---
OA_place: publisher
OA_type: free access
_id: '932'
abstract:
- lang: eng
text: Epithelial sheets are crucial components of all metazoan animals, enclosing
organs and protecting the animal from its environment. Epithelial homeostasis
poses unique challenges, as addition of new cells and loss of old cells must be
achieved without disrupting the fluid-tight barrier and apicobasal polarity of
the epithelium. Several studies have identified cell biological mechanisms underlying
extrusion of cells from epithelia, but far less is known of the converse mechanism
by which new cells are added. Here, we combine molecular, pharmacological, and
laser-dissection experiments with theoretical modeling to characterize forces
driving emergence of an apical surface as single nascent cells are added to a
vertebrate epithelium in vivo. We find that this process involves the interplay
between cell-autonomous actin-generated pushing forces in the emerging cell and
mechanical properties of neighboring cells. Our findings define the forces driving
this cell behavior, contributing to a more comprehensive understanding of epithelial
homeostasis.
acknowledgement: We thank J. Bear, B. Goldstein, A. Ewald, and D. Soroldoni for critical
reading. This work was funded by an EMBO Long Term Fellowship to J.S., a Research
Fellowship from Trinity College, Cambridge and a Bettencourt-Schueller Foundation
Young Researcher Prize to E.H., a Cancer Institute NSW Early Career Researcher fellowship
(13/ECF/1–25) and a Cancer Australia/Cure Cancer Australia Foundation project grant
(1070498) to M.B., and grants from the NHLBI (HL117164) and NIGMS (GM074104) to
J.B.W. J.B.W. was an early career scientist of the Howard Hughes Medical Institute.
This work was initiated at the New Quantitative Approaches to Morphogenesis Workshop
at UCSB, which is funded in part by the National Science Foundation (PHY11-25915)
and the NIGMS (GM067110-05).
article_processing_charge: No
article_type: original
author:
- first_name: Jakub
full_name: Sedzinski, Jakub
last_name: Sedzinski
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Fan
full_name: Tu, Fan
last_name: Tu
- first_name: Maté
full_name: Biro, Maté
last_name: Biro
- first_name: John
full_name: Wallingford, John
last_name: Wallingford
citation:
ama: Sedzinski J, Hannezo EB, Tu F, Biro M, Wallingford J. Emergence of an Apical
Epithelial Cell Surface In Vivo. Developmental Cell. 2016;36(1):24-35.
doi:10.1016/j.devcel.2015.12.013
apa: Sedzinski, J., Hannezo, E. B., Tu, F., Biro, M., & Wallingford, J. (2016).
Emergence of an Apical Epithelial Cell Surface In Vivo. Developmental Cell.
Elsevier. https://doi.org/10.1016/j.devcel.2015.12.013
chicago: Sedzinski, Jakub, Edouard B Hannezo, Fan Tu, Maté Biro, and John Wallingford.
“Emergence of an Apical Epithelial Cell Surface In Vivo.” Developmental Cell.
Elsevier, 2016. https://doi.org/10.1016/j.devcel.2015.12.013.
ieee: J. Sedzinski, E. B. Hannezo, F. Tu, M. Biro, and J. Wallingford, “Emergence
of an Apical Epithelial Cell Surface In Vivo,” Developmental Cell, vol.
36, no. 1. Elsevier, pp. 24–35, 2016.
ista: Sedzinski J, Hannezo EB, Tu F, Biro M, Wallingford J. 2016. Emergence of an
Apical Epithelial Cell Surface In Vivo. Developmental Cell. 36(1), 24–35.
mla: Sedzinski, Jakub, et al. “Emergence of an Apical Epithelial Cell Surface In
Vivo.” Developmental Cell, vol. 36, no. 1, Elsevier, 2016, pp. 24–35, doi:10.1016/j.devcel.2015.12.013.
short: J. Sedzinski, E.B. Hannezo, F. Tu, M. Biro, J. Wallingford, Developmental
Cell 36 (2016) 24–35.
date_created: 2018-12-11T11:49:16Z
date_published: 2016-01-12T00:00:00Z
date_updated: 2026-05-20T09:14:43Z
day: '12'
doi: 10.1016/j.devcel.2015.12.013
extern: '1'
external_id:
pmid:
- '26766441'
intvolume: ' 36'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2015.12.013
month: '01'
oa: 1
oa_version: Published Version
page: 24 - 35
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
publist_id: '6510'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Emergence of an Apical Epithelial Cell Surface In Vivo
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 36
year: '2016'
...
