimentStructure.pdf
file_size: 702336
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content_type: application/octet-stream
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date_updated: 2020-07-14T12:47:07Z
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file_name: IST-2018-98-v1+3_GoodLocations_area2_20x20.mat
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checksum: 2a83b011012e21e934b4596285b1a183
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creator: system
date_created: 2018-12-12T13:02:26Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5593'
file_name: IST-2018-98-v1+4_README.txt
file_size: 986
relation: main_file
file_date_updated: 2020-07-14T12:47:07Z
has_accepted_license: '1'
keyword:
- retina
- decoding
- regression
- neural networks
- complex stimulus
month: '03'
oa: 1
oa_version: Published Version
project:
- _id: 254D1A94-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 25651-N26
name: Sensitivity to higher-order statistics in natural scenes
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '292'
relation: used_in_publication
status: public
status: public
title: Nonlinear decoding of a complex movie from the mammalian retina
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
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year: '2018'
...
---
_id: '5586'
abstract:
- lang: eng
text: Input files and scripts from "Evolution of gene dosage on the Z-chromosome
of schistosome parasites" by Picard M.A.L., et al (2018).
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Input files and scripts from “Evolution of gene dosage on the Z-chromosome
of schistosome parasites” by Picard M.A.L., et al (2018). 2018. doi:10.15479/AT:ISTA:109
apa: Vicoso, B. (2018). Input files and scripts from “Evolution of gene dosage on
the Z-chromosome of schistosome parasites” by Picard M.A.L., et al (2018). Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:109
chicago: Vicoso, Beatriz. “Input Files and Scripts from ‘Evolution of Gene Dosage
on the Z-Chromosome of Schistosome Parasites’ by Picard M.A.L., et Al (2018).”
Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:109.
ieee: B. Vicoso, “Input files and scripts from ‘Evolution of gene dosage on the
Z-chromosome of schistosome parasites’ by Picard M.A.L., et al (2018).” Institute
of Science and Technology Austria, 2018.
ista: Vicoso B. 2018. Input files and scripts from ‘Evolution of gene dosage on
the Z-chromosome of schistosome parasites’ by Picard M.A.L., et al (2018), Institute
of Science and Technology Austria, 10.15479/AT:ISTA:109.
mla: Vicoso, Beatriz. Input Files and Scripts from “Evolution of Gene Dosage
on the Z-Chromosome of Schistosome Parasites” by Picard M.A.L., et Al (2018).
Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:109.
short: B. Vicoso, (2018).
contributor:
- first_name: Marion A
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
datarep_id: '109'
date_created: 2018-12-12T12:31:40Z
date_published: 2018-07-24T00:00:00Z
date_updated: 2024-02-21T13:45:12Z
day: '24'
ddc:
- '570'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:109
file:
- access_level: open_access
checksum: e60b484bd6f55c08eb66a189cb72c923
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:35Z
date_updated: 2020-07-14T12:47:08Z
file_id: '5601'
file_name: IST-2018-109-v1+1_SupplementaryMethods.zip
file_size: 11918144
relation: main_file
file_date_updated: 2020-07-14T12:47:08Z
has_accepted_license: '1'
keyword:
- schistosoma
- Z-chromosome
- gene expression
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '131'
relation: research_paper
status: public
status: public
title: Input files and scripts from "Evolution of gene dosage on the Z-chromosome
of schistosome parasites" by Picard M.A.L., et al (2018)
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
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short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '5583'
abstract:
- lang: eng
text: "Data and scripts are provided in support of the manuscript \"Efficient inference
of paternity and sibship inference given known maternity via hierarchical clustering\",
and the associated Python package FAPS, available from www.github.com/ellisztamas/faps.\r\n\r\nSimulation
scripts cover:\r\n1. Performance under different mating scenarios.\r\n2. Comparison
with Colony2.\r\n3. Effect of changing the number of Monte Carlo draws\r\n\r\nThe
final script covers the analysis of half-sib arrays from wild-pollinated seed
in an Antirrhinum majus hybrid zone."
article_processing_charge: No
author:
- first_name: Thomas
full_name: Ellis, Thomas
id: 3153D6D4-F248-11E8-B48F-1D18A9856A87
last_name: Ellis
orcid: 0000-0002-8511-0254
citation:
ama: Ellis T. Data and Python scripts supporting Python package FAPS. 2018. doi:10.15479/AT:ISTA:95
apa: Ellis, T. (2018). Data and Python scripts supporting Python package FAPS. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:95
chicago: Ellis, Thomas. “Data and Python Scripts Supporting Python Package FAPS.”
Institute of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:95.
ieee: T. Ellis, “Data and Python scripts supporting Python package FAPS.” Institute
of Science and Technology Austria, 2018.
ista: Ellis T. 2018. Data and Python scripts supporting Python package FAPS, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:95.
mla: Ellis, Thomas. Data and Python Scripts Supporting Python Package FAPS.
Institute of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:95.
short: T. Ellis, (2018).
contributor:
- first_name: David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
- first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
datarep_id: '95'
date_created: 2018-12-12T12:31:39Z
date_published: 2018-02-12T00:00:00Z
date_updated: 2024-02-21T13:45:01Z
day: '12'
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:95
file:
- access_level: open_access
checksum: fc6aab51439f2622ba6df8632e66fd4f
content_type: text/csv
creator: system
date_created: 2018-12-12T13:02:41Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5606'
file_name: IST-2018-95-v1+1_amajus_GPS_2012.csv
file_size: 122048
relation: main_file
- access_level: open_access
checksum: 92347586ae4f8a6eb7c04354797bf314
content_type: text/csv
creator: system
date_created: 2018-12-12T13:02:42Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5607'
file_name: IST-2018-95-v1+2_offspring_SNPs_2012.csv
file_size: 235980
relation: main_file
- access_level: open_access
checksum: 3300813645a54e6c5c39f41917228354
content_type: text/csv
creator: system
date_created: 2018-12-12T13:02:43Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5608'
file_name: IST-2018-95-v1+3_parents_SNPs_2012.csv
file_size: 311712
relation: main_file
- access_level: open_access
checksum: e739fc473567fd8f39438b445fc46147
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:44Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5609'
file_name: IST-2018-95-v1+4_faps_scripts.zip
file_size: 342090
relation: main_file
file_date_updated: 2020-07-14T12:47:07Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '286'
relation: research_paper
status: public
status: public
title: Data and Python scripts supporting Python package FAPS
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '5569'
abstract:
- lang: eng
text: "Nela Nikolic, Tobias Bergmiller, Alexandra Vandervelde, Tanino G. Albanese,
Lendert Gelens, and Isabella Moll (2018)\r\n“Autoregulation of mazEF expression
underlies growth heterogeneity in bacterial populations” Nucleic Acids Research,
doi: 10.15479/AT:ISTA:74;\r\nmicroscopy experiments by Tobias Bergmiller; image
and data analysis by Nela Nikolic."
article_processing_charge: No
author:
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
citation:
ama: Bergmiller T, Nikolic N. Time-lapse microscopy data. 2018. doi:10.15479/AT:ISTA:74
apa: Bergmiller, T., & Nikolic, N. (2018). Time-lapse microscopy data. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:74
chicago: Bergmiller, Tobias, and Nela Nikolic. “Time-Lapse Microscopy Data.” Institute
of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:74.
ieee: T. Bergmiller and N. Nikolic, “Time-lapse microscopy data.” Institute of Science
and Technology Austria, 2018.
ista: Bergmiller T, Nikolic N. 2018. Time-lapse microscopy data, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:74.
mla: Bergmiller, Tobias, and Nela Nikolic. Time-Lapse Microscopy Data. Institute
of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:74.
short: T. Bergmiller, N. Nikolic, (2018).
datarep_id: '74'
date_created: 2018-12-12T12:31:35Z
date_published: 2018-02-07T00:00:00Z
date_updated: 2024-02-21T13:44:45Z
day: '07'
ddc:
- '579'
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:74
file:
- access_level: open_access
checksum: 61ebb92213cfffeba3ddbaff984b81af
content_type: application/zip
creator: system
date_created: 2018-12-12T13:04:39Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5637'
file_name: IST-2018-74-v1+2_15-11-05.zip
file_size: 3558703796
relation: main_file
- access_level: open_access
checksum: bf26649af310ef6892d68576515cde6d
content_type: application/zip
creator: system
date_created: 2018-12-12T13:04:55Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5638'
file_name: IST-2018-74-v1+3_15-07-31.zip
file_size: 1830422606
relation: main_file
- access_level: open_access
checksum: 8e46eedce06f22acb2be1a9b9d3f56bd
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:11Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5639'
file_name: IST-2018-74-v1+4_Images_for_analysis.zip
file_size: 2140849248
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- microscopy
- microfluidics
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
publist_id: '7385'
related_material:
record:
- id: '438'
relation: research_paper
status: public
status: public
title: Time-lapse microscopy data
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '5587'
abstract:
- lang: eng
text: "Supporting material to the article \r\nSTATISTICAL MECHANICS FOR METABOLIC
NETWORKS IN STEADY-STATE GROWTH\r\n\r\nboundscoli.dat\r\nFlux Bounds of the E.
