---
_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: 2025-05-07T11:12:33Z
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: 2025-05-07T11:12:32Z
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
license: https://creativecommons.org/licenses/by-sa/4.0/
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: '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:
- _id: MiSi
doi: 10.15479/AT:ISTA:71
file:
- access_level: open_access
checksum: 3d6942d47d0737d064706b5728c4d8c8
content_type: video/x-msvideo
creator: system
date_created: 2018-12-12T13:02:47Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5612'
file_name: IST-2017-71-v1+1_Synapse_1.avi
file_size: 236204020
relation: main_file
- access_level: open_access
checksum: 4850006c047b0147a9e85b3c2f6f0af4
content_type: video/x-msvideo
creator: system
date_created: 2018-12-12T13:02:51Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5613'
file_name: IST-2017-71-v1+2_Synapse_2.avi
file_size: 226232496
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- Immunological synapse
license: https://creativecommons.org/publicdomain/zero/1.0/
month: '08'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Immunological synapse DC-Tcells
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: '5568'
abstract:
- lang: eng
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)
article_processing_charge: No
author:
- first_name: David
full_name: Hahn, David
id: 357A6A66-F248-11E8-B48F-1D18A9856A87
last_name: Hahn
citation:
ama: 'Hahn D. Source codes: Brittle fracture simulation with boundary elements for
computer graphics. 2017. doi:10.15479/AT:ISTA:73'
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).
datarep_id: '73'
date_created: 2018-12-12T12:31:35Z
date_published: 2017-08-16T00:00:00Z
date_updated: 2024-02-21T13:48:02Z
day: '16'
ddc:
- '004'
department:
- _id: ChWo
doi: 10.15479/AT:ISTA:73
ec_funded: 1
file:
- access_level: open_access
checksum: 2323a755842a3399cbc47d76545fc9a0
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:57Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5615'
file_name: IST-2017-73-v1+1_FractureRB_v1.1_2017_07_20_final_public.zip
file_size: 199353471
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- Boundary elements
- brittle fracture
- computer graphics
- fracture simulation
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 2533E772-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '638176'
name: Efficient Simulation of Natural Phenomena at Extremely Large Scales
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '839'
relation: research_paper
status: public
status: public
title: 'Source codes: Brittle fracture simulation with boundary elements for computer
graphics'
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: '557'
abstract:
- lang: eng
text: PURPOSE. Gene therapy of retinal ganglion cells (RGCs) has promise as a powerful
therapeutic for the rescue and regeneration of these cells after optic nerve damage.
However, early after damage, RGCs undergo atrophic changes, including gene silencing.
It is not known if these changes will deleteriously affect transduction and transgene
expression, or if the therapeutic protein can influence reactivation of the endogenous
genome. METHODS. Double-transgenic mice carrying a Rosa26-(LoxP)-tdTomato reporter,
and a mutant allele for the proapoptotic Bax gene were reared. The Bax mutant
blocks apoptosis, but RGCs still exhibit nuclear atrophy and gene silencing. At
times ranging from 1 hour to 4 weeks after optic nerve crush (ONC), eyes received
an intravitreal injection of AAV2 virus carrying the Cre recombinase. Successful
transduction was monitored by expression of the tdTomato reporter. Immunostaining
was used to localize tdTomato expression in select cell types. RESULTS. Successful
transduction of RGCs was achieved at all time points after ONC using AAV2 expressing
Cre from the phosphoglycerate kinase (Pgk) promoter, but not the CMV promoter.
ONC promoted an increase in the transduction of cell types in the inner nuclear
layer, including Müller cells and rod bipolar neurons. There was minimal evidence
of transduction of amacrine cells and astrocytes in the inner retina or optic
nerve. CONCLUSIONS. Damaged RGCs can be transduced and at least some endogenous
genes can be subsequently activated. Optic nerve damage may change retinal architecture
to allow greater penetration of an AAV2 virus to transduce several additional
cell types in the inner nuclear layer.
article_processing_charge: No
author:
- first_name: Robert
full_name: Nickells, Robert
last_name: Nickells
- first_name: Heather
full_name: Schmitt, Heather
last_name: Schmitt
- first_name: Margaret E
full_name: Maes, Margaret E
id: 3838F452-F248-11E8-B48F-1D18A9856A87
last_name: Maes
orcid: 0000-0001-9642-1085
- first_name: Cassandra
full_name: Schlamp, Cassandra
last_name: Schlamp
citation:
ama: Nickells R, Schmitt H, Maes ME, Schlamp C. AAV2 mediated transduction of the
mouse retina after optic nerve injury. Investigative Ophthalmology and Visual
Science. 2017;58(14):6091-6104. doi:10.1167/iovs.17-22634
apa: Nickells, R., Schmitt, H., Maes, M. E., & Schlamp, C. (2017). AAV2 mediated
transduction of the mouse retina after optic nerve injury. Investigative Ophthalmology
and Visual Science. Association for Research in Vision and Ophthalmology.
https://doi.org/10.1167/iovs.17-22634
chicago: Nickells, Robert, Heather Schmitt, Margaret E Maes, and Cassandra Schlamp.
“AAV2 Mediated Transduction of the Mouse Retina after Optic Nerve Injury.” Investigative
Ophthalmology and Visual Science. Association for Research in Vision and Ophthalmology,
2017. https://doi.org/10.1167/iovs.17-22634.
ieee: R. Nickells, H. Schmitt, M. E. Maes, and C. Schlamp, “AAV2 mediated transduction
of the mouse retina after optic nerve injury,” Investigative Ophthalmology
and Visual Science, vol. 58, no. 14. Association for Research in Vision and
Ophthalmology, pp. 6091–6104, 2017.
ista: Nickells R, Schmitt H, Maes ME, Schlamp C. 2017. AAV2 mediated transduction
of the mouse retina after optic nerve injury. Investigative Ophthalmology and
Visual Science. 58(14), 6091–6104.
mla: Nickells, Robert, et al. “AAV2 Mediated Transduction of the Mouse Retina after
Optic Nerve Injury.” Investigative Ophthalmology and Visual Science, vol.
58, no. 14, Association for Research in Vision and Ophthalmology, 2017, pp. 6091–104,
doi:10.1167/iovs.17-22634.
short: R. Nickells, H. Schmitt, M.E. Maes, C. Schlamp, Investigative Ophthalmology
and Visual Science 58 (2017) 6091–6104.
date_created: 2018-12-11T11:47:10Z
date_published: 2017-12-14T00:00:00Z
date_updated: 2023-10-10T14:06:18Z
day: '14'
ddc:
- '576'
department:
- _id: SaSi
doi: 10.1167/iovs.17-22634
file:
- access_level: open_access
checksum: d7a7b6f1fa9211a04e5e65634a0265d9
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:53Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5311'
file_name: IST-2018-920-v1+1_i1552-5783-58-14-6091.pdf
file_size: 2955559
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
intvolume: ' 58'
issue: '14'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 6091 - 6104
publication: Investigative Ophthalmology and Visual Science
publication_identifier:
issn:
- '01460404'
publication_status: published
publisher: Association for Research in Vision and Ophthalmology
publist_id: '7254'
pubrep_id: '920'
quality_controlled: '1'
scopus_import: '1'
status: public
title: AAV2 mediated transduction of the mouse retina after optic nerve injury
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 58
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:
- '570'
department:
- _id: Bio
doi: 10.15479/AT:ISTA:75
file:
- access_level: open_access
checksum: cb7a2fa622460eca6231d659ce590e32
content_type: application/octet-stream
creator: system
date_created: 2018-12-12T13:02:29Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5596'
file_name: IST-2017-75-v1+1_FMI.m
file_size: 799
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
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: '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: '559'
abstract:
- lang: eng
text: 'Proofs of space (PoS) were suggested as more ecological and economical alternative
to proofs of work, which are currently used in blockchain designs like Bitcoin.
