---
_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
corr_author: '1'
date_created: 2020-12-09T15:04:02Z
date_published: 2020-12-10T00:00:00Z
date_updated: 2025-06-12T06:33:18Z
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: '8943'
abstract:
- lang: eng
text: The widely used non-steroidal anti-inflammatory drugs (NSAIDs) are derivatives
of the phytohormone salicylic acid (SA). SA is well known to regulate plant immunity
and development, whereas there have been few reports focusing on the effects of
NSAIDs in plants. Our studies here reveal that NSAIDs exhibit largely overlapping
physiological activities to SA in the model plant Arabidopsis. NSAID treatments
lead to shorter and agravitropic primary roots and inhibited lateral root organogenesis.
Notably, in addition to the SA-like action, which in roots involves binding to
the protein phosphatase 2A (PP2A), NSAIDs also exhibit PP2A-independent effects.
Cell biological and biochemical analyses reveal that many NSAIDs bind directly
to and inhibit the chaperone activity of TWISTED DWARF1, thereby regulating actin
cytoskeleton dynamics and subsequent endosomal trafficking. Our findings uncover
an unexpected bioactivity of human pharmaceuticals in plants and provide insights
into the molecular mechanism underlying the cellular action of this class of anti-inflammatory
compounds.
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
acknowledgement: "We thank Drs. Sebastian Bednarek (University of Wisconsin-Madison),
Niko Geldner (University of Lausanne), and Karin Schumacher (Heidelberg University)
for kindly sharing published Arabidopsis lines; Dr. Satoshi Naramoto for the pPIN2::PIN2-GFP;
pVHA-a1::VHA-a1-mRFP reporter; the staff at the Life Science Facility and Bioimaging
Facility, Monika Hrtyan, and Dorota Jaworska at IST Austria for technical support;
and Drs. Su Tang (Texas A&M University),\r\nMelinda Abas (BOKU), Eva Benkova´ (IST
Austria), Christian Luschnig (BOKU), Bartel Vanholme (Gent University), and the
Friml group for valuable discussions. The research leading to these findings was
funded by the European Union’s Horizon 2020 program (ERC grant agreement no. 742985,
to J.F.), the People Programme (Marie Curie Actions) of the European Union’s Seventh
Framework Programme (FP7/2007-2013) under REA grant agreement no.\r\n291734, the
Swiss National Funds (31003A_165877, to M.G.), the Ministry of Education, Youth,
and Sports of the Czech Republic (project no. CZ.02.1.01/0.0/0.0/16_019/0000738,
EU Operational Programme ‘‘Research, development and education and Centre for Plant
Experimental Biology’’), and the EU Operational Programme Prague - Competitiveness
(project no. CZ.2.16/3.1.00/21519). S.T. was funded by a European Molecular Biology
Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015). X.Z. was
partly supported by a PhD scholarship from the China Scholarship Council."
article_number: '108463'
article_processing_charge: Yes
article_type: original
author:
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Martin
full_name: Di Donato, Martin
last_name: Di Donato
- first_name: Matous
full_name: Glanc, Matous
id: 1AE1EA24-02D0-11E9-9BAA-DAF4881429F2
last_name: Glanc
orcid: 0000-0003-0619-7783
- first_name: Xixi
full_name: Zhang, Xixi
id: 61A66458-47E9-11EA-85BA-8AEAAF14E49A
last_name: Zhang
orcid: 0000-0001-7048-4627
- first_name: Petr
full_name: Klíma, Petr
last_name: Klíma
- first_name: Jie
full_name: Liu, Jie
last_name: Liu
- first_name: Aurélien
full_name: Bailly, Aurélien
last_name: Bailly
- first_name: Noel
full_name: Ferro, Noel
last_name: Ferro
- first_name: Jan
full_name: Petrášek, Jan
last_name: Petrášek
- first_name: Markus
full_name: Geisler, Markus
last_name: Geisler
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Tan S, Di Donato M, Glanc M, et al. Non-steroidal anti-inflammatory drugs target
TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development.
Cell Reports. 2020;33(9). doi:10.1016/j.celrep.2020.108463
apa: Tan, S., Di Donato, M., Glanc, M., Zhang, X., Klíma, P., Liu, J., … Friml,
J. (2020). Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated
actin dynamics and auxin transport-mediated plant development. Cell Reports.
Elsevier. https://doi.org/10.1016/j.celrep.2020.108463
chicago: Tan, Shutang, Martin Di Donato, Matous Glanc, Xixi Zhang, Petr Klíma, Jie
Liu, Aurélien Bailly, et al. “Non-Steroidal Anti-Inflammatory Drugs Target TWISTED
DWARF1-Regulated Actin Dynamics and Auxin Transport-Mediated Plant Development.”
Cell Reports. Elsevier, 2020. https://doi.org/10.1016/j.celrep.2020.108463.
ieee: S. Tan et al., “Non-steroidal anti-inflammatory drugs target TWISTED
DWARF1-regulated actin dynamics and auxin transport-mediated plant development,”
Cell Reports, vol. 33, no. 9. Elsevier, 2020.
ista: Tan S, Di Donato M, Glanc M, Zhang X, Klíma P, Liu J, Bailly A, Ferro N, Petrášek
J, Geisler M, Friml J. 2020. Non-steroidal anti-inflammatory drugs target TWISTED
DWARF1-regulated actin dynamics and auxin transport-mediated plant development.
Cell Reports. 33(9), 108463.
mla: Tan, Shutang, et al. “Non-Steroidal Anti-Inflammatory Drugs Target TWISTED
DWARF1-Regulated Actin Dynamics and Auxin Transport-Mediated Plant Development.”
Cell Reports, vol. 33, no. 9, 108463, Elsevier, 2020, doi:10.1016/j.celrep.2020.108463.
short: S. Tan, M. Di Donato, M. Glanc, X. Zhang, P. Klíma, J. Liu, A. Bailly, N.
Ferro, J. Petrášek, M. Geisler, J. Friml, Cell Reports 33 (2020).
corr_author: '1'
date_created: 2020-12-13T23:01:21Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2026-04-03T09:30:47Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.celrep.2020.108463
ec_funded: 1
external_id:
isi:
- '000595658100018'
pmid:
- '33264621'
file:
- access_level: open_access
checksum: ed18cba0fb48ed2e789381a54cc21904
content_type: application/pdf
creator: dernst
date_created: 2020-12-14T07:33:39Z
date_updated: 2020-12-14T07:33:39Z
file_id: '8948'
file_name: 2020_CellReports_Tan.pdf
file_size: 8056434
relation: main_file
success: 1
file_date_updated: 2020-12-14T07:33:39Z
has_accepted_license: '1'
intvolume: ' 33'
isi: 1
issue: '9'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 256FEF10-B435-11E9-9278-68D0E5697425
grant_number: 723-2015
name: Molecular Mechanism underlying Salicylic Acid Regulation of Endocytic Trafficking
in Arabidopsis
publication: Cell Reports
publication_identifier:
eissn:
- 2211-1247
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/plants-on-aspirin/
scopus_import: '1'
status: public
title: Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin
dynamics and auxin transport-mediated plant 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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 33
year: '2020'
...
---
_id: '8944'
abstract:
- lang: eng
text: "Superconductor insulator transition in transverse magnetic field is studied
in the highly disordered MoC film with the product of the Fermi momentum and the
mean free path kF*l close to unity. Surprisingly, the Zeeman paramagnetic effects
dominate over orbital coupling on both sides of the transition. In superconducting
state it is evidenced by a high upper critical magnetic field \U0001D435\U0001D4502,
by its square root dependence on temperature, as well as by the Zeeman splitting
of the quasiparticle density of states (DOS) measured by scanning tunneling microscopy.
At \U0001D435\U0001D4502 a logarithmic anomaly in DOS is observed. This anomaly
is further enhanced in increasing magnetic field, which is explained by the Zeeman
splitting of the Altshuler-Aronov DOS driving\r\nthe system into a more insulating
or resistive state. Spin dependent Altshuler-Aronov correction is also needed
to explain the transport behavior above \U0001D435\U0001D4502."
acknowledgement: 'We gratefully acknowledge helpful conversations with B.L. Altshuler
and R. Hlubina. The work was supported by the projects APVV-18-0358, VEGA 2/0058/20,
VEGA 1/0743/19 the European Microkelvin Platform, the COST action CA16218 (Nanocohybri)
and by U.S. Steel Košice. '
article_number: '180508'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Martin
full_name: Zemlicka, Martin
id: 2DCF8DE6-F248-11E8-B48F-1D18A9856A87
last_name: Zemlicka
- first_name: M.
full_name: Kopčík, M.
last_name: Kopčík
- first_name: P.
full_name: Szabó, P.
last_name: Szabó
- first_name: T.
full_name: Samuely, T.
last_name: Samuely
- first_name: J.
full_name: Kačmarčík, J.
last_name: Kačmarčík
- first_name: P.
full_name: Neilinger, P.
last_name: Neilinger
- first_name: M.
full_name: Grajcar, M.
last_name: Grajcar
- first_name: P.
full_name: Samuely, P.
last_name: Samuely
citation:
ama: 'Zemlicka M, Kopčík M, Szabó P, et al. Zeeman-driven superconductor-insulator
transition in strongly disordered MoC films: Scanning tunneling microscopy and
transport studies in a transverse magnetic field. Physical Review B. 2020;102(18).
doi:10.1103/PhysRevB.102.180508'
apa: 'Zemlicka, M., Kopčík, M., Szabó, P., Samuely, T., Kačmarčík, J., Neilinger,
P., … Samuely, P. (2020). Zeeman-driven superconductor-insulator transition in
strongly disordered MoC films: Scanning tunneling microscopy and transport studies
in a transverse magnetic field. Physical Review B. American Physical Society.
https://doi.org/10.1103/PhysRevB.102.180508'
chicago: 'Zemlicka, Martin, M. Kopčík, P. Szabó, T. Samuely, J. Kačmarčík, P. Neilinger,
M. Grajcar, and P. Samuely. “Zeeman-Driven Superconductor-Insulator Transition
in Strongly Disordered MoC Films: Scanning Tunneling Microscopy and Transport
Studies in a Transverse Magnetic Field.” Physical Review B. American Physical
Society, 2020. https://doi.org/10.1103/PhysRevB.102.180508.'
ieee: 'M. Zemlicka et al., “Zeeman-driven superconductor-insulator transition
in strongly disordered MoC films: Scanning tunneling microscopy and transport
studies in a transverse magnetic field,” Physical Review B, vol. 102, no.
18. American Physical Society, 2020.'
ista: 'Zemlicka M, Kopčík M, Szabó P, Samuely T, Kačmarčík J, Neilinger P, Grajcar
M, Samuely P. 2020. Zeeman-driven superconductor-insulator transition in strongly
disordered MoC films: Scanning tunneling microscopy and transport studies in a
transverse magnetic field. Physical Review B. 102(18), 180508.'
mla: 'Zemlicka, Martin, et al. “Zeeman-Driven Superconductor-Insulator Transition
in Strongly Disordered MoC Films: Scanning Tunneling Microscopy and Transport
Studies in a Transverse Magnetic Field.” Physical Review B, vol. 102, no.