coli catabolic core model iAF1260 in a glucose limited minimal medium. \r\n\r\npolcoli.dat\r\nMatrix
enconding the polytope of the E. coli catabolic core model iAF1260 in a glucose
limited minimal medium, \r\nobtained from the soichiometric matrix by standard
linear algebra (reduced row echelon form).\r\n\r\nellis.dat\r\nApproximate Lowner-John
ellipsoid rounding the polytope of the E. coli catabolic core model iAF1260 in
a glucose limited minimal medium\r\nobtained with the Lovasz method.\r\n\r\npoint0.dat\r\nCenter
of the approximate Lowner-John ellipsoid rounding the polytope of the E. coli
catabolic core model iAF1260 in a glucose limited minimal medium\r\nobtained with
the Lovasz method.\r\n\r\nlovasz.cpp \r\nThis c++ code file receives in input
the polytope of the feasible steady states of a metabolic network, \r\n(matrix
and bounds), and it gives in output an approximate Lowner-John ellipsoid rounding
the polytope\r\nwith the Lovasz method \r\nNB inputs are referred by defaults
to the catabolic core of the E.Coli network iAF1260. \r\nFor further details we
refer to PLoS ONE 10.4 e0122670 (2015).\r\n\r\nsampleHRnew.cpp \r\nThis c++
code file receives in input the polytope of the feasible steady states of a metabolic
network, \r\n(matrix and bounds), the ellipsoid rounding the polytope, a point
inside and \r\nit gives in output a max entropy sampling at fixed average growth
rate \r\nof the steady states by performing an Hit-and-Run Monte Carlo Markov
chain.\r\nNB inputs are referred by defaults to the catabolic core of the E.Coli
network iAF1260. \r\nFor further details we refer to PLoS ONE 10.4 e0122670 (2015)."
article_processing_charge: No
author:
- first_name: Daniele
full_name: De Martino, Daniele
id: 3FF5848A-F248-11E8-B48F-1D18A9856A87
last_name: De Martino
orcid: 0000-0002-5214-4706
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
citation:
ama: De Martino D, Tkačik G. Supporting materials “STATISTICAL MECHANICS FOR METABOLIC
NETWORKS IN STEADY-STATE GROWTH.” 2018. doi:10.15479/AT:ISTA:62
apa: De Martino, D., & Tkačik, G. (2018). Supporting materials “STATISTICAL
MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.” Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:62
chicago: De Martino, Daniele, and Gašper Tkačik. “Supporting Materials ‘STATISTICAL
MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.’” Institute of Science
and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:62.
ieee: D. De Martino and G. Tkačik, “Supporting materials ‘STATISTICAL MECHANICS
FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.’” Institute of Science and Technology
Austria, 2018.
ista: De Martino D, Tkačik G. 2018. Supporting materials ‘STATISTICAL MECHANICS
FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH’, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:62.
mla: De Martino, Daniele, and Gašper Tkačik. Supporting Materials “STATISTICAL
MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE GROWTH.” Institute of Science
and Technology Austria, 2018, doi:10.15479/AT:ISTA:62.
short: D. De Martino, G. Tkačik, (2018).
datarep_id: '111'
date_created: 2018-12-12T12:31:41Z
date_published: 2018-09-21T00:00:00Z
date_updated: 2024-02-21T13:45:39Z
day: '21'
ddc:
- '530'
department:
- _id: GaTk
doi: 10.15479/AT:ISTA:62
ec_funded: 1
file:
- access_level: open_access
checksum: 97992e3e8cf8544ec985a48971708726
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:13Z
date_updated: 2020-07-14T12:47:08Z
file_id: '5641'
file_name: IST-2018-111-v1+1_CODES.zip
file_size: 14376
relation: main_file
file_date_updated: 2020-07-14T12:47:08Z
has_accepted_license: '1'
keyword:
- metabolic networks
- e.coli core
- maximum entropy
- monte carlo markov chain sampling
- ellipsoidal rounding
month: '09'
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: 254E9036-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28844-B27
name: Biophysics of information processing in gene regulation
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '161'
relation: research_paper
status: public
status: public
title: Supporting materials "STATISTICAL MECHANICS FOR METABOLIC NETWORKS IN STEADY-STATE
GROWTH"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '5757'
abstract:
- lang: eng
text: "File S1. Variant Calling Format file of the ingroup: 197 haploid sequences
of D. melanogaster from Zambia (Africa) aligned to the D. melanogaster 5.57 reference
genome.\r\n\r\nFile S2. Variant Calling Format file of the outgroup: 1 haploid
sequence of D. simulans aligned to the D. melanogaster 5.57 reference genome.\r\n\r\nFile
S3. Annotations of each transcript in coding regions with SNPeff: Ps (# of synonymous
polymorphic sites); Pn (# of non-synonymous polymorphic sites); Ds (# of synonymous
divergent sites); Dn (# of non-synonymous divergent sites); DoS; ⍺ MK . All variants
were included.\r\n\r\nFile S4. Annotations of each transcript in non-coding regions
with SNPeff: Ps (# of synonymous polymorphic sites); Pu (# of UTR polymorphic
sites); Ds (# of synonymous divergent sites); Du (# of UTR divergent sites); DoS;
⍺ MK . All variants were included.\r\n\r\nFile S5. Annotations of each transcript
in coding regions with SNPGenie: Ps (# of synonymous polymorphic sites); πs (synonymous
diversity); Ss_p (total # of synonymous sites in the polymorphism data); Pn (#
of non-synonymous polymorphic sites); πn (non-synonymous diversity); Sn_p (total
# of non-synonymous sites in the polymorphism data); Ds (# of synonymous divergent
sites); ks (synonymous evolutionary rate); Ss_d (total # of synonymous sites in
the divergence data); Dn (# of non-synonymous divergent sites); kn (non-synonymous
evolutionary rate); Sn_d (total # of non-\r\nsynonymous sites in the divergence
data); DoS; ⍺ MK . All variants were included.\r\n\r\nFile S6. Gene expression
values (RPKM summed over all transcripts) for each sample. Values were quantile-normalized
across all samples.\r\n\r\nFile S7. Final dataset with all covariates, ⍺ MK ,
ωA MK and DoS for coding sites, excluding variants below 5% frequency.\r\n\r\nFile
S8. Final dataset with all covariates, ⍺ MK , ωA MK and DoS for non-coding sites,
excluding variants below 5%\r\nfrequency.\r\n\r\nFile S9. Final dataset with all
covariates, ⍺ EWK , ωA EWK and deleterious SFS for coding sites obtained with
the Eyre-Walker and Keightley method on binned data and using all variants."
article_processing_charge: No
author:
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
citation:
ama: Fraisse C. Supplementary Files for “Pleiotropy modulates the efficacy of selection
in Drosophila melanogaster.” 2018. doi:10.15479/at:ista:/5757
apa: Fraisse, C. (2018). Supplementary Files for “Pleiotropy modulates the efficacy
of selection in Drosophila melanogaster.” Institute of Science and Technology
Austria. https://doi.org/10.15479/at:ista:/5757
chicago: Fraisse, Christelle. “Supplementary Files for ‘Pleiotropy Modulates the
Efficacy of Selection in Drosophila Melanogaster.’” Institute of Science and Technology
Austria, 2018. https://doi.org/10.15479/at:ista:/5757.
ieee: C. Fraisse, “Supplementary Files for ‘Pleiotropy modulates the efficacy of
selection in Drosophila melanogaster.’” Institute of Science and Technology Austria,
2018.
ista: Fraisse C. 2018. Supplementary Files for ‘Pleiotropy modulates the efficacy
of selection in Drosophila melanogaster’, Institute of Science and Technology
Austria, 10.15479/at:ista:/5757.
mla: Fraisse, Christelle. Supplementary Files for “Pleiotropy Modulates the Efficacy
of Selection in Drosophila Melanogaster.” Institute of Science and Technology
Austria, 2018, doi:10.15479/at:ista:/5757.
short: C. Fraisse, (2018).
contributor:
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id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
- first_name: Gemma
id: 33AB266C-F248-11E8-B48F-1D18A9856A87
last_name: Puixeu Sala
- first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
date_created: 2018-12-19T14:22:35Z
date_published: 2018-12-19T00:00:00Z
date_updated: 2024-02-21T13:59:18Z
day: '19'
ddc:
- '576'
department:
- _id: BeVi
- _id: NiBa
doi: 10.15479/at:ista:/5757
ec_funded: 1
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creator: cfraisse
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date_created: 2018-12-19T14:19:49Z
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content_type: text/plain
creator: cfraisse
date_created: 2018-12-19T14:19:50Z
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file_name: FileS9.txt
file_size: 100737
relation: main_file
file_date_updated: 2020-07-14T12:47:11Z
has_accepted_license: '1'
keyword:
- (mal)adaptation
- pleiotropy
- selective constraint
- evo-devo
- gene expression
- Drosophila melanogaster
month: '12'
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
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6089'
relation: research_paper
status: public
status: public
title: Supplementary Files for "Pleiotropy modulates the efficacy of selection in
Drosophila melanogaster"
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '5585'
abstract:
- lang: eng
text: Mean repression values and standard error of the mean are given for all operator
mutant libraries.
article_processing_charge: No
author:
- first_name: Claudia
full_name: Igler, Claudia
id: 46613666-F248-11E8-B48F-1D18A9856A87
last_name: Igler
- first_name: Mato
full_name: Lagator, Mato
id: 345D25EC-F248-11E8-B48F-1D18A9856A87
last_name: Lagator
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. Data for the paper Evolutionary
potential of transcription factors for gene regulatory rewiring. 2018. doi:10.15479/AT:ISTA:108
apa: Igler, C., Lagator, M., Tkačik, G., Bollback, J. P., & Guet, C. C. (2018).