The existing PoS are based on rather sophisticated graph pebbling lower bounds.
Much simpler and in several aspects more efficient schemes based on inverting
random functions have been suggested, but they don’t give meaningful security
guarantees due to existing time-memory trade-offs. In particular, Hellman showed
that any permutation over a domain of size N can be inverted in time T by an algorithm
that is given S bits of auxiliary information whenever (Formula presented). For
functions Hellman gives a weaker attack with S2· T≈ N2 (e.g., S= T≈ N2/3). To
prove lower bounds, one considers an adversary who has access to an oracle f:
[ N] → [N] and can make T oracle queries. The best known lower bound is S· T∈
Ω(N) and holds for random functions and permutations. We construct functions that
provably require more time and/or space to invert. Specifically, for any constant
k we construct a function [N] → [N] that cannot be inverted unless Sk· T∈ Ω(Nk)
(in particular, S= T≈ (Formula presented). Our construction does not contradict
Hellman’s time-memory trade-off, because it cannot be efficiently evaluated in
forward direction. However, its entire function table can be computed in time
quasilinear in N, which is sufficient for the PoS application. Our simplest construction
is built from a random function oracle g: [N] × [N] → [ N] and a random permutation
oracle f: [N] → N] and is defined as h(x) = g(x, x′) where f(x) = π(f(x′)) with
π being any involution without a fixed point, e.g. flipping all the bits. For
this function we prove that any adversary who gets S bits of auxiliary information,
makes at most T oracle queries, and inverts h on an ϵ fraction of outputs must
satisfy S2· T∈ Ω(ϵ2N2).'
alternative_title:
- LNCS
author:
- first_name: Hamza M
full_name: Abusalah, Hamza M
id: 40297222-F248-11E8-B48F-1D18A9856A87
last_name: Abusalah
- first_name: Joel F
full_name: Alwen, Joel F
id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87
last_name: Alwen
- first_name: Bram
full_name: Cohen, Bram
last_name: Cohen
- first_name: Danylo
full_name: Khilko, Danylo
last_name: Khilko
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
- first_name: Leonid
full_name: Reyzin, Leonid
last_name: Reyzin
citation:
ama: 'Abusalah HM, Alwen JF, Cohen B, Khilko D, Pietrzak KZ, Reyzin L. Beyond Hellman’s
time-memory trade-offs with applications to proofs of space. In: Vol 10625. Springer;
2017:357-379. doi:10.1007/978-3-319-70697-9_13'
apa: 'Abusalah, H. M., Alwen, J. F., Cohen, B., Khilko, D., Pietrzak, K. Z., &
Reyzin, L. (2017). Beyond Hellman’s time-memory trade-offs with applications to
proofs of space (Vol. 10625, pp. 357–379). Presented at the ASIACRYPT: Theory
and Applications of Cryptology and Information Security, Hong Kong, China: Springer.
https://doi.org/10.1007/978-3-319-70697-9_13'
chicago: Abusalah, Hamza M, Joel F Alwen, Bram Cohen, Danylo Khilko, Krzysztof Z
Pietrzak, and Leonid Reyzin. “Beyond Hellman’s Time-Memory Trade-Offs with Applications
to Proofs of Space,” 10625:357–79. Springer, 2017. https://doi.org/10.1007/978-3-319-70697-9_13.
ieee: 'H. M. Abusalah, J. F. Alwen, B. Cohen, D. Khilko, K. Z. Pietrzak, and L.
Reyzin, “Beyond Hellman’s time-memory trade-offs with applications to proofs of
space,” presented at the ASIACRYPT: Theory and Applications of Cryptology and
Information Security, Hong Kong, China, 2017, vol. 10625, pp. 357–379.'
ista: 'Abusalah HM, Alwen JF, Cohen B, Khilko D, Pietrzak KZ, Reyzin L. 2017. Beyond
Hellman’s time-memory trade-offs with applications to proofs of space. ASIACRYPT:
Theory and Applications of Cryptology and Information Security, LNCS, vol. 10625,
357–379.'
mla: Abusalah, Hamza M., et al. Beyond Hellman’s Time-Memory Trade-Offs with
Applications to Proofs of Space. Vol. 10625, Springer, 2017, pp. 357–79, doi:10.1007/978-3-319-70697-9_13.
short: H.M. Abusalah, J.F. Alwen, B. Cohen, D. Khilko, K.Z. Pietrzak, L. Reyzin,
in:, Springer, 2017, pp. 357–379.
conference:
end_date: 2017-12-07
location: Hong Kong, China
name: 'ASIACRYPT: Theory and Applications of Cryptology and Information Security'
start_date: 2017-12-03
date_created: 2018-12-11T11:47:10Z
date_published: 2017-11-18T00:00:00Z
date_updated: 2023-09-07T12:30:22Z
day: '18'
department:
- _id: KrPi
doi: 10.1007/978-3-319-70697-9_13
ec_funded: 1
intvolume: ' 10625'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2017/893.pdf
month: '11'
oa: 1
oa_version: Submitted Version
page: 357 - 379
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication_identifier:
isbn:
- 978-331970696-2
publication_status: published
publisher: Springer
publist_id: '7257'
quality_controlled: '1'
related_material:
record:
- id: '83'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Beyond Hellman’s time-memory trade-offs with applications to proofs of space
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10625
year: '2017'
...
---
_id: '560'
abstract:
- lang: eng
text: In a recent article (Jentzen et al. 2016 Commun. Math. Sci. 14, 1477–1500
(doi:10.4310/CMS.2016.v14. n6.a1)), it has been established that, for every arbitrarily
slow convergence speed and every natural number d ? {4, 5, . . .}, there exist
d-dimensional stochastic differential equations with infinitely often differentiable
and globally bounded coefficients such that no approximation method based on finitely
many observations of the driving Brownian motion can converge in absolute mean
to the solution faster than the given speed of convergence. In this paper, we
strengthen the above result by proving that this slow convergence phenomenon also
arises in two (d = 2) and three (d = 3) space dimensions.
article_number: '0104'
author:
- first_name: Mate
full_name: Gerencser, Mate
id: 44ECEDF2-F248-11E8-B48F-1D18A9856A87
last_name: Gerencser
- first_name: Arnulf
full_name: Jentzen, Arnulf
last_name: Jentzen
- first_name: Diyora
full_name: Salimova, Diyora
last_name: Salimova
citation:
ama: 'Gerencser M, Jentzen A, Salimova D. On stochastic differential equations with
arbitrarily slow convergence rates for strong approximation in two space dimensions.