18, 180508, American Physical Society, 2020, doi:10.1103/PhysRevB.102.180508.'
short: M. Zemlicka, M. Kopčík, P. Szabó, T. Samuely, J. Kačmarčík, P. Neilinger,
M. Grajcar, P. Samuely, Physical Review B 102 (2020).
date_created: 2020-12-13T23:01:21Z
date_published: 2020-11-01T00:00:00Z
date_updated: 2025-07-10T12:01:27Z
day: '01'
department:
- _id: JoFi
doi: 10.1103/PhysRevB.102.180508
external_id:
arxiv:
- '2011.04329'
isi:
- '000591509900003'
intvolume: ' 102'
isi: 1
issue: '18'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2011.04329
month: '11'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Zeeman-driven superconductor-insulator transition in strongly disordered MoC
films: Scanning tunneling microscopy and transport studies in a transverse magnetic
field'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 102
year: '2020'
...
---
_id: '8949'
abstract:
- lang: eng
text: Development of the nervous system undergoes important transitions,
including one from neurogenesis to gliogenesis which occurs late during embryonic
gestation. Here we report on clonal analysis of gliogenesis in mice using Mosaic
Analysis with Double Markers (MADM) with quantitative and computational methods.
Results reveal that developmental gliogenesis in the cerebral cortex occurs in
a fraction of earlier neurogenic clones, accelerating around E16.5, and giving
rise to both astrocytes and oligodendrocytes. Moreover, MADM-based genetic deletion
of the epidermal growth factor receptor (Egfr) in gliogenic clones revealed that
Egfr is cell autonomously required for gliogenesis in the mouse dorsolateral cortices.
A broad range in the proliferation capacity, symmetry of clones, and competitive
advantage of MADM cells was evident in clones that contained one cellular lineage
with double dosage of Egfr relative to their environment, while their sibling
Egfr-null cells failed to generate glia. Remarkably, the total numbers of glia
in MADM clones balance out regardless of significant alterations in clonal symmetries.
The variability in glial clones shows stochastic patterns that we define mathematically,
which are different from the deterministic patterns in neuronal clones. This study
sets a foundation for studying the biological significance of stochastic and deterministic
clonal principles underlying tissue development, and identifying mechanisms that
differentiate between neurogenesis and gliogenesis.
acknowledgement: This research was funded by grants from the National Institutes of
Health to H.T.G. (R01NS098370 and R01NS089795). C.V.M. was supported by a National
Science Foundation Graduate Research Fellowship (DGE-1746939). R.B. was supported
by the FWF Lise-Meitner program (M 2416), and S.H. was supported by the European
Research Council (ERC) under the European Union’s Horizon 2020 research and innovation
programme (grant agreement No 725780 LinPro).The authors thank members of the Ghashghaei
lab for discussions, technical support, and help with preparation of the manuscript.
article_number: '2662'
article_processing_charge: No
article_type: original
author:
- first_name: Xuying
full_name: Zhang, Xuying
last_name: Zhang
- first_name: Christine V.
full_name: Mennicke, Christine V.
last_name: Mennicke
- first_name: Guanxi
full_name: Xiao, Guanxi
last_name: Xiao
- first_name: Robert J
full_name: Beattie, Robert J
id: 2E26DF60-F248-11E8-B48F-1D18A9856A87
last_name: Beattie
orcid: 0000-0002-8483-8753
- first_name: Mansoor
full_name: Haider, Mansoor
last_name: Haider
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: H. Troy
full_name: Ghashghaei, H. Troy
last_name: Ghashghaei
citation:
ama: Zhang X, Mennicke CV, Xiao G, et al. Clonal analysis of gliogenesis in the
cerebral cortex reveals stochastic expansion of glia and cell autonomous responses
to Egfr dosage. Cells. 2020;9(12). doi:10.3390/cells9122662
apa: Zhang, X., Mennicke, C. V., Xiao, G., Beattie, R. J., Haider, M., Hippenmeyer,
S., & Ghashghaei, H. T. (2020). Clonal analysis of gliogenesis in the cerebral
cortex reveals stochastic expansion of glia and cell autonomous responses to Egfr
dosage. Cells. MDPI. https://doi.org/10.3390/cells9122662
chicago: Zhang, Xuying, Christine V. Mennicke, Guanxi Xiao, Robert J Beattie, Mansoor
Haider, Simon Hippenmeyer, and H. Troy Ghashghaei. “Clonal Analysis of Gliogenesis
in the Cerebral Cortex Reveals Stochastic Expansion of Glia and Cell Autonomous
Responses to Egfr Dosage.” Cells. MDPI, 2020. https://doi.org/10.3390/cells9122662.
ieee: X. Zhang et al., “Clonal analysis of gliogenesis in the cerebral cortex
reveals stochastic expansion of glia and cell autonomous responses to Egfr dosage,”
Cells, vol. 9, no. 12. MDPI, 2020.
ista: Zhang X, Mennicke CV, Xiao G, Beattie RJ, Haider M, Hippenmeyer S, Ghashghaei
HT. 2020. Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic
expansion of glia and cell autonomous responses to Egfr dosage. Cells. 9(12),
2662.
mla: Zhang, Xuying, et al. “Clonal Analysis of Gliogenesis in the Cerebral Cortex
Reveals Stochastic Expansion of Glia and Cell Autonomous Responses to Egfr Dosage.”
Cells, vol. 9, no. 12, 2662, MDPI, 2020, doi:10.3390/cells9122662.
short: X. Zhang, C.V. Mennicke, G. Xiao, R.J. Beattie, M. Haider, S. Hippenmeyer,
H.T. Ghashghaei, Cells 9 (2020).
date_created: 2020-12-14T08:04:03Z
date_published: 2020-12-11T00:00:00Z
date_updated: 2025-06-12T07:02:43Z
day: '11'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.3390/cells9122662
ec_funded: 1
external_id:
isi:
- '000601787300001'
pmid:
- '33322301'
file:
- access_level: open_access
checksum: 5095cbdc728c9a510c5761cf60a8861c
content_type: application/pdf
creator: dernst
date_created: 2020-12-14T08:09:43Z
date_updated: 2020-12-14T08:09:43Z
file_id: '8950'
file_name: 2020_Cells_Zhang.pdf
file_size: 3504525
relation: main_file
success: 1
file_date_updated: 2020-12-14T08:09:43Z
has_accepted_license: '1'
intvolume: ' 9'
isi: 1
issue: '12'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 264E56E2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02416
name: Molecular Mechanisms Regulating Gliogenesis in the Neocortex
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Cells
publication_identifier:
issn:
- 2073-4409
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic expansion
of glia and cell autonomous responses to Egfr dosage
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: 9
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
corr_author: '1'
date_created: 2020-12-20T10:00:26Z
date_published: 2020-12-21T00:00:00Z
date_updated: 2025-06-12T06:36:16Z
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: '8955'
abstract:
- lang: eng
text: Skeletal muscle activity is continuously modulated across physiologic states
to provide coordination, flexibility and responsiveness to body tasks and external
inputs. Despite the central role the muscular system plays in facilitating vital
body functions, the network of brain-muscle interactions required to control hundreds
of muscles and synchronize their activation in relation to distinct physiologic
states has not been investigated. Recent approaches have focused on general associations
between individual brain rhythms and muscle activation during movement tasks.
However, the specific forms of coupling, the functional network of cortico-muscular
coordination, and how network structure and dynamics are modulated by autonomic
regulation across physiologic states remains unknown. To identify and quantify
the cortico-muscular interaction network and uncover basic features of neuro-autonomic
control of muscle function, we investigate the coupling between synchronous bursts
in cortical rhythms and peripheral muscle activation during sleep and wake. Utilizing
the concept of time delay stability and a novel network physiology approach, we
find that the brain-muscle network exhibits complex dynamic patterns of communication
involving multiple brain rhythms across cortical locations and different electromyographic
frequency bands. Moreover, our results show that during each physiologic state
the cortico-muscular network is characterized by a specific profile of network
links strength, where particular brain rhythms play role of main mediators of
interaction and control. Further, we discover a hierarchical reorganization in
network structure across physiologic states, with high connectivity and network
link strength during wake, intermediate during REM and light sleep, and low during
deep sleep, a sleep-stage stratification that demonstrates a unique association
between physiologic states and cortico-muscular network structure. The reported
empirical observations are consistent across individual subjects, indicating universal
behavior in network structure and dynamics, and high sensitivity of cortico-muscular
control to changes in autonomic regulation, even at low levels of physical activity
and muscle tone during sleep. Our findings demonstrate previously unrecognized
basic principles of brain-muscle network communication and control, and provide
new perspectives on the regulatory mechanisms of brain dynamics and locomotor
activation, with potential clinical implications for neurodegenerative, movement
and sleep disorders, and for developing efficient treatment strategies.
acknowledgement: We acknowledge support from the W. M. Keck Foundation, National Institutes
of Health (NIH Grant 1R01-HL098437), the US-Israel Binational Science Foundation
(BSF Grant 2012219), and the Office of Naval Research (ONR Grant 000141010078).
FL acknowledges support also from the European Union's Horizon 2020 research and
innovation program under the Marie Sklodowska-Curie Grant Agreement No. 754411.
article_number: '558070'
article_processing_charge: No
article_type: original
author:
- first_name: Rossella
full_name: Rizzo, Rossella
last_name: Rizzo
- first_name: Xiyun
full_name: Zhang, Xiyun
last_name: Zhang
- first_name: Jilin W.J.L.
full_name: Wang, Jilin W.J.L.
last_name: Wang
- first_name: Fabrizio
full_name: Lombardi, Fabrizio
id: A057D288-3E88-11E9-986D-0CF4E5697425
last_name: Lombardi
orcid: 0000-0003-2623-5249
- first_name: Plamen Ch
full_name: Ivanov, Plamen Ch
last_name: Ivanov
citation:
ama: Rizzo R, Zhang X, Wang JWJL, Lombardi F, Ivanov PC. Network physiology of cortico–muscular
interactions. Frontiers in Physiology. 2020;11. doi:10.3389/fphys.2020.558070
apa: Rizzo, R., Zhang, X., Wang, J. W. J. L., Lombardi, F., & Ivanov, P. C.
(2020). Network physiology of cortico–muscular interactions. Frontiers in Physiology.