Data for the paper Evolutionary potential of transcription factors for gene regulatory
rewiring. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:108
chicago: Igler, Claudia, Mato Lagator, Gašper Tkačik, Jonathan P Bollback, and Calin
C Guet. “Data for the Paper Evolutionary Potential of Transcription Factors for
Gene Regulatory Rewiring.” Institute of Science and Technology Austria, 2018.
https://doi.org/10.15479/AT:ISTA:108.
ieee: C. Igler, M. Lagator, G. Tkačik, J. P. Bollback, and C. C. Guet, “Data for
the paper Evolutionary potential of transcription factors for gene regulatory
rewiring.” Institute of Science and Technology Austria, 2018.
ista: Igler C, Lagator M, Tkačik G, Bollback JP, Guet CC. 2018. Data for the paper
Evolutionary potential of transcription factors for gene regulatory rewiring,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:108.
mla: Igler, Claudia, et al. Data for the Paper Evolutionary Potential of Transcription
Factors for Gene Regulatory Rewiring. Institute of Science and Technology
Austria, 2018, doi:10.15479/AT:ISTA:108.
short: C. Igler, M. Lagator, G. Tkačik, J.P. Bollback, C.C. Guet, (2018).
datarep_id: '108'
date_created: 2018-12-12T12:31:40Z
date_published: 2018-07-20T00:00:00Z
date_updated: 2024-03-27T23:30:48Z
day: '20'
ddc:
- '576'
department:
- _id: CaGu
- _id: GaTk
doi: 10.15479/AT:ISTA:108
ec_funded: 1
file:
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checksum: 1435781526c77413802adee0d4583cce
content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
creator: system
date_created: 2018-12-12T13:02:45Z
date_updated: 2020-07-14T12:47:07Z
file_id: '5611'
file_name: IST-2018-108-v1+1_data_figures.xlsx
file_size: 16507
relation: main_file
file_date_updated: 2020-07-14T12:47:07Z
has_accepted_license: '1'
month: '07'
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: 2578D616-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '648440'
name: Selective Barriers to Horizontal Gene Transfer
- _id: 251EE76E-B435-11E9-9278-68D0E5697425
grant_number: '24573'
name: Design principles underlying genetic switch architecture (DOC Fellowship)
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '67'
relation: research_paper
status: public
- id: '6371'
relation: research_paper
status: public
status: public
title: Data for the paper Evolutionary potential of transcription factors for gene
regulatory rewiring
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '5562'
abstract:
- lang: eng
text: "This data was collected as part of the study [1]. It consists of preprocessed
multi-electrode array recording from 160 salamander retinal ganglion cells responding
to 297 repeats of a 19 s natural movie. The data is available in two formats:
(1) a .mat file containing an array with dimensions “number of repeats” x “number
of neurons” x “time in a repeat”; (2) a zipped .txt file containing the same data
represented as an array with dimensions “number of neurons” x “number of samples”,
where the number of samples is equal to the product of the number of repeats and
timebins within a repeat. The time dimension is divided into 20 ms time windows,
and the array is binary indicating whether a given cell elicited at least one
spike in a given time window during a particular repeat. See the reference below
for details regarding collection and preprocessing:\r\n\r\n[1] Tkačik G, Marre
O, Amodei D, Schneidman E, Bialek W, Berry MJ II. Searching for Collective Behavior
in a Large Network of Sensory Neurons. PLoS Comput Biol. 2014;10(1):e1003408."
article_processing_charge: No
author:
- first_name: Olivier
full_name: Marre, Olivier
last_name: Marre
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Dario
full_name: Amodei, Dario
last_name: Amodei
- first_name: Elad
full_name: Schneidman, Elad
last_name: Schneidman
- first_name: William
full_name: Bialek, William
last_name: Bialek
- first_name: Michael
full_name: Berry, Michael
last_name: Berry
citation:
ama: Marre O, Tkačik G, Amodei D, Schneidman E, Bialek W, Berry M. Multi-electrode
array recording from salamander retinal ganglion cells. 2017. doi:10.15479/AT:ISTA:61
apa: Marre, O., Tkačik, G., Amodei, D., Schneidman, E., Bialek, W., & Berry,
M. (2017). Multi-electrode array recording from salamander retinal ganglion cells.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:61
chicago: Marre, Olivier, Gašper Tkačik, Dario Amodei, Elad Schneidman, William Bialek,
and Michael Berry. “Multi-Electrode Array Recording from Salamander Retinal Ganglion
Cells.” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:61.
ieee: O. Marre, G. Tkačik, D. Amodei, E. Schneidman, W. Bialek, and M. Berry, “Multi-electrode
array recording from salamander retinal ganglion cells.” Institute of Science
and Technology Austria, 2017.
ista: Marre O, Tkačik G, Amodei D, Schneidman E, Bialek W, Berry M. 2017. Multi-electrode
array recording from salamander retinal ganglion cells, Institute of Science and
Technology Austria, 10.15479/AT:ISTA:61.
mla: Marre, Olivier, et al. Multi-Electrode Array Recording from Salamander Retinal
Ganglion Cells. Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:61.
short: O. Marre, G. Tkačik, D. Amodei, E. Schneidman, W. Bialek, M. Berry, (2017).
datarep_id: '61'
date_created: 2018-12-12T12:31:33Z
date_published: 2017-02-27T00:00:00Z
date_updated: 2024-02-21T13:46:14Z
day: '27'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.15479/AT:ISTA:61
file:
- access_level: open_access
checksum: e620eff260646f57b479a69492c8b765
content_type: application/octet-stream
creator: system
date_created: 2018-12-12T13:03:04Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5622'
file_name: IST-2017-61-v1+1_bint_fishmovie32_100.mat
file_size: 1336936
relation: main_file
- access_level: open_access
checksum: de83f9b81ea0aae3cddfc3ed982e0759
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:05Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5623'
file_name: IST-2017-61-v1+2_bint_fishmovie32_100.zip
file_size: 1897543
relation: main_file
file_date_updated: 2020-07-14T12:47:03Z
has_accepted_license: '1'
keyword:
- multi-electrode recording
- retinal ganglion cells
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '2257'
relation: research_paper
status: public
status: public
title: Multi-electrode array recording from salamander retinal ganglion cells
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5561'
abstract:
- lang: eng
text: 'Graph matching problems as described in "Active Graph Matching for Automatic
Joint Segmentation and Annotation of C. Elegans." by Kainmueller, Dagmar and Jug,
Florian and Rother, Carsten and Myers, Gene, MICCAI 2014. Problems are in OpenGM2
hdf5 format (see http://hciweb2.iwr.uni-heidelberg.de/opengm/) and a custom text
format used by the feature matching solver described in "Feature Correspondence
via Graph Matching: Models and Global Optimization." by Lorenzo Torresani, Vladimir
Kolmogorov and Carsten Rother, ECCV 2008, code at http://pub.ist.ac.at/~vnk/software/GraphMatching-v1.02.src.zip. '
acknowledgement: We thank Vladimir Kolmogorov and Stephan Saalfeld forinspiring discussions.
article_processing_charge: No
author:
- first_name: Dagmar
full_name: Kainmueller, Dagmar
last_name: Kainmueller
- first_name: Florian
full_name: Jug, Florian
last_name: Jug
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
- first_name: Gene
full_name: Meyers, Gene
last_name: Meyers
citation:
ama: Kainmueller D, Jug F, Rother C, Meyers G. Graph matching problems for annotating
C. Elegans. 2017. doi:10.15479/AT:ISTA:57
apa: Kainmueller, D., Jug, F., Rother, C., & Meyers, G. (2017). Graph matching
problems for annotating C. Elegans. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:57
chicago: Kainmueller, Dagmar, Florian Jug, Carsten Rother, and Gene Meyers. “Graph
Matching Problems for Annotating C. Elegans.” Institute of Science and Technology
Austria, 2017. https://doi.org/10.15479/AT:ISTA:57.
ieee: D. Kainmueller, F. Jug, C. Rother, and G. Meyers, “Graph matching problems
for annotating C. Elegans.” Institute of Science and Technology Austria, 2017.
ista: Kainmueller D, Jug F, Rother C, Meyers G. 2017. Graph matching problems for
annotating C. Elegans, Institute of Science and Technology Austria, 10.15479/AT:ISTA:57.
mla: Kainmueller, Dagmar, et al. Graph Matching Problems for Annotating C. Elegans.
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:57.
short: D. Kainmueller, F. Jug, C. Rother, G. Meyers, (2017).
datarep_id: '57'
date_created: 2018-12-12T12:31:32Z
date_published: 2017-02-13T00:00:00Z
date_updated: 2024-02-21T13:46:31Z
day: '13'
ddc:
- '000'
department:
- _id: VlKo
doi: 10.15479/AT:ISTA:57
file:
- access_level: open_access
checksum: 3dc3e1306a66028a34181ebef2923139
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:54Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5614'
file_name: IST-2017-57-v1+1_wormMatchingProblems.zip
file_size: 327042819
relation: main_file
file_date_updated: 2020-07-14T12:47:03Z
has_accepted_license: '1'
keyword:
- graph matching
- feature matching
- QAP
- MAP-inference
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Graph matching problems for annotating C. Elegans
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5563'
abstract:
- lang: eng
text: "MATLAB code and processed datasets available for reproducing the results
in: \r\nLukačišin, M.*, Landon, M.*, Jajoo, R*. (2016) Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast.\r\n*equal contributions"
article_processing_charge: No
author:
- first_name: Martin
full_name: Lukacisin, Martin
id: 298FFE8C-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisin
orcid: 0000-0001-6549-4177
citation:
ama: Lukacisin M. MATLAB analysis code for “Sequence-Specific Thermodynamic Properties
of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.”