Proceedings of the Royal Society A: Mathematical, Physical and Engineering
Sciences. 2017;473(2207). doi:10.1098/rspa.2017.0104'
apa: 'Gerencser, M., Jentzen, A., & Salimova, D. (2017). On stochastic differential
equations with arbitrarily slow convergence rates for strong approximation in
two space dimensions. Proceedings of the Royal Society A: Mathematical, Physical
and Engineering Sciences. Royal Society of London. https://doi.org/10.1098/rspa.2017.0104'
chicago: 'Gerencser, Mate, Arnulf Jentzen, and Diyora Salimova. “On Stochastic Differential
Equations with Arbitrarily Slow Convergence Rates for Strong Approximation in
Two Space Dimensions.” Proceedings of the Royal Society A: Mathematical, Physical
and Engineering Sciences. Royal Society of London, 2017. https://doi.org/10.1098/rspa.2017.0104.'
ieee: 'M. Gerencser, A. Jentzen, and D. Salimova, “On stochastic differential equations
with arbitrarily slow convergence rates for strong approximation in two space
dimensions,” Proceedings of the Royal Society A: Mathematical, Physical and
Engineering Sciences, vol. 473, no. 2207. Royal Society of London, 2017.'
ista: 'Gerencser M, Jentzen A, Salimova D. 2017. On stochastic differential equations
with arbitrarily slow convergence rates for strong approximation in two space
dimensions. Proceedings of the Royal Society A: Mathematical, Physical and Engineering
Sciences. 473(2207), 0104.'
mla: 'Gerencser, Mate, et al. “On Stochastic Differential Equations with Arbitrarily
Slow Convergence Rates for Strong Approximation in Two Space Dimensions.” Proceedings
of the Royal Society A: Mathematical, Physical and Engineering Sciences, vol.
473, no. 2207, 0104, Royal Society of London, 2017, doi:10.1098/rspa.2017.0104.'
short: 'M. Gerencser, A. Jentzen, D. Salimova, Proceedings of the Royal Society
A: Mathematical, Physical and Engineering Sciences 473 (2017).'
date_created: 2018-12-11T11:47:11Z
date_published: 2017-11-01T00:00:00Z
date_updated: 2021-01-12T08:03:04Z
day: '01'
department:
- _id: JaMa
doi: 10.1098/rspa.2017.0104
ec_funded: 1
intvolume: ' 473'
issue: '2207'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1702.03229
month: '11'
oa: 1
oa_version: Submitted Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: 'Proceedings of the Royal Society A: Mathematical, Physical and Engineering
Sciences'
publication_identifier:
issn:
- '13645021'
publication_status: published
publisher: Royal Society of London
publist_id: '7256'
quality_controlled: '1'
scopus_import: 1
status: public
title: On stochastic differential equations with arbitrarily slow convergence rates
for strong approximation in two space dimensions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 473
year: '2017'
...
---
_id: '561'
abstract:
- lang: eng
text: Restriction–modification systems are widespread genetic elements that protect
bacteria from bacteriophage infections by recognizing and cleaving heterologous
DNA at short, well-defined sequences called restriction sites. Bioinformatic evidence
shows that restriction sites are significantly underrepresented in bacteriophage
genomes, presumably because bacteriophages with fewer restriction sites are more
likely to escape cleavage by restriction–modification systems. However, how mutations
in restriction sites affect the likelihood of bacteriophage escape is unknown.
Using the bacteriophage l and the restriction–modification system EcoRI, we show
that while mutation effects at different restriction sites are unequal, they are
independent. As a result, the probability of bacteriophage escape increases with
each mutated restriction site. Our results experimentally support the role of
restriction site avoidance as a response to selection imposed by restriction–modification
systems and offer an insight into the events underlying the process of bacteriophage
escape.
acknowledgement: This work was funded by an HFSP Young Investigators' grant RGY0079/2011
(C.C.G.). M.P. is a recipient of a DOC Fellowship of the Austrian Academy of Science
at the Institute of Science and Technology Austria.
article_number: '20170646'
article_processing_charge: No
article_type: original
author:
- first_name: Maros
full_name: Pleska, Maros
id: 4569785E-F248-11E8-B48F-1D18A9856A87
last_name: Pleska
orcid: 0000-0001-7460-7479
- 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: Pleska M, Guet CC. Effects of mutations in phage restriction sites during escape
from restriction–modification. Biology Letters. 2017;13(12). doi:10.1098/rsbl.2017.0646
apa: Pleska, M., & Guet, C. C. (2017). Effects of mutations in phage restriction
sites during escape from restriction–modification. Biology Letters. The
Royal Society. https://doi.org/10.1098/rsbl.2017.0646
chicago: Pleska, Maros, and Calin C Guet. “Effects of Mutations in Phage Restriction
Sites during Escape from Restriction–Modification.” Biology Letters. The
Royal Society, 2017. https://doi.org/10.1098/rsbl.2017.0646.
ieee: M. Pleska and C. C. Guet, “Effects of mutations in phage restriction sites
during escape from restriction–modification,” Biology Letters, vol. 13,
no. 12. The Royal Society, 2017.
ista: Pleska M, Guet CC. 2017. Effects of mutations in phage restriction sites during
escape from restriction–modification. Biology Letters. 13(12), 20170646.
mla: Pleska, Maros, and Calin C. Guet. “Effects of Mutations in Phage Restriction
Sites during Escape from Restriction–Modification.” Biology Letters, vol.
13, no. 12, 20170646, The Royal Society, 2017, doi:10.1098/rsbl.2017.0646.
short: M. Pleska, C.C. Guet, Biology Letters 13 (2017).
date_created: 2018-12-11T11:47:11Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2023-09-07T11:59:32Z
day: '01'
department:
- _id: CaGu
doi: 10.1098/rsbl.2017.0646
external_id:
pmid:
- '29237814'
intvolume: ' 13'
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1098/rsbl.2017.0646
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 251BCBEC-B435-11E9-9278-68D0E5697425
grant_number: RGY0079/2011
name: Multi-Level Conflicts in Evolutionary Dynamics of Restriction-Modification
Systems (HFSP Young investigators' grant)
- _id: 251D65D8-B435-11E9-9278-68D0E5697425
grant_number: '24210'
name: Effects of Stochasticity on the Function of Restriction-Modi cation Systems
at the Single-Cell Level (DOC Fellowship)
publication: Biology Letters
publication_identifier:
issn:
- 1744-9561
publication_status: published
publisher: The Royal Society
publist_id: '7253'
quality_controlled: '1'
related_material:
record:
- id: '9847'
relation: research_data
status: public
- id: '202'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Effects of mutations in phage restriction sites during escape from restriction–modification
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '568'
abstract:
- lang: eng
text: 'We study robust properties of zero sets of continuous maps f: X → ℝn. Formally,
we analyze the family Z< r(f) := (g-1(0): ||g - f|| < r) of all zero sets
of all continuous maps g closer to f than r in the max-norm. All of these sets
are outside A := (x: |f(x)| ≥ r) and we claim that Z< r(f) is fully determined
by A and an element of a certain cohomotopy group which (by a recent result) is
computable whenever the dimension of X is at most 2n - 3. By considering all r
> 0 simultaneously, the pointed cohomotopy groups form a persistence module-a
structure leading to persistence diagrams as in the case of persistent homology
or well groups. Eventually, we get a descriptor of persistent robust properties
of zero sets that has better descriptive power (Theorem A) and better computability
status (Theorem B) than the established well diagrams. Moreover, if we endow every
point of each zero set with gradients of the perturbation, the robust description
of the zero sets by elements of cohomotopy groups is in some sense the best possible
(Theorem C).'
author:
- first_name: Peter
full_name: Franek, Peter
id: 473294AE-F248-11E8-B48F-1D18A9856A87
last_name: Franek
- first_name: Marek
full_name: Krcál, Marek
id: 33E21118-F248-11E8-B48F-1D18A9856A87
last_name: Krcál
citation:
ama: Franek P, Krcál M. Persistence of zero sets. Homology, Homotopy and Applications.
