---
_id: '8997'
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.
acknowledgement: 'This work was supported in part by Tum stipend of Knafelj foundation
(to B.K.), Austrian Science Fund (FWF) standalone grants P 27201-B22 (to T.B.) and
P 28844(to G.T.), HFSP program Grant RGP0042/2013 (to T.B.), German Research Foundation
(DFG) individual grant BO 3502/2-1 (to T.B.), and German Research Foundation (DFG)
Collaborative Research Centre (SFB) 1310 (to T.B.). '
article_number: e1008529
article_processing_charge: Yes
article_type: original
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- first_name: Tobias
full_name: Bollenbach, Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
citation:
ama: Kavcic B, Tkačik G, Bollenbach MT. Minimal biophysical model of combined antibiotic
action. PLOS Computational Biology. 2021;17. doi:10.1371/journal.pcbi.1008529
apa: Kavcic, B., Tkačik, G., & Bollenbach, M. T. (2021). Minimal biophysical
model of combined antibiotic action. PLOS Computational Biology. Public
Library of Science. https://doi.org/10.1371/journal.pcbi.1008529
chicago: Kavcic, Bor, Gašper Tkačik, and Mark Tobias Bollenbach. “Minimal Biophysical
Model of Combined Antibiotic Action.” PLOS Computational Biology. Public
Library of Science, 2021. https://doi.org/10.1371/journal.pcbi.1008529.
ieee: B. Kavcic, G. Tkačik, and M. T. Bollenbach, “Minimal biophysical model of
combined antibiotic action,” PLOS Computational Biology, vol. 17. Public
Library of Science, 2021.
ista: Kavcic B, Tkačik G, Bollenbach MT. 2021. Minimal biophysical model of combined
antibiotic action. PLOS Computational Biology. 17, e1008529.
mla: Kavcic, Bor, et al. “Minimal Biophysical Model of Combined Antibiotic Action.”
PLOS Computational Biology, vol. 17, e1008529, Public Library of Science,
2021, doi:10.1371/journal.pcbi.1008529.
short: B. Kavcic, G. Tkačik, M.T. Bollenbach, PLOS Computational Biology 17 (2021).
date_created: 2021-01-08T07:16:18Z
date_published: 2021-01-07T00:00:00Z
date_updated: 2024-02-21T12:41:41Z
day: '07'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.1371/journal.pcbi.1008529
external_id:
isi:
- '000608045000010'
file:
- access_level: open_access
checksum: e29f2b42651bef8e034781de8781ffac
content_type: application/pdf
creator: dernst
date_created: 2021-02-04T12:30:48Z
date_updated: 2021-02-04T12:30:48Z
file_id: '9092'
file_name: 2021_PlosComBio_Kavcic.pdf
file_size: 3690053
relation: main_file
success: 1
file_date_updated: 2021-02-04T12:30:48Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
keyword:
- Modelling and Simulation
- Genetics
- Molecular Biology
- Antibiotics
- Drug interactions
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
- _id: 254E9036-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28844-B27
name: Biophysics of information processing in gene regulation
publication: PLOS Computational Biology
publication_identifier:
issn:
- 1553-7358
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
related_material:
record:
- id: '7673'
relation: earlier_version
status: public
- id: '8930'
relation: research_data
status: public
status: public
title: 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: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 17
year: '2021'
...
---
_id: '8999'
abstract:
- lang: eng
text: "In many basic shear flows, such as pipe, Couette, and channel flow, turbulence
does not\r\narise from an instability of the laminar state, and both dynamical
states co-exist. With decreasing flow speed (i.e., decreasing Reynolds number)
the fraction of fluid in laminar motion increases while turbulence recedes and
eventually the entire flow relaminarizes. The first step towards understanding
the nature of this transition is to determine if the phase change is of either
first or second order. In the former case, the turbulent fraction would drop discontinuously
to zero as the Reynolds number decreases while in the latter the process would
be continuous. For Couette flow, the flow between two parallel plates, earlier
studies suggest a discontinuous scenario. In the present study we realize a Couette
flow between two concentric cylinders which allows studies to be carried out in
large aspect ratios and for extensive observation times. The presented measurements
show that the transition in this circular Couette geometry is continuous suggesting
that former studies were limited by finite size effects. A further characterization
of this transition, in particular its relation to the directed percolation universality
class, requires even larger system sizes than presently available. "
acknowledgement: "This research was funded by the Central Research Development Fund
of the University of\r\nBremen grant number ZF04B /2019/FB04 Avila_Kerstin (“Independent
Project for Postdocs”). Shreyas Jalikop is acknowledged for recording some of the
lifetime measurements\r\n"
article_number: '58'
article_processing_charge: No
article_type: original
author:
- first_name: Kerstin
full_name: Avila, Kerstin
id: fcf74381-53e1-11eb-a6dc-b0e2acf78757
last_name: Avila
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Avila K, Hof B. Second-order phase transition in counter-rotating taylor-couette
flow experiment. Entropy. 2021;23(1). doi:10.3390/e23010058
apa: Avila, K., & Hof, B. (2021). Second-order phase transition in counter-rotating
taylor-couette flow experiment. Entropy. MDPI. https://doi.org/10.3390/e23010058
chicago: Avila, Kerstin, and Björn Hof. “Second-Order Phase Transition in Counter-Rotating
Taylor-Couette Flow Experiment.” Entropy. MDPI, 2021. https://doi.org/10.3390/e23010058.
ieee: K. Avila and B. Hof, “Second-order phase transition in counter-rotating taylor-couette
flow experiment,” Entropy, vol. 23, no. 1. MDPI, 2021.
ista: Avila K, Hof B. 2021. Second-order phase transition in counter-rotating taylor-couette
flow experiment. Entropy. 23(1), 58.
mla: Avila, Kerstin, and Björn Hof. “Second-Order Phase Transition in Counter-Rotating
Taylor-Couette Flow Experiment.” Entropy, vol. 23, no. 1, 58, MDPI, 2021,
doi:10.3390/e23010058.
short: K. Avila, B. Hof, Entropy 23 (2021).
date_created: 2021-01-10T23:01:17Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2023-08-07T13:31:07Z
day: '01'
ddc:
- '530'
department:
- _id: BjHo
doi: 10.3390/e23010058
external_id:
isi:
- '000610135400001'
pmid:
- '33396499'
file:
- access_level: open_access
checksum: 3ba3dd8b7eecff713b72c5e9ba30d626
content_type: application/pdf
creator: dernst
date_created: 2021-01-11T07:50:32Z
date_updated: 2021-01-11T07:50:32Z
file_id: '9003'
file_name: 2021_Entropy_Avila.pdf
file_size: 9456389
relation: main_file
success: 1
file_date_updated: 2021-01-11T07:50:32Z
has_accepted_license: '1'
intvolume: ' 23'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Entropy
publication_identifier:
eissn:
- 1099-4300
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Second-order phase transition in counter-rotating taylor-couette flow experiment
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: 23
year: '2021'
...
---
_id: '6965'
abstract:
- lang: eng
text: The central object of investigation of this paper is the Hirzebruch class,
a deformation of the Todd class, given by Hirzebruch (for smooth varieties). The
generalization for singular varieties is due to Brasselet–Schürmann–Yokura. Following
the work of Weber, we investigate its equivariant version for (possibly singular)
toric varieties. The local decomposition of the Hirzebruch class to the fixed
points of the torus action and a formula for the local class in terms of the defining
fan are recalled. After this review part, we prove the positivity of local Hirzebruch
classes for all toric varieties, thus proving false the alleged counterexample
given by Weber.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Kamil P
full_name: Rychlewicz, Kamil P
id: 85A07246-A8BF-11E9-B4FA-D9E3E5697425
last_name: Rychlewicz
citation:
ama: Rychlewicz KP. The positivity of local equivariant Hirzebruch class for toric
varieties. Bulletin of the London Mathematical Society. 2021;53(2):560-574.
doi:10.1112/blms.12442
apa: Rychlewicz, K. P. (2021). The positivity of local equivariant Hirzebruch class
for toric varieties. Bulletin of the London Mathematical Society. Wiley.
https://doi.org/10.1112/blms.12442
chicago: Rychlewicz, Kamil P. “The Positivity of Local Equivariant Hirzebruch Class
for Toric Varieties.” Bulletin of the London Mathematical Society. Wiley,
2021. https://doi.org/10.1112/blms.12442.
ieee: K. P. Rychlewicz, “The positivity of local equivariant Hirzebruch class for
toric varieties,” Bulletin of the London Mathematical Society, vol. 53,
no. 2. Wiley, pp. 560–574, 2021.
ista: Rychlewicz KP. 2021. The positivity of local equivariant Hirzebruch class
for toric varieties. Bulletin of the London Mathematical Society. 53(2), 560–574.
mla: Rychlewicz, Kamil P. “The Positivity of Local Equivariant Hirzebruch Class
for Toric Varieties.” Bulletin of the London Mathematical Society, vol.
53, no. 2, Wiley, 2021, pp. 560–74, doi:10.1112/blms.12442.
short: K.P. Rychlewicz, Bulletin of the London Mathematical Society 53 (2021) 560–574.
date_created: 2019-10-24T08:04:09Z
date_published: 2021-04-01T00:00:00Z
date_updated: 2023-08-04T10:43:39Z
day: '01'
department:
- _id: TaHa
doi: 10.1112/blms.12442
external_id:
arxiv:
- '1910.10435'
isi:
- '000594805800001'
intvolume: ' 53'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1910.10435
month: '04'
oa: 1
oa_version: Preprint
page: 560-574
publication: Bulletin of the London Mathematical Society
publication_identifier:
eissn:
- 1469-2120
issn:
- 0024-6093
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: The positivity of local equivariant Hirzebruch class for toric varieties
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 53
year: '2021'
...
---
_id: '6995'
abstract:
- lang: eng
text: Human brain organoids represent a powerful tool for the study of human neurological
diseases particularly those that impact brain growth and structure. However, many
neurological diseases lack obvious anatomical abnormalities, yet significantly
impact neural network functions, raising the question of whether organoids possess
sufficient neural network architecture and complexity to model these conditions.