2017. doi:10.15479/AT:ISTA:64
apa: Lukacisin, M. (2017). MATLAB analysis code for “Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:64
chicago: Lukacisin, Martin. “MATLAB Analysis Code for ‘Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast.’” Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:64.
ieee: M. Lukacisin, “MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties
of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’”
Institute of Science and Technology Austria, 2017.
ista: Lukacisin M. 2017. MATLAB analysis code for ‘Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:64.
mla: Lukacisin, Martin. MATLAB Analysis Code for “Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast.” Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:64.
short: M. Lukacisin, (2017).
datarep_id: '64'
date_created: 2018-12-12T12:31:33Z
date_published: 2017-03-20T00:00:00Z
date_updated: 2024-02-21T13:46:47Z
day: '20'
ddc:
- '571'
department:
- _id: ToBo
doi: 10.15479/AT:ISTA:64
file:
- access_level: open_access
checksum: ee697f2b1ade4dc14d6ac0334dd832ab
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:37Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5602'
file_name: IST-2016-45-v1+1_PaperCode.zip
file_size: 296722548
relation: main_file
file_date_updated: 2020-07-14T12:47:03Z
has_accepted_license: '1'
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: MATLAB analysis code for 'Sequence-Specific Thermodynamic Properties of Nucleic
Acids Influence Both Transcriptional Pausing and Backtracking in Yeast'
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5564'
abstract:
- lang: eng
text: Compressed Fastq files with whole-genome sequencing data of IS-wt strain D
and clones from four evolved populations (A11, C08, C10, D08). Information on
this data collection is available in the Methods Section of the primary publication.
article_processing_charge: No
author:
- first_name: Magdalena
full_name: Steinrück, Magdalena
id: 2C023F40-F248-11E8-B48F-1D18A9856A87
last_name: Steinrück
orcid: 0000-0003-1229-9719
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Steinrück M, Guet CC. Fastq files for “Complex chromosomal neighborhood effects
determine the adaptive potential of a gene under selection.” 2017. doi:10.15479/AT:ISTA:65
apa: Steinrück, M., & Guet, C. C. (2017). Fastq files for “Complex chromosomal
neighborhood effects determine the adaptive potential of a gene under selection.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:65
chicago: Steinrück, Magdalena, and Calin C Guet. “Fastq Files for ‘Complex Chromosomal
Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection.’”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:65.
ieee: M. Steinrück and C. C. Guet, “Fastq files for ‘Complex chromosomal neighborhood
effects determine the adaptive potential of a gene under selection.’” Institute
of Science and Technology Austria, 2017.
ista: Steinrück M, Guet CC. 2017. Fastq files for ‘Complex chromosomal neighborhood
effects determine the adaptive potential of a gene under selection’, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:65.
mla: Steinrück, Magdalena, and Calin C. Guet. Fastq Files for “Complex Chromosomal
Neighborhood Effects Determine the Adaptive Potential of a Gene under Selection.”
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:65.
short: M. Steinrück, C.C. Guet, (2017).
datarep_id: '65'
date_created: 2018-12-12T12:31:33Z
date_published: 2017-04-11T00:00:00Z
date_updated: 2024-02-21T13:47:28Z
day: '11'
ddc:
- '576'
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:65
file:
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title: Fastq files for "Complex chromosomal neighborhood effects determine the adaptive
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abstract:
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text: Includes source codes, test cases, and example data used in the thesis Brittle
Fracture Simulation with Boundary Elements for Computer Graphics. Also includes
pre-built binaries of the HyENA library, but not sources - please contact the
HyENA authors to obtain these sources if required (https://mech.tugraz.at/hyena)
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apa: 'Hahn, D. (2017). Source codes: Brittle fracture simulation with boundary elements
for computer graphics. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:73'
chicago: 'Hahn, David. “Source Codes: Brittle Fracture Simulation with Boundary
Elements for Computer Graphics.” Institute of Science and Technology Austria,
2017. https://doi.org/10.15479/AT:ISTA:73.'
ieee: 'D. Hahn, “Source codes: Brittle fracture simulation with boundary elements
for computer graphics.” Institute of Science and Technology Austria, 2017.'
ista: 'Hahn D. 2017. Source codes: Brittle fracture simulation with boundary elements
for computer graphics, Institute of Science and Technology Austria, 10.15479/AT:ISTA:73.'
mla: 'Hahn, David. Source Codes: Brittle Fracture Simulation with Boundary Elements
for Computer Graphics. Institute of Science and Technology Austria, 2017,
doi:10.15479/AT:ISTA:73.'
short: D. Hahn, (2017).
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- computer graphics
- fracture simulation
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oa: 1
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publisher: Institute of Science and Technology Austria
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...
---
_id: '7163'
abstract:
- lang: eng
text: The de novo genome assemblies generated for this study, and the associated
metadata.
article_processing_charge: No
author:
- first_name: Christelle
full_name: Fraisse, Christelle
id: 32DF5794-F248-11E8-B48F-1D18A9856A87
last_name: Fraisse
orcid: 0000-0001-8441-5075
citation:
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Z chromosome suggests a non canonical origin of the W.” 2017. doi:10.15479/AT:ISTA:7163
apa: Fraisse, C. (2017). Supplementary Files for “The deep conservation of the Lepidoptera
Z chromosome suggests a non canonical origin of the W.” Institute of Science and
Technology Austria. https://doi.org/10.15479/AT:ISTA:7163
chicago: Fraisse, Christelle. “Supplementary Files for ‘The Deep Conservation of
the Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.’” Institute
of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:7163.
ieee: C. Fraisse, “Supplementary Files for ‘The deep conservation of the Lepidoptera
Z chromosome suggests a non canonical origin of the W.’” Institute of Science
and Technology Austria, 2017.
ista: Fraisse C. 2017. Supplementary Files for ‘The deep conservation of the Lepidoptera
Z chromosome suggests a non canonical origin of the W’, Institute of Science and
Technology Austria, 10.15479/AT:ISTA:7163.
mla: Fraisse, Christelle. Supplementary Files for “The Deep Conservation of the
Lepidoptera Z Chromosome Suggests a Non Canonical Origin of the W.” Institute
of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:7163.
short: C. Fraisse, (2017).
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id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
date_created: 2019-12-09T23:03:03Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2024-02-21T13:47:47Z
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- '576'
department:
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- _id: NiBa
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creator: cfraisse
date_created: 2019-12-10T08:46:46Z
date_updated: 2020-07-14T12:47:50Z
file_id: '7164'
file_name: Vicoso_Cohridella_Ndegeerella_Tsylvina_genome_assemblies.zip
file_size: 841375478
relation: main_file
file_date_updated: 2020-07-14T12:47:50Z
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month: '12'
oa: 1
oa_version: Published Version
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publisher: Institute of Science and Technology Austria
related_material:
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- id: '614'
relation: research_paper
status: public
status: public
title: Supplementary Files for "The deep conservation of the Lepidoptera Z chromosome
suggests a non canonical origin of the W"
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type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5570'
abstract:
- lang: eng
text: Matlab script to calculate the forward migration indexes (/) from
TrackMate spot-statistics files.
article_processing_charge: No
author:
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
citation:
ama: Hauschild R. Forward migration indexes. 2017. doi:10.15479/AT:ISTA:75
apa: Hauschild, R. (2017). Forward migration indexes. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:75
chicago: Hauschild, Robert. “Forward Migration Indexes.” Institute of Science and
Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:75.
ieee: R. Hauschild, “Forward migration indexes.” Institute of Science and Technology
Austria, 2017.
ista: Hauschild R. 2017. Forward migration indexes, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:75.
mla: Hauschild, Robert. Forward Migration Indexes. Institute of Science and
Technology Austria, 2017, doi:10.15479/AT:ISTA:75.
short: R. Hauschild, (2017).
datarep_id: '75'
date_created: 2018-12-12T12:31:35Z
date_published: 2017-10-04T00:00:00Z
date_updated: 2024-02-21T13:47:14Z
day: '04'
ddc:
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department:
- _id: Bio
doi: 10.15479/AT:ISTA:75
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date_updated: 2020-07-14T12:47:04Z
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relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- Cell migration
- tracking
- forward migration index
- FMI
month: '10'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Forward migration indexes
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
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type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5567'
abstract:
- lang: eng
text: Immunological synapse DC-Tcells
article_processing_charge: No
author:
- first_name: Alexander F
full_name: Leithner, Alexander F
id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87
last_name: Leithner
orcid: 0000-0002-1073-744X
citation:
ama: Leithner AF. Immunological synapse DC-Tcells. 2017. doi:10.15479/AT:ISTA:71
apa: Leithner, A. F. (2017). Immunological synapse DC-Tcells. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:71
chicago: Leithner, Alexander F. “Immunological Synapse DC-Tcells.” Institute of
Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:71.
ieee: A. F. Leithner, “Immunological synapse DC-Tcells.” Institute of Science and
Technology Austria, 2017.
ista: Leithner AF. 2017. Immunological synapse DC-Tcells, Institute of Science and
Technology Austria, 10.15479/AT:ISTA:71.
mla: Leithner, Alexander F. Immunological Synapse DC-Tcells. Institute of
Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:71.
short: A.F. Leithner, (2017).
datarep_id: '71'
date_created: 2018-12-12T12:31:34Z
date_published: 2017-08-09T00:00:00Z
date_updated: 2024-02-21T13:47:00Z
day: '09'
ddc:
- '570'
department:
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doi: 10.15479/AT:ISTA:71
file:
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content_type: video/x-msvideo
creator: system
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file_size: 226232496
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- Immunological synapse
month: '08'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Immunological synapse DC-Tcells
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...