2017;19(2):313-342. doi:10.4310/HHA.2017.v19.n2.a16
apa: Franek, P., & Krcál, M. (2017). Persistence of zero sets. Homology,
Homotopy and Applications. International Press. https://doi.org/10.4310/HHA.2017.v19.n2.a16
chicago: Franek, Peter, and Marek Krcál. “Persistence of Zero Sets.” Homology,
Homotopy and Applications. International Press, 2017. https://doi.org/10.4310/HHA.2017.v19.n2.a16.
ieee: P. Franek and M. Krcál, “Persistence of zero sets,” Homology, Homotopy
and Applications, vol. 19, no. 2. International Press, pp. 313–342, 2017.
ista: Franek P, Krcál M. 2017. Persistence of zero sets. Homology, Homotopy and
Applications. 19(2), 313–342.
mla: Franek, Peter, and Marek Krcál. “Persistence of Zero Sets.” Homology, Homotopy
and Applications, vol. 19, no. 2, International Press, 2017, pp. 313–42, doi:10.4310/HHA.2017.v19.n2.a16.
short: P. Franek, M. Krcál, Homology, Homotopy and Applications 19 (2017) 313–342.
date_created: 2018-12-11T11:47:14Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2021-01-12T08:03:12Z
day: '01'
department:
- _id: UlWa
- _id: HeEd
doi: 10.4310/HHA.2017.v19.n2.a16
ec_funded: 1
intvolume: ' 19'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1507.04310
month: '01'
oa: 1
oa_version: Submitted Version
page: 313 - 342
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 2590DB08-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '701309'
name: Atomic-Resolution Structures of Mitochondrial Respiratory Chain Supercomplexes
(H2020)
publication: Homology, Homotopy and Applications
publication_identifier:
issn:
- '15320073'
publication_status: published
publisher: International Press
publist_id: '7246'
quality_controlled: '1'
scopus_import: 1
status: public
title: Persistence of zero sets
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2017'
...
---
_id: '569'
abstract:
- lang: eng
text: The actomyosin ring generates force to ingress the cytokinetic cleavage furrow
in animal cells, yet its filament organization and the mechanism of contractility
is not well understood. We quantified actin filament order in human cells using
fluorescence polarization microscopy and found that cleavage furrow ingression
initiates by contraction of an equatorial actin network with randomly oriented
filaments. The network subsequently gradually reoriented actin filaments along
the cell equator. This strictly depended on myosin II activity, suggesting local
network reorganization by mechanical forces. Cortical laser microsurgery revealed
that during cytokinesis progression, mechanical tension increased substantially
along the direction of the cell equator, while the network contracted laterally
along the pole-to-pole axis without a detectable increase in tension. Our data
suggest that an asymmetric increase in cortical tension promotes filament reorientation
along the cytokinetic cleavage furrow, which might have implications for diverse
other biological processes involving actomyosin rings.
article_number: e30867
author:
- first_name: Felix
full_name: Spira, Felix
last_name: Spira
- first_name: Sara
full_name: Cuylen Haering, Sara
last_name: Cuylen Haering
- first_name: Shalin
full_name: Mehta, Shalin
last_name: Mehta
- first_name: Matthias
full_name: Samwer, Matthias
last_name: Samwer
- first_name: Anne
full_name: Reversat, Anne
id: 35B76592-F248-11E8-B48F-1D18A9856A87
last_name: Reversat
orcid: 0000-0003-0666-8928
- first_name: Amitabh
full_name: Verma, Amitabh
last_name: Verma
- first_name: Rudolf
full_name: Oldenbourg, Rudolf
last_name: Oldenbourg
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Daniel
full_name: Gerlich, Daniel
last_name: Gerlich
citation:
ama: Spira F, Cuylen Haering S, Mehta S, et al. Cytokinesis in vertebrate cells
initiates by contraction of an equatorial actomyosin network composed of randomly
oriented filaments. eLife. 2017;6. doi:10.7554/eLife.30867
apa: Spira, F., Cuylen Haering, S., Mehta, S., Samwer, M., Reversat, A., Verma,
A., … Gerlich, D. (2017). Cytokinesis in vertebrate cells initiates by contraction
of an equatorial actomyosin network composed of randomly oriented filaments. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.30867
chicago: Spira, Felix, Sara Cuylen Haering, Shalin Mehta, Matthias Samwer, Anne
Reversat, Amitabh Verma, Rudolf Oldenbourg, Michael K Sixt, and Daniel Gerlich.
“Cytokinesis in Vertebrate Cells Initiates by Contraction of an Equatorial Actomyosin
Network Composed of Randomly Oriented Filaments.” ELife. eLife Sciences
Publications, 2017. https://doi.org/10.7554/eLife.30867.
ieee: F. Spira et al., “Cytokinesis in vertebrate cells initiates by contraction
of an equatorial actomyosin network composed of randomly oriented filaments,”
eLife, vol. 6. eLife Sciences Publications, 2017.
ista: Spira F, Cuylen Haering S, Mehta S, Samwer M, Reversat A, Verma A, Oldenbourg
R, Sixt MK, Gerlich D. 2017. Cytokinesis in vertebrate cells initiates by contraction
of an equatorial actomyosin network composed of randomly oriented filaments. eLife.
6, e30867.
mla: Spira, Felix, et al. “Cytokinesis in Vertebrate Cells Initiates by Contraction
of an Equatorial Actomyosin Network Composed of Randomly Oriented Filaments.”
ELife, vol. 6, e30867, eLife Sciences Publications, 2017, doi:10.7554/eLife.30867.
short: F. Spira, S. Cuylen Haering, S. Mehta, M. Samwer, A. Reversat, A. Verma,
R. Oldenbourg, M.K. Sixt, D. Gerlich, ELife 6 (2017).
date_created: 2018-12-11T11:47:14Z
date_published: 2017-11-06T00:00:00Z
date_updated: 2023-02-23T12:30:29Z
day: '06'
ddc:
- '570'
department:
- _id: MiSi
doi: 10.7554/eLife.30867
file:
- access_level: open_access
checksum: ba09c1451153d39e4f4b7cee013e314c
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:40Z
date_updated: 2020-07-14T12:47:10Z
file_id: '4829'
file_name: IST-2017-919-v1+1_elife-30867-figures-v1.pdf
file_size: 9666973
relation: main_file
- access_level: open_access
checksum: 01eb51f1d6ad679947415a51c988e137
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:41Z
date_updated: 2020-07-14T12:47:10Z
file_id: '4830'
file_name: IST-2017-919-v1+2_elife-30867-v1.pdf
file_size: 5951246
relation: main_file
file_date_updated: 2020-07-14T12:47:10Z
has_accepted_license: '1'
intvolume: ' 6'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: eLife
publication_identifier:
issn:
- 2050084X
publication_status: published
publisher: eLife Sciences Publications
publist_id: '7245'
pubrep_id: '919'
quality_controlled: '1'
scopus_import: 1
status: public
title: Cytokinesis in vertebrate cells initiates by contraction of an equatorial actomyosin
network composed of randomly oriented 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: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2017'
...
---
_id: '570'
abstract:
- lang: eng
text: 'Most phenotypes are determined by molecular systems composed of specifically
interacting molecules. However, unlike for individual components, little is known
about the distributions of mutational effects of molecular systems as a whole.