Here, we explore the network level functions of brain organoids using calcium
sensor imaging and extracellular recording approaches that together reveal the
existence of complex oscillatory network behaviors reminiscent of intact brain
preparations. We further demonstrate strikingly abnormal epileptiform network
activity in organoids derived from a Rett Syndrome patient despite only modest
anatomical differences from isogenically matched controls, and rescue with an
unconventional neuromodulatory drug Pifithrin-α. Together, these findings provide
an essential foundation for the utilization of human brain organoids to study
intact and disordered human brain network formation and illustrate their utility
in therapeutic discovery.
acknowledgement: We thank S. Butler, T. Carmichael and members of the laboratory of
B.G.N. for helpful discussions and comments on the manuscript; N. Vishlaghi and
F. Turcios-Hernandez for technical assistance, and J. Lee, S.-K. Lee, H. Shinagawa
and K. Yoshikawa for valuable reagents. We also thank the UCLA Eli and Edythe Broad
Stem Cell Research Center (BSCRC) and Intellectual and Developmental Disabilities
Research Center microscopy cores for access to imaging facilities. This work was
supported by grants from the California Institute for Regenerative Medicine (CIRM)
(DISC1-08819 to B.G.N.), the National Institute of Health (R01NS089817, R01DA051897
and P50HD103557 to B.G.N.; K08NS119747 to R.A.S.; K99HD096105 to M.W.; R01MH123922,
R01MH121521 and P50HD103557 to M.J.G.; R01GM099134 to K.P.; R01NS103788 to W.E.L.;
R01NS088571 to J.M.P.; R01NS030549 and R01AG050474 to I.M.), and research awards
from the UCLA Jonsson Comprehensive Cancer Center and BSCRC Ablon Scholars Program
(to B.G.N.), the BSCRC Innovation Program (to B.G.N., K.P. and W.E.L.), the UCLA
BSCRC Steffy Brain Aging Research Fund (to B.G.N. and W.E.L.) and the UCLA Clinical
and Translational Science Institute (to B.G.N.), Paul Allen Family Foundation Frontiers
Group (to K.P. and W.E.L.), the March of Dimes Foundation (to W.E.L.) and the Simons
Foundation Autism Research Initiative Bridge to Independence Program (to R.A.S.
and M.J.G.). R.A.S. was also supported by the UCLA/NINDS Translational Neuroscience
Training Grant (R25NS065723), a Research and Training Fellowship from the American
Epilepsy Society, a Taking Flight Award from CURE Epilepsy and a Clinician Scientist
training award from the UCLA BSCRC. J.E.B. was supported by the UCLA BSCRC Rose
Hills Foundation Graduate Scholarship Training Program. M.W. was supported by postdoctoral
training awards provided by the UCLA BSCRC and the Uehara Memorial Foundation. O.A.M.
and A.K. were supported in part by the UCLA-California State University Northridge
CIRM-Bridges training program (EDUC2-08411). We also acknowledge the support of
the IDDRC Cells, Circuits and Systems Analysis, Microscopy and Genetics and Genomics
Cores of the Semel Institute of Neuroscience at UCLA, which are supported by the
NICHD (U54HD087101 and P50HD10355701). We lastly acknowledge support from a Quantitative
and Computational Biosciences Collaboratory Postdoctoral Fellowship to S.M. and
the Quantitative and Computational Biosciences Collaboratory community, directed
by M. Pellegrini.
alternative_title:
- Nature Neuroscience
article_processing_charge: Yes
author:
- first_name: Ranmal A.
full_name: Samarasinghe, Ranmal A.
last_name: Samarasinghe
- first_name: Osvaldo
full_name: Miranda, Osvaldo
id: 862A3C56-A8BF-11E9-B4FA-D9E3E5697425
last_name: Miranda
orcid: 0000-0001-6618-6889
- first_name: Jessie E.
full_name: Buth, Jessie E.
last_name: Buth
- first_name: Simon
full_name: Mitchell, Simon
last_name: Mitchell
- first_name: Isabella
full_name: Ferando, Isabella
last_name: Ferando
- first_name: Momoko
full_name: Watanabe, Momoko
last_name: Watanabe
- first_name: Arinnae
full_name: Kurdian, Arinnae
last_name: Kurdian
- first_name: Peyman
full_name: Golshani, Peyman
last_name: Golshani
- first_name: Kathrin
full_name: Plath, Kathrin
last_name: Plath
- first_name: William E.
full_name: Lowry, William E.
last_name: Lowry
- first_name: Jack M.
full_name: Parent, Jack M.
last_name: Parent
- first_name: Istvan
full_name: Mody, Istvan
last_name: Mody
- first_name: Bennett G.
full_name: Novitch, Bennett G.
last_name: Novitch
citation:
ama: Samarasinghe RA, Miranda O, Buth JE, et al. Identification of Neural Oscillations
and Epileptiform Changes in Human Brain Organoids. Vol 24. Springer Nature;
2021. doi:10.1038/s41593-021-00906-5
apa: Samarasinghe, R. A., Miranda, O., Buth, J. E., Mitchell, S., Ferando, I., Watanabe,
M., … Novitch, B. G. (2021). Identification of neural oscillations and epileptiform
changes in human brain organoids (Vol. 24). Springer Nature. https://doi.org/10.1038/s41593-021-00906-5
chicago: Samarasinghe, Ranmal A., Osvaldo Miranda, Jessie E. Buth, Simon Mitchell,
Isabella Ferando, Momoko Watanabe, Arinnae Kurdian, et al. Identification of
Neural Oscillations and Epileptiform Changes in Human Brain Organoids. Vol.
24. Springer Nature, 2021. https://doi.org/10.1038/s41593-021-00906-5.
ieee: R. A. Samarasinghe et al., Identification of neural oscillations
and epileptiform changes in human brain organoids, vol. 24. Springer Nature,
2021.
ista: Samarasinghe RA, Miranda O, Buth JE, Mitchell S, Ferando I, Watanabe M, Kurdian
A, Golshani P, Plath K, Lowry WE, Parent JM, Mody I, Novitch BG. 2021. Identification
of neural oscillations and epileptiform changes in human brain organoids, Springer
Nature, 32p.
mla: Samarasinghe, Ranmal A., et al. Identification of Neural Oscillations and
Epileptiform Changes in Human Brain Organoids. Vol. 24, Springer Nature, 2021,
doi:10.1038/s41593-021-00906-5.
short: R.A. Samarasinghe, O. Miranda, J.E. Buth, S. Mitchell, I. Ferando, M. Watanabe,
A. Kurdian, P. Golshani, K. Plath, W.E. Lowry, J.M. Parent, I. Mody, B.G. Novitch,
Identification of Neural Oscillations and Epileptiform Changes in Human Brain
Organoids, Springer Nature, 2021.
date_created: 2019-11-10T11:23:58Z
date_published: 2021-08-23T00:00:00Z
date_updated: 2023-08-04T10:49:44Z
day: '23'
department:
- _id: GradSch
- _id: SiHi
doi: 10.1038/s41593-021-00906-5
external_id:
isi:
- '000687516300001'
pmid:
- '34426698 '
intvolume: ' 24'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41593-021-00906-5
month: '08'
oa: 1
oa_version: Published Version
page: '32'
pmid: 1
publication_identifier:
eissn:
- 1546-1726
issn:
- 1097-6256
publication_status: published
publisher: Springer Nature
status: public
title: Identification of neural oscillations and epileptiform changes in human brain
organoids
type: technical_report
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 24
year: '2021'
...
---
_id: '7463'
abstract:
- lang: eng
text: Resting-state brain activity is characterized by the presence of neuronal
avalanches showing absence of characteristic size. Such evidence has been interpreted
in the context of criticality and associated with the normal functioning of the
brain. A distinctive attribute of systems at criticality is the presence of long-range
correlations. Thus, to verify the hypothesis that the brain operates close to
a critical point and consequently assess deviations from criticality for diagnostic
purposes, it is of primary importance to robustly and reliably characterize correlations
in resting-state brain activity. Recent works focused on the analysis of narrow-band
electroencephalography (EEG) and magnetoencephalography (MEG) signal amplitude
envelope, showing evidence of long-range temporal correlations (LRTC) in neural
oscillations. However, brain activity is a broadband phenomenon, and a significant
piece of information useful to precisely discriminate between normal (critical)
and pathological behavior (non-critical), may be encoded in the broadband spatio-temporal
cortical dynamics. Here we propose to characterize the temporal correlations in
the broadband brain activity through the lens of neuronal avalanches. To this
end, we consider resting-state EEG and long-term MEG recordings, extract the corresponding
neuronal avalanche sequences, and study their temporal correlations. We demonstrate
that the broadband resting-state brain activity consistently exhibits long-range
power-law correlations in both EEG and MEG recordings, with similar values of
the scaling exponents. Importantly, although we observe that the avalanche size
distribution depends on scale parameters, scaling exponents characterizing long-range
correlations are quite robust. In particular, they are independent of the temporal
binning (scale of analysis), indicating that our analysis captures intrinsic characteristics
of the underlying dynamics. Because neuronal avalanches constitute a fundamental
feature of neural systems with universal characteristics, the proposed approach
may serve as a general, systems- and experiment-independent procedure to infer
the existence of underlying long-range correlations in extended neural systems,
and identify pathological behaviors in the complex spatio-temporal interplay of
cortical rhythms.
acknowledgement: LdA would like to acknowledge the financial support from MIUR-PRIN2017
WZFTZP and VALERE:VAnviteLli pEr la RicErca 2019. FL acknowledges support from the
European Union’s Horizon 2020 research and innovation programme under the Marie
Sklodowska-Curie Grant Agreement No. 754411. HJH would like to thank the Agencies
CAPES and FUNCAP for financial support.
article_processing_charge: No
article_type: original
author:
- first_name: Fabrizio
full_name: Lombardi, Fabrizio
id: A057D288-3E88-11E9-986D-0CF4E5697425
last_name: Lombardi
orcid: 0000-0003-2623-5249
- first_name: Oren
full_name: Shriki, Oren
last_name: Shriki
- first_name: Hans J
full_name: Herrmann, Hans J
last_name: Herrmann
- first_name: Lucilla
full_name: de Arcangelis, Lucilla
last_name: de Arcangelis
citation:
ama: Lombardi F, Shriki O, Herrmann HJ, de Arcangelis L. Long-range temporal correlations
in the broadband resting state activity of the human brain revealed by neuronal
avalanches. Neurocomputing. 2021;461:657-666. doi:10.1016/j.neucom.2020.05.126
apa: Lombardi, F., Shriki, O., Herrmann, H. J., & de Arcangelis, L. (2021).