Frontiers. https://doi.org/10.3389/fphys.2020.558070
chicago: Rizzo, Rossella, Xiyun Zhang, Jilin W.J.L. Wang, Fabrizio Lombardi, and
Plamen Ch Ivanov. “Network Physiology of Cortico–Muscular Interactions.” Frontiers
in Physiology. Frontiers, 2020. https://doi.org/10.3389/fphys.2020.558070.
ieee: R. Rizzo, X. Zhang, J. W. J. L. Wang, F. Lombardi, and P. C. Ivanov, “Network
physiology of cortico–muscular interactions,” Frontiers in Physiology,
vol. 11. Frontiers, 2020.
ista: Rizzo R, Zhang X, Wang JWJL, Lombardi F, Ivanov PC. 2020. Network physiology
of cortico–muscular interactions. Frontiers in Physiology. 11, 558070.
mla: Rizzo, Rossella, et al. “Network Physiology of Cortico–Muscular Interactions.”
Frontiers in Physiology, vol. 11, 558070, Frontiers, 2020, doi:10.3389/fphys.2020.558070.
short: R. Rizzo, X. Zhang, J.W.J.L. Wang, F. Lombardi, P.C. Ivanov, Frontiers in
Physiology 11 (2020).
date_created: 2020-12-20T23:01:18Z
date_published: 2020-11-26T00:00:00Z
date_updated: 2025-04-14T07:43:50Z
day: '26'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.3389/fphys.2020.558070
ec_funded: 1
external_id:
isi:
- '000596849400001'
pmid:
- '33324233'
file:
- access_level: open_access
checksum: ef9515b28c5619b7126c0f347958bcb3
content_type: application/pdf
creator: dernst
date_created: 2020-12-21T10:37:50Z
date_updated: 2020-12-21T10:37:50Z
file_id: '8961'
file_name: 2020_Frontiers_Rizzo.pdf
file_size: 13380030
relation: main_file
success: 1
file_date_updated: 2020-12-21T10:37:50Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Frontiers in Physiology
publication_identifier:
eissn:
- 1664042X
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Network physiology of cortico–muscular interactions
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2020'
...
---
_id: '8957'
abstract:
- lang: eng
text: Global tissue tension anisotropy has been shown to trigger stereotypical cell
division orientation by elongating mitotic cells along the main tension axis.
Yet, how tissue tension elongates mitotic cells despite those cells undergoing
mitotic rounding (MR) by globally upregulating cortical actomyosin tension remains
unclear. We addressed this question by taking advantage of ascidian embryos, consisting
of a small number of interphasic and mitotic blastomeres and displaying an invariant
division pattern. We found that blastomeres undergo MR by locally relaxing cortical
tension at their apex, thereby allowing extrinsic pulling forces from neighboring
interphasic blastomeres to polarize their shape and thus division orientation.
Consistently, interfering with extrinsic forces by reducing the contractility
of interphasic blastomeres or disrupting the establishment of asynchronous mitotic
domains leads to aberrant mitotic cell division orientations. Thus, apical relaxation
during MR constitutes a key mechanism by which tissue tension anisotropy controls
stereotypical cell division orientation.
acknowledged_ssus:
- _id: Bio
- _id: NanoFab
acknowledgement: 'We thank members of the Heisenberg and McDougall groups for technical
advice and discussion, Hitoyoshi Yasuo for sharing lab equipment, Lucas Leclère
and Hitoyoshi Yasuo for their comments on a preliminary version of the manuscript,
and Philippe Dru for the Rose plots. We are grateful to the Bioimaging and Nanofabrication
facilities of IST Austria and the Imaging Platform (PIM) and animal facility (CRB)
of Institut de la Mer de Villefranche (IMEV), which is supported by EMBRC-France,
whose French state funds are managed by the ANR within the Investments of the Future
program under reference ANR-10-INBS-0, for continuous support. This work was supported
by a grant from the French Government funding agency Agence National de la Recherche
(ANR “MorCell”: ANR-17-CE 13-002 8).'
article_processing_charge: No
article_type: original
author:
- first_name: Benoit G
full_name: Godard, Benoit G
id: 33280250-F248-11E8-B48F-1D18A9856A87
last_name: Godard
- first_name: Rémi
full_name: Dumollard, Rémi
last_name: Dumollard
- first_name: Edwin
full_name: Munro, Edwin
last_name: Munro
- first_name: Janet
full_name: Chenevert, Janet
last_name: Chenevert
- first_name: Céline
full_name: Hebras, Céline
last_name: Hebras
- first_name: Alex
full_name: Mcdougall, Alex
last_name: Mcdougall
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Godard BG, Dumollard R, Munro E, et al. Apical relaxation during mitotic rounding
promotes tension-oriented cell division. Developmental Cell. 2020;55(6):695-706.
doi:10.1016/j.devcel.2020.10.016
apa: Godard, B. G., Dumollard, R., Munro, E., Chenevert, J., Hebras, C., Mcdougall,
A., & Heisenberg, C.-P. J. (2020). Apical relaxation during mitotic rounding
promotes tension-oriented cell division. Developmental Cell. Elsevier.
https://doi.org/10.1016/j.devcel.2020.10.016
chicago: Godard, Benoit G, Rémi Dumollard, Edwin Munro, Janet Chenevert, Céline
Hebras, Alex Mcdougall, and Carl-Philipp J Heisenberg. “Apical Relaxation during
Mitotic Rounding Promotes Tension-Oriented Cell Division.” Developmental Cell.
Elsevier, 2020. https://doi.org/10.1016/j.devcel.2020.10.016.
ieee: B. G. Godard et al., “Apical relaxation during mitotic rounding promotes
tension-oriented cell division,” Developmental Cell, vol. 55, no. 6. Elsevier,
pp. 695–706, 2020.
ista: Godard BG, Dumollard R, Munro E, Chenevert J, Hebras C, Mcdougall A, Heisenberg
C-PJ. 2020. Apical relaxation during mitotic rounding promotes tension-oriented
cell division. Developmental Cell. 55(6), 695–706.
mla: Godard, Benoit G., et al. “Apical Relaxation during Mitotic Rounding Promotes
Tension-Oriented Cell Division.” Developmental Cell, vol. 55, no. 6, Elsevier,
2020, pp. 695–706, doi:10.1016/j.devcel.2020.10.016.
short: B.G. Godard, R. Dumollard, E. Munro, J. Chenevert, C. Hebras, A. Mcdougall,
C.-P.J. Heisenberg, Developmental Cell 55 (2020) 695–706.
corr_author: '1'
date_created: 2020-12-20T23:01:19Z
date_published: 2020-12-21T00:00:00Z
date_updated: 2025-07-10T12:01:28Z
day: '21'
department:
- _id: CaHe
doi: 10.1016/j.devcel.2020.10.016
external_id:
isi:
- '000600665700008'
pmid:
- '33207225'
intvolume: ' 55'
isi: 1
issue: '6'
language:
- iso: eng
month: '12'
oa_version: None
page: 695-706
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/relaxing-cell-divisions/
scopus_import: '1'
status: public
title: Apical relaxation during mitotic rounding promotes tension-oriented cell division
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2020'
...
---
_id: '8971'
abstract:
- lang: eng
text: The actin-related protein (Arp)2/3 complex nucleates branched actin filament
networks pivotal for cell migration, endocytosis and pathogen infection. Its activation
is tightly regulated and involves complex structural rearrangements and actin
filament binding, which are yet to be understood. Here, we report a 9.0 Å resolution
structure of the actin filament Arp2/3 complex branch junction in cells using
cryo-electron tomography and subtomogram averaging. This allows us to generate
an accurate model of the active Arp2/3 complex in the branch junction and its
interaction with actin filaments. Notably, our model reveals a previously undescribed
set of interactions of the Arp2/3 complex with the mother filament, significantly
different to the previous branch junction model. Our structure also indicates
a central role for the ArpC3 subunit in stabilizing the active conformation.
acknowledged_ssus:
- _id: ScienComp
- _id: LifeSc
- _id: Bio
- _id: EM-Fac
acknowledgement: "This research was supported by the Scientific Service Units (SSUs)
of IST Austria through resources provided by Scientific Computing (SciComp), the
Life Science Facility (LSF), the BioImaging Facility (BIF), and the Electron Microscopy
Facility (EMF). We also thank Dimitry Tegunov (MPI for Biophysical Chemistry) for
helpful discussions\r\nabout the M software, and Michael Sixt (IST Austria) and
Klemens Rottner (Technical University Braunschweig, HZI Braunschweig) for critical
reading of the manuscript. We also thank Gregory Voth (University of Chicago) for
providing us the MD-derived branch junction model for comparison. The authors acknowledge
support from IST Austria and from the Austrian Science Fund (FWF): M02495 to G.D.
and Austrian Science Fund (FWF): P33367 to F.K.M.S. "
article_number: '6437'
article_processing_charge: No
article_type: original
author:
- first_name: Florian
full_name: Fäßler, Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- first_name: Georgi A
full_name: Dimchev, Georgi A
id: 38C393BE-F248-11E8-B48F-1D18A9856A87
last_name: Dimchev
orcid: 0000-0001-8370-6161
- first_name: Victor-Valentin
full_name: Hodirnau, Victor-Valentin
id: 3661B498-F248-11E8-B48F-1D18A9856A87
last_name: Hodirnau
orcid: 0000-0003-3904-947X
- first_name: William
full_name: Wan, William
last_name: Wan
- 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: Fäßler F, Dimchev GA, Hodirnau V-V, Wan W, Schur FK. Cryo-electron tomography
structure of Arp2/3 complex in cells reveals new insights into the branch junction.
Nature Communications. 2020;11. doi:10.1038/s41467-020-20286-x
apa: Fäßler, F., Dimchev, G. A., Hodirnau, V.-V., Wan, W., & Schur, F. K. (2020).
Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights
into the branch junction. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-20286-x
chicago: Fäßler, Florian, Georgi A Dimchev, Victor-Valentin Hodirnau, William Wan,
and Florian KM Schur. “Cryo-Electron Tomography Structure of Arp2/3 Complex in
Cells Reveals New Insights into the Branch Junction.” Nature Communications.
Springer Nature, 2020. https://doi.org/10.1038/s41467-020-20286-x.
ieee: F. Fäßler, G. A. Dimchev, V.-V. Hodirnau, W. Wan, and F. K. Schur, “Cryo-electron
tomography structure of Arp2/3 complex in cells reveals new insights into the
branch junction,” Nature Communications, vol. 11. Springer Nature, 2020.
ista: Fäßler F, Dimchev GA, Hodirnau V-V, Wan W, Schur FK. 2020. Cryo-electron tomography
structure of Arp2/3 complex in cells reveals new insights into the branch junction.