We ask how the distribution of mutational effects of a transcriptional regulatory
system differs from the distributions of its components, by first independently,
and then simultaneously, mutating a transcription factor and the associated promoter
it represses. We find that the system distribution exhibits increased phenotypic
variation compared to individual component distributions - an effect arising from
intermolecular epistasis between the transcription factor and its DNA-binding
site. In large part, this epistasis can be qualitatively attributed to the structure
of the transcriptional regulatory system and could therefore be a common feature
in prokaryotes. Counter-intuitively, intermolecular epistasis can alleviate the
constraints of individual components, thereby increasing phenotypic variation
that selection could act on and facilitating adaptive evolution. '
article_number: e28921
author:
- first_name: Mato
full_name: Lagator, Mato
id: 345D25EC-F248-11E8-B48F-1D18A9856A87
last_name: Lagator
- first_name: Srdjan
full_name: Sarikas, Srdjan
id: 35F0286E-F248-11E8-B48F-1D18A9856A87
last_name: Sarikas
- first_name: Hande
full_name: Acar, Hande
id: 2DDF136A-F248-11E8-B48F-1D18A9856A87
last_name: Acar
orcid: 0000-0003-1986-9753
- 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: Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. Regulatory network structure
determines patterns of intermolecular epistasis. eLife. 2017;6. doi:10.7554/eLife.28921
apa: Lagator, M., Sarikas, S., Acar, H., Bollback, J. P., & Guet, C. C. (2017).
Regulatory network structure determines patterns of intermolecular epistasis.
ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.28921
chicago: Lagator, Mato, Srdjan Sarikas, Hande Acar, Jonathan P Bollback, and Calin
C Guet. “Regulatory Network Structure Determines Patterns of Intermolecular Epistasis.”
ELife. eLife Sciences Publications, 2017. https://doi.org/10.7554/eLife.28921.
ieee: M. Lagator, S. Sarikas, H. Acar, J. P. Bollback, and C. C. Guet, “Regulatory
network structure determines patterns of intermolecular epistasis,” eLife,
vol. 6. eLife Sciences Publications, 2017.
ista: Lagator M, Sarikas S, Acar H, Bollback JP, Guet CC. 2017. Regulatory network
structure determines patterns of intermolecular epistasis. eLife. 6, e28921.
mla: Lagator, Mato, et al. “Regulatory Network Structure Determines Patterns of
Intermolecular Epistasis.” ELife, vol. 6, e28921, eLife Sciences Publications,
2017, doi:10.7554/eLife.28921.
short: M. Lagator, S. Sarikas, H. Acar, J.P. Bollback, C.C. Guet, ELife 6 (2017).
date_created: 2018-12-11T11:47:14Z
date_published: 2017-11-13T00:00:00Z
date_updated: 2021-01-12T08:03:15Z
day: '13'
ddc:
- '576'
department:
- _id: CaGu
- _id: JoBo
- _id: NiBa
doi: 10.7554/eLife.28921
ec_funded: 1
file:
- access_level: open_access
checksum: 273ab17f33305e4eaafd911ff88e7c5b
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:42Z
date_updated: 2020-07-14T12:47:10Z
file_id: '5096'
file_name: IST-2017-918-v1+1_elife-28921-figures-v3.pdf
file_size: 8453470
relation: main_file
- access_level: open_access
checksum: b433f90576c7be597cd43367946f8e7f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:43Z
date_updated: 2020-07-14T12:47:10Z
file_id: '5097'
file_name: IST-2017-918-v1+2_elife-28921-v3.pdf
file_size: 1953221
relation: main_file
file_date_updated: 2020-07-14T12:47:10Z
has_accepted_license: '1'
intvolume: ' 6'
language:
- iso: eng
month: '11'
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
publication: eLife
publication_identifier:
issn:
- 2050084X
publication_status: published
publisher: eLife Sciences Publications
publist_id: '7244'
pubrep_id: '918'
quality_controlled: '1'
scopus_import: 1
status: public
title: Regulatory network structure determines patterns of intermolecular epistasis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2017'
...
---
_id: '572'
abstract:
- lang: eng
text: In this review, we summarize the different biosynthesis-related pathways that
contribute to the regulation of endogenous auxin in plants. We demonstrate that
all known genes involved in auxin biosynthesis also have a role in root formation,
from the initiation of a root meristem during embryogenesis to the generation
of a functional root system with a primary root, secondary lateral root branches
and adventitious roots. Furthermore, the versatile adaptation of root development
in response to environmental challenges is mediated by both local and distant
control of auxin biosynthesis. In conclusion, auxin homeostasis mediated by spatial
and temporal regulation of auxin biosynthesis plays a central role in determining
root architecture.
article_number: '2587'
article_processing_charge: No
author:
- first_name: Damilola
full_name: Olatunji, Damilola
last_name: Olatunji
- first_name: Danny
full_name: Geelen, Danny
last_name: Geelen
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
citation:
ama: Olatunji D, Geelen D, Verstraeten I. Control of endogenous auxin levels in
plant root development. International Journal of Molecular Sciences. 2017;18(12).
doi:10.3390/ijms18122587
apa: Olatunji, D., Geelen, D., & Verstraeten, I. (2017). Control of endogenous
auxin levels in plant root development. International Journal of Molecular
Sciences. MDPI. https://doi.org/10.3390/ijms18122587
chicago: Olatunji, Damilola, Danny Geelen, and Inge Verstraeten. “Control of Endogenous
Auxin Levels in Plant Root Development.” International Journal of Molecular
Sciences. MDPI, 2017. https://doi.org/10.3390/ijms18122587.
ieee: D. Olatunji, D. Geelen, and I. Verstraeten, “Control of endogenous auxin levels
in plant root development,” International Journal of Molecular Sciences,
vol. 18, no. 12. MDPI, 2017.
ista: Olatunji D, Geelen D, Verstraeten I. 2017. Control of endogenous auxin levels
in plant root development. International Journal of Molecular Sciences. 18(12),
2587.
mla: Olatunji, Damilola, et al. “Control of Endogenous Auxin Levels in Plant Root
Development.” International Journal of Molecular Sciences, vol. 18, no.
12, 2587, MDPI, 2017, doi:10.3390/ijms18122587.
short: D. Olatunji, D. Geelen, I. Verstraeten, International Journal of Molecular
Sciences 18 (2017).
date_created: 2018-12-11T11:47:15Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2021-01-12T08:03:16Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.3390/ijms18122587
file:
- access_level: open_access
checksum: 82d51f11e493f7eec02976d9a9a9805e
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:55Z
date_updated: 2020-07-14T12:47:10Z
file_id: '4718'
file_name: IST-2017-917-v1+1_ijms-18-02587.pdf
file_size: 920962
relation: main_file
file_date_updated: 2020-07-14T12:47:10Z
has_accepted_license: '1'
intvolume: ' 18'
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
publication: International Journal of Molecular Sciences
publication_status: published
publisher: MDPI
publist_id: '7242'
pubrep_id: '917'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Control of endogenous auxin levels in plant root development
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 18
year: '2017'
...