Long-range temporal correlations in the broadband resting state activity of the
human brain revealed by neuronal avalanches. Neurocomputing. Elsevier.
https://doi.org/10.1016/j.neucom.2020.05.126
chicago: Lombardi, Fabrizio, Oren Shriki, Hans J Herrmann, and Lucilla de Arcangelis.
“Long-Range Temporal Correlations in the Broadband Resting State Activity of the
Human Brain Revealed by Neuronal Avalanches.” Neurocomputing. Elsevier,
2021. https://doi.org/10.1016/j.neucom.2020.05.126.
ieee: F. Lombardi, O. Shriki, H. J. Herrmann, and L. de Arcangelis, “Long-range
temporal correlations in the broadband resting state activity of the human brain
revealed by neuronal avalanches,” Neurocomputing, vol. 461. Elsevier, pp.
657–666, 2021.
ista: Lombardi F, Shriki O, Herrmann HJ, de Arcangelis L. 2021. Long-range temporal
correlations in the broadband resting state activity of the human brain revealed
by neuronal avalanches. Neurocomputing. 461, 657–666.
mla: Lombardi, Fabrizio, et al. “Long-Range Temporal Correlations in the Broadband
Resting State Activity of the Human Brain Revealed by Neuronal Avalanches.” Neurocomputing,
vol. 461, Elsevier, 2021, pp. 657–66, doi:10.1016/j.neucom.2020.05.126.
short: F. Lombardi, O. Shriki, H.J. Herrmann, L. de Arcangelis, Neurocomputing 461
(2021) 657–666.
date_created: 2020-02-06T16:09:14Z
date_published: 2021-05-13T00:00:00Z
date_updated: 2023-08-04T10:46:29Z
day: '13'
department:
- _id: GaTk
doi: 10.1016/j.neucom.2020.05.126
ec_funded: 1
external_id:
isi:
- '000704086300015'
intvolume: ' 461'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2020.02.03.930966
month: '05'
oa: 1
oa_version: Preprint
page: 657-666
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Neurocomputing
publication_identifier:
eissn:
- 1872-8286
issn:
- 0925-2312
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Long-range temporal correlations in the broadband resting state activity of
the human brain revealed by neuronal avalanches
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 461
year: '2021'
...
---
_id: '7551'
abstract:
- lang: eng
text: Novelty facilitates formation of memories. The detection of novelty and storage
of contextual memories are both mediated by the hippocampus, yet the mechanisms
that link these two functions remain to be defined. Dentate granule cells (GCs)
of the dorsal hippocampus fire upon novelty exposure forming engrams of contextual
memory. However, their key excitatory inputs from the entorhinal cortex are not
responsive to novelty and are insufficient to make dorsal GCs fire reliably. Here
we uncover a powerful glutamatergic pathway to dorsal GCs from ventral hippocampal
mossy cells (MCs) that relays novelty, and is necessary and sufficient for driving
dorsal GCs activation. Furthermore, manipulation of ventral MCs activity bidirectionally
regulates novelty-induced contextual memory acquisition. Our results show that
ventral MCs activity controls memory formation through an intra-hippocampal interaction
mechanism gated by novelty.
acknowledgement: We thank Peter Jonas and Peter Somogyi for critically reading the
manuscript, Satoshi Kida for helpful discussion, Taijia Makinen for providing the
Prox1-creERT2 mouse line, and Hiromu Yawo for the VAMP2-Venus construct. We also
thank Vivek Jayaraman, Ph.D.; Rex A. Kerr, Ph.D.; Douglas S. Kim, Ph.D.; Loren L.
Looger, Ph.D.; and Karel Svoboda, Ph.D. from the GENIE Project, Janelia Farm Research
Campus, Howard Hughes Medical Institute for the viral constructs used for GCaMP6s
expression. We also thank Jacqueline Montanaro, Vanessa Zheden, David Kleindienst,
and Laura Burnett for technical assistance, as well as Robert Beattie for imaging
assistance. This work was supported by a European Research Council Advanced Grant
694539 to R.S.
article_processing_charge: No
article_type: original
author:
- first_name: Felipe A
full_name: Fredes Tolorza, Felipe A
id: 384825DA-F248-11E8-B48F-1D18A9856A87
last_name: Fredes Tolorza
- first_name: Maria A
full_name: Silva Sifuentes, Maria A
id: 371B3D6E-F248-11E8-B48F-1D18A9856A87
last_name: Silva Sifuentes
- first_name: Peter
full_name: Koppensteiner, Peter
id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
last_name: Koppensteiner
- first_name: Kenta
full_name: Kobayashi, Kenta
last_name: Kobayashi
- first_name: Maximilian A
full_name: Jösch, Maximilian A
id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
last_name: Jösch
orcid: 0000-0002-3937-1330
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Fredes Tolorza FA, Silva Sifuentes MA, Koppensteiner P, Kobayashi K, Jösch
MA, Shigemoto R. Ventro-dorsal hippocampal pathway gates novelty-induced contextual
memory formation. Current Biology. 2021;31(1):P25-38.E5. doi:10.1016/j.cub.2020.09.074
apa: Fredes Tolorza, F. A., Silva Sifuentes, M. A., Koppensteiner, P., Kobayashi,
K., Jösch, M. A., & Shigemoto, R. (2021). Ventro-dorsal hippocampal pathway
gates novelty-induced contextual memory formation. Current Biology. Elsevier.
https://doi.org/10.1016/j.cub.2020.09.074
chicago: Fredes Tolorza, Felipe A, Maria A Silva Sifuentes, Peter Koppensteiner,
Kenta Kobayashi, Maximilian A Jösch, and Ryuichi Shigemoto. “Ventro-Dorsal Hippocampal
Pathway Gates Novelty-Induced Contextual Memory Formation.” Current Biology.
Elsevier, 2021. https://doi.org/10.1016/j.cub.2020.09.074.
ieee: F. A. Fredes Tolorza, M. A. Silva Sifuentes, P. Koppensteiner, K. Kobayashi,
M. A. Jösch, and R. Shigemoto, “Ventro-dorsal hippocampal pathway gates novelty-induced
contextual memory formation,” Current Biology, vol. 31, no. 1. Elsevier,
p. P25–38.E5, 2021.
ista: Fredes Tolorza FA, Silva Sifuentes MA, Koppensteiner P, Kobayashi K, Jösch
MA, Shigemoto R. 2021. Ventro-dorsal hippocampal pathway gates novelty-induced
contextual memory formation. Current Biology. 31(1), P25–38.E5.
mla: Fredes Tolorza, Felipe A., et al. “Ventro-Dorsal Hippocampal Pathway Gates
Novelty-Induced Contextual Memory Formation.” Current Biology, vol. 31,
no. 1, Elsevier, 2021, p. P25–38.E5, doi:10.1016/j.cub.2020.09.074.
short: F.A. Fredes Tolorza, M.A. Silva Sifuentes, P. Koppensteiner, K. Kobayashi,
M.A. Jösch, R. Shigemoto, Current Biology 31 (2021) P25–38.E5.
date_created: 2020-02-28T10:56:18Z
date_published: 2021-01-11T00:00:00Z
date_updated: 2023-08-04T10:47:11Z
day: '11'
ddc:
- '570'
department:
- _id: MaJö
- _id: RySh
doi: 10.1016/j.cub.2020.09.074
ec_funded: 1
external_id:
isi:
- '000614361000020'
file:
- access_level: open_access
checksum: b7b9c8bc84a08befce365c675229a7d1
content_type: application/pdf
creator: dernst
date_created: 2020-10-19T13:31:28Z
date_updated: 2020-10-19T13:31:28Z
file_id: '8678'
file_name: 2021_CurrentBiology_Fredes.pdf
file_size: 4915964
relation: main_file
success: 1
file_date_updated: 2020-10-19T13:31:28Z
has_accepted_license: '1'
intvolume: ' 31'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: P25-38.E5
project:
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
publication: Current Biology
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/remembering-novelty/
status: public
title: Ventro-dorsal hippocampal pathway gates novelty-induced contextual memory formation
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 31
year: '2021'
...
---
_id: '7553'
abstract:
- lang: eng
text: Normative theories and statistical inference provide complementary approaches
for the study of biological systems. A normative theory postulates that organisms
have adapted to efficiently solve essential tasks, and proceeds to mathematically
work out testable consequences of such optimality; parameters that maximize the
hypothesized organismal function can be derived ab initio, without reference to
experimental data. In contrast, statistical inference focuses on efficient utilization
of data to learn model parameters, without reference to any a priori notion of
biological function, utility, or fitness. Traditionally, these two approaches
were developed independently and applied separately. Here we unify them in a coherent
Bayesian framework that embeds a normative theory into a family of maximum-entropy
“optimization priors.” This family defines a smooth interpolation between a data-rich
inference regime (characteristic of “bottom-up” statistical models), and a data-limited
ab inito prediction regime (characteristic of “top-down” normative theory). We
demonstrate the applicability of our framework using data from the visual cortex,
and argue that the flexibility it affords is essential to address a number of
fundamental challenges relating to inference and prediction in complex, high-dimensional
biological problems.
acknowledgement: The authors thank Dario Ringach for providing the V1 receptive fields
and Olivier Marre for providing the retinal receptive fields. W.M. was funded by
the European Union’s Horizon 2020 research and innovation programme under the Marie
Skłodowska-Curie grant agreement no. 754411. M.H. was funded in part by Human Frontiers
Science grant no. HFSP RGP0032/2018.
article_processing_charge: No
author:
- first_name: Wiktor F
full_name: Mlynarski, Wiktor F
id: 358A453A-F248-11E8-B48F-1D18A9856A87
last_name: Mlynarski
- first_name: Michal
full_name: Hledik, Michal
id: 4171253A-F248-11E8-B48F-1D18A9856A87
last_name: Hledik
- first_name: Thomas R
full_name: Sokolowski, Thomas R
id: 3E999752-F248-11E8-B48F-1D18A9856A87
last_name: Sokolowski
orcid: 0000-0002-1287-3779
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
citation:
ama: Mlynarski WF, Hledik M, Sokolowski TR, Tkačik G. Statistical analysis and optimality
of neural systems. Neuron. 2021;109(7):1227-1241.e5. doi:10.1016/j.neuron.2021.01.020
apa: Mlynarski, W. F., Hledik, M., Sokolowski, T. R., & Tkačik, G. (2021). Statistical
analysis and optimality of neural systems. Neuron. Cell Press. https://doi.org/10.1016/j.neuron.2021.01.020
chicago: Mlynarski, Wiktor F, Michal Hledik, Thomas R Sokolowski, and Gašper Tkačik.