---
_id: '5560'
abstract:
- lang: eng
text: "This repository contains the data collected for the manuscript \"Biased partitioning
of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity\".\r\nThe
data is compressed into a single archive. Within the archive, different folders
correspond to figures of the main text and the SI of the related publication.\r\nData
is saved as plain text, with each folder containing a separate readme file describing
the format. Typically, the data is from fluorescence microscopy measurements of
single cells growing in a microfluidic \"mother machine\" device, and consists
of relevant values (primarily arbitrary unit or normalized fluorescence measurements,
and division times / growth rates) after raw microscopy images have been processed,
segmented, and their features extracted, as described in the methods section of
the related publication."
article_processing_charge: No
author:
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Anna M
full_name: Andersson, Anna M
id: 2B8A40DA-F248-11E8-B48F-1D18A9856A87
last_name: Andersson
orcid: 0000-0003-2912-6769
- first_name: Kathrin
full_name: Tomasek, Kathrin
id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
last_name: Tomasek
orcid: 0000-0003-3768-877X
- first_name: Enrique
full_name: Balleza, Enrique
last_name: Balleza
- first_name: Daniel
full_name: Kiviet, Daniel
last_name: Kiviet
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Bergmiller T, Andersson AM, Tomasek K, et al. Biased partitioning of the multi-drug
efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity. 2017. doi:10.15479/AT:ISTA:53
apa: Bergmiller, T., Andersson, A. M., Tomasek, K., Balleza, E., Kiviet, D., Hauschild,
R., … Guet, C. C. (2017). Biased partitioning of the multi-drug efflux pump AcrAB-TolC
underlies long-lived phenotypic heterogeneity. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:53
chicago: Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza,
Daniel Kiviet, Robert Hauschild, Gašper Tkačik, and Calin C Guet. “Biased Partitioning
of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity.”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:53.
ieee: T. Bergmiller et al., “Biased partitioning of the multi-drug efflux
pump AcrAB-TolC underlies long-lived phenotypic heterogeneity.” Institute of Science
and Technology Austria, 2017.
ista: Bergmiller T, Andersson AM, Tomasek K, Balleza E, Kiviet D, Hauschild R, Tkačik
G, Guet CC. 2017. Biased partitioning of the multi-drug efflux pump AcrAB-TolC
underlies long-lived phenotypic heterogeneity, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:53.
mla: Bergmiller, Tobias, et al. Biased Partitioning of the Multi-Drug Efflux
Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity. Institute of
Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:53.
short: T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild,
G. Tkačik, C.C. Guet, (2017).
datarep_id: '53'
date_created: 2018-12-12T12:31:32Z
date_published: 2017-03-10T00:00:00Z
date_updated: 2024-02-21T13:49:00Z
day: '10'
ddc:
- '571'
department:
- _id: CaGu
- _id: GaTk
- _id: Bio
doi: 10.15479/AT:ISTA:53
file:
- access_level: open_access
checksum: d77859af757ac8025c50c7b12b52eaf3
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:38Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5603'
file_name: IST-2017-53-v1+1_Data_MDE.zip
file_size: 6773204
relation: main_file
file_date_updated: 2020-07-14T12:47:03Z
has_accepted_license: '1'
keyword:
- single cell microscopy
- mother machine microfluidic device
- AcrAB-TolC pump
- multi-drug efflux
- Escherichia coli
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '665'
relation: research_paper
status: public
status: public
title: Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived
phenotypic heterogeneity
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5571'
abstract:
- lang: eng
text: "This folder contains all the data used in each of the main figures of \"The
genomic characterization of the t-haplotype, a mouse meiotic driver, highlights
its complex history and specialized biology\" (Kelemen, R., Vicoso, B.), as well
as in the supplementary figures. \r\n"
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Data for “The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.” 2017.
doi:10.15479/AT:ISTA:78
apa: Vicoso, B. (2017). Data for “The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:78
chicago: Vicoso, Beatriz. “Data for ‘The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.’”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:78.
ieee: B. Vicoso, “Data for ‘The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.’” Institute
of Science and Technology Austria, 2017.
ista: Vicoso B. 2017. Data for ‘The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:78.
mla: Vicoso, Beatriz. Data for “The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.”
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:78.
short: B. Vicoso, (2017).
contributor:
- contributor_type: contact_person
first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
datarep_id: '78'
date_created: 2018-12-12T12:31:36Z
date_published: 2017-11-06T00:00:00Z
date_updated: 2024-02-21T13:48:16Z
day: '06'
ddc:
- '576'
department:
- _id: BeVi
doi: 10.15479/AT:ISTA:78
file:
- access_level: open_access
checksum: 4520eb2b8379417ee916995719158f16
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:00Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5618'
file_name: IST-2017-78-v1+1_Data.zip
file_size: 143697895
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
month: '11'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '542'
relation: research_paper
status: public
status: public
title: Data for "The genomic characterization of the t-haplotype, a mouse meiotic
driver, highlights its complex history and specialized biology"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5559'
abstract:
- lang: eng
text: Strong amplifiers of natural selection
article_processing_charge: No
author:
- first_name: Andreas
full_name: Pavlogiannis, Andreas
id: 49704004-F248-11E8-B48F-1D18A9856A87
last_name: Pavlogiannis
orcid: 0000-0002-8943-0722
- first_name: Josef
full_name: Tkadlec, Josef
id: 3F24CCC8-F248-11E8-B48F-1D18A9856A87
last_name: Tkadlec
orcid: 0000-0002-1097-9684
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Nowak , Martin
last_name: 'Nowak '
citation:
ama: Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. Strong amplifiers of natural
selection. 2017. doi:10.15479/AT:ISTA:51
apa: Pavlogiannis, A., Tkadlec, J., Chatterjee, K., & Nowak , M. (2017). Strong
amplifiers of natural selection. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:51
chicago: Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin
Nowak . “Strong Amplifiers of Natural Selection.” Institute of Science and Technology
Austria, 2017. https://doi.org/10.15479/AT:ISTA:51.
ieee: A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak , “Strong amplifiers
of natural selection.” Institute of Science and Technology Austria, 2017.
ista: Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2017. Strong amplifiers
of natural selection, Institute of Science and Technology Austria, 10.15479/AT:ISTA:51.
mla: Pavlogiannis, Andreas, et al. Strong Amplifiers of Natural Selection.
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:51.
short: A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak , (2017).
datarep_id: '51'
date_created: 2018-12-12T12:31:32Z
date_published: 2017-01-02T00:00:00Z
date_updated: 2024-02-21T13:48:42Z
day: '02'
ddc:
- '519'
department:
- _id: KrCh
doi: 10.15479/AT:ISTA:51
ec_funded: 1
file:
- access_level: open_access
checksum: b427dd46a30096a1911b245640c47af8
content_type: video/mp4
creator: system
date_created: 2018-12-12T13:05:18Z
date_updated: 2020-07-14T12:47:02Z
file_id: '5644'
file_name: IST-2017-51-v1+2_illustration.mp4
file_size: 32987015
relation: main_file
file_date_updated: 2020-07-14T12:47:02Z
has_accepted_license: '1'
keyword:
- natural selection
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '5452'
relation: research_paper
status: public
- id: '5751'
relation: research_paper
status: public
status: public
title: Strong amplifiers of natural selection
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5572'
abstract:
- lang: eng
text: Code described in the Supplementary Methods of "The genomic characterization
of the t-haplotype, a mouse meiotic driver, highlights its complex history and
specialized biology" (Kelemen, R., Vicoso, B.)
article_processing_charge: No
author:
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Vicoso B. Code for “The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.” 2017.
doi:10.15479/AT:ISTA:79
apa: Vicoso, B. (2017). Code for “The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology.”
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:79
chicago: Vicoso, Beatriz. “Code for ‘The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.’”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:79 .
ieee: B. Vicoso, “Code for ‘The genomic characterization of the t-haplotype, a mouse
meiotic driver, highlights its complex history and specialized biology.’” Institute
of Science and Technology Austria, 2017.
ista: Vicoso B. 2017. Code for ‘The genomic characterization of the t-haplotype,
a mouse meiotic driver, highlights its complex history and specialized biology’,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:79 .
mla: Vicoso, Beatriz. Code for “The Genomic Characterization of the t-Haplotype,
a Mouse Meiotic Driver, Highlights Its Complex History and Specialized Biology.”
Institute of Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:79 .
short: B. Vicoso, (2017).
datarep_id: '79'
date_created: 2018-12-12T12:31:36Z
date_published: 2017-11-06T00:00:00Z
date_updated: 2024-02-21T13:48:28Z
day: '06'
ddc:
- '576'
department:
- _id: BeVi
doi: '10.15479/AT:ISTA:79 '
file:
- access_level: open_access
checksum: 3e70a7bcd6ff0c38b79e4c8a7d137034
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:15Z
date_updated: 2020-07-14T12:47:05Z
file_id: '5643'
file_name: IST-2017-79-v1+1_Code.zip
file_size: 49823
relation: main_file
file_date_updated: 2020-07-14T12:47:05Z
has_accepted_license: '1'
month: '11'
oa: 1
oa_version: Submitted Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '542'
relation: research_paper
status: public
status: public
title: Code for "The genomic characterization of the t-haplotype, a mouse meiotic
driver, highlights its complex history and specialized biology"
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5565'
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. \r\nThe Video is
licensed under a CC BY NC ND license. "
acknowledgement: 'fund: FP7-ERC 0101109'
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. 2017. doi:10.15479/AT:ISTA:66
apa: von Wangenheim, D., Hauschild, R., & Friml, J. (2017). Light Sheet Fluorescence
microscopy of plant roots growing on the surface of a gel. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:66
chicago: Wangenheim, Daniel von, Robert Hauschild, and Jiří Friml. “Light Sheet
Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel.” Institute
of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:66.
ieee: D. von Wangenheim, R. Hauschild, and J. Friml, “Light Sheet Fluorescence microscopy
of plant roots growing on the surface of a gel.” Institute of Science and Technology
Austria, 2017.
ista: von Wangenheim D, Hauschild R, Friml J. 2017. Light Sheet Fluorescence microscopy
of plant roots growing on the surface of a gel, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:66.
mla: von Wangenheim, Daniel, et al. Light Sheet Fluorescence Microscopy of Plant
Roots Growing on the Surface of a Gel. Institute of Science and Technology
Austria, 2017, doi:10.15479/AT:ISTA:66.