---
_id: '601'
abstract:
- lang: eng
text: 'The conserved polymerase-Associated factor 1 complex (Paf1C) plays multiple
roles in chromatin transcription and genomic regulation. Paf1C comprises the five
subunits Paf1, Leo1, Ctr9, Cdc73 and Rtf1, and binds to the RNA polymerase II
(Pol II) transcription elongation complex (EC). Here we report the reconstitution
of Paf1C from Saccharomyces cerevisiae, and a structural analysis of Paf1C bound
to a Pol II EC containing the elongation factor TFIIS. Cryo-electron microscopy
and crosslinking data reveal that Paf1C is highly mobile and extends over the
outer Pol II surface from the Rpb2 to the Rpb3 subunit. The Paf1-Leo1 heterodimer
and Cdc73 form opposite ends of Paf1C, whereas Ctr9 bridges between them. Consistent
with the structural observations, the initiation factor TFIIF impairs Paf1C binding
to Pol II, whereas the elongation factor TFIIS enhances it. We further show that
Paf1C is globally required for normal mRNA transcription in yeast. These results
provide a three-dimensional framework for further analysis of Paf1C function in
transcription through chromatin. '
article_number: '15741'
article_processing_charge: No
author:
- first_name: Youwei
full_name: Xu, Youwei
last_name: Xu
- first_name: Carrie A
full_name: Bernecky, Carrie A
id: 2CB9DFE2-F248-11E8-B48F-1D18A9856A87
last_name: Bernecky
orcid: 0000-0003-0893-7036
- first_name: Chung
full_name: Lee, Chung
last_name: Lee
- first_name: Kerstin
full_name: Maier, Kerstin
last_name: Maier
- first_name: Björn
full_name: Schwalb, Björn
last_name: Schwalb
- first_name: Dimitri
full_name: Tegunov, Dimitri
last_name: Tegunov
- first_name: Jürgen
full_name: Plitzko, Jürgen
last_name: Plitzko
- first_name: Henning
full_name: Urlaub, Henning
last_name: Urlaub
- first_name: Patrick
full_name: Cramer, Patrick
last_name: Cramer
citation:
ama: Xu Y, Bernecky C, Lee C, et al. Architecture of the RNA polymerase II-Paf1C-TFIIS
transcription elongation complex. Nature Communications. 2017;8. doi:10.1038/ncomms15741
apa: Xu, Y., Bernecky, C., Lee, C., Maier, K., Schwalb, B., Tegunov, D., … Cramer,
P. (2017). Architecture of the RNA polymerase II-Paf1C-TFIIS transcription elongation
complex. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms15741
chicago: Xu, Youwei, Carrie Bernecky, Chung Lee, Kerstin Maier, Björn Schwalb, Dimitri
Tegunov, Jürgen Plitzko, Henning Urlaub, and Patrick Cramer. “Architecture of
the RNA Polymerase II-Paf1C-TFIIS Transcription Elongation Complex.” Nature
Communications. Nature Publishing Group, 2017. https://doi.org/10.1038/ncomms15741.
ieee: Y. Xu et al., “Architecture of the RNA polymerase II-Paf1C-TFIIS transcription
elongation complex,” Nature Communications, vol. 8. Nature Publishing Group,
2017.
ista: Xu Y, Bernecky C, Lee C, Maier K, Schwalb B, Tegunov D, Plitzko J, Urlaub
H, Cramer P. 2017. Architecture of the RNA polymerase II-Paf1C-TFIIS transcription
elongation complex. Nature Communications. 8, 15741.
mla: Xu, Youwei, et al. “Architecture of the RNA Polymerase II-Paf1C-TFIIS Transcription
Elongation Complex.” Nature Communications, vol. 8, 15741, Nature Publishing
Group, 2017, doi:10.1038/ncomms15741.
short: Y. Xu, C. Bernecky, C. Lee, K. Maier, B. Schwalb, D. Tegunov, J. Plitzko,
H. Urlaub, P. Cramer, Nature Communications 8 (2017).
date_created: 2018-12-11T11:47:25Z
date_published: 2017-06-06T00:00:00Z
date_updated: 2021-01-12T08:05:40Z
day: '06'
ddc:
- '570'
doi: 10.1038/ncomms15741
extern: '1'
file:
- access_level: open_access
checksum: 940742282a9a285dc4aeae0c2b5ebe96
content_type: application/pdf
creator: dernst
date_created: 2019-01-21T14:48:10Z
date_updated: 2020-07-14T12:47:16Z
file_id: '5865'
file_name: 2017_NatureComm_Xu.pdf
file_size: 3018075
relation: main_file
file_date_updated: 2020-07-14T12:47:16Z
has_accepted_license: '1'
intvolume: ' 8'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- '20411723'
publication_status: published
publisher: Nature Publishing Group
publist_id: '7203'
quality_controlled: '1'
status: public
title: Architecture of the RNA polymerase II-Paf1C-TFIIS transcription elongation
complex
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2017'
...
---
_id: '6013'
abstract:
- lang: eng
text: The first hundred attoseconds of the electron dynamics during strong field
tunneling ionization are investigated. We quantify theoretically how the electron’s
classical trajectories in the continuum emerge from the tunneling process and
test the results with those achieved in parallel from attoclock measurements.
An especially high sensitivity on the tunneling barrier is accomplished here by
comparing the momentum distributions of two atomic species of slightly deviating
atomic potentials (argon and krypton) being ionized under absolutely identical
conditions with near-infrared laser pulses (1300 nm). The agreement between experiment
and theory provides clear evidence for a nonzero tunneling time delay and a nonvanishing
longitudinal momentum of the electron at the “tunnel exit.”
article_number: '023201'
arxiv: 1
author:
- first_name: Nicolas
full_name: Camus, Nicolas
last_name: Camus
- first_name: Enderalp
full_name: Yakaboylu, Enderalp
id: 38CB71F6-F248-11E8-B48F-1D18A9856A87
last_name: Yakaboylu
orcid: 0000-0001-5973-0874
- first_name: Lutz
full_name: Fechner, Lutz
last_name: Fechner
- first_name: Michael
full_name: Klaiber, Michael
last_name: Klaiber
- first_name: Martin
full_name: Laux, Martin
last_name: Laux
- first_name: Yonghao
full_name: Mi, Yonghao
last_name: Mi
- first_name: Karen Z.
full_name: Hatsagortsyan, Karen Z.
last_name: Hatsagortsyan
- first_name: Thomas
full_name: Pfeifer, Thomas
last_name: Pfeifer
- first_name: Christoph H.
full_name: Keitel, Christoph H.
last_name: Keitel
- first_name: Robert
full_name: Moshammer, Robert
last_name: Moshammer
citation:
ama: Camus N, Yakaboylu E, Fechner L, et al. Experimental evidence for quantum tunneling
time. Physical Review Letters. 2017;119(2). doi:10.1103/PhysRevLett.119.023201
apa: Camus, N., Yakaboylu, E., Fechner, L., Klaiber, M., Laux, M., Mi, Y., … Moshammer,
R. (2017). Experimental evidence for quantum tunneling time. Physical Review
Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.119.023201
chicago: Camus, Nicolas, Enderalp Yakaboylu, Lutz Fechner, Michael Klaiber, Martin
Laux, Yonghao Mi, Karen Z. Hatsagortsyan, Thomas Pfeifer, Christoph H. Keitel,
and Robert Moshammer. “Experimental Evidence for Quantum Tunneling Time.” Physical
Review Letters. American Physical Society, 2017. https://doi.org/10.1103/PhysRevLett.119.023201.
ieee: N. Camus et al., “Experimental evidence for quantum tunneling time,”
Physical Review Letters, vol. 119, no. 2. American Physical Society, 2017.
ista: Camus N, Yakaboylu E, Fechner L, Klaiber M, Laux M, Mi Y, Hatsagortsyan KZ,
Pfeifer T, Keitel CH, Moshammer R. 2017. Experimental evidence for quantum tunneling
time. Physical Review Letters. 119(2), 023201.
mla: Camus, Nicolas, et al. “Experimental Evidence for Quantum Tunneling Time.”