“Statistical Analysis and Optimality of Neural Systems.” Neuron. Cell Press,
2021. https://doi.org/10.1016/j.neuron.2021.01.020.
ieee: W. F. Mlynarski, M. Hledik, T. R. Sokolowski, and G. Tkačik, “Statistical
analysis and optimality of neural systems,” Neuron, vol. 109, no. 7. Cell
Press, p. 1227–1241.e5, 2021.
ista: Mlynarski WF, Hledik M, Sokolowski TR, Tkačik G. 2021. Statistical analysis
and optimality of neural systems. Neuron. 109(7), 1227–1241.e5.
mla: Mlynarski, Wiktor F., et al. “Statistical Analysis and Optimality of Neural
Systems.” Neuron, vol. 109, no. 7, Cell Press, 2021, p. 1227–1241.e5, doi:10.1016/j.neuron.2021.01.020.
short: W.F. Mlynarski, M. Hledik, T.R. Sokolowski, G. Tkačik, Neuron 109 (2021)
1227–1241.e5.
date_created: 2020-02-28T11:00:12Z
date_published: 2021-04-07T00:00:00Z
date_updated: 2025-06-30T13:21:05Z
day: '07'
department:
- _id: GaTk
doi: 10.1016/j.neuron.2021.01.020
ec_funded: 1
external_id:
isi:
- '000637809600006'
intvolume: ' 109'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/848374
month: '04'
oa: 1
oa_version: Preprint
page: 1227-1241.e5
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Neuron
publication_status: published
publisher: Cell Press
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/can-evolution-be-predicted/
record:
- id: '15020'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Statistical analysis and optimality of neural systems
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 109
year: '2021'
...
---
_id: '7685'
abstract:
- lang: eng
text: We consider a gas of interacting bosons trapped in a box of side length one
in the Gross–Pitaevskii limit. We review the proof of the validity of Bogoliubov’s
prediction for the ground state energy and the low-energy excitation spectrum.
This note is based on joint work with C. Brennecke, S. Cenatiempo and B. Schlein.
article_number: '2060006'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Chiara
full_name: Boccato, Chiara
id: 342E7E22-F248-11E8-B48F-1D18A9856A87
last_name: Boccato
citation:
ama: Boccato C. The excitation spectrum of the Bose gas in the Gross-Pitaevskii
regime. Reviews in Mathematical Physics. 2021;33(1). doi:10.1142/S0129055X20600065
apa: Boccato, C. (2021). The excitation spectrum of the Bose gas in the Gross-Pitaevskii
regime. Reviews in Mathematical Physics. World Scientific. https://doi.org/10.1142/S0129055X20600065
chicago: Boccato, Chiara. “The Excitation Spectrum of the Bose Gas in the Gross-Pitaevskii
Regime.” Reviews in Mathematical Physics. World Scientific, 2021. https://doi.org/10.1142/S0129055X20600065.
ieee: C. Boccato, “The excitation spectrum of the Bose gas in the Gross-Pitaevskii
regime,” Reviews in Mathematical Physics, vol. 33, no. 1. World Scientific,
2021.
ista: Boccato C. 2021. The excitation spectrum of the Bose gas in the Gross-Pitaevskii
regime. Reviews in Mathematical Physics. 33(1), 2060006.
mla: Boccato, Chiara. “The Excitation Spectrum of the Bose Gas in the Gross-Pitaevskii
Regime.” Reviews in Mathematical Physics, vol. 33, no. 1, 2060006, World
Scientific, 2021, doi:10.1142/S0129055X20600065.
short: C. Boccato, Reviews in Mathematical Physics 33 (2021).
date_created: 2020-04-26T22:00:45Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2023-08-04T10:50:13Z
day: '01'
department:
- _id: RoSe
doi: 10.1142/S0129055X20600065
ec_funded: 1
external_id:
arxiv:
- '2001.00497'
isi:
- '000613313200007'
intvolume: ' 33'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2001.00497
month: '01'
oa: 1
oa_version: Preprint
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Reviews in Mathematical Physics
publication_identifier:
issn:
- 0129-055X
publication_status: published
publisher: World Scientific
quality_controlled: '1'
scopus_import: '1'
status: public
title: The excitation spectrum of the Bose gas in the Gross-Pitaevskii regime
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 33
year: '2021'
...
---
_id: '14332'
abstract:
- lang: eng
text: Learning data representations that are useful for various downstream tasks
is a cornerstone of artificial intelligence. While existing methods are typically
evaluated on downstream tasks such as classification or generative image quality,
we propose to assess representations through their usefulness in downstream control
tasks, such as reaching or pushing objects. By training over 10,000 reinforcement
learning policies, we extensively evaluate to what extent different representation
properties affect out-of-distribution (OOD) generalization. Finally, we demonstrate
zero-shot transfer of these policies from simulation to the real world, without
any domain randomization or fine-tuning. This paper aims to establish the first
systematic characterization of the usefulness of learned representations for real-world
OOD downstream tasks.
article_processing_charge: No
author:
- first_name: Frederik
full_name: Träuble, Frederik
last_name: Träuble
- first_name: Andrea
full_name: Dittadi, Andrea
last_name: Dittadi
- first_name: Manuel
full_name: Wuthrich, Manuel
last_name: Wuthrich
- first_name: Felix
full_name: Widmaier, Felix
last_name: Widmaier
- first_name: Peter Vincent
full_name: Gehler, Peter Vincent
last_name: Gehler
- first_name: Ole
full_name: Winther, Ole
last_name: Winther
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
- first_name: Olivier
full_name: Bachem, Olivier
last_name: Bachem
- first_name: Bernhard
full_name: Schölkopf, Bernhard
last_name: Schölkopf
- first_name: Stefan
full_name: Bauer, Stefan
last_name: Bauer
citation:
ama: 'Träuble F, Dittadi A, Wuthrich M, et al. Representation learning for out-of-distribution
generalization in reinforcement learning. In: ICML 2021 Workshop on Unsupervised
Reinforcement Learning. ; 2021.'
apa: Träuble, F., Dittadi, A., Wuthrich, M., Widmaier, F., Gehler, P. V., Winther,
O., … Bauer, S. (2021). Representation learning for out-of-distribution generalization
in reinforcement learning. In ICML 2021 Workshop on Unsupervised Reinforcement
Learning. Virtual.
chicago: Träuble, Frederik, Andrea Dittadi, Manuel Wuthrich, Felix Widmaier, Peter
Vincent Gehler, Ole Winther, Francesco Locatello, Olivier Bachem, Bernhard Schölkopf,
and Stefan Bauer. “Representation Learning for Out-of-Distribution Generalization
in Reinforcement Learning.” In ICML 2021 Workshop on Unsupervised Reinforcement
Learning, 2021.
ieee: F. Träuble et al., “Representation learning for out-of-distribution
generalization in reinforcement learning,” in ICML 2021 Workshop on Unsupervised
Reinforcement Learning, Virtual, 2021.
ista: 'Träuble F, Dittadi A, Wuthrich M, Widmaier F, Gehler PV, Winther O, Locatello
F, Bachem O, Schölkopf B, Bauer S. 2021. Representation learning for out-of-distribution
generalization in reinforcement learning. ICML 2021 Workshop on Unsupervised Reinforcement
Learning. ICML: International Conference on Machine Learning.'
mla: Träuble, Frederik, et al. “Representation Learning for Out-of-Distribution
Generalization in Reinforcement Learning.” ICML 2021 Workshop on Unsupervised
Reinforcement Learning, 2021.
short: F. Träuble, A. Dittadi, M. Wuthrich, F. Widmaier, P.V. Gehler, O. Winther,
F. Locatello, O. Bachem, B. Schölkopf, S. Bauer, in:, ICML 2021 Workshop on Unsupervised
Reinforcement Learning, 2021.
conference:
end_date: 2021-07-23
location: Virtual
name: 'ICML: International Conference on Machine Learning'
start_date: 2021-07-23
date_created: 2023-09-13T12:43:14Z
date_published: 2021-07-23T00:00:00Z
date_updated: 2023-09-13T12:44:00Z
day: '23'
department:
- _id: FrLo
extern: '1'
language:
- iso: eng
month: '07'
oa_version: None
publication: ICML 2021 Workshop on Unsupervised Reinforcement Learning
publication_status: published
quality_controlled: '1'
status: public
title: Representation learning for out-of-distribution generalization in reinforcement
learning
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '14800'
abstract:
- lang: eng
text: 'Research on two-dimensional (2D) materials has been explosively increasing
in last seventeen years in varying subjects including condensed matter physics,
electronic engineering, materials science, and chemistry since the mechanical
exfoliation of graphene in 2004. Starting from graphene, 2D materials now have
become a big family with numerous members and diverse categories. The unique structural
features and physicochemical properties of 2D materials make them one class of
the most appealing candidates for a wide range of potential applications. In particular,
we have seen some major breakthroughs made in the field of 2D materials in last
five years not only in developing novel synthetic methods and exploring new structures/properties
but also in identifying innovative applications and pushing forward commercialisation.
In this review, we provide a critical summary on the recent progress made in the
field of 2D materials with a particular focus on last five years. After a brief
background introduction, we first discuss the major synthetic methods for 2D materials,
including the mechanical exfoliation, liquid exfoliation, vapor phase deposition,
and wet-chemical synthesis as well as phase engineering of 2D materials belonging
to the field of phase engineering of nanomaterials (PEN). We then introduce the
superconducting/optical/magnetic properties and chirality of 2D materials along
with newly emerging magic angle 2D superlattices. Following that, the promising
applications of 2D materials in electronics, optoelectronics, catalysis, energy
storage, solar cells, biomedicine, sensors, environments, etc. are described sequentially.
Thereafter, we present the theoretic calculations and simulations of 2D materials.