short: D. von Wangenheim, R. Hauschild, J. Friml, (2017).
datarep_id: '66'
date_created: 2018-12-12T12:31:34Z
date_published: 2017-04-10T00:00:00Z
date_updated: 2024-02-21T13:49:13Z
day: '10'
ddc:
- '580'
department:
- _id: JiFr
- _id: Bio
doi: 10.15479/AT:ISTA:66
ec_funded: 1
file:
- access_level: open_access
checksum: b7552fc23540a85dc5a22fd4484eae71
content_type: video/mp4
creator: system
date_created: 2018-12-12T13:02:33Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5599'
file_name: IST-2017-66-v1+1_WangenheimHighResolution55044-NEW_1.mp4
file_size: 101497758
relation: main_file
file_date_updated: 2020-07-14T12:47:03Z
has_accepted_license: '1'
month: '04'
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
publisher: Institute of Science and Technology Austria
publist_id: '6302'
related_material:
record:
- id: '1078'
relation: research_paper
status: public
status: public
title: Light Sheet Fluorescence microscopy of plant roots growing on the surface of
a gel
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5566'
abstract:
- lang: eng
text: Current minimal version of TipTracker
article_processing_charge: No
author:
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
citation:
ama: Hauschild R. Live tracking of moving samples in confocal microscopy for vertically
grown roots. 2017. doi:10.15479/AT:ISTA:69
apa: Hauschild, R. (2017). Live tracking of moving samples in confocal microscopy
for vertically grown roots. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:69
chicago: Hauschild, Robert. “Live Tracking of Moving Samples in Confocal Microscopy
for Vertically Grown Roots.” Institute of Science and Technology Austria, 2017.
https://doi.org/10.15479/AT:ISTA:69.
ieee: R. Hauschild, “Live tracking of moving samples in confocal microscopy for
vertically grown roots.” Institute of Science and Technology Austria, 2017.
ista: Hauschild R. 2017. Live tracking of moving samples in confocal microscopy
for vertically grown roots, Institute of Science and Technology Austria, 10.15479/AT:ISTA:69.
mla: Hauschild, Robert. Live Tracking of Moving Samples in Confocal Microscopy
for Vertically Grown Roots. Institute of Science and Technology Austria, 2017,
doi:10.15479/AT:ISTA:69.
short: R. Hauschild, (2017).
datarep_id: '69'
date_created: 2018-12-12T12:31:34Z
date_published: 2017-07-21T00:00:00Z
date_updated: 2024-02-21T13:49:34Z
day: '21'
ddc:
- '570'
department:
- _id: Bio
doi: 10.15479/AT:ISTA:69
file:
- access_level: open_access
checksum: a976000e6715106724a271cc9422be4a
content_type: application/zip
creator: system
date_created: 2018-12-12T13:04:12Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5636'
file_name: IST-2017-69-v1+2_TipTrackerZeissLSM700.zip
file_size: 1587986
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- tool
- tracking
- confocal microscopy
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '946'
relation: research_paper
status: public
status: public
title: Live tracking of moving samples in confocal microscopy for vertically grown
roots
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5550'
abstract:
- lang: eng
text: "We collected flower colour information on species in the tribe Antirrhineae
from taxonomic literature. We also retreived molecular data from GenBank for as
many of these species as possible to estimate phylogenetic relationships among
these taxa. We then used the R package 'diversitree' to examine patterns of evolutionary
transitions between anthocyanin and yellow pigmentation across the phylogeny.\r\n\r\nFor
full details of the methods see:\r\nEllis TJ and Field DL \"Repeated gains in
yellow and anthocyanin pigmentation in flower colour transitions in the Antirrhineae”,
Annals of Botany (in press)"
article_processing_charge: No
author:
- first_name: Thomas
full_name: Ellis, Thomas
id: 3153D6D4-F248-11E8-B48F-1D18A9856A87
last_name: Ellis
orcid: 0000-0002-8511-0254
- first_name: David
full_name: Field, David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
citation:
ama: Ellis T, Field D. Flower colour data and phylogeny (NEXUS) files. 2016. doi:10.15479/AT:ISTA:34
apa: Ellis, T., & Field, D. (2016). Flower colour data and phylogeny (NEXUS)
files. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:34
chicago: Ellis, Thomas, and David Field. “Flower Colour Data and Phylogeny (NEXUS)
Files.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:34.
ieee: T. Ellis and D. Field, “Flower colour data and phylogeny (NEXUS) files.” Institute
of Science and Technology Austria, 2016.
ista: Ellis T, Field D. 2016. Flower colour data and phylogeny (NEXUS) files, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:34.
mla: Ellis, Thomas, and David Field. Flower Colour Data and Phylogeny (NEXUS)
Files. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:34.
short: T. Ellis, D. Field, (2016).
datarep_id: '34'
date_created: 2018-12-12T12:31:29Z
date_published: 2016-02-19T00:00:00Z
date_updated: 2024-02-21T13:49:54Z
day: '19'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:34
file:
- access_level: open_access
checksum: 950f85b80427d357bfeff09608ba02e9
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:27Z
date_updated: 2020-07-14T12:47:00Z
file_id: '5594'
file_name: IST-2016-34-v1+1_tellis_flower_colour_data.zip
file_size: 4468543
relation: main_file
file_date_updated: 2020-07-14T12:47:00Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
publist_id: '5828'
related_material:
record:
- id: '1382'
relation: research_paper
status: public
status: public
title: Flower colour data and phylogeny (NEXUS) files
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5555'
abstract:
- lang: eng
text: This FIJI script calculates the population average of the migration speed
as a function of time of all cells from wide field microscopy movies.
article_processing_charge: No
author:
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
citation:
ama: Hauschild R. Fiji script to determine average speed and direction of migration
of cells. 2016. doi:10.15479/AT:ISTA:44
apa: Hauschild, R. (2016). Fiji script to determine average speed and direction
of migration of cells. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:44
chicago: Hauschild, Robert. “Fiji Script to Determine Average Speed and Direction
of Migration of Cells.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:44.
ieee: R. Hauschild, “Fiji script to determine average speed and direction of migration
of cells.” Institute of Science and Technology Austria, 2016.
ista: Hauschild R. 2016. Fiji script to determine average speed and direction of
migration of cells, Institute of Science and Technology Austria, 10.15479/AT:ISTA:44.
mla: Hauschild, Robert. Fiji Script to Determine Average Speed and Direction
of Migration of Cells. Institute of Science and Technology Austria, 2016,
doi:10.15479/AT:ISTA:44.
short: R. Hauschild, (2016).
datarep_id: '44'
date_created: 2018-12-12T12:31:31Z
date_published: 2016-07-08T00:00:00Z
date_updated: 2024-02-21T13:50:06Z
day: '08'
ddc:
- '570'
department:
- _id: Bio
doi: 10.15479/AT:ISTA:44
file:
- access_level: open_access
checksum: 9f96cddbcd4ed689f48712ffe234d5e5
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:03Z
date_updated: 2020-07-14T12:47:02Z
file_id: '5621'
file_name: IST-2016-44-v1+1_migrationAnalyzer.zip
file_size: 20692
relation: main_file
file_date_updated: 2020-07-14T12:47:02Z
has_accepted_license: '1'
keyword:
- cell migration
- wide field microscopy
- FIJI
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Fiji script to determine average speed and direction of migration of cells
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5557'
abstract:
- lang: eng
text: "Small synthetic discrete tomography problems.\r\nSizes are 32x32, 64z64 and
256x256.\r\nProjection angles are 2, 4, and 6.\r\nNumber of labels are 3 and 5."
article_processing_charge: No
author:
- first_name: Paul
full_name: Swoboda, Paul
id: 446560C6-F248-11E8-B48F-1D18A9856A87
last_name: Swoboda
citation:
ama: Swoboda P. Synthetic discrete tomography problems. 2016. doi:10.15479/AT:ISTA:46
apa: Swoboda, P. (2016). Synthetic discrete tomography problems. Institute of Science
and Technology Austria. https://doi.org/10.15479/AT:ISTA:46
chicago: Swoboda, Paul. “Synthetic Discrete Tomography Problems.” Institute of Science
and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:46.
ieee: P. Swoboda, “Synthetic discrete tomography problems.” Institute of Science
and Technology Austria, 2016.
ista: Swoboda P. 2016. Synthetic discrete tomography problems, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:46.
mla: Swoboda, Paul. Synthetic Discrete Tomography Problems. Institute of
Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:46.
short: P. Swoboda, (2016).
contributor:
- contributor_type: data_collector
first_name: Jan
last_name: Kuske
datarep_id: '46'
date_created: 2018-12-12T12:31:31Z
date_published: 2016-09-20T00:00:00Z
date_updated: 2024-02-21T13:50:21Z
day: '20'
ddc:
- '006'
department:
- _id: VlKo
doi: 10.15479/AT:ISTA:46
file:
- access_level: open_access
checksum: aa5a16a0dc888da7186fb8fc45e88439
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:19Z
date_updated: 2020-07-14T12:47:02Z
file_id: '5645'
file_name: IST-2016-46-v1+1_discrete_tomography_synthetic.zip
file_size: 36058401
relation: main_file
file_date_updated: 2020-07-14T12:47:02Z
has_accepted_license: '1'
keyword:
- discrete tomography
month: '09'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Synthetic discrete tomography problems
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5553'
abstract:
- lang: eng
text: "Genotypic, phenotypic and demographic data for 2128 wild snapdragons and
1127 open-pollinated progeny from a natural hybrid zone, collected as part of
Tom Ellis' PhD thesis (submitted) February 2016).\r\n\r\nTissue samples were sent
to LGC Genomics in Berlin for DNA extraction, and genotyping at 70 SNP markers
by KASPR genotyping. 29 of these SNPs failed to amplify reliably, and have been
removed from this dataset.\r\n\r\nOther data were retreived from an online database
of this population at www.antspec.org."