Physical Review Letters, vol. 119, no. 2, 023201, American Physical Society,
2017, doi:10.1103/PhysRevLett.119.023201.
short: N. Camus, E. Yakaboylu, L. Fechner, M. Klaiber, M. Laux, Y. Mi, K.Z. Hatsagortsyan,
T. Pfeifer, C.H. Keitel, R. Moshammer, Physical Review Letters 119 (2017).
date_created: 2019-02-14T15:24:13Z
date_published: 2017-07-14T00:00:00Z
date_updated: 2023-02-23T11:13:36Z
day: '14'
department:
- _id: MiLe
doi: 10.1103/PhysRevLett.119.023201
external_id:
arxiv:
- '1611.03701'
intvolume: ' 119'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1611.03701
month: '07'
oa: 1
oa_version: Preprint
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '313'
relation: earlier_version
status: public
scopus_import: 1
status: public
title: Experimental evidence for quantum tunneling time
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 119
year: '2017'
...
---
_id: '604'
abstract:
- lang: eng
text: In several settings of physics and chemistry one has to deal with molecules
interacting with some kind of an external environment, be it a gas, a solution,
or a crystal surface. Understanding molecular processes in the presence of such
a many-particle bath is inherently challenging, and usually requires large-scale
numerical computations. Here, we present an alternative approach to the problem,
based on the notion of the angulon quasiparticle. We show that molecules rotating
inside superfluid helium nanodroplets and Bose–Einstein condensates form angulons,
and therefore can be described by straightforward solutions of a simple microscopic
Hamiltonian. Casting the problem in the language of angulons allows us not only
to greatly simplify it, but also to gain insights into the origins of the observed
phenomena and to make predictions for future experimental studies.
alternative_title:
- Theoretical and Computational Chemistry Series
author:
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
citation:
ama: 'Lemeshko M, Schmidt R. Molecular impurities interacting with a many-particle
environment: From ultracold gases to helium nanodroplets. In: Dulieu O, Osterwalder
A, eds. Cold Chemistry: Molecular Scattering and Reactivity Near Absolute Zero
. Vol 11. Theoretical and Computational Chemistry Series. The Royal Society
of Chemistry; 2017:444-495. doi:10.1039/9781782626800-00444'
apa: 'Lemeshko, M., & Schmidt, R. (2017). Molecular impurities interacting with
a many-particle environment: From ultracold gases to helium nanodroplets. In O.
Dulieu & A. Osterwalder (Eds.), Cold Chemistry: Molecular Scattering and
Reactivity Near Absolute Zero (Vol. 11, pp. 444–495). The Royal Society of
Chemistry. https://doi.org/10.1039/9781782626800-00444'
chicago: 'Lemeshko, Mikhail, and Richard Schmidt. “Molecular Impurities Interacting
with a Many-Particle Environment: From Ultracold Gases to Helium Nanodroplets.”
In Cold Chemistry: Molecular Scattering and Reactivity Near Absolute Zero ,
edited by Oliver Dulieu and Andreas Osterwalder, 11:444–95. Theoretical and Computational
Chemistry Series. The Royal Society of Chemistry, 2017. https://doi.org/10.1039/9781782626800-00444.'
ieee: 'M. Lemeshko and R. Schmidt, “Molecular impurities interacting with a many-particle
environment: From ultracold gases to helium nanodroplets,” in Cold Chemistry:
Molecular Scattering and Reactivity Near Absolute Zero , vol. 11, O. Dulieu
and A. Osterwalder, Eds. The Royal Society of Chemistry, 2017, pp. 444–495.'
ista: 'Lemeshko M, Schmidt R. 2017.Molecular impurities interacting with a many-particle
environment: From ultracold gases to helium nanodroplets. In: Cold Chemistry:
Molecular Scattering and Reactivity Near Absolute Zero . Theoretical and Computational
Chemistry Series, vol. 11, 444–495.'
mla: 'Lemeshko, Mikhail, and Richard Schmidt. “Molecular Impurities Interacting
with a Many-Particle Environment: From Ultracold Gases to Helium Nanodroplets.”
Cold Chemistry: Molecular Scattering and Reactivity Near Absolute Zero ,
edited by Oliver Dulieu and Andreas Osterwalder, vol. 11, The Royal Society of
Chemistry, 2017, pp. 444–95, doi:10.1039/9781782626800-00444.'
short: 'M. Lemeshko, R. Schmidt, in:, O. Dulieu, A. Osterwalder (Eds.), Cold Chemistry:
Molecular Scattering and Reactivity Near Absolute Zero , The Royal Society of
Chemistry, 2017, pp. 444–495.'
date_created: 2018-12-11T11:47:27Z
date_published: 2017-12-14T00:00:00Z
date_updated: 2021-01-12T08:05:50Z
day: '14'
department:
- _id: MiLe
doi: 10.1039/9781782626800-00444
editor:
- first_name: Oliver
full_name: Dulieu, Oliver
last_name: Dulieu
- first_name: Andreas
full_name: Osterwalder, Andreas
last_name: Osterwalder
intvolume: ' 11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1703.06753
month: '12'
oa: 1
oa_version: Submitted Version
page: 444 - 495
publication: 'Cold Chemistry: Molecular Scattering and Reactivity Near Absolute Zero '
publication_identifier:
issn:
- '20413181'
publication_status: published
publisher: The Royal Society of Chemistry
publist_id: '7201'
quality_controlled: '1'
scopus_import: 1
series_title: Theoretical and Computational Chemistry Series
status: public
title: 'Molecular impurities interacting with a many-particle environment: From ultracold
gases to helium nanodroplets'
type: book_chapter
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2017'
...
---
_id: '605'
abstract:
- lang: eng
text: 'Position based cryptography (PBC), proposed in the seminal work of Chandran,
Goyal, Moriarty, and Ostrovsky (SIAM J. Computing, 2014), aims at constructing
cryptographic schemes in which the identity of the user is his geographic position.
Chandran et al. construct PBC schemes for secure positioning and position-based
key agreement in the bounded-storage model (Maurer, J. Cryptology, 1992). Apart
from bounded memory, their security proofs need a strong additional restriction
on the power of the adversary: he cannot compute joint functions of his inputs.
Removing this assumption is left as an open problem. We show that an answer to
this question would resolve a long standing open problem in multiparty communication
complexity: finding a function that is hard to compute with low communication
complexity in the simultaneous message model, but easy to compute in the fully
adaptive model. On a more positive side: we also show some implications in the
other direction, i.e.: we prove that lower bounds on the communication complexity
of certain multiparty problems imply existence of PBC primitives. Using this result
we then show two attractive ways to “bypass” our hardness result: the first uses
the random oracle model, the second weakens the locality requirement in the bounded-storage
model to online computability. The random oracle construction is arguably one
of the simplest proposed so far in this area. Our results indicate that constructing
improved provably secure protocols for PBC requires a better understanding of
multiparty communication complexity. This is yet another example where negative
results in one area (in our case: lower bounds in multiparty communication complexity)
can be used to construct secure cryptographic schemes.'
alternative_title:
- LNCS
author:
- first_name: Joshua
full_name: Brody, Joshua
last_name: Brody
- first_name: Stefan
full_name: Dziembowski, Stefan
last_name: Dziembowski
- first_name: Sebastian
full_name: Faust, Sebastian
last_name: Faust
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Brody J, Dziembowski S, Faust S, Pietrzak KZ. Position based cryptography
and multiparty communication complexity. In: Kalai Y, Reyzin L, eds. Vol 10677.