Finally, after concluding the current progress, we provide some personal discussions
on the existing challenges and future outlooks in this rapidly developing field. '
article_number: '2108017'
article_processing_charge: No
article_type: review
author:
- first_name: Cheng
full_name: Chang, Cheng
id: 9E331C2E-9F27-11E9-AE48-5033E6697425
last_name: Chang
orcid: 0000-0002-9515-4277
- first_name: Wei
full_name: Chen, Wei
last_name: Chen
- first_name: Ye
full_name: Chen, Ye
last_name: Chen
- first_name: Yonghua
full_name: Chen, Yonghua
last_name: Chen
- first_name: Yu
full_name: Chen, Yu
last_name: Chen
- first_name: Feng
full_name: Ding, Feng
last_name: Ding
- first_name: Chunhai
full_name: Fan, Chunhai
last_name: Fan
- first_name: Hong Jin
full_name: Fan, Hong Jin
last_name: Fan
- first_name: Zhanxi
full_name: Fan, Zhanxi
last_name: Fan
- first_name: Cheng
full_name: Gong, Cheng
last_name: Gong
- first_name: Yongji
full_name: Gong, Yongji
last_name: Gong
- first_name: Qiyuan
full_name: He, Qiyuan
last_name: He
- first_name: Xun
full_name: Hong, Xun
last_name: Hong
- first_name: Sheng
full_name: Hu, Sheng
last_name: Hu
- first_name: Weida
full_name: Hu, Weida
last_name: Hu
- first_name: Wei
full_name: Huang, Wei
last_name: Huang
- first_name: Yuan
full_name: Huang, Yuan
last_name: Huang
- first_name: Wei
full_name: Ji, Wei
last_name: Ji
- first_name: Dehui
full_name: Li, Dehui
last_name: Li
- first_name: Lain Jong
full_name: Li, Lain Jong
last_name: Li
- first_name: Qiang
full_name: Li, Qiang
last_name: Li
- first_name: Li
full_name: Lin, Li
last_name: Lin
- first_name: Chongyi
full_name: Ling, Chongyi
last_name: Ling
- first_name: Minghua
full_name: Liu, Minghua
last_name: Liu
- first_name: 'Nan'
full_name: Liu, Nan
last_name: Liu
- first_name: Zhuang
full_name: Liu, Zhuang
last_name: Liu
- first_name: Kian Ping
full_name: Loh, Kian Ping
last_name: Loh
- first_name: Jianmin
full_name: Ma, Jianmin
last_name: Ma
- first_name: Feng
full_name: Miao, Feng
last_name: Miao
- first_name: Hailin
full_name: Peng, Hailin
last_name: Peng
- first_name: Mingfei
full_name: Shao, Mingfei
last_name: Shao
- first_name: Li
full_name: Song, Li
last_name: Song
- first_name: Shao
full_name: Su, Shao
last_name: Su
- first_name: Shuo
full_name: Sun, Shuo
last_name: Sun
- first_name: Chaoliang
full_name: Tan, Chaoliang
last_name: Tan
- first_name: Zhiyong
full_name: Tang, Zhiyong
last_name: Tang
- first_name: Dingsheng
full_name: Wang, Dingsheng
last_name: Wang
- first_name: Huan
full_name: Wang, Huan
last_name: Wang
- first_name: Jinlan
full_name: Wang, Jinlan
last_name: Wang
- first_name: Xin
full_name: Wang, Xin
last_name: Wang
- first_name: Xinran
full_name: Wang, Xinran
last_name: Wang
- first_name: Andrew T.S.
full_name: Wee, Andrew T.S.
last_name: Wee
- first_name: Zhongming
full_name: Wei, Zhongming
last_name: Wei
- first_name: Yuen
full_name: Wu, Yuen
last_name: Wu
- first_name: Zhong Shuai
full_name: Wu, Zhong Shuai
last_name: Wu
- first_name: Jie
full_name: Xiong, Jie
last_name: Xiong
- first_name: Qihua
full_name: Xiong, Qihua
last_name: Xiong
- first_name: Weigao
full_name: Xu, Weigao
last_name: Xu
- first_name: Peng
full_name: Yin, Peng
last_name: Yin
- first_name: Haibo
full_name: Zeng, Haibo
last_name: Zeng
- first_name: Zhiyuan
full_name: Zeng, Zhiyuan
last_name: Zeng
- first_name: Tianyou
full_name: Zhai, Tianyou
last_name: Zhai
- first_name: Han
full_name: Zhang, Han
last_name: Zhang
- first_name: Hui
full_name: Zhang, Hui
last_name: Zhang
- first_name: Qichun
full_name: Zhang, Qichun
last_name: Zhang
- first_name: Tierui
full_name: Zhang, Tierui
last_name: Zhang
- first_name: Xiang
full_name: Zhang, Xiang
last_name: Zhang
- first_name: Li Dong
full_name: Zhao, Li Dong
last_name: Zhao
- first_name: Meiting
full_name: Zhao, Meiting
last_name: Zhao
- first_name: Weijie
full_name: Zhao, Weijie
last_name: Zhao
- first_name: Yunxuan
full_name: Zhao, Yunxuan
last_name: Zhao
- first_name: Kai Ge
full_name: Zhou, Kai Ge
last_name: Zhou
- first_name: Xing
full_name: Zhou, Xing
last_name: Zhou
- first_name: Yu
full_name: Zhou, Yu
last_name: Zhou
- first_name: Hongwei
full_name: Zhu, Hongwei
last_name: Zhu
- first_name: Hua
full_name: Zhang, Hua
last_name: Zhang
- first_name: Zhongfan
full_name: Liu, Zhongfan
last_name: Liu
citation:
ama: Chang C, Chen W, Chen Y, et al. Recent progress on two-dimensional materials.
Acta Physico-Chimica Sinica. 2021;37(12). doi:10.3866/PKU.WHXB202108017
apa: Chang, C., Chen, W., Chen, Y., Chen, Y., Chen, Y., Ding, F., … Liu, Z. (2021).
Recent progress on two-dimensional materials. Acta Physico-Chimica Sinica.
Peking University. https://doi.org/10.3866/PKU.WHXB202108017
chicago: Chang, Cheng, Wei Chen, Ye Chen, Yonghua Chen, Yu Chen, Feng Ding, Chunhai
Fan, et al. “Recent Progress on Two-Dimensional Materials.” Acta Physico-Chimica
Sinica. Peking University, 2021. https://doi.org/10.3866/PKU.WHXB202108017.
ieee: C. Chang et al., “Recent progress on two-dimensional materials,” Acta
Physico-Chimica Sinica, vol. 37, no. 12. Peking University, 2021.
ista: Chang C, Chen W, Chen Y, Chen Y, Chen Y, Ding F, Fan C, Fan HJ, Fan Z, Gong
C, Gong Y, He Q, Hong X, Hu S, Hu W, Huang W, Huang Y, Ji W, Li D, Li LJ, Li Q,
Lin L, Ling C, Liu M, Liu N, Liu Z, Loh KP, Ma J, Miao F, Peng H, Shao M, Song
L, Su S, Sun S, Tan C, Tang Z, Wang D, Wang H, Wang J, Wang X, Wang X, Wee ATS,
Wei Z, Wu Y, Wu ZS, Xiong J, Xiong Q, Xu W, Yin P, Zeng H, Zeng Z, Zhai T, Zhang
H, Zhang H, Zhang Q, Zhang T, Zhang X, Zhao LD, Zhao M, Zhao W, Zhao Y, Zhou KG,
Zhou X, Zhou Y, Zhu H, Zhang H, Liu Z. 2021. Recent progress on two-dimensional
materials. Acta Physico-Chimica Sinica. 37(12), 2108017.
mla: Chang, Cheng, et al. “Recent Progress on Two-Dimensional Materials.” Acta
Physico-Chimica Sinica, vol. 37, no. 12, 2108017, Peking University, 2021,
doi:10.3866/PKU.WHXB202108017.
short: C. Chang, W. Chen, Y. Chen, Y. Chen, Y. Chen, F. Ding, C. Fan, H.J. Fan,
Z. Fan, C. Gong, Y. Gong, Q. He, X. Hong, S. Hu, W. Hu, W. Huang, Y. Huang, W.
Ji, D. Li, L.J. Li, Q. Li, L. Lin, C. Ling, M. Liu, N. Liu, Z. Liu, K.P. Loh,
J. Ma, F. Miao, H. Peng, M. Shao, L. Song, S. Su, S. Sun, C. Tan, Z. Tang, D.
Wang, H. Wang, J. Wang, X. Wang, X. Wang, A.T.S. Wee, Z. Wei, Y. Wu, Z.S. Wu,
J. Xiong, Q. Xiong, W. Xu, P. Yin, H. Zeng, Z. Zeng, T. Zhai, H. Zhang, H. Zhang,
Q. Zhang, T. Zhang, X. Zhang, L.D. Zhao, M. Zhao, W. Zhao, Y. Zhao, K.G. Zhou,
X. Zhou, Y. Zhou, H. Zhu, H. Zhang, Z. Liu, Acta Physico-Chimica Sinica 37 (2021).
date_created: 2024-01-14T23:00:58Z
date_published: 2021-10-13T00:00:00Z
date_updated: 2024-01-17T11:29:33Z
day: '13'
department:
- _id: MaIb
doi: 10.3866/PKU.WHXB202108017
intvolume: ' 37'
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.3866/PKU.WHXB202108017
month: '10'
oa: 1
oa_version: Submitted Version
publication: Acta Physico-Chimica Sinica
publication_identifier:
issn:
- 1001-4861
publication_status: published
publisher: Peking University
quality_controlled: '1'
scopus_import: '1'
status: public
title: Recent progress on two-dimensional materials
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 37
year: '2021'
...
---
_id: '14889'
abstract:
- lang: eng
text: We consider the Fröhlich Hamiltonian with large coupling constant α. For initial
data of Pekar product form with coherent phonon field and with the electron minimizing
the corresponding energy, we provide a norm approximation of the evolution, valid
up to times of order α2. The approximation is given in terms of a Pekar product
state, evolved through the Landau-Pekar equations, corrected by a Bogoliubov dynamics
taking quantum fluctuations into account. This allows us to show that the Landau-Pekar
equations approximately describe the evolution of the electron- and one-phonon
reduced density matrices under the Fröhlich dynamics up to times of order α2.
acknowledgement: "Financial support by the European Union’s Horizon 2020 research
and innovation programme\r\nunder the Marie Skłodowska-Curie grant agreement No.