Nature Communications. 11, 6437.
mla: Fäßler, Florian, et al. “Cryo-Electron Tomography Structure of Arp2/3 Complex
in Cells Reveals New Insights into the Branch Junction.” Nature Communications,
vol. 11, 6437, Springer Nature, 2020, doi:10.1038/s41467-020-20286-x.
short: F. Fäßler, G.A. Dimchev, V.-V. Hodirnau, W. Wan, F.K. Schur, Nature Communications
11 (2020).
corr_author: '1'
date_created: 2020-12-23T08:25:45Z
date_published: 2020-12-22T00:00:00Z
date_updated: 2025-04-15T07:52:12Z
day: '22'
ddc:
- '570'
department:
- _id: FlSc
- _id: EM-Fac
doi: 10.1038/s41467-020-20286-x
external_id:
isi:
- '000603078000003'
file:
- access_level: open_access
checksum: 55d43ea0061cc4027ba45e966e1db8cc
content_type: application/pdf
creator: dernst
date_created: 2020-12-28T08:16:10Z
date_updated: 2020-12-28T08:16:10Z
file_id: '8975'
file_name: 2020_NatureComm_Faessler.pdf
file_size: 3958727
relation: main_file
success: 1
file_date_updated: 2020-12-28T08:16:10Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
keyword:
- General Biochemistry
- Genetics and Molecular Biology
- General Physics and Astronomy
- General Chemistry
language:
- iso: eng
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
- _id: 2674F658-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: M02495
name: Protein structure and function in filopodia across scales
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/cutting-edge-technology-reveals-structures-within-cells/
scopus_import: '1'
status: public
title: Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights
into the branch junction
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 11
year: '2020'
...
---
_id: '8978'
abstract:
- lang: eng
text: "Mosaic analysis with double markers (MADM) technology enables concomitant
fluorescent cell labeling and induction of uniparental chromosome disomy (UPD)
with single-cell resolution. In UPD, imprinted genes are either overexpressed
2-fold or are not expressed. Here, the MADM platform is utilized to probe imprinting
phenotypes at the transcriptional level. This protocol highlights major steps
for the generation and isolation of projection neurons and astrocytes with MADM-induced
UPD from mouse cerebral cortex for downstream single-cell and low-input sample
RNA-sequencing experiments.\r\n\r\nFor complete details on the use and execution
of this protocol, please refer to Laukoter et al. (2020b)."
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: This research was supported by the Scientific Service Units (SSU)
at IST Austria through resources provided by the Bioimaging (BIF) and Preclinical
Facilities (PCF). N.A received support from the FWF Firnberg-Programm (T 1031).
This work was also supported by IST Austria institutional funds; FWF SFB F78 to
S.H.; NÖ Forschung und Bildung n[f+b] life science call grant (C13-002) to S.H.;
the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework
Programme (FP7/2007-2013) under REA grant agreement no. 618444 to S.H.; and the
European Research Council (ERC) under the European Union’s Horizon 2020 research
and innovation programme (grant agreement no. 725780 LinPro) to S.H.
article_number: '100215'
article_processing_charge: No
article_type: original
author:
- first_name: Susanne
full_name: Laukoter, Susanne
id: 2D6B7A9A-F248-11E8-B48F-1D18A9856A87
last_name: Laukoter
orcid: 0000-0002-7903-3010
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Florian
full_name: Pauler, Florian
id: 48EA0138-F248-11E8-B48F-1D18A9856A87
last_name: Pauler
orcid: 0000-0002-7462-0048
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Laukoter S, Amberg N, Pauler F, Hippenmeyer S. Generation and isolation of
single cells from mouse brain with mosaic analysis with double markers-induced
uniparental chromosome disomy. STAR Protocols. 2020;1(3). doi:10.1016/j.xpro.2020.100215
apa: Laukoter, S., Amberg, N., Pauler, F., & Hippenmeyer, S. (2020). Generation
and isolation of single cells from mouse brain with mosaic analysis with double
markers-induced uniparental chromosome disomy. STAR Protocols. Elsevier.
https://doi.org/10.1016/j.xpro.2020.100215
chicago: Laukoter, Susanne, Nicole Amberg, Florian Pauler, and Simon Hippenmeyer.
“Generation and Isolation of Single Cells from Mouse Brain with Mosaic Analysis
with Double Markers-Induced Uniparental Chromosome Disomy.” STAR Protocols.
Elsevier, 2020. https://doi.org/10.1016/j.xpro.2020.100215.
ieee: S. Laukoter, N. Amberg, F. Pauler, and S. Hippenmeyer, “Generation and isolation
of single cells from mouse brain with mosaic analysis with double markers-induced
uniparental chromosome disomy,” STAR Protocols, vol. 1, no. 3. Elsevier,
2020.
ista: Laukoter S, Amberg N, Pauler F, Hippenmeyer S. 2020. Generation and isolation
of single cells from mouse brain with mosaic analysis with double markers-induced
uniparental chromosome disomy. STAR Protocols. 1(3), 100215.
mla: Laukoter, Susanne, et al. “Generation and Isolation of Single Cells from Mouse
Brain with Mosaic Analysis with Double Markers-Induced Uniparental Chromosome
Disomy.” STAR Protocols, vol. 1, no. 3, 100215, Elsevier, 2020, doi:10.1016/j.xpro.2020.100215.
short: S. Laukoter, N. Amberg, F. Pauler, S. Hippenmeyer, STAR Protocols 1 (2020).
corr_author: '1'
date_created: 2020-12-30T10:17:07Z
date_published: 2020-12-18T00:00:00Z
date_updated: 2025-04-15T08:23:06Z
day: '18'
ddc:
- '570'
department:
- _id: SiHi
doi: 10.1016/j.xpro.2020.100215
ec_funded: 1
external_id:
pmid:
- '33377108'
file:
- access_level: open_access
checksum: f1e9a433e9cb0f41f7b6df6b76db1f6e
content_type: application/pdf
creator: dernst
date_created: 2021-01-07T15:57:27Z
date_updated: 2021-01-07T15:57:27Z
file_id: '8996'
file_name: 2020_STARProtocols_Laukoter.pdf
file_size: 4031449
relation: main_file
success: 1
file_date_updated: 2021-01-07T15:57:27Z
has_accepted_license: '1'
intvolume: ' 1'
issue: '3'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 268F8446-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T01031
name: Role of Eed in neural stem cell lineage progression
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
grant_number: F7805
name: Stem Cell Modulation in Neural Development and Regeneration/ P05-Molecular
Mechanisms of Neural Stem Cell Lineage Progression
- _id: 25D92700-B435-11E9-9278-68D0E5697425
grant_number: LS13-002
name: Mapping Cell-Type Specificity of the Genomic Imprintome in the Brain
- _id: 25D61E48-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618444'
name: Molecular Mechanisms of Cerebral Cortex Development
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: STAR Protocols
publication_identifier:
issn:
- 2666-1667
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Generation and isolation of single cells from mouse brain with mosaic analysis
with double markers-induced uniparental chromosome disomy
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: 1
year: '2020'
...
---
_id: '8987'
abstract:
- lang: eng
text: "Currently several projects aim at designing and implementing protocols for
privacy preserving automated contact tracing to help fight the current pandemic.
Those proposal are quite similar, and in their most basic form basically propose
an app for mobile phones which broadcasts frequently changing pseudorandom identifiers
via (low energy) Bluetooth, and at the same time, the app stores IDs broadcast
by phones in its proximity. Only if a user is tested positive, they upload either
the beacons they did broadcast (which is the case in decentralized proposals as
DP-3T, east and west coast PACT or Covid watch) or received (as in Popp-PT or
ROBERT) during the last two weeks or so.\r\n\r\nVaudenay [eprint 2020/399] observes
that this basic scheme (he considers the DP-3T proposal) succumbs to relay and
even replay attacks, and proposes more complex interactive schemes which prevent
those attacks without giving up too many privacy aspects. Unfortunately interaction
is problematic for this application for efficiency and security reasons. The countermeasures
that have been suggested so far are either not practical or give up on key privacy
aspects. We propose a simple non-interactive variant of the basic protocol that\r\n(security)
Provably prevents replay and (if location data is available) relay attacks.\r\n(privacy)
The data of all parties (even jointly) reveals no information on the location
or time where encounters happened.\r\n(efficiency) The broadcasted message can
fit into 128 bits and uses only basic crypto (commitments and secret key authentication).\r\n\r\nTowards
this end we introduce the concept of “delayed authentication”, which basically
is a message authentication code where verification can be done in two steps,
where the first doesn’t require the key, and the second doesn’t require the message."
article_processing_charge: No
author:
- 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: 'Pietrzak KZ. Delayed authentication: Preventing replay and relay attacks in
private contact tracing. In: Progress in Cryptology. Vol 12578. LNCS. Springer
Nature; 2020:3-15. doi:10.1007/978-3-030-65277-7_1'
apa: 'Pietrzak, K. Z. (2020). Delayed authentication: Preventing replay and relay
attacks in private contact tracing. In Progress in Cryptology (Vol. 12578,
pp. 3–15). Bangalore, India: Springer Nature. https://doi.org/10.1007/978-3-030-65277-7_1'
chicago: 'Pietrzak, Krzysztof Z. “Delayed Authentication: Preventing Replay and
Relay Attacks in Private Contact Tracing.” In Progress in Cryptology, 12578:3–15.
LNCS. Springer Nature, 2020. https://doi.org/10.1007/978-3-030-65277-7_1.'
ieee: 'K. Z. Pietrzak, “Delayed authentication: Preventing replay and relay attacks
in private contact tracing,” in Progress in Cryptology, Bangalore, India,
2020, vol. 12578, pp. 3–15.'
ista: 'Pietrzak KZ. 2020. Delayed authentication: Preventing replay and relay attacks
in private contact tracing. Progress in Cryptology. INDOCRYPT: International Conference
on Cryptology in IndiaLNCS vol. 12578, 3–15.'
mla: 'Pietrzak, Krzysztof Z. “Delayed Authentication: Preventing Replay and Relay
Attacks in Private Contact Tracing.” Progress in Cryptology, vol. 12578,
Springer Nature, 2020, pp. 3–15, doi:10.1007/978-3-030-65277-7_1.'
short: K.Z. Pietrzak, in:, Progress in Cryptology, Springer Nature, 2020, pp. 3–15.
conference:
end_date: 2020-12-16
location: Bangalore, India
name: 'INDOCRYPT: International Conference on Cryptology in India'
start_date: 2020-12-13
date_created: 2021-01-03T23:01:23Z
date_published: 2020-12-08T00:00:00Z
date_updated: 2026-04-16T09:33:26Z
day: '08'
department:
- _id: KrPi
doi: 10.1007/978-3-030-65277-7_1
ec_funded: 1
external_id:
isi:
- '000927592800001'
intvolume: ' 12578'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://eprint.iacr.org/2020/418
month: '12'
oa: 1
oa_version: Preprint
page: 3-15
project:
- _id: 258AA5B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '682815'
name: Teaching Old Crypto New Tricks
publication: Progress in Cryptology
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783030652760'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
series_title: LNCS
status: public
title: 'Delayed authentication: Preventing replay and relay attacks in private contact
tracing'
type: conference
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 12578
year: '2020'
...