Springer; 2017:56-81. doi:10.1007/978-3-319-70500-2_3'
apa: 'Brody, J., Dziembowski, S., Faust, S., & Pietrzak, K. Z. (2017). Position
based cryptography and multiparty communication complexity. In Y. Kalai &
L. Reyzin (Eds.) (Vol. 10677, pp. 56–81). Presented at the TCC: Theory of Cryptography
Conference, Baltimore, MD, United States: Springer. https://doi.org/10.1007/978-3-319-70500-2_3'
chicago: Brody, Joshua, Stefan Dziembowski, Sebastian Faust, and Krzysztof Z Pietrzak.
“Position Based Cryptography and Multiparty Communication Complexity.” edited
by Yael Kalai and Leonid Reyzin, 10677:56–81. Springer, 2017. https://doi.org/10.1007/978-3-319-70500-2_3.
ieee: 'J. Brody, S. Dziembowski, S. Faust, and K. Z. Pietrzak, “Position based cryptography
and multiparty communication complexity,” presented at the TCC: Theory of Cryptography
Conference, Baltimore, MD, United States, 2017, vol. 10677, pp. 56–81.'
ista: 'Brody J, Dziembowski S, Faust S, Pietrzak KZ. 2017. Position based cryptography
and multiparty communication complexity. TCC: Theory of Cryptography Conference,
LNCS, vol. 10677, 56–81.'
mla: Brody, Joshua, et al. Position Based Cryptography and Multiparty Communication
Complexity. Edited by Yael Kalai and Leonid Reyzin, vol. 10677, Springer,
2017, pp. 56–81, doi:10.1007/978-3-319-70500-2_3.
short: J. Brody, S. Dziembowski, S. Faust, K.Z. Pietrzak, in:, Y. Kalai, L. Reyzin
(Eds.), Springer, 2017, pp. 56–81.
conference:
end_date: 2017-11-15
location: Baltimore, MD, United States
name: 'TCC: Theory of Cryptography Conference'
start_date: 2017-11-12
date_created: 2018-12-11T11:47:27Z
date_published: 2017-11-05T00:00:00Z
date_updated: 2021-01-12T08:05:53Z
day: '05'
department:
- _id: KrPi
doi: 10.1007/978-3-319-70500-2_3
ec_funded: 1
editor:
- first_name: Yael
full_name: Kalai, Yael
last_name: Kalai
- first_name: Leonid
full_name: Reyzin, Leonid
last_name: Reyzin
intvolume: ' 10677'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2016/536
month: '11'
oa: 1
oa_version: Submitted Version
page: 56 - 81
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication_identifier:
isbn:
- 978-331970499-9
publication_status: published
publisher: Springer
publist_id: '7200'
quality_controlled: '1'
scopus_import: 1
status: public
title: Position based cryptography and multiparty communication complexity
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 10677
year: '2017'
...
---
_id: '609'
abstract:
- lang: eng
text: Several cryptographic schemes and applications are based on functions that
are both reasonably efficient to compute and moderately hard to invert, including
client puzzles for Denial-of-Service protection, password protection via salted
hashes, or recent proof-of-work blockchain systems. Despite their wide use, a
definition of this concept has not yet been distilled and formalized explicitly.
Instead, either the applications are proven directly based on the assumptions
underlying the function, or some property of the function is proven, but the security
of the application is argued only informally. The goal of this work is to provide
a (universal) definition that decouples the efforts of designing new moderately
hard functions and of building protocols based on them, serving as an interface
between the two. On a technical level, beyond the mentioned definitions, we instantiate
the model for four different notions of hardness. We extend the work of Alwen
and Serbinenko (STOC 2015) by providing a general tool for proving security for
the first notion of memory-hard functions that allows for provably secure applications.
The tool allows us to recover all of the graph-theoretic techniques developed
for proving security under the older, non-composable, notion of security used
by Alwen and Serbinenko. As an application of our definition of moderately hard
functions, we prove the security of two different schemes for proofs of effort
(PoE). We also formalize and instantiate the concept of a non-interactive proof
of effort (niPoE), in which the proof is not bound to a particular communication
context but rather any bit-string chosen by the prover.
alternative_title:
- LNCS
author:
- first_name: Joel F
full_name: Alwen, Joel F
id: 2A8DFA8C-F248-11E8-B48F-1D18A9856A87
last_name: Alwen
- first_name: Björn
full_name: Tackmann, Björn
last_name: Tackmann
citation:
ama: 'Alwen JF, Tackmann B. Moderately hard functions: Definition, instantiations,
and applications. In: Kalai Y, Reyzin L, eds. Vol 10677. Springer; 2017:493-526.
doi:10.1007/978-3-319-70500-2_17'
apa: 'Alwen, J. F., & Tackmann, B. (2017). Moderately hard functions: Definition,
instantiations, and applications. In Y. Kalai & L. Reyzin (Eds.) (Vol. 10677,
pp. 493–526). Presented at the TCC: Theory of Cryptography, Baltimore, MD, United
States: Springer. https://doi.org/10.1007/978-3-319-70500-2_17'
chicago: 'Alwen, Joel F, and Björn Tackmann. “Moderately Hard Functions: Definition,
Instantiations, and Applications.” edited by Yael Kalai and Leonid Reyzin, 10677:493–526.
Springer, 2017. https://doi.org/10.1007/978-3-319-70500-2_17.'
ieee: 'J. F. Alwen and B. Tackmann, “Moderately hard functions: Definition, instantiations,
and applications,” presented at the TCC: Theory of Cryptography, Baltimore, MD,
United States, 2017, vol. 10677, pp. 493–526.'
ista: 'Alwen JF, Tackmann B. 2017. Moderately hard functions: Definition, instantiations,
and applications. TCC: Theory of Cryptography, LNCS, vol. 10677, 493–526.'
mla: 'Alwen, Joel F., and Björn Tackmann. Moderately Hard Functions: Definition,
Instantiations, and Applications. Edited by Yael Kalai and Leonid Reyzin,
vol. 10677, Springer, 2017, pp. 493–526, doi:10.1007/978-3-319-70500-2_17.'
short: J.F. Alwen, B. Tackmann, in:, Y. Kalai, L. Reyzin (Eds.), Springer, 2017,
pp. 493–526.
conference:
end_date: 2017-11-15
location: Baltimore, MD, United States
name: 'TCC: Theory of Cryptography'
start_date: 2017-11-12
date_created: 2018-12-11T11:47:28Z
date_published: 2017-11-05T00:00:00Z
date_updated: 2021-01-12T08:06:04Z
day: '05'
department:
- _id: KrPi
doi: 10.1007/978-3-319-70500-2_17
editor:
- first_name: Yael
full_name: Kalai, Yael
last_name: Kalai
- first_name: Leonid
full_name: Reyzin, Leonid
last_name: Reyzin
intvolume: ' 10677'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2017/945
month: '11'
oa: 1
oa_version: Submitted Version
page: 493 - 526
publication_identifier:
isbn:
- 978-331970499-9
publication_status: published
publisher: Springer
publist_id: '7196'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Moderately hard functions: Definition, instantiations, and applications'
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 10677
year: '2017'
...