754411 (S.R.) and the European\r\nResearch Council under grant agreement No. 694227
(N.L. and R.S.), as well as by the SNSF\r\nEccellenza project PCEFP2 181153 (N.L.),
the NCCR SwissMAP (N.L. and B.S.) and by the\r\nDeutsche Forschungsgemeinschaft
(DFG) through the Research Training Group 1838: Spectral\r\nTheory and Dynamics
of Quantum Systems (D.M.) is gratefully acknowledged. B.S. gratefully\r\nacknowledges
financial support from the Swiss National Science Foundation through the Grant\r\n“Dynamical
and energetic properties of Bose-Einstein condensates” and from the European\r\nResearch
Council through the ERC-AdG CLaQS (grant agreement No 834782). D.M. thanks\r\nMarcel
Griesemer for helpful discussions."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nikolai K
full_name: Leopold, Nikolai K
id: 4BC40BEC-F248-11E8-B48F-1D18A9856A87
last_name: Leopold
orcid: 0000-0002-0495-6822
- first_name: David Johannes
full_name: Mitrouskas, David Johannes
id: cbddacee-2b11-11eb-a02e-a2e14d04e52d
last_name: Mitrouskas
- first_name: Simone Anna Elvira
full_name: Rademacher, Simone Anna Elvira
id: 856966FE-A408-11E9-977E-802DE6697425
last_name: Rademacher
orcid: 0000-0001-5059-4466
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Leopold NK, Mitrouskas DJ, Rademacher SAE, Schlein B, Seiringer R. Landau–Pekar
equations and quantum fluctuations for the dynamics of a strongly coupled polaron.
Pure and Applied Analysis. 2021;3(4):653-676. doi:10.2140/paa.2021.3.653
apa: Leopold, N. K., Mitrouskas, D. J., Rademacher, S. A. E., Schlein, B., &
Seiringer, R. (2021). Landau–Pekar equations and quantum fluctuations for the
dynamics of a strongly coupled polaron. Pure and Applied Analysis. Mathematical
Sciences Publishers. https://doi.org/10.2140/paa.2021.3.653
chicago: Leopold, Nikolai K, David Johannes Mitrouskas, Simone Anna Elvira Rademacher,
Benjamin Schlein, and Robert Seiringer. “Landau–Pekar Equations and Quantum Fluctuations
for the Dynamics of a Strongly Coupled Polaron.” Pure and Applied Analysis.
Mathematical Sciences Publishers, 2021. https://doi.org/10.2140/paa.2021.3.653.
ieee: N. K. Leopold, D. J. Mitrouskas, S. A. E. Rademacher, B. Schlein, and R. Seiringer,
“Landau–Pekar equations and quantum fluctuations for the dynamics of a strongly
coupled polaron,” Pure and Applied Analysis, vol. 3, no. 4. Mathematical
Sciences Publishers, pp. 653–676, 2021.
ista: Leopold NK, Mitrouskas DJ, Rademacher SAE, Schlein B, Seiringer R. 2021. Landau–Pekar
equations and quantum fluctuations for the dynamics of a strongly coupled polaron.
Pure and Applied Analysis. 3(4), 653–676.
mla: Leopold, Nikolai K., et al. “Landau–Pekar Equations and Quantum Fluctuations
for the Dynamics of a Strongly Coupled Polaron.” Pure and Applied Analysis,
vol. 3, no. 4, Mathematical Sciences Publishers, 2021, pp. 653–76, doi:10.2140/paa.2021.3.653.
short: N.K. Leopold, D.J. Mitrouskas, S.A.E. Rademacher, B. Schlein, R. Seiringer,
Pure and Applied Analysis 3 (2021) 653–676.
date_created: 2024-01-28T23:01:43Z
date_published: 2021-10-01T00:00:00Z
date_updated: 2024-02-05T10:02:45Z
day: '01'
department:
- _id: RoSe
doi: 10.2140/paa.2021.3.653
ec_funded: 1
external_id:
arxiv:
- '2005.02098'
intvolume: ' 3'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2005.02098
month: '10'
oa: 1
oa_version: Preprint
page: 653-676
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Pure and Applied Analysis
publication_identifier:
eissn:
- 2578-5885
issn:
- 2578-5893
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Landau–Pekar equations and quantum fluctuations for the dynamics of a strongly
coupled polaron
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2021'
...
---
_id: '14890'
abstract:
- lang: eng
text: We consider a system of N interacting bosons in the mean-field scaling regime
and construct corrections to the Bogoliubov dynamics that approximate the true
N-body dynamics in norm to arbitrary precision. The N-independent corrections
are given in terms of the solutions of the Bogoliubov and Hartree equations and
satisfy a generalized form of Wick's theorem. We determine the n-point correlation
functions of the excitations around the condensate, as well as the reduced densities
of the N-body system, to arbitrary accuracy, given only the knowledge of the two-point
functions of a quasi-free state and the solution of the Hartree equation. In this
way, the complex problem of computing all n-point correlation functions for an
interacting N-body system is essentially reduced to the problem of solving the
Hartree equation and the PDEs for the Bogoliubov two-point functions.
acknowledgement: "We are grateful for the hospitality of Central China Normal University
(CCNU),\r\nwhere parts of this work were done, and thank Phan Th`anh Nam, Simone\r\nRademacher,
Robert Seiringer and Stefan Teufel for helpful discussions. L.B. gratefully acknowledges
the support by the German Research Foundation (DFG) within the Research\r\nTraining
Group 1838 “Spectral Theory and Dynamics of Quantum Systems”, and the funding\r\nfrom
the European Union’s Horizon 2020 research and innovation programme under the Marie\r\nSk
lodowska-Curie Grant Agreement No. 754411."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Lea
full_name: Bossmann, Lea
id: A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425
last_name: Bossmann
orcid: 0000-0002-6854-1343
- first_name: Sören P
full_name: Petrat, Sören P
id: 40AC02DC-F248-11E8-B48F-1D18A9856A87
last_name: Petrat
orcid: 0000-0002-9166-5889
- first_name: Peter
full_name: Pickl, Peter
last_name: Pickl
- first_name: Avy
full_name: Soffer, Avy
last_name: Soffer
citation:
ama: Bossmann L, Petrat SP, Pickl P, Soffer A. Beyond Bogoliubov dynamics. Pure
and Applied Analysis. 2021;3(4):677-726. doi:10.2140/paa.2021.3.677
apa: Bossmann, L., Petrat, S. P., Pickl, P., & Soffer, A. (2021). Beyond Bogoliubov
dynamics. Pure and Applied Analysis. Mathematical Sciences Publishers.
https://doi.org/10.2140/paa.2021.3.677
chicago: Bossmann, Lea, Sören P Petrat, Peter Pickl, and Avy Soffer. “Beyond Bogoliubov
Dynamics.” Pure and Applied Analysis. Mathematical Sciences Publishers,
2021. https://doi.org/10.2140/paa.2021.3.677.
ieee: L. Bossmann, S. P. Petrat, P. Pickl, and A. Soffer, “Beyond Bogoliubov dynamics,”
Pure and Applied Analysis, vol. 3, no. 4. Mathematical Sciences Publishers,
pp. 677–726, 2021.
ista: Bossmann L, Petrat SP, Pickl P, Soffer A. 2021. Beyond Bogoliubov dynamics.
Pure and Applied Analysis. 3(4), 677–726.
mla: Bossmann, Lea, et al. “Beyond Bogoliubov Dynamics.” Pure and Applied Analysis,
vol. 3, no. 4, Mathematical Sciences Publishers, 2021, pp. 677–726, doi:10.2140/paa.2021.3.677.
short: L. Bossmann, S.P. Petrat, P. Pickl, A. Soffer, Pure and Applied Analysis
3 (2021) 677–726.
date_created: 2024-01-28T23:01:43Z
date_published: 2021-10-01T00:00:00Z
date_updated: 2024-02-05T09:26:31Z
day: '01'
department:
- _id: RoSe
doi: 10.2140/paa.2021.3.677
ec_funded: 1
external_id:
arxiv:
- '1912.11004'
intvolume: ' 3'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1912.11004
month: '10'
oa: 1
oa_version: Preprint
page: 677-726
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Pure and Applied Analysis
publication_identifier:
eissn:
- 2578-5885
issn:
- 2578-5893
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Beyond Bogoliubov dynamics
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2021'
...
---
_id: '14984'
abstract:
- lang: eng
text: Hybrid zones are narrow geographic regions where different populations, races
or interbreeding species meet and mate, producing mixed ‘hybrid’ offspring. They
are relatively common and can be found in a diverse range of organisms and environments.
The study of hybrid zones has played an important role in our understanding of
the origin of species, with hybrid zones having been described as ‘natural laboratories’.
This is because they allow us to study,in situ, the conditions and evolutionary
forces that enable divergent taxa to remain distinct despite some ongoing gene
exchange between them.
article_processing_charge: No
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
- first_name: Daria
full_name: Shipilina, Daria
id: 428A94B0-F248-11E8-B48F-1D18A9856A87
last_name: Shipilina
orcid: 0000-0002-1145-9226
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
citation:
ama: 'Stankowski S, Shipilina D, Westram AM. Hybrid Zones. In: Encyclopedia of
Life Sciences. Vol 2. eLS. Wiley; 2021. doi:10.1002/9780470015902.a0029355'
apa: Stankowski, S., Shipilina, D., & Westram, A. M. (2021). Hybrid Zones. In
Encyclopedia of Life Sciences (Vol. 2). Wiley. https://doi.org/10.1002/9780470015902.a0029355
chicago: Stankowski, Sean, Daria Shipilina, and Anja M Westram. “Hybrid Zones.”
In Encyclopedia of Life Sciences, Vol. 2. ELS. Wiley, 2021. https://doi.org/10.1002/9780470015902.a0029355.
ieee: S. Stankowski, D. Shipilina, and A. M. Westram, “Hybrid Zones,” in Encyclopedia
of Life Sciences, vol. 2, Wiley, 2021.
ista: 'Stankowski S, Shipilina D, Westram AM. 2021.Hybrid Zones. In: Encyclopedia
of Life Sciences. vol. 2.'
mla: Stankowski, Sean, et al. “Hybrid Zones.” Encyclopedia of Life Sciences,
vol. 2, Wiley, 2021, doi:10.1002/9780470015902.a0029355.
short: S. Stankowski, D. Shipilina, A.M. Westram, in:, Encyclopedia of Life Sciences,
Wiley, 2021.
date_created: 2024-02-14T12:05:50Z
date_published: 2021-05-28T00:00:00Z
date_updated: 2024-02-19T09:54:18Z
day: '28'
department:
- _id: NiBa
doi: 10.1002/9780470015902.a0029355
intvolume: ' 2'
language:
- iso: eng
month: '05'
oa_version: None
publication: Encyclopedia of Life Sciences
publication_identifier:
eisbn:
- '9780470015902'
isbn:
- '9780470016176'
publication_status: published
publisher: Wiley
quality_controlled: '1'
series_title: eLS
status: public
title: Hybrid Zones
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2021'
...