---
_id: '9000'
abstract:
- lang: eng
text: 'In prokaryotes, thermodynamic models of gene regulation provide a highly
quantitative mapping from promoter sequences to gene-expression levels that is
compatible with in vivo and in vitro biophysical measurements. Such concordance
has not been achieved for models of enhancer function in eukaryotes. In equilibrium
models, it is difficult to reconcile the reported short transcription factor (TF)
residence times on the DNA with the high specificity of regulation. In nonequilibrium
models, progress is difficult due to an explosion in the number of parameters.
Here, we navigate this complexity by looking for minimal nonequilibrium enhancer
models that yield desired regulatory phenotypes: low TF residence time, high specificity,
and tunable cooperativity. We find that a single extra parameter, interpretable
as the “linking rate,” by which bound TFs interact with Mediator components, enables
our models to escape equilibrium bounds and access optimal regulatory phenotypes,
while remaining consistent with the reported phenomenology and simple enough to
be inferred from upcoming experiments. We further find that high specificity in
nonequilibrium models is in a trade-off with gene-expression noise, predicting
bursty dynamics—an experimentally observed hallmark of eukaryotic transcription.
By drastically reducing the vast parameter space of nonequilibrium enhancer models
to a much smaller subspace that optimally realizes biological function, we deliver
a rich class of models that could be tractably inferred from data in the near
future.'
acknowledgement: G.T. was supported by Human Frontiers Science Program Grant RGP0034/2018.
R.G. was supported by the Austrian Academy of Sciences DOC Fellowship. R.G. thanks
S. Avvakumov for helpful discussions.
article_processing_charge: No
article_type: original
author:
- first_name: Rok
full_name: Grah, Rok
id: 483E70DE-F248-11E8-B48F-1D18A9856A87
last_name: Grah
orcid: 0000-0003-2539-3560
- first_name: Benjamin
full_name: Zoller, Benjamin
last_name: Zoller
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: Grah R, Zoller B, Tkačik G. Nonequilibrium models of optimal enhancer function.
Proceedings of the National Academy of Sciences of the United States of America.
2020;117(50):31614-31622. doi:10.1073/pnas.2006731117
apa: Grah, R., Zoller, B., & Tkačik, G. (2020). Nonequilibrium models of optimal
enhancer function. Proceedings of the National Academy of Sciences of the United
States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.2006731117
chicago: Grah, Rok, Benjamin Zoller, and Gašper Tkačik. “Nonequilibrium Models of
Optimal Enhancer Function.” Proceedings of the National Academy of Sciences
of the United States of America. National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.2006731117.
ieee: R. Grah, B. Zoller, and G. Tkačik, “Nonequilibrium models of optimal enhancer
function,” Proceedings of the National Academy of Sciences of the United States
of America, vol. 117, no. 50. National Academy of Sciences, pp. 31614–31622,
2020.
ista: Grah R, Zoller B, Tkačik G. 2020. Nonequilibrium models of optimal enhancer
function. Proceedings of the National Academy of Sciences of the United States
of America. 117(50), 31614–31622.
mla: Grah, Rok, et al. “Nonequilibrium Models of Optimal Enhancer Function.” Proceedings
of the National Academy of Sciences of the United States of America, vol.
117, no. 50, National Academy of Sciences, 2020, pp. 31614–22, doi:10.1073/pnas.2006731117.
short: R. Grah, B. Zoller, G. Tkačik, Proceedings of the National Academy of Sciences
of the United States of America 117 (2020) 31614–31622.
corr_author: '1'
date_created: 2021-01-10T23:01:17Z
date_published: 2020-12-15T00:00:00Z
date_updated: 2025-05-14T10:57:50Z
day: '15'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.1073/pnas.2006731117
external_id:
isi:
- '000600608300015'
pmid:
- '33268497'
file:
- access_level: open_access
checksum: 69039cd402a571983aa6cb4815ffa863
content_type: application/pdf
creator: dernst
date_created: 2021-01-11T08:37:31Z
date_updated: 2021-01-11T08:37:31Z
file_id: '9004'
file_name: 2020_PNAS_Grah.pdf
file_size: 1199247
relation: main_file
success: 1
file_date_updated: 2021-01-11T08:37:31Z
has_accepted_license: '1'
intvolume: ' 117'
isi: 1
issue: '50'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 31614-31622
pmid: 1
project:
- _id: 2665AAFE-B435-11E9-9278-68D0E5697425
grant_number: RGP0034/2018
name: Can evolution minimize spurious signaling crosstalk to reach optimal performance?
- _id: 267C84F4-B435-11E9-9278-68D0E5697425
name: Biophysically realistic genotype-phenotype maps for regulatory networks
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/new-compact-model-for-gene-regulation-in-higher-organisms/
scopus_import: '1'
status: public
title: Nonequilibrium models of optimal enhancer function
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: 117
year: '2020'
...
---
_id: '9001'
abstract:
- lang: eng
text: Quantum illumination is a sensing technique that employs entangled signal-idler
beams to improve the detection efficiency of low-reflectivity objects in environments
with large thermal noise. The advantage over classical strategies is evident at
low signal brightness, a feature which could make the protocol an ideal prototype
for non-invasive scanning or low-power short-range radar. Here we experimentally
investigate the concept of quantum illumination at microwave frequencies, by generating
entangled fields using a Josephson parametric converter which are then amplified
to illuminate a room-temperature object at a distance of 1 meter. Starting from
experimental data, we simulate the case of perfect idler photon number detection,
which results in a quantum advantage compared to the relative classical benchmark.
Our results highlight the opportunities and challenges on the way towards a first
room-temperature application of microwave quantum circuits.
acknowledgement: "This work was supported by the Institute of Science and Technology
Austria (IST Austria), the European Research Council under grant agreement number
758053 (ERC StG QUNNECT) and the EU’s Horizon 2020 research and innovation programme
under grant agreement number 862644 (FET Open QUARTET). S.B. acknowledges support
from the Marie Skłodowska Curie\r\nfellowship number 707438 (MSC-IF SUPEREOM), DV
acknowledge support from EU’s Horizon 2020 research and innovation programme under
grant agreement number 732894 (FET Proactive HOT) and the Project QuaSeRT funded
by the QuantERA ERANET Cofund in Quantum Technologies, and J.M.F from the Austrian
Science Fund (FWF) through BeyondC (F71), a NOMIS foundation research grant, and
the EU’s Horizon 2020 research and\r\ninnovation programme under grant agreement
number 732894 (FET Proactive\r\nHOT)."
article_number: '9266397'
article_processing_charge: No
arxiv: 1
author:
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: Stefano
full_name: Pirandola, Stefano
last_name: Pirandola
- first_name: David
full_name: Vitali, David
last_name: Vitali
- first_name: Johannes M
full_name: Fink, Johannes M
id: 4B591CBA-F248-11E8-B48F-1D18A9856A87
last_name: Fink
orcid: 0000-0001-8112-028X
citation:
ama: 'Barzanjeh S, Pirandola S, Vitali D, Fink JM. Microwave quantum illumination
with a digital phase-conjugated receiver. In: IEEE National Radar Conference
- Proceedings. Vol 2020. IEEE; 2020. doi:10.1109/RadarConf2043947.2020.9266397'
apa: 'Barzanjeh, S., Pirandola, S., Vitali, D., & Fink, J. M. (2020). Microwave
quantum illumination with a digital phase-conjugated receiver. In IEEE National
Radar Conference - Proceedings (Vol. 2020). Florence, Italy: IEEE. https://doi.org/10.1109/RadarConf2043947.2020.9266397'
chicago: Barzanjeh, Shabir, Stefano Pirandola, David Vitali, and Johannes M Fink.
“Microwave Quantum Illumination with a Digital Phase-Conjugated Receiver.” In
IEEE National Radar Conference - Proceedings, Vol. 2020. IEEE, 2020. https://doi.org/10.1109/RadarConf2043947.2020.9266397.
ieee: S. Barzanjeh, S. Pirandola, D. Vitali, and J. M. Fink, “Microwave quantum
illumination with a digital phase-conjugated receiver,” in IEEE National Radar
Conference - Proceedings, Florence, Italy, 2020, vol. 2020, no. 9.
ista: 'Barzanjeh S, Pirandola S, Vitali D, Fink JM. 2020. Microwave quantum illumination
with a digital phase-conjugated receiver. IEEE National Radar Conference - Proceedings.
RadarConf: National Conference on Radar vol. 2020, 9266397.'
mla: Barzanjeh, Shabir, et al. “Microwave Quantum Illumination with a Digital Phase-Conjugated
Receiver.” IEEE National Radar Conference - Proceedings, vol. 2020, no.
9, 9266397, IEEE, 2020, doi:10.1109/RadarConf2043947.2020.9266397.
short: S. Barzanjeh, S. Pirandola, D. Vitali, J.M. Fink, in:, IEEE National Radar
Conference - Proceedings, IEEE, 2020.
conference:
end_date: 2020-09-25
location: Florence, Italy
name: 'RadarConf: National Conference on Radar'
start_date: 2020-09-21
date_created: 2021-01-10T23:01:17Z
date_published: 2020-09-21T00:00:00Z
date_updated: 2026-04-15T06:42:36Z
day: '21'
department:
- _id: JoFi
doi: 10.1109/RadarConf2043947.2020.9266397
ec_funded: 1
external_id:
arxiv:
- '1908.03058'
isi:
- '000612224900089'
intvolume: ' 2020'
isi: 1
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1908.03058
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: 26336814-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '758053'
name: A Fiber Optic Transceiver for Superconducting Qubits
- _id: 237CBA6C-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '862644'
name: Quantum readout techniques and technologies
- _id: 258047B6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '707438'
name: 'Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination
with cavity Optomechanics'
- _id: 257EB838-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '732894'
name: Hybrid Optomechanical Technologies
publication: IEEE National Radar Conference - Proceedings
publication_identifier:
isbn:
- '9781728189420'
issn:
- 1097-5659
publication_status: published
publisher: IEEE
quality_controlled: '1'
related_material:
record:
- id: '7910'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Microwave quantum illumination with a digital phase-conjugated receiver
type: conference
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 2020
year: '2020'
...