---
_id: '9456'
abstract:
- lang: eng
text: The discovery of introns four decades ago was one of the most unexpected findings
in molecular biology. Introns are sequences interrupting genes that must be removed
as part of messenger RNA production. Genome sequencing projects have shown that
most eukaryotic genes contain at least one intron, and frequently many. Comparison
of these genomes reveals a history of long evolutionary periods during which few
introns were gained, punctuated by episodes of rapid, extensive gain. However,
although several detailed mechanisms for such episodic intron generation have
been proposed, none has been empirically supported on a genomic scale. Here we
show how short, non-autonomous DNA transposons independently generated hundreds
to thousands of introns in the prasinophyte Micromonas pusilla and the pelagophyte
Aureococcus anophagefferens. Each transposon carries one splice site. The other
splice site is co-opted from the gene sequence that is duplicated upon transposon
insertion, allowing perfect splicing out of the RNA. The distributions of sequences
that can be co-opted are biased with respect to codons, and phasing of transposon-generated
introns is similarly biased. These transposons insert between pre-existing nucleosomes,
so that multiple nearby insertions generate nucleosome-sized intervening segments.
Thus, transposon insertion and sequence co-option may explain the intron phase
biases and prevalence of nucleosome-sized exons observed in eukaryotes. Overall,
the two independent examples of proliferating elements illustrate a general DNA
transposon mechanism that can plausibly account for episodes of rapid, extensive
intron gain during eukaryotic evolution.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Jason T.
full_name: Huff, Jason T.
last_name: Huff
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Scott W.
full_name: Roy, Scott W.
last_name: Roy
citation:
ama: Huff JT, Zilberman D, Roy SW. Mechanism for DNA transposons to generate introns
on genomic scales. Nature. 2016;538(7626):533-536. doi:10.1038/nature20110
apa: Huff, J. T., Zilberman, D., & Roy, S. W. (2016). Mechanism for DNA transposons
to generate introns on genomic scales. Nature. Springer Nature . https://doi.org/10.1038/nature20110
chicago: Huff, Jason T., Daniel Zilberman, and Scott W. Roy. “Mechanism for DNA
Transposons to Generate Introns on Genomic Scales.” Nature. Springer Nature
, 2016. https://doi.org/10.1038/nature20110.
ieee: J. T. Huff, D. Zilberman, and S. W. Roy, “Mechanism for DNA transposons to
generate introns on genomic scales,” Nature, vol. 538, no. 7626. Springer
Nature , pp. 533–536, 2016.
ista: Huff JT, Zilberman D, Roy SW. 2016. Mechanism for DNA transposons to generate
introns on genomic scales. Nature. 538(7626), 533–536.
mla: Huff, Jason T., et al. “Mechanism for DNA Transposons to Generate Introns on
Genomic Scales.” Nature, vol. 538, no. 7626, Springer Nature , 2016, pp.
533–36, doi:10.1038/nature20110.
short: J.T. Huff, D. Zilberman, S.W. Roy, Nature 538 (2016) 533–536.
date_created: 2021-06-04T11:34:55Z
date_published: 2016-10-27T00:00:00Z
date_updated: 2021-12-14T07:55:30Z
day: '27'
department:
- _id: DaZi
doi: 10.1038/nature20110
extern: '1'
external_id:
pmid:
- '27760113'
intvolume: ' 538'
issue: '7626'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5684705/
month: '10'
oa: 1
oa_version: Submitted Version
page: 533-536
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: Mechanism for DNA transposons to generate introns on genomic scales
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 538
year: '2016'
...
---
_id: '9473'
abstract:
- lang: eng
text: Cytosine DNA methylation regulates the expression of eukaryotic genes and
transposons. Methylation is copied by methyltransferases after DNA replication,
which results in faithful transmission of methylation patterns during cell division
and, at least in flowering plants, across generations. Transgenerational inheritance
is mediated by a small group of cells that includes gametes and their progenitors.