---
_id: '14987'
abstract:
- lang: eng
text: "The goal of zero-shot learning is to construct a classifier that can identify
object classes for which no training examples are available. When training data
for some of the object classes is available but not for others, the name generalized
zero-shot learning is commonly used.\r\nIn a wider sense, the phrase zero-shot
is also used to describe other machine learning-based approaches that require
no training data from the problem of interest, such as zero-shot action recognition
or zero-shot machine translation."
article_processing_charge: No
author:
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Lampert C. Zero-Shot Learning. In: Ikeuchi K, ed. Computer Vision.
2nd ed. Cham: Springer; 2021:1395-1397. doi:10.1007/978-3-030-63416-2_874'
apa: 'Lampert, C. (2021). Zero-Shot Learning. In K. Ikeuchi (Ed.), Computer Vision
(2nd ed., pp. 1395–1397). Cham: Springer. https://doi.org/10.1007/978-3-030-63416-2_874'
chicago: 'Lampert, Christoph. “Zero-Shot Learning.” In Computer Vision, edited
by Katsushi Ikeuchi, 2nd ed., 1395–97. Cham: Springer, 2021. https://doi.org/10.1007/978-3-030-63416-2_874.'
ieee: 'C. Lampert, “Zero-Shot Learning,” in Computer Vision, 2nd ed., K.
Ikeuchi, Ed. Cham: Springer, 2021, pp. 1395–1397.'
ista: 'Lampert C. 2021.Zero-Shot Learning. In: Computer Vision. , 1395–1397.'
mla: Lampert, Christoph. “Zero-Shot Learning.” Computer Vision, edited by
Katsushi Ikeuchi, 2nd ed., Springer, 2021, pp. 1395–97, doi:10.1007/978-3-030-63416-2_874.
short: C. Lampert, in:, K. Ikeuchi (Ed.), Computer Vision, 2nd ed., Springer, Cham,
2021, pp. 1395–1397.
date_created: 2024-02-14T14:05:32Z
date_published: 2021-10-13T00:00:00Z
date_updated: 2024-02-19T10:59:04Z
day: '13'
department:
- _id: ChLa
doi: 10.1007/978-3-030-63416-2_874
edition: '2'
editor:
- first_name: Katsushi
full_name: Ikeuchi, Katsushi
last_name: Ikeuchi
language:
- iso: eng
month: '10'
oa_version: None
page: 1395-1397
place: Cham
publication: Computer Vision
publication_identifier:
eisbn:
- '9783030634162'
isbn:
- '9783030634155'
publication_status: published
publisher: Springer
quality_controlled: '1'
status: public
title: Zero-Shot Learning
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '14988'
abstract:
- lang: eng
text: Raw data generated from the publication - The TPLATE complex mediates membrane
bending during plant clathrin-mediated endocytosis by Johnson et al., 2021 In
PNAS
article_processing_charge: No
author:
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
citation:
ama: Johnson AJ. Raw data from Johnson et al, PNAS, 2021. 2021. doi:10.5281/ZENODO.5747100
apa: Johnson, A. J. (2021). Raw data from Johnson et al, PNAS, 2021. Zenodo. https://doi.org/10.5281/ZENODO.5747100
chicago: Johnson, Alexander J. “Raw Data from Johnson et Al, PNAS, 2021.” Zenodo,
2021. https://doi.org/10.5281/ZENODO.5747100.
ieee: A. J. Johnson, “Raw data from Johnson et al, PNAS, 2021.” Zenodo, 2021.
ista: Johnson AJ. 2021. Raw data from Johnson et al, PNAS, 2021, Zenodo, 10.5281/ZENODO.5747100.
mla: Johnson, Alexander J. Raw Data from Johnson et Al, PNAS, 2021. Zenodo,
2021, doi:10.5281/ZENODO.5747100.
short: A.J. Johnson, (2021).
date_created: 2024-02-14T14:13:48Z
date_published: 2021-12-01T00:00:00Z
date_updated: 2024-02-19T11:06:09Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.5281/ZENODO.5747100
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.5747100
month: '12'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '9887'
relation: used_in_publication
status: public
status: public
title: Raw data from Johnson et al, PNAS, 2021
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_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '15013'
abstract:
- lang: eng
text: We consider random n×n matrices X with independent and centered entries and
a general variance profile. We show that the spectral radius of X converges with
very high probability to the square root of the spectral radius of the variance
matrix of X when n tends to infinity. We also establish the optimal rate of convergence,
that is a new result even for general i.i.d. matrices beyond the explicitly solvable
Gaussian cases. The main ingredient is the proof of the local inhomogeneous circular
law [arXiv:1612.07776] at the spectral edge.
acknowledgement: Partially supported by ERC Starting Grant RandMat No. 715539 and
the SwissMap grant of Swiss National Science Foundation. Partially supported by
ERC Advanced Grant RanMat No. 338804. Partially supported by the Hausdorff Center
for Mathematics in Bonn.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Johannes
full_name: Alt, Johannes
id: 36D3D8B6-F248-11E8-B48F-1D18A9856A87
last_name: Alt
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Torben H
full_name: Krüger, Torben H
id: 3020C786-F248-11E8-B48F-1D18A9856A87
last_name: Krüger
orcid: 0000-0002-4821-3297
citation:
ama: Alt J, Erdös L, Krüger TH. Spectral radius of random matrices with independent
entries. Probability and Mathematical Physics. 2021;2(2):221-280. doi:10.2140/pmp.2021.2.221
apa: Alt, J., Erdös, L., & Krüger, T. H. (2021). Spectral radius of random matrices
with independent entries. Probability and Mathematical Physics. Mathematical
Sciences Publishers. https://doi.org/10.2140/pmp.2021.2.221
chicago: Alt, Johannes, László Erdös, and Torben H Krüger. “Spectral Radius of Random
Matrices with Independent Entries.” Probability and Mathematical Physics.
Mathematical Sciences Publishers, 2021. https://doi.org/10.2140/pmp.2021.2.221.
ieee: J. Alt, L. Erdös, and T. H. Krüger, “Spectral radius of random matrices with
independent entries,” Probability and Mathematical Physics, vol. 2, no.
2. Mathematical Sciences Publishers, pp. 221–280, 2021.
ista: Alt J, Erdös L, Krüger TH. 2021. Spectral radius of random matrices with independent
entries. Probability and Mathematical Physics. 2(2), 221–280.
mla: Alt, Johannes, et al. “Spectral Radius of Random Matrices with Independent
Entries.” Probability and Mathematical Physics, vol. 2, no. 2, Mathematical
Sciences Publishers, 2021, pp. 221–80, doi:10.2140/pmp.2021.2.221.
short: J. Alt, L. Erdös, T.H. Krüger, Probability and Mathematical Physics 2 (2021)
221–280.
date_created: 2024-02-18T23:01:03Z
date_published: 2021-05-21T00:00:00Z
date_updated: 2024-02-19T08:30:00Z
day: '21'
department:
- _id: LaEr
doi: 10.2140/pmp.2021.2.221
ec_funded: 1
external_id:
arxiv:
- '1907.13631'
intvolume: ' 2'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1907.13631
month: '05'
oa: 1
oa_version: Preprint
page: 221-280
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Probability and Mathematical Physics
publication_identifier:
eissn:
- 2690-1005
issn:
- 2690-0998
publication_status: published
publisher: Mathematical Sciences Publishers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Spectral radius of random matrices with independent entries
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2
year: '2021'
...
---
_id: '13057'
abstract:
- lang: eng
text: 'This dataset comprises all data shown in the figures of the submitted article
"Geometric superinductance qubits: Controlling phase delocalization across a single
Josephson junction". Additional raw data are available from the corresponding
author on reasonable request.'
article_processing_charge: No
author:
- first_name: Matilda
full_name: Peruzzo, Matilda
id: 3F920B30-F248-11E8-B48F-1D18A9856A87
last_name: Peruzzo
orcid: 0000-0002-3415-4628
- first_name: Farid
full_name: Hassani, Farid
id: 2AED110C-F248-11E8-B48F-1D18A9856A87
last_name: Hassani
orcid: 0000-0001-6937-5773
- first_name: Grisha
full_name: Szep, Grisha
last_name: Szep
- first_name: Andrea
full_name: Trioni, Andrea
id: 42F71B44-F248-11E8-B48F-1D18A9856A87
last_name: Trioni
- first_name: Elena
full_name: Redchenko, Elena
id: 2C21D6E8-F248-11E8-B48F-1D18A9856A87
last_name: Redchenko
- first_name: Martin
full_name: Zemlicka, Martin
id: 2DCF8DE6-F248-11E8-B48F-1D18A9856A87
last_name: Zemlicka
- 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: 'Peruzzo M, Hassani F, Szep G, et al. Geometric superinductance qubits: Controlling
phase delocalization across a single Josephson junction. 2021. doi:10.5281/ZENODO.5592103'
apa: 'Peruzzo, M., Hassani, F., Szep, G., Trioni, A., Redchenko, E., Zemlicka, M.,
& Fink, J. M. (2021). Geometric superinductance qubits: Controlling phase
delocalization across a single Josephson junction. Zenodo. https://doi.org/10.5281/ZENODO.5592103'
chicago: 'Peruzzo, Matilda, Farid Hassani, Grisha Szep, Andrea Trioni, Elena Redchenko,
Martin Zemlicka, and Johannes M Fink. “Geometric Superinductance Qubits: Controlling
Phase Delocalization across a Single Josephson Junction.” Zenodo, 2021. https://doi.org/10.5281/ZENODO.5592103.'
ieee: 'M. Peruzzo et al., “Geometric superinductance qubits: Controlling
phase delocalization across a single Josephson junction.” Zenodo, 2021.'
ista: 'Peruzzo M, Hassani F, Szep G, Trioni A, Redchenko E, Zemlicka M, Fink JM.
2021. Geometric superinductance qubits: Controlling phase delocalization across
a single Josephson junction, Zenodo, 10.5281/ZENODO.5592103.'
mla: 'Peruzzo, Matilda, et al. Geometric Superinductance Qubits: Controlling
Phase Delocalization across a Single Josephson Junction. Zenodo, 2021, doi:10.5281/ZENODO.5592103.'
short: M. Peruzzo, F. Hassani, G. Szep, A. Trioni, E. Redchenko, M. Zemlicka, J.M.