---
_id: '9011'
abstract:
- lang: eng
text: "Distributed ledgers provide high availability and integrity, making them
a key enabler for practical and secure computation of distributed workloads among
mutually distrustful parties. Many practical applications also require strong
confidentiality, however. This work enhances permissioned and permissionless blockchains
with the ability to manage confidential data without forfeiting availability or
decentralization. The proposed Calypso architecture addresses two orthogonal challenges
confronting modern distributed ledgers: (a) enabling the auditable management
of secrets and (b) protecting distributed computations against arbitrage attacks
when their results depend on the ordering and secrecy of inputs.\r\n\r\nCalypso
introduces on-chain secrets, a novel abstraction that enforces atomic deposition
of an auditable trace whenever users access confidential data. Calypso provides
user-controlled consent management that ensures revocation atomicity and accountable
anonymity. To enable permissionless deployment, we introduce an incentive scheme
and provide users with the option to select their preferred trustees. We evaluated
our Calypso prototype with a confidential document-sharing application and a decentralized
lottery. Our benchmarks show that transaction-processing latency increases linearly
in terms of security (number of trustees) and is in the range of 0.2 to 8 seconds
for 16 to 128 trustees."
acknowledgement: 'We thank Nicolas Gailly, Vincent Graf, Jean-Pierre Hubaux, Wouter
Lueks, Massimo Marelli, Carmela Troncoso, Juan-Ramón Troncoso Pastoriza, Frédéric
Pont, and Sandra Siby for their valuable feedback. This project was supported in
part by the ETH domain under PHRT grant #2017−201, and by the AXA Research Fund,
Byzgen, DFINITY, and the Swiss Data Science Center (SDSC).'
article_processing_charge: No
article_type: original
author:
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
orcid: 0000-0002-8827-3382
- first_name: Enis Ceyhun
full_name: Alp, Enis Ceyhun
last_name: Alp
- first_name: Linus
full_name: Gasser, Linus
last_name: Gasser
- first_name: Philipp
full_name: Jovanovic, Philipp
last_name: Jovanovic
- first_name: Ewa
full_name: Syta, Ewa
last_name: Syta
- first_name: Bryan
full_name: Ford, Bryan
last_name: Ford
citation:
ama: 'Kokoris Kogias E, Alp EC, Gasser L, Jovanovic P, Syta E, Ford B. CALYPSO:
Private data management for decentralized ledgers. Proceedings of the VLDB
Endowment. 2020;14(4):586-599. doi:10.14778/3436905.3436917'
apa: 'Kokoris Kogias, E., Alp, E. C., Gasser, L., Jovanovic, P., Syta, E., &
Ford, B. (2020). CALYPSO: Private data management for decentralized ledgers. Proceedings
of the VLDB Endowment. Association for Computing Machinery. https://doi.org/10.14778/3436905.3436917'
chicago: 'Kokoris Kogias, Eleftherios, Enis Ceyhun Alp, Linus Gasser, Philipp Jovanovic,
Ewa Syta, and Bryan Ford. “CALYPSO: Private Data Management for Decentralized
Ledgers.” Proceedings of the VLDB Endowment. Association for Computing
Machinery, 2020. https://doi.org/10.14778/3436905.3436917.'
ieee: 'E. Kokoris Kogias, E. C. Alp, L. Gasser, P. Jovanovic, E. Syta, and B. Ford,
“CALYPSO: Private data management for decentralized ledgers,” Proceedings of
the VLDB Endowment, vol. 14, no. 4. Association for Computing Machinery, pp.
586–599, 2020.'
ista: 'Kokoris Kogias E, Alp EC, Gasser L, Jovanovic P, Syta E, Ford B. 2020. CALYPSO:
Private data management for decentralized ledgers. Proceedings of the VLDB Endowment.
14(4), 586–599.'
mla: 'Kokoris Kogias, Eleftherios, et al. “CALYPSO: Private Data Management for
Decentralized Ledgers.” Proceedings of the VLDB Endowment, vol. 14, no.
4, Association for Computing Machinery, 2020, pp. 586–99, doi:10.14778/3436905.3436917.'
short: E. Kokoris Kogias, E.C. Alp, L. Gasser, P. Jovanovic, E. Syta, B. Ford, Proceedings
of the VLDB Endowment 14 (2020) 586–599.
corr_author: '1'
date_created: 2021-01-17T23:01:13Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2026-06-18T19:40:17Z
day: '01'
ddc:
- '000'
department:
- _id: ElKo
doi: 10.14778/3436905.3436917
external_id:
isi:
- '000658495400012'
intvolume: ' 14'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://dl.acm.org/doi/10.14778/3436905.3436917
month: '12'
oa: 1
oa_version: Published Version
page: 586-599
publication: Proceedings of the VLDB Endowment
publication_identifier:
eissn:
- 2150-8097
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'CALYPSO: Private data management for decentralized ledgers'
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: 14
year: '2020'
...
---
_id: '9039'
abstract:
- lang: eng
text: We give a short and self-contained proof for rates of convergence of the Allen--Cahn
equation towards mean curvature flow, assuming that a classical (smooth) solution
to the latter exists and starting from well-prepared initial data. Our approach
is based on a relative entropy technique. In particular, it does not require a
stability analysis for the linearized Allen--Cahn operator. As our analysis also
does not rely on the comparison principle, we expect it to be applicable to more
complex equations and systems.
acknowledgement: "This work was supported by the European Union's Horizon 2020 Research
and Innovation\r\nProgramme under Marie Sklodowska-Curie grant agreement 665385
and by the Deutsche\r\nForschungsgemeinschaft (DFG, German Research Foundation)
under Germany's Excellence Strategy, EXC-2047/1--390685813."
article_processing_charge: No
article_type: original
author:
- first_name: Julian L
full_name: Fischer, Julian L
id: 2C12A0B0-F248-11E8-B48F-1D18A9856A87
last_name: Fischer
orcid: 0000-0002-0479-558X
- first_name: Tim
full_name: Laux, Tim
last_name: Laux
- first_name: Theresa M.
full_name: Simon, Theresa M.
last_name: Simon
citation:
ama: 'Fischer JL, Laux T, Simon TM. Convergence rates of the Allen-Cahn equation
to mean curvature flow: A short proof based on relative entropies. SIAM Journal
on Mathematical Analysis. 2020;52(6):6222-6233. doi:10.1137/20M1322182'
apa: 'Fischer, J. L., Laux, T., & Simon, T. M. (2020). Convergence rates of
the Allen-Cahn equation to mean curvature flow: A short proof based on relative
entropies. SIAM Journal on Mathematical Analysis. Society for Industrial
and Applied Mathematics. https://doi.org/10.1137/20M1322182'
chicago: 'Fischer, Julian L, Tim Laux, and Theresa M. Simon. “Convergence Rates
of the Allen-Cahn Equation to Mean Curvature Flow: A Short Proof Based on Relative
Entropies.” SIAM Journal on Mathematical Analysis. Society for Industrial
and Applied Mathematics, 2020. https://doi.org/10.1137/20M1322182.'
ieee: 'J. L. Fischer, T. Laux, and T. M. Simon, “Convergence rates of the Allen-Cahn
equation to mean curvature flow: A short proof based on relative entropies,” SIAM
Journal on Mathematical Analysis, vol. 52, no. 6. Society for Industrial and
Applied Mathematics, pp. 6222–6233, 2020.'
ista: 'Fischer JL, Laux T, Simon TM. 2020. Convergence rates of the Allen-Cahn equation
to mean curvature flow: A short proof based on relative entropies. SIAM Journal
on Mathematical Analysis. 52(6), 6222–6233.'
mla: 'Fischer, Julian L., et al. “Convergence Rates of the Allen-Cahn Equation to
Mean Curvature Flow: A Short Proof Based on Relative Entropies.” SIAM Journal
on Mathematical Analysis, vol. 52, no. 6, Society for Industrial and Applied
Mathematics, 2020, pp. 6222–33, doi:10.1137/20M1322182.'
short: J.L. Fischer, T. Laux, T.M. Simon, SIAM Journal on Mathematical Analysis
52 (2020) 6222–6233.
corr_author: '1'
date_created: 2021-01-24T23:01:09Z
date_published: 2020-12-15T00:00:00Z
date_updated: 2025-07-10T12:01:32Z
day: '15'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1137/20M1322182
ec_funded: 1
external_id:
isi:
- '000600695200027'
file:
- access_level: open_access
checksum: 21aa1cf4c30a86a00cae15a984819b5d
content_type: application/pdf
creator: dernst
date_created: 2021-01-25T07:48:39Z
date_updated: 2021-01-25T07:48:39Z
file_id: '9041'
file_name: 2020_SIAM_Fischer.pdf
file_size: 310655
relation: main_file
success: 1
file_date_updated: 2021-01-25T07:48:39Z
has_accepted_license: '1'
intvolume: ' 52'
isi: 1
issue: '6'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 6222-6233
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: SIAM Journal on Mathematical Analysis
publication_identifier:
eissn:
- 1095-7154
issn:
- 0036-1410
publication_status: published
publisher: Society for Industrial and Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Convergence rates of the Allen-Cahn equation to mean curvature flow: A short
proof based on relative entropies'
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: 52
year: '2020'
...
---
_id: '9040'
abstract:
- lang: eng
text: Machine learning and formal methods have complimentary benefits and drawbacks.
In this work, we address the controller-design problem with a combination of techniques
from both fields. The use of black-box neural networks in deep reinforcement learning
(deep RL) poses a challenge for such a combination. Instead of reasoning formally
about the output of deep RL, which we call the wizard, we extract from it a decision-tree
based model, which we refer to as the magic book. Using the extracted model as
an intermediary, we are able to handle problems that are infeasible for either
deep RL or formal methods by themselves. First, we suggest, for the first time,
a synthesis procedure that is based on a magic book. We synthesize a stand-alone
correct-by-design controller that enjoys the favorable performance of RL. Second,
we incorporate a magic book in a bounded model checking (BMC) procedure. BMC allows
us to find numerous traces of the plant under the control of the wizard, which
a user can use to increase the trustworthiness of the wizard and direct further
training.
acknowledgement: This research was supported in part by the Austrian Science Fund
(FWF) under grant Z211-N23 (Wittgenstein Award).
article_processing_charge: No
author:
- first_name: Par Alizadeh
full_name: Alamdari, Par Alizadeh
last_name: Alamdari
- first_name: Guy
full_name: Avni, Guy
id: 463C8BC2-F248-11E8-B48F-1D18A9856A87
last_name: Avni
orcid: 0000-0001-5588-8287
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
- first_name: Anna
full_name: Lukina, Anna
id: CBA4D1A8-0FE8-11E9-BDE6-07BFE5697425
last_name: Lukina
citation:
ama: 'Alamdari PA, Avni G, Henzinger TA, Lukina A. Formal methods with a touch of
magic. In: Proceedings of the 20th Conference on Formal Methods in Computer-Aided
Design. TU Wien Academic Press; 2020:138-147. doi:10.34727/2020/isbn.978-3-85448-042-6_21'
apa: 'Alamdari, P. A., Avni, G., Henzinger, T. A., & Lukina, A. (2020). Formal
methods with a touch of magic. In Proceedings of the 20th Conference on Formal
Methods in Computer-Aided Design (pp. 138–147). Online Conference: TU Wien
Academic Press. https://doi.org/10.34727/2020/isbn.978-3-85448-042-6_21'
chicago: Alamdari, Par Alizadeh, Guy Avni, Thomas A Henzinger, and Anna Lukina.