article_processing_charge: No
author:
- first_name: David
full_name: Field, David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
orcid: 0000-0002-4014-8478
- first_name: Thomas
full_name: Ellis, Thomas
id: 3153D6D4-F248-11E8-B48F-1D18A9856A87
last_name: Ellis
orcid: 0000-0002-8511-0254
citation:
ama: Field D, Ellis T. Inference of mating patterns among wild snapdragons in a
natural hybrid zone in 2012. 2016. doi:10.15479/AT:ISTA:37
apa: Field, D., & Ellis, T. (2016). Inference of mating patterns among wild
snapdragons in a natural hybrid zone in 2012. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:37
chicago: Field, David, and Thomas Ellis. “Inference of Mating Patterns among Wild
Snapdragons in a Natural Hybrid Zone in 2012.” Institute of Science and Technology
Austria, 2016. https://doi.org/10.15479/AT:ISTA:37.
ieee: D. Field and T. Ellis, “Inference of mating patterns among wild snapdragons
in a natural hybrid zone in 2012.” Institute of Science and Technology Austria,
2016.
ista: Field D, Ellis T. 2016. Inference of mating patterns among wild snapdragons
in a natural hybrid zone in 2012, Institute of Science and Technology Austria,
10.15479/AT:ISTA:37.
mla: Field, David, and Thomas Ellis. Inference of Mating Patterns among Wild
Snapdragons in a Natural Hybrid Zone in 2012. Institute of Science and Technology
Austria, 2016, doi:10.15479/AT:ISTA:37.
short: D. Field, T. Ellis, (2016).
contributor:
- contributor_type: project_manager
first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
datarep_id: '37'
date_created: 2018-12-12T12:31:30Z
date_published: 2016-02-19T00:00:00Z
date_updated: 2024-02-21T13:51:14Z
day: '19'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:37
file:
- access_level: open_access
checksum: 4ae751b1fa4897fa216241f975a57313
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:02Z
date_updated: 2020-07-14T12:47:01Z
file_id: '5620'
file_name: IST-2016-37-v1+1_paternity_archive.zip
file_size: 132808
relation: main_file
file_date_updated: 2020-07-14T12:47:01Z
has_accepted_license: '1'
keyword:
- paternity assignment
- pedigree
- matting patterns
- assortative mating
- Antirrhinum majus
- frequency-dependent selection
- plant-pollinator interaction
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1398'
relation: research_paper
status: public
status: public
title: Inference of mating patterns among wild snapdragons in a natural hybrid zone
in 2012
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5551'
abstract:
- lang: eng
text: "Data from array experiments investigating pollinator behaviour on snapdragons
in controlled conditions, and their effect on plant mating. Data were collected
as part of Tom Ellis' PhD thesis , submitted February 2016.\r\n\r\nWe placed a
total of 36 plants in a grid inside a closed organza tent, with a single hive
of commercially bred bumblebees (Bombus hortorum). We used only the yellow-flowered
Antirrhinum majus striatum and the magenta-flowered Antirrhinum majus pseudomajus,
at ratios of 6:36, 12:24, 18:18, 24:12 and 30:6.\r\n\r\nAfter 24 hours to learn
how to deal with snapdragons, I observed pollinators foraging on plants, and recorded
the transitions between plants. Thereafter seeds on plants were allowed to develops.
A sample of these were grown to maturity when their flower colour could be determined,
and they were scored as yellow, magenta, or hybrid."
article_processing_charge: No
author:
- first_name: Thomas
full_name: Ellis, Thomas
id: 3153D6D4-F248-11E8-B48F-1D18A9856A87
last_name: Ellis
orcid: 0000-0002-8511-0254
citation:
ama: Ellis T. Data on pollinator observations and offpsring phenotypes. 2016. doi:10.15479/AT:ISTA:35
apa: Ellis, T. (2016). Data on pollinator observations and offpsring phenotypes.
Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:35
chicago: Ellis, Thomas. “Data on Pollinator Observations and Offpsring Phenotypes.”
Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:35.
ieee: T. Ellis, “Data on pollinator observations and offpsring phenotypes.” Institute
of Science and Technology Austria, 2016.
ista: Ellis T. 2016. Data on pollinator observations and offpsring phenotypes, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:35.
mla: Ellis, Thomas. Data on Pollinator Observations and Offpsring Phenotypes.
Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:35.
short: T. Ellis, (2016).
contributor:
- first_name: David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
- first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
datarep_id: '35'
date_created: 2018-12-12T12:31:29Z
date_published: 2016-02-19T00:00:00Z
date_updated: 2024-02-21T13:51:27Z
day: '19'
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:35
file:
- access_level: open_access
checksum: aa3eb85d52b110cd192aa23147c4d4f3
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:12Z
date_updated: 2020-07-14T12:47:01Z
file_id: '5640'
file_name: IST-2016-35-v1+1_array_data.zip
file_size: 32775
relation: main_file
file_date_updated: 2020-07-14T12:47:01Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1398'
relation: research_paper
status: public
status: public
title: Data on pollinator observations and offpsring phenotypes
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5552'
abstract:
- lang: eng
text: "Data on pollinator visitation to wild snapdragons in a natural hybrid zone,
collected as part of Tom Ellis' PhD thesis (submitted February 2016).\r\n\r\nSnapdragon
flowers have a mouth-like structure which pollinators must open to access nectar.
We placed 5mm cellophane tags in these mouths, which are held in place by the
pressure of the flower until a pollinator visits. When she opens the flower, the
tag drops out, and one can infer a visit. We surveyed plants over multiple days
in 2010, 2011 and 2012.\r\n\r\nAlso included are data on phenotypic and demographic
variables which may be explanatory variables for pollinator visitation."
article_processing_charge: No
author:
- first_name: Thomas
full_name: Ellis, Thomas
id: 3153D6D4-F248-11E8-B48F-1D18A9856A87
last_name: Ellis
orcid: 0000-0002-8511-0254
citation:
ama: Ellis T. Pollinator visitation data for wild Antirrhinum majus plants, with
phenotypic and frequency data. 2016. doi:10.15479/AT:ISTA:36
apa: Ellis, T. (2016). Pollinator visitation data for wild Antirrhinum majus plants,
with phenotypic and frequency data. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:36
chicago: Ellis, Thomas. “Pollinator Visitation Data for Wild Antirrhinum Majus Plants,
with Phenotypic and Frequency Data.” Institute of Science and Technology Austria,
2016. https://doi.org/10.15479/AT:ISTA:36.
ieee: T. Ellis, “Pollinator visitation data for wild Antirrhinum majus plants, with
phenotypic and frequency data.” Institute of Science and Technology Austria, 2016.
ista: Ellis T. 2016. Pollinator visitation data for wild Antirrhinum majus plants,
with phenotypic and frequency data., Institute of Science and Technology Austria,
10.15479/AT:ISTA:36.
mla: Ellis, Thomas. Pollinator Visitation Data for Wild Antirrhinum Majus Plants,
with Phenotypic and Frequency Data. Institute of Science and Technology Austria,
2016, doi:10.15479/AT:ISTA:36.
short: T. Ellis, (2016).
contributor:
- first_name: David
id: 419049E2-F248-11E8-B48F-1D18A9856A87
last_name: Field
- first_name: Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
datarep_id: '36'
date_created: 2018-12-12T12:31:30Z
date_published: 2016-02-19T00:00:00Z
date_updated: 2024-02-21T13:51:40Z
day: '19'
department:
- _id: NiBa
doi: 10.15479/AT:ISTA:36
file:
- access_level: open_access
checksum: cbc61b523d4d475a04a737d50dc470ef
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:07Z
date_updated: 2020-07-14T12:47:01Z
file_id: '5625'
file_name: IST-2016-36-v1+1_tag_assay_archive.zip
file_size: 44905
relation: main_file
file_date_updated: 2020-07-14T12:47:01Z
has_accepted_license: '1'
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1398'
relation: research_paper
status: public
status: public
title: Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic
and frequency data.
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5554'
abstract:
- lang: eng
text: "The data stored here is used in Murat Tugrul's PhD thesis (Chapter 3), which
is related to the evolution of bacterial RNA polymerase binding.\r\nMagdalena
Steinrueck (PhD Student in Calin Guet's group at IST Austria) performed the experiments
and created the data on de novo promoter evolution. Fabienne Jesse (PhD Student
in Jon Bollback's group at IST Austria) performed the experiments and created
the data on lac promoter evolution."
article_processing_charge: No
author:
- first_name: Murat
full_name: Tugrul, Murat
id: 37C323C6-F248-11E8-B48F-1D18A9856A87
last_name: Tugrul
orcid: 0000-0002-8523-0758
citation:
ama: Tugrul M. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.