However, methylation is usually analyzed in somatic tissues that do not contribute
to the next generation, and the mechanisms of transgenerational inheritance are
inferred from such studies. To gain a better understanding of how DNA methylation
is inherited, we analyzed purified Arabidopsis thaliana sperm and vegetative cells-the
cell types that comprise pollen-with mutations in the DRM, CMT2, and CMT3 methyltransferases.
We find that DNA methylation dependency on these enzymes is similar in sperm,
vegetative cells, and somatic tissues, although DRM activity extends into heterochromatin
in vegetative cells, likely reflecting transcription of heterochromatic transposons
in this cell type. We also show that lack of histone H1, which elevates heterochromatic
DNA methylation in somatic tissues, does not have this effect in pollen. Instead,
levels of CG methylation in wild-type sperm and vegetative cells, as well as in
wild-type microspores from which both pollen cell types originate, are substantially
higher than in wild-type somatic tissues and similar to those of H1-depleted roots.
Our results demonstrate that the mechanisms of methylation maintenance are similar
between pollen and somatic cells, but the efficiency of CG methylation is higher
in pollen, allowing methylation patterns to be accurately inherited across generations.
article_processing_charge: No
article_type: original
author:
- first_name: Ping-Hung
full_name: Hsieh, Ping-Hung
last_name: Hsieh
- first_name: Shengbo
full_name: He, Shengbo
last_name: He
- first_name: Toby
full_name: Buttress, Toby
last_name: Buttress
- first_name: Hongbo
full_name: Gao, Hongbo
last_name: Gao
- first_name: Matthew
full_name: Couchman, Matthew
last_name: Couchman
- first_name: Robert L.
full_name: Fischer, Robert L.
last_name: Fischer
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
citation:
ama: Hsieh P-H, He S, Buttress T, et al. Arabidopsis male sexual lineage exhibits
more robust maintenance of CG methylation than somatic tissues. Proceedings
of the National Academy of Sciences. 2016;113(52):15132-15137. doi:10.1073/pnas.1619074114
apa: Hsieh, P.-H., He, S., Buttress, T., Gao, H., Couchman, M., Fischer, R. L.,
… Feng, X. (2016). Arabidopsis male sexual lineage exhibits more robust maintenance
of CG methylation than somatic tissues. Proceedings of the National Academy
of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1619074114
chicago: Hsieh, Ping-Hung, Shengbo He, Toby Buttress, Hongbo Gao, Matthew Couchman,
Robert L. Fischer, Daniel Zilberman, and Xiaoqi Feng. “Arabidopsis Male Sexual
Lineage Exhibits More Robust Maintenance of CG Methylation than Somatic Tissues.”
Proceedings of the National Academy of Sciences. National Academy of Sciences,
2016. https://doi.org/10.1073/pnas.1619074114.
ieee: P.-H. Hsieh et al., “Arabidopsis male sexual lineage exhibits more
robust maintenance of CG methylation than somatic tissues,” Proceedings of
the National Academy of Sciences, vol. 113, no. 52. National Academy of Sciences,
pp. 15132–15137, 2016.
ista: Hsieh P-H, He S, Buttress T, Gao H, Couchman M, Fischer RL, Zilberman D, Feng
X. 2016. Arabidopsis male sexual lineage exhibits more robust maintenance of CG
methylation than somatic tissues. Proceedings of the National Academy of Sciences.
113(52), 15132–15137.
mla: Hsieh, Ping-Hung, et al. “Arabidopsis Male Sexual Lineage Exhibits More Robust
Maintenance of CG Methylation than Somatic Tissues.” Proceedings of the National
Academy of Sciences, vol. 113, no. 52, National Academy of Sciences, 2016,
pp. 15132–37, doi:10.1073/pnas.1619074114.
short: P.-H. Hsieh, S. He, T. Buttress, H. Gao, M. Couchman, R.L. Fischer, D. Zilberman,
X. Feng, Proceedings of the National Academy of Sciences 113 (2016) 15132–15137.
date_created: 2021-06-07T06:21:39Z
date_published: 2016-12-27T00:00:00Z
date_updated: 2023-05-08T11:00:40Z
day: '27'
department:
- _id: DaZi
- _id: XiFe
doi: 10.1073/pnas.1619074114
extern: '1'
external_id:
pmid:
- '27956643'
intvolume: ' 113'
issue: '52'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1619074114
month: '12'
oa: 1
oa_version: Published Version
page: 15132-15137
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation
than somatic tissues
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 113
year: '2016'
...