“Formal Methods with a Touch of Magic.” In Proceedings of the 20th Conference
on Formal Methods in Computer-Aided Design, 138–47. TU Wien Academic Press,
2020. https://doi.org/10.34727/2020/isbn.978-3-85448-042-6_21.
ieee: P. A. Alamdari, G. Avni, T. A. Henzinger, and A. Lukina, “Formal methods with
a touch of magic,” in Proceedings of the 20th Conference on Formal Methods
in Computer-Aided Design, Online Conference, 2020, pp. 138–147.
ista: 'Alamdari PA, Avni G, Henzinger TA, Lukina A. 2020. Formal methods with a
touch of magic. Proceedings of the 20th Conference on Formal Methods in Computer-Aided
Design. FMCAD: Formal Methods in Computer-Aided Design, 138–147.'
mla: Alamdari, Par Alizadeh, et al. “Formal Methods with a Touch of Magic.” Proceedings
of the 20th Conference on Formal Methods in Computer-Aided Design, TU Wien
Academic Press, 2020, pp. 138–47, doi:10.34727/2020/isbn.978-3-85448-042-6_21.
short: P.A. Alamdari, G. Avni, T.A. Henzinger, A. Lukina, in:, Proceedings of the
20th Conference on Formal Methods in Computer-Aided Design, TU Wien Academic Press,
2020, pp. 138–147.
conference:
end_date: 2020-09-24
location: Online Conference
name: 'FMCAD: Formal Methods in Computer-Aided Design'
start_date: 2020-09-21
date_created: 2021-01-24T23:01:10Z
date_published: 2020-09-21T00:00:00Z
date_updated: 2025-07-10T12:01:32Z
day: '21'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.34727/2020/isbn.978-3-85448-042-6_21
file:
- access_level: open_access
checksum: d616d549a0ade78606b16f8a9540820f
content_type: application/pdf
creator: dernst
date_created: 2021-02-09T09:39:02Z
date_updated: 2021-02-09T09:39:02Z
file_id: '9109'
file_name: 2020_FMCAD_Alamdari.pdf
file_size: 990999
relation: main_file
success: 1
file_date_updated: 2021-02-09T09:39:02Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 138-147
project:
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: Formal methods for the design and analysis of complex systems
publication: Proceedings of the 20th Conference on Formal Methods in Computer-Aided
Design
publication_identifier:
eissn:
- 2708-7824
isbn:
- '9783854480426'
publication_status: published
publisher: TU Wien Academic Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Formal methods with a touch of magic
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '9054'
abstract:
- lang: eng
text: 'The fundamental and practical importance of particle stabilization has motivated
various characterization methods for studying polymer brushes on particle surfaces.
In this work, we show how one can perform sensitive measurements of neutral polymer
coating on colloidal particles using a commercial zetameter and salt solutions.
By systematically varying the Debye length, we study the mobility of the polymer-coated
particles in an applied electric field and show that the electrophoretic mobility
of polymer-coated particles normalized by the mobility of non-coated particles
is entirely controlled by the polymer brush and independent of the native surface
charge, here controlled with pH, or the surface–ion interaction. Our result is
rationalized with a simple hydrodynamic model, allowing for the estimation of
characteristics of the polymer coating: the brush length L, and the Brinkman length
ξ, determined by its resistance to flows. We demonstrate that the Debye layer
provides a convenient and faithful probe to the characterization of polymer coatings
on particles. Because the method simply relies on a conventional zetameter, it
is widely accessible and offers a practical tool to rapidly probe neutral polymer
brushes, an asset in the development and utilization of polymer-coated colloidal
particles.'
article_processing_charge: No
article_type: original
author:
- first_name: Mena
full_name: Youssef, Mena
last_name: Youssef
- first_name: Alexandre
full_name: Morin, Alexandre
last_name: Morin
- first_name: Antoine
full_name: Aubret, Antoine
last_name: Aubret
- first_name: Stefano
full_name: Sacanna, Stefano
last_name: Sacanna
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
citation:
ama: Youssef M, Morin A, Aubret A, Sacanna S, Palacci JA. Rapid characterization
of neutral polymer brush with a conventional zetameter and a variable pinch of
salt. Soft Matter. 2020;16(17):4274-4282. doi:10.1039/c9sm01850f
apa: Youssef, M., Morin, A., Aubret, A., Sacanna, S., & Palacci, J. A. (2020).
Rapid characterization of neutral polymer brush with a conventional zetameter
and a variable pinch of salt. Soft Matter. Royal Society of Chemistry .
https://doi.org/10.1039/c9sm01850f
chicago: Youssef, Mena, Alexandre Morin, Antoine Aubret, Stefano Sacanna, and Jérémie
A Palacci. “Rapid Characterization of Neutral Polymer Brush with a Conventional
Zetameter and a Variable Pinch of Salt.” Soft Matter. Royal Society of
Chemistry , 2020. https://doi.org/10.1039/c9sm01850f.
ieee: M. Youssef, A. Morin, A. Aubret, S. Sacanna, and J. A. Palacci, “Rapid characterization
of neutral polymer brush with a conventional zetameter and a variable pinch of
salt,” Soft Matter, vol. 16, no. 17. Royal Society of Chemistry , pp. 4274–4282,
2020.
ista: Youssef M, Morin A, Aubret A, Sacanna S, Palacci JA. 2020. Rapid characterization
of neutral polymer brush with a conventional zetameter and a variable pinch of
salt. Soft Matter. 16(17), 4274–4282.
mla: Youssef, Mena, et al. “Rapid Characterization of Neutral Polymer Brush with
a Conventional Zetameter and a Variable Pinch of Salt.” Soft Matter, vol.
16, no. 17, Royal Society of Chemistry , 2020, pp. 4274–82, doi:10.1039/c9sm01850f.
short: M. Youssef, A. Morin, A. Aubret, S. Sacanna, J.A. Palacci, Soft Matter 16
(2020) 4274–4282.
date_created: 2021-02-01T13:45:11Z
date_published: 2020-05-07T00:00:00Z
date_updated: 2023-02-23T13:47:45Z
day: '07'
doi: 10.1039/c9sm01850f
extern: '1'
external_id:
pmid:
- '32307507'
intvolume: ' 16'
issue: '17'
keyword:
- General Chemistry
- Condensed Matter Physics
language:
- iso: eng
month: '05'
oa_version: None
page: 4274-4282
pmid: 1
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rapid characterization of neutral polymer brush with a conventional zetameter
and a variable pinch of salt
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 16
year: '2020'
...
---
_id: '9059'
abstract:
- lang: eng
text: 'From rock salt to nanoparticle superlattices, complex structure can emerge
from simple building blocks that attract each other through Coulombic forces1-4.
On the micrometre scale, however, colloids in water defy the intuitively simple
idea of forming crystals from oppositely charged partners, instead forming non-equilibrium
structures such as clusters and gels5-7. Although various systems have been engineered
to grow binary crystals8-11, native surface charge in aqueous conditions has not
been used to assemble crystalline materials. Here we form ionic colloidal crystals
in water through an approach that we refer to as polymer-attenuated Coulombic
self-assembly. The key to crystallization is the use of a neutral polymer to keep
particles separated by well defined distances, allowing us to tune the attractive
overlap of electrical double layers, directing particles to disperse, crystallize
or become permanently fixed on demand. The nucleation and growth of macroscopic
single crystals is demonstrated by using the Debye screening length to fine-tune
assembly. Using a variety of colloidal particles and commercial polymers, ionic
colloidal crystals isostructural to caesium chloride, sodium chloride, aluminium
diboride and K4C60 are selected according to particle size ratios. Once fixed
by simply diluting out solution salts, crystals are pulled out of the water for
further manipulation, demonstrating an accurate translation from solution-phase
assembly to dried solid structures. In contrast to other assembly approaches,
in which particles must be carefully engineered to encode binding information12-18,
polymer-attenuated Coulombic self-assembly enables conventional colloids to be
used as model colloidal ions, primed for crystallization. '
article_processing_charge: No
article_type: original
author:
- first_name: Theodore
full_name: Hueckel, Theodore
last_name: Hueckel
- first_name: Glen M.
full_name: Hocky, Glen M.
last_name: Hocky
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: Stefano
full_name: Sacanna, Stefano
last_name: Sacanna
citation:
ama: Hueckel T, Hocky GM, Palacci JA, Sacanna S. Ionic solids from common colloids.
Nature. 2020;580(7804):487-490. doi:10.1038/s41586-020-2205-0
apa: Hueckel, T., Hocky, G. M., Palacci, J. A., & Sacanna, S. (2020). Ionic
solids from common colloids. Nature. Springer Nature. https://doi.org/10.1038/s41586-020-2205-0
chicago: Hueckel, Theodore, Glen M. Hocky, Jérémie A Palacci, and Stefano Sacanna.
“Ionic Solids from Common Colloids.” Nature. Springer Nature, 2020. https://doi.org/10.1038/s41586-020-2205-0.
ieee: T. Hueckel, G. M. Hocky, J. A. Palacci, and S. Sacanna, “Ionic solids from
common colloids,” Nature, vol. 580, no. 7804. Springer Nature, pp. 487–490,
2020.
ista: Hueckel T, Hocky GM, Palacci JA, Sacanna S. 2020. Ionic solids from common
colloids. Nature. 580(7804), 487–490.
mla: Hueckel, Theodore, et al. “Ionic Solids from Common Colloids.” Nature,
vol. 580, no. 7804, Springer Nature, 2020, pp. 487–90, doi:10.1038/s41586-020-2205-0.
short: T. Hueckel, G.M. Hocky, J.A. Palacci, S. Sacanna, Nature 580 (2020) 487–490.
date_created: 2021-02-02T13:30:50Z
date_published: 2020-04-23T00:00:00Z
date_updated: 2023-02-23T13:47:55Z
day: '23'
doi: 10.1038/s41586-020-2205-0
extern: '1'
external_id:
pmid:
- '32322078'
intvolume: ' 580'
issue: '7804'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '04'
oa_version: None
page: 487-490
pmid: 1
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ionic solids from common colloids
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 580
year: '2020'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '9067'
abstract:
- lang: eng
text: Gadolinium silicide (Gd5Si4) nanoparticles are an interesting class of materials
due to their high magnetization, low Curie temperature, low toxicity in biological
environments and their multifunctional properties. We report the magnetic and
magnetothermal properties of gadolinium silicide (Gd5Si4) nanoparticles prepared
by surfactant-assisted ball milling of arc melted bulk ingots of the compound.