2016. doi:10.15479/AT:ISTA:43
apa: Tugrul, M. (2016). Experimental Data for Binding Site Evolution of Bacterial
RNA Polymerase. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:43
chicago: Tugrul, Murat. “Experimental Data for Binding Site Evolution of Bacterial
RNA Polymerase.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:43.
ieee: M. Tugrul, “Experimental Data for Binding Site Evolution of Bacterial RNA
Polymerase.” Institute of Science and Technology Austria, 2016.
ista: Tugrul M. 2016. Experimental Data for Binding Site Evolution of Bacterial
RNA Polymerase, Institute of Science and Technology Austria, 10.15479/AT:ISTA:43.
mla: Tugrul, Murat. Experimental Data for Binding Site Evolution of Bacterial
RNA Polymerase. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:43.
short: M. Tugrul, (2016).
contributor:
- contributor_type: researcher
first_name: Magdalena
id: 2C023F40-F248-11E8-B48F-1D18A9856A87
last_name: Steinrück
- contributor_type: researcher
first_name: Fabienne
id: 4C8C26A4-F248-11E8-B48F-1D18A9856A87
last_name: Jesse
datarep_id: '43'
date_created: 2018-12-12T12:31:30Z
date_published: 2016-05-12T00:00:00Z
date_updated: 2024-02-21T13:50:34Z
day: '12'
department:
- _id: NiBa
- _id: JoBo
doi: 10.15479/AT:ISTA:43
file:
- access_level: open_access
checksum: 1fc0a10bb7ce110fcb5e1fbe3cf0c4e2
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:08Z
date_updated: 2020-07-14T12:47:01Z
file_id: '5626'
file_name: IST-2016-43-v1+1_DATA_MTugrul_PhDThesis_Chapter3.zip
file_size: 1123495
relation: main_file
file_date_updated: 2020-07-14T12:47:01Z
has_accepted_license: '1'
keyword:
- RNAP binding
- de novo promoter evolution
- lac promoter
month: '05'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '1131'
relation: used_in_publication
status: public
status: public
title: Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5558'
abstract:
- lang: eng
text: PhD thesis LaTeX source code
article_processing_charge: No
author:
- first_name: Morten
full_name: Bojsen-Hansen, Morten
id: 439F0C8C-F248-11E8-B48F-1D18A9856A87
last_name: Bojsen-Hansen
orcid: 0000-0002-4417-3224
citation:
ama: Bojsen-Hansen M. Tracking, Correcting and Absorbing Water Surface Waves. 2016.
doi:10.15479/AT:ISTA:48
apa: Bojsen-Hansen, M. (2016). Tracking, Correcting and Absorbing Water Surface
Waves. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:48
chicago: Bojsen-Hansen, Morten. “Tracking, Correcting and Absorbing Water Surface
Waves.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:48.
ieee: M. Bojsen-Hansen, “Tracking, Correcting and Absorbing Water Surface Waves.”
Institute of Science and Technology Austria, 2016.
ista: Bojsen-Hansen M. 2016. Tracking, Correcting and Absorbing Water Surface Waves,
Institute of Science and Technology Austria, 10.15479/AT:ISTA:48.
mla: Bojsen-Hansen, Morten. Tracking, Correcting and Absorbing Water Surface
Waves. Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:48.
short: M. Bojsen-Hansen, (2016).
datarep_id: '48'
date_created: 2018-12-12T12:31:31Z
date_published: 2016-09-23T00:00:00Z
date_updated: 2024-02-21T13:50:48Z
day: '23'
ddc:
- '004'
department:
- _id: ChWo
doi: 10.15479/AT:ISTA:48
file:
- access_level: open_access
checksum: 5b1b256ad796fbddb4b7729f5e45e444
content_type: application/x-bzip2
creator: system
date_created: 2018-12-12T13:02:18Z
date_updated: 2020-07-14T12:47:02Z
file_id: '5589'
file_name: IST-2016-48-v1+1_2016_Bojsen-Hansen_TCaAWSW.tar.bz2
file_size: 55237885
relation: main_file
file_date_updated: 2020-07-14T12:47:02Z
has_accepted_license: '1'
month: '09'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
publist_id: '6238'
pubrep_id: '640'
related_material:
record:
- id: '1122'
relation: other
status: public
status: public
title: Tracking, Correcting and Absorbing Water Surface Waves
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5556'
abstract:
- lang: eng
text: "MATLAB code and processed datasets available for reproducing the results
in: \r\nLukačišin, M.*, Landon, M.*, Jajoo, R*. (2016) Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast.\r\n*equal contributions"
article_processing_charge: No
author:
- first_name: Martin
full_name: Lukacisin, Martin
id: 298FFE8C-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisin
orcid: 0000-0001-6549-4177
- first_name: Matthieu
full_name: Landon, Matthieu
last_name: Landon
- first_name: Rishi
full_name: Jajoo, Rishi
last_name: Jajoo
citation:
ama: Lukacisin M, Landon M, Jajoo R. MATLAB analysis code for “Sequence-Specific
Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing
and Backtracking in Yeast.” 2016. doi:10.15479/AT:ISTA:45
apa: Lukacisin, M., Landon, M., & Jajoo, R. (2016). MATLAB analysis code for
“Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional
Pausing and Backtracking in Yeast.” Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:45
chicago: Lukacisin, Martin, Matthieu Landon, and Rishi Jajoo. “MATLAB Analysis Code
for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both
Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and
Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:45.
ieee: M. Lukacisin, M. Landon, and R. Jajoo, “MATLAB analysis code for ‘Sequence-Specific
Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing
and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2016.
ista: Lukacisin M, Landon M, Jajoo R. 2016. MATLAB analysis code for ‘Sequence-Specific
Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing
and Backtracking in Yeast’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:45.
mla: Lukacisin, Martin, et al. MATLAB Analysis Code for “Sequence-Specific Thermodynamic
Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking
in Yeast.” Institute of Science and Technology Austria, 2016, doi:10.15479/AT:ISTA:45.
short: M. Lukacisin, M. Landon, R. Jajoo, (2016).
datarep_id: '45'
date_created: 2018-12-12T12:31:31Z
date_published: 2016-08-25T00:00:00Z
date_updated: 2024-02-21T13:51:53Z
day: '25'
ddc:
- '571'
department:
- _id: ToBo
doi: 10.15479/AT:ISTA:45
file:
- access_level: open_access
checksum: ee697f2b1ade4dc14d6ac0334dd832ab
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:58Z
date_updated: 2020-07-14T12:47:02Z
file_id: '5616'
file_name: IST-2016-45-v1+1_PaperCode.zip
file_size: 296722548
relation: main_file
file_date_updated: 2020-07-14T12:47:02Z
has_accepted_license: '1'
keyword:
- transcription
- pausing
- backtracking
- polymerase
- RNA
- NET-seq
- nucleosome
- basepairing
month: '08'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8431'
relation: used_in_publication
status: deleted
- id: '1029'
relation: research_paper
status: public
status: public
title: MATLAB analysis code for 'Sequence-Specific Thermodynamic Properties of Nucleic
Acids Influence Both Transcriptional Pausing and Backtracking in Yeast'
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '5549'
abstract:
- lang: eng
text: "This repository contains the experimental part of the CAV 2015 publication
Counterexample Explanation by Learning Small Strategies in Markov Decision Processes.\r\nWe
extended the probabilistic model checker PRISM to represent strategies of Markov
Decision Processes as Decision Trees.\r\nThe archive contains a java executable
version of the extended tool (prism_dectree.jar) together with a few examples
of the PRISM benchmark library.\r\nTo execute the program, please have a look
at the README.txt, which provides instructions and further information on the
archive.\r\nThe archive contains scripts that (if run often enough) reproduces
the data presented in the publication."
article_processing_charge: No
author:
- first_name: Andreas
full_name: Fellner, Andreas
id: 42BABFB4-F248-11E8-B48F-1D18A9856A87
last_name: Fellner
citation:
ama: 'Fellner A. Experimental part of CAV 2015 publication: Counterexample Explanation
by Learning Small Strategies in Markov Decision Processes. 2015. doi:10.15479/AT:ISTA:28'
apa: 'Fellner, A. (2015). Experimental part of CAV 2015 publication: Counterexample
Explanation by Learning Small Strategies in Markov Decision Processes. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:28'
chicago: 'Fellner, Andreas. “Experimental Part of CAV 2015 Publication: Counterexample
Explanation by Learning Small Strategies in Markov Decision Processes.” Institute
of Science and Technology Austria, 2015. https://doi.org/10.15479/AT:ISTA:28.'
ieee: 'A. Fellner, “Experimental part of CAV 2015 publication: Counterexample Explanation
by Learning Small Strategies in Markov Decision Processes.” Institute of Science
and Technology Austria, 2015.'
ista: 'Fellner A. 2015. Experimental part of CAV 2015 publication: Counterexample
Explanation by Learning Small Strategies in Markov Decision Processes, Institute
of Science and Technology Austria, 10.15479/AT:ISTA:28.'
mla: 'Fellner, Andreas. Experimental Part of CAV 2015 Publication: Counterexample
Explanation by Learning Small Strategies in Markov Decision Processes. Institute
of Science and Technology Austria, 2015, doi:10.15479/AT:ISTA:28.'
short: A. Fellner, (2015).
contributor:
- first_name: Jan
id: 44CEF464-F248-11E8-B48F-1D18A9856A87
last_name: Kretinsky
datarep_id: '28'
date_created: 2018-12-12T12:31:29Z
date_published: 2015-08-13T00:00:00Z
date_updated: 2024-02-21T13:52:07Z
day: '13'
ddc:
- '004'
department:
- _id: KrCh
- _id: ToHe
doi: 10.15479/AT:ISTA:28
ec_funded: 1
file:
- access_level: open_access
checksum: b8bcb43c0893023cda66c1b69c16ac62
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:31Z
date_updated: 2020-07-14T12:47:00Z
file_id: '5597'
file_name: IST-2015-28-v1+2_Fellner_DataRep.zip
file_size: 49557109
relation: main_file
file_date_updated: 2020-07-14T12:47:00Z
has_accepted_license: '1'
keyword:
- Markov Decision Process
- Decision Tree
- Probabilistic Verification
- Counterexample Explanation
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publisher: Institute of Science and Technology Austria
publist_id: '5564'
related_material:
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relation: popular_science
status: public
status: public
title: 'Experimental part of CAV 2015 publication: Counterexample Explanation by Learning
Small Strategies in Markov Decision Processes'
tmp:
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legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
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type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2015'
...