Fink, (2021).
date_created: 2023-05-23T13:42:27Z
date_published: 2021-10-22T00:00:00Z
date_updated: 2023-08-11T10:44:21Z
day: '22'
ddc:
- '530'
department:
- _id: JoFi
doi: 10.5281/ZENODO.5592103
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.5592104
month: '10'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '9928'
relation: used_in_publication
status: public
status: public
title: 'Geometric superinductance qubits: Controlling phase delocalization across
a single Josephson 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: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '13058'
abstract:
- lang: eng
text: The zip file includes source data used in the main text of the manuscript
"Theory of branching morphogenesis by local interactions and global guidance",
as well as a representative Jupyter notebook to reproduce the main figures. A
sample script for the simulations of branching and annihilating random walks is
also included (Sample_script_for_simulations_of_BARWs.ipynb) to generate exemplary
branched networks under external guidance. A detailed description of the simulation
setup is provided in the supplementary information of the manuscipt.
article_processing_charge: No
author:
- first_name: Mehmet C
full_name: Ucar, Mehmet C
id: 50B2A802-6007-11E9-A42B-EB23E6697425
last_name: Ucar
orcid: 0000-0003-0506-4217
citation:
ama: Ucar MC. Source data for the manuscript “Theory of branching morphogenesis
by local interactions and global guidance.” 2021. doi:10.5281/ZENODO.5257160
apa: Ucar, M. C. (2021). Source data for the manuscript “Theory of branching morphogenesis
by local interactions and global guidance.” Zenodo. https://doi.org/10.5281/ZENODO.5257160
chicago: Ucar, Mehmet C. “Source Data for the Manuscript ‘Theory of Branching Morphogenesis
by Local Interactions and Global Guidance.’” Zenodo, 2021. https://doi.org/10.5281/ZENODO.5257160.
ieee: M. C. Ucar, “Source data for the manuscript ‘Theory of branching morphogenesis
by local interactions and global guidance.’” Zenodo, 2021.
ista: Ucar MC. 2021. Source data for the manuscript ‘Theory of branching morphogenesis
by local interactions and global guidance’, Zenodo, 10.5281/ZENODO.5257160.
mla: Ucar, Mehmet C. Source Data for the Manuscript “Theory of Branching Morphogenesis
by Local Interactions and Global Guidance.” Zenodo, 2021, doi:10.5281/ZENODO.5257160.
short: M.C. Ucar, (2021).
date_created: 2023-05-23T13:46:34Z
date_published: 2021-08-25T00:00:00Z
date_updated: 2023-08-14T13:18:46Z
day: '25'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.5281/ZENODO.5257160
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.5257161
month: '08'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '10402'
relation: used_in_publication
status: public
status: public
title: Source data for the manuscript "Theory of branching morphogenesis by local
interactions and global guidance"
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_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '13061'
abstract:
- lang: eng
text: Infections early in life can have enduring effects on an organism’s development
and immunity. In this study, we show that this equally applies to developing “superorganisms”
– incipient social insect colonies. When we exposed newly mated Lasius niger ant
queens to a low pathogen dose, their colonies grew more slowly than controls before
winter, but reached similar sizes afterwards. Independent of exposure, queen hibernation
survival improved when the ratio of pupae to workers was small. Queens that reared
fewer pupae before worker emergence exhibited lower pathogen levels, indicating
that high brood rearing efforts interfere with the ability of the queen’s immune
system to suppress pathogen proliferation. Early-life queen pathogen-exposure
also improved the immunocompetence of her worker offspring, as demonstrated by
challenging the workers to the same pathogen a year later. Transgenerational transfer
of the queen’s pathogen experience to her workforce can hence durably reduce the
disease susceptibility of the whole superorganism.
article_processing_charge: No
author:
- first_name: Barbara E
full_name: Casillas Perez, Barbara E
id: 351ED2AA-F248-11E8-B48F-1D18A9856A87
last_name: Casillas Perez
- first_name: Christopher
full_name: Pull, Christopher
id: 3C7F4840-F248-11E8-B48F-1D18A9856A87
last_name: Pull
orcid: 0000-0003-1122-3982
- first_name: Filip
full_name: Naiser, Filip
last_name: Naiser
- first_name: Elisabeth
full_name: Naderlinger, Elisabeth
last_name: Naderlinger
- first_name: Jiri
full_name: Matas, Jiri
last_name: Matas
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: Casillas Perez BE, Pull C, Naiser F, Naderlinger E, Matas J, Cremer S. Early
queen infection shapes developmental dynamics and induces long-term disease protection
in incipient ant colonies. 2021. doi:10.5061/DRYAD.7PVMCVDTJ
apa: Casillas Perez, B. E., Pull, C., Naiser, F., Naderlinger, E., Matas, J., &
Cremer, S. (2021). Early queen infection shapes developmental dynamics and induces
long-term disease protection in incipient ant colonies. Dryad. https://doi.org/10.5061/DRYAD.7PVMCVDTJ
chicago: Casillas Perez, Barbara E, Christopher Pull, Filip Naiser, Elisabeth Naderlinger,
Jiri Matas, and Sylvia Cremer. “Early Queen Infection Shapes Developmental Dynamics
and Induces Long-Term Disease Protection in Incipient Ant Colonies.” Dryad, 2021.
https://doi.org/10.5061/DRYAD.7PVMCVDTJ.
ieee: B. E. Casillas Perez, C. Pull, F. Naiser, E. Naderlinger, J. Matas, and S.
Cremer, “Early queen infection shapes developmental dynamics and induces long-term
disease protection in incipient ant colonies.” Dryad, 2021.
ista: Casillas Perez BE, Pull C, Naiser F, Naderlinger E, Matas J, Cremer S. 2021.
Early queen infection shapes developmental dynamics and induces long-term disease
protection in incipient ant colonies, Dryad, 10.5061/DRYAD.7PVMCVDTJ.
mla: Casillas Perez, Barbara E., et al. Early Queen Infection Shapes Developmental
Dynamics and Induces Long-Term Disease Protection in Incipient Ant Colonies.
Dryad, 2021, doi:10.5061/DRYAD.7PVMCVDTJ.
short: B.E. Casillas Perez, C. Pull, F. Naiser, E. Naderlinger, J. Matas, S. Cremer,
(2021).
date_created: 2023-05-23T16:14:35Z
date_published: 2021-10-29T00:00:00Z
date_updated: 2023-08-14T11:45:28Z
day: '29'
ddc:
- '570'
department:
- _id: SyCr
doi: 10.5061/DRYAD.7PVMCVDTJ
ec_funded: 1
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.7pvmcvdtj
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 2649B4DE-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '771402'
name: Epidemics in ant societies on a chip
publisher: Dryad
related_material:
record:
- id: '10284'
relation: used_in_publication
status: public
status: public
title: Early queen infection shapes developmental dynamics and induces long-term disease
protection in incipient ant colonies
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '13062'
abstract:
- lang: eng
text: 'This paper analyzes the conditions for local adaptation in a metapopulation
with infinitely many islands under a model of hard selection, where population
size depends on local fitness. Each island belongs to one of two distinct ecological
niches or habitats. Fitness is influenced by an additive trait which is under
habitat-dependent directional selection. Our analysis is based on the diffusion
approximation and accounts for both genetic drift and demographic stochasticity.
By neglecting linkage disequilibria, it yields the joint distribution of allele
frequencies and population size on each island. We find that under hard selection,
the conditions for local adaptation in a rare habitat are more restrictive for
more polygenic traits: even moderate migration load per locus at very many loci
is sufficient for population sizes to decline. This further reduces the efficacy
of selection at individual loci due to increased drift and because smaller populations
are more prone to swamping due to migration, causing a positive feedback between
increasing maladaptation and declining population sizes. Our analysis also highlights
the importance of demographic stochasticity, which exacerbates the decline in
numbers of maladapted populations, leading to population collapse in the rare
habitat at significantly lower migration than predicted by deterministic arguments.'
article_processing_charge: No
author:
- first_name: Eniko
full_name: Szep, Eniko
id: 485BB5A4-F248-11E8-B48F-1D18A9856A87
last_name: Szep
- first_name: Himani
full_name: Sachdeva, Himani
id: 42377A0A-F248-11E8-B48F-1D18A9856A87
last_name: Sachdeva
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Szep E, Sachdeva H, Barton NH. Supplementary code for: Polygenic local adaptation
in metapopulations: A stochastic eco-evolutionary model. 2021. doi:10.5061/DRYAD.8GTHT76P1'
apa: 'Szep, E., Sachdeva, H., & Barton, N. H. (2021). Supplementary code for:
Polygenic local adaptation in metapopulations: A stochastic eco-evolutionary model.
Dryad. https://doi.org/10.5061/DRYAD.8GTHT76P1'
chicago: 'Szep, Eniko, Himani Sachdeva, and Nicholas H Barton. “Supplementary Code
for: Polygenic Local Adaptation in Metapopulations: A Stochastic Eco-Evolutionary
Model.” Dryad, 2021. https://doi.org/10.5061/DRYAD.8GTHT76P1.'
ieee: 'E. Szep, H. Sachdeva, and N. H. Barton, “Supplementary code for: Polygenic
local adaptation in metapopulations: A stochastic eco-evolutionary model.” Dryad,
2021.'
ista: 'Szep E, Sachdeva H, Barton NH. 2021. Supplementary code for: Polygenic local
adaptation in metapopulations: A stochastic eco-evolutionary model, Dryad, 10.5061/DRYAD.8GTHT76P1.'
mla: 'Szep, Eniko, et al. Supplementary Code for: Polygenic Local Adaptation
in Metapopulations: A Stochastic Eco-Evolutionary Model. Dryad, 2021, doi:10.5061/DRYAD.8GTHT76P1.'
short: E. Szep, H. Sachdeva, N.H. Barton, (2021).
date_created: 2023-05-23T16:17:02Z
date_published: 2021-03-02T00:00:00Z
date_updated: 2023-09-05T15:44:05Z
day: '02'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.5061/DRYAD.8GTHT76P1
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.8gtht76p1
month: '03'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '9252'
relation: used_in_publication
status: public
status: public
title: 'Supplementary code for: Polygenic local adaptation in metapopulations: A stochastic
eco-evolutionary model'
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...