Using different milling times and speeds, a wide range of crystallite sizes (13–43
nm) could be produced and a reduction in Curie temperature (TC) from 340 K to
317 K was achieved, making these nanoparticles suitable for self-controlled magnetic
hyperthermia applications. The magnetothermal effect was measured in applied AC
magnetic fields of amplitude 164–239 Oe and frequencies 163–519 kHz. All particles
showed magnetic heating with a strong dependence of the specific absorption rate
(SAR) on the average crystallite size. The highest SAR of 3.7 W g−1 was measured
for 43 nm sized nanoparticles of Gd5Si4. The high SAR and low TC, (within the
therapeutic range for magnetothermal therapy) makes the Gd5Si4 behave like self-regulating
heat switches that would be suitable for self-controlled magnetic hyperthermia
applications after biocompatibility and cytotoxicity tests.
article_processing_charge: No
article_type: original
author:
- first_name: Muhammad
full_name: Nauman, Muhammad
id: 32c21954-2022-11eb-9d5f-af9f93c24e71
last_name: Nauman
orcid: 0000-0002-2111-4846
- first_name: Muhammad Hisham
full_name: Alnasir, Muhammad Hisham
last_name: Alnasir
- first_name: Muhammad Asif
full_name: Hamayun, Muhammad Asif
last_name: Hamayun
- first_name: YiXu
full_name: Wang, YiXu
last_name: Wang
- first_name: Michael
full_name: Shatruk, Michael
last_name: Shatruk
- first_name: Sadia
full_name: Manzoor, Sadia
last_name: Manzoor
citation:
ama: Nauman M, Alnasir MH, Hamayun MA, Wang Y, Shatruk M, Manzoor S. Size-dependent
magnetic and magnetothermal properties of gadolinium silicide nanoparticles. RSC
Advances. 2020;10(47):28383-28389. doi:10.1039/d0ra05394e
apa: Nauman, M., Alnasir, M. H., Hamayun, M. A., Wang, Y., Shatruk, M., & Manzoor,
S. (2020). Size-dependent magnetic and magnetothermal properties of gadolinium
silicide nanoparticles. RSC Advances. Royal Society of Chemistry. https://doi.org/10.1039/d0ra05394e
chicago: Nauman, Muhammad, Muhammad Hisham Alnasir, Muhammad Asif Hamayun, YiXu
Wang, Michael Shatruk, and Sadia Manzoor. “Size-Dependent Magnetic and Magnetothermal
Properties of Gadolinium Silicide Nanoparticles.” RSC Advances. Royal Society
of Chemistry, 2020. https://doi.org/10.1039/d0ra05394e.
ieee: M. Nauman, M. H. Alnasir, M. A. Hamayun, Y. Wang, M. Shatruk, and S. Manzoor,
“Size-dependent magnetic and magnetothermal properties of gadolinium silicide
nanoparticles,” RSC Advances, vol. 10, no. 47. Royal Society of Chemistry,
pp. 28383–28389, 2020.
ista: Nauman M, Alnasir MH, Hamayun MA, Wang Y, Shatruk M, Manzoor S. 2020. Size-dependent
magnetic and magnetothermal properties of gadolinium silicide nanoparticles. RSC
Advances. 10(47), 28383–28389.
mla: Nauman, Muhammad, et al. “Size-Dependent Magnetic and Magnetothermal Properties
of Gadolinium Silicide Nanoparticles.” RSC Advances, vol. 10, no. 47, Royal
Society of Chemistry, 2020, pp. 28383–89, doi:10.1039/d0ra05394e.
short: M. Nauman, M.H. Alnasir, M.A. Hamayun, Y. Wang, M. Shatruk, S. Manzoor, RSC
Advances 10 (2020) 28383–28389.
date_created: 2021-02-02T15:51:23Z
date_published: 2020-07-29T00:00:00Z
date_updated: 2024-10-15T13:44:01Z
day: '29'
doi: 10.1039/d0ra05394e
extern: '1'
intvolume: ' 10'
issue: '47'
keyword:
- General Chemistry
- General Chemical Engineering
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1039/d0ra05394e
month: '07'
oa: 1
oa_version: Published Version
page: 28383-28389
publication: RSC Advances
publication_identifier:
issn:
- 2046-2069
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
status: public
title: Size-dependent magnetic and magnetothermal properties of gadolinium silicide
nanoparticles
type: journal_article
user_id: 0043cee0-e5fc-11ee-9736-f83bc23afbf0
volume: 10
year: '2020'
...
---
_id: '9069'
abstract:
- lang: eng
text: In the quest for alternate and efficient electrode materials, ternary metal
electrocatalysts (TMEs), part of the perovskite family, were synthesized and tested
for methanol electro-oxidation in alkaline media. La0.5Ca0.5MO3 (M = Ni, Co, or
Mn) was synthesized via sol-gel method. X-ray diffraction analysis revealed that
the perovskite crystal structure possesses characteristic sharp and crystalline
peaks for all synthesized ternary electrocatalysts. The average particle size
calculated using Debye–Scherrer equation was in the order of La0.5Ca0.5NiO3 (LCNO)
> La0.5Ca0.5CoO3 (LCCO)> La0.5Ca0.5MnO3 (LCMO). The elemental composition of as
prepared sample, LCCO was investigated via x-ray fluorescence spectroscopy. The
qualitative and quantitative analysis revealed the presence of La, Ca and Co in
parent crystal structure with percentage compositions of 9.0, 3.12 and 87.82%
respectively. The particle size distribution was homogenous, as determined by
scanning electron and transmission electron microscopes. The electrocatalytic
activity of the synthesized ternary electrocatalysts was studied electrochemically
by cyclic voltammetry. The calculated diffusion coefficient values showed that
electrode surface of LCNO and LCCO have limited efficiency for diffusion related
phenomenon. The heterogeneous rate constants inferred better electrode kinetics
of LCCO and LCNO which exhibited good electrocatalytic behavior; sharp anodic
peaks were observed in the potential range of +0.3 to 0.6 V and +0.6 to 0.8 V,
respectively. Methanol electro-oxidation was found minimal in case of LCMO sample.
We have observed that Co substitution at B-site of perovskite electrode materials
attains better electrochemical properties, thus in relation with reported literature.
article_number: 1250g6
article_processing_charge: No
article_type: original
author:
- first_name: Tayyaba
full_name: Hussain, Tayyaba
last_name: Hussain
- first_name: Muhammad
full_name: Nauman, Muhammad
id: 32c21954-2022-11eb-9d5f-af9f93c24e71
last_name: Nauman
orcid: 0000-0002-2111-4846
- first_name: Sana
full_name: Sabahat, Sana
last_name: Sabahat
- first_name: Saira
full_name: Arif, Saira
last_name: Arif
citation:
ama: Hussain T, Nauman M, Sabahat S, Arif S. Synthesis of ternary electrocatalysts
for exploration of methanol electro-oxidation in alkaline media. Materials
Research Express. 2020;6(12). doi:10.1088/2053-1591/ab6886
apa: Hussain, T., Nauman, M., Sabahat, S., & Arif, S. (2020). Synthesis of ternary
electrocatalysts for exploration of methanol electro-oxidation in alkaline media.
Materials Research Express. IOP Publishing. https://doi.org/10.1088/2053-1591/ab6886
chicago: Hussain, Tayyaba, Muhammad Nauman, Sana Sabahat, and Saira Arif. “Synthesis
of Ternary Electrocatalysts for Exploration of Methanol Electro-Oxidation in Alkaline
Media.” Materials Research Express. IOP Publishing, 2020. https://doi.org/10.1088/2053-1591/ab6886.
ieee: T. Hussain, M. Nauman, S. Sabahat, and S. Arif, “Synthesis of ternary electrocatalysts
for exploration of methanol electro-oxidation in alkaline media,” Materials
Research Express, vol. 6, no. 12. IOP Publishing, 2020.
ista: Hussain T, Nauman M, Sabahat S, Arif S. 2020. Synthesis of ternary electrocatalysts
for exploration of methanol electro-oxidation in alkaline media. Materials Research
Express. 6(12), 1250g6.
mla: Hussain, Tayyaba, et al. “Synthesis of Ternary Electrocatalysts for Exploration
of Methanol Electro-Oxidation in Alkaline Media.” Materials Research Express,
vol. 6, no. 12, 1250g6, IOP Publishing, 2020, doi:10.1088/2053-1591/ab6886.
short: T. Hussain, M. Nauman, S. Sabahat, S. Arif, Materials Research Express 6
(2020).
date_created: 2021-02-02T15:53:57Z
date_published: 2020-01-15T00:00:00Z
date_updated: 2021-02-04T07:21:35Z
day: '15'
doi: 10.1088/2053-1591/ab6886
extern: '1'
intvolume: ' 6'
issue: '12'
keyword:
- Electronic
- Optical and Magnetic Materials
- Surfaces
- Coatings and Films
- Polymers and Plastics
- Metals and Alloys
- Biomaterials
language:
- iso: eng
month: '01'
oa_version: None
publication: Materials Research Express
publication_identifier:
issn:
- 2053-1591
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
status: public
title: Synthesis of ternary electrocatalysts for exploration of methanol electro-oxidation
in alkaline media
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2020'
...
---
_id: '9096'
article_processing_charge: No
author:
- first_name: Paul
full_name: Schmid-Hempel, Paul
last_name: Schmid-Hempel
- first_name: Sylvia M
full_name: Cremer, Sylvia M
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: 'Schmid-Hempel P, Cremer S. Parasites and Pathogens. In: Starr C, ed. Encyclopedia
of Social Insects. Cham: Springer Nature; 2020. doi:10.1007/978-3-319-90306-4_94-1'
apa: 'Schmid-Hempel, P., & Cremer, S. (2020). Parasites and Pathogens. In C.
Starr (Ed.), Encyclopedia of Social Insects. Cham: Springer Nature. https://doi.org/10.1007/978-3-319-90306-4_94-1'
chicago: 'Schmid-Hempel, Paul, and Sylvia Cremer. “Parasites and Pathogens.” In
Encyclopedia of Social Insects, edited by C Starr. Cham: Springer Nature,
2020. https://doi.org/10.1007/978-3-319-90306-4_94-1.'
ieee: 'P. Schmid-Hempel and S. Cremer, “Parasites and Pathogens,” in Encyclopedia
of Social Insects, C. Starr, Ed. Cham: Springer Nature, 2020.'
ista: 'Schmid-Hempel P, Cremer S. 2020.Parasites and Pathogens. In: Encyclopedia
of Social Insects. .'
mla: Schmid-Hempel, Paul, and Sylvia Cremer. “Parasites and Pathogens.” Encyclopedia
of Social Insects, edited by C Starr, Springer Nature, 2020, doi:10.1007/978-3-319-90306-4_94-1.
short: P. Schmid-Hempel, S. Cremer, in:, C. Starr (Ed.), Encyclopedia of Social
Insects, Springer Nature, Cham, 2020.
date_created: 2021-02-05T12:15:18Z
date_published: 2020-02-22T00:00:00Z
date_updated: 2021-02-05T12:19:21Z
day: '22'
department:
- _id: SyCr
doi: 10.1007/978-3-319-90306-4_94-1
editor:
- first_name: C
full_name: Starr, C
last_name: Starr
language:
- iso: eng
month: '02'
oa_version: None
place: Cham
publication: Encyclopedia of Social Insects
publication_identifier:
isbn:
- '9783319903064'
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Parasites and Pathogens
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...