---
_id: '9477'
abstract:
- lang: eng
text: Cytosine methylation is a DNA modification with important regulatory functions
in eukaryotes. In flowering plants, sexual reproduction is accompanied by extensive
DNA demethylation, which is required for proper gene expression in the endosperm,
a nutritive extraembryonic seed tissue. Endosperm arises from a fusion of a sperm
cell carried in the pollen and a female central cell. Endosperm DNA demethylation
is observed specifically on the chromosomes inherited from the central cell in
Arabidopsis thaliana, rice, and maize, and requires the DEMETER DNA demethylase
in Arabidopsis. DEMETER is expressed in the central cell before fertilization,
suggesting that endosperm demethylation patterns are inherited from the central
cell. Down-regulation of the MET1 DNA methyltransferase has also been proposed
to contribute to central cell demethylation. However, with the exception of three
maize genes, central cell DNA methylation has not been directly measured, leaving
the origin and mechanism of endosperm demethylation uncertain. Here, we report
genome-wide analysis of DNA methylation in the central cells of Arabidopsis and
rice—species that diverged 150 million years ago—as well as in rice egg cells.
We find that DNA demethylation in both species is initiated in central cells,
which requires DEMETER in Arabidopsis. However, we do not observe a global reduction
of CG methylation that would be indicative of lowered MET1 activity; on the contrary,
CG methylation efficiency is elevated in female gametes compared with nonsexual
tissues. Our results demonstrate that locus-specific, active DNA demethylation
in the central cell is the origin of maternal chromosome hypomethylation in the
endosperm.
article_processing_charge: No
article_type: original
author:
- first_name: Kyunghyuk
full_name: Park, Kyunghyuk
last_name: Park
- first_name: M. Yvonne
full_name: Kim, M. Yvonne
last_name: Kim
- first_name: Martin
full_name: Vickers, Martin
last_name: Vickers
- first_name: Jin-Sup
full_name: Park, Jin-Sup
last_name: Park
- first_name: Youbong
full_name: Hyun, Youbong
last_name: Hyun
- first_name: Takashi
full_name: Okamoto, Takashi
last_name: Okamoto
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Robert L.
full_name: Fischer, Robert L.
last_name: Fischer
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
- first_name: Yeonhee
full_name: Choi, Yeonhee
last_name: Choi
- first_name: Stefan
full_name: Scholten, Stefan
last_name: Scholten
citation:
ama: Park K, Kim MY, Vickers M, et al. DNA demethylation is initiated in the central
cells of Arabidopsis and rice. Proceedings of the National Academy of Sciences.
2016;113(52):15138-15143. doi:10.1073/pnas.1619047114
apa: Park, K., Kim, M. Y., Vickers, M., Park, J.-S., Hyun, Y., Okamoto, T., … Scholten,
S. (2016). DNA demethylation is initiated in the central cells of Arabidopsis
and rice. Proceedings of the National Academy of Sciences. National Academy
of Sciences. https://doi.org/10.1073/pnas.1619047114
chicago: Park, Kyunghyuk, M. Yvonne Kim, Martin Vickers, Jin-Sup Park, Youbong Hyun,
Takashi Okamoto, Daniel Zilberman, et al. “DNA Demethylation Is Initiated in the
Central Cells of Arabidopsis and Rice.” Proceedings of the National Academy
of Sciences. National Academy of Sciences, 2016. https://doi.org/10.1073/pnas.1619047114.
ieee: K. Park et al., “DNA demethylation is initiated in the central cells
of Arabidopsis and rice,” Proceedings of the National Academy of Sciences,
vol. 113, no. 52. National Academy of Sciences, pp. 15138–15143, 2016.
ista: Park K, Kim MY, Vickers M, Park J-S, Hyun Y, Okamoto T, Zilberman D, Fischer
RL, Feng X, Choi Y, Scholten S. 2016. DNA demethylation is initiated in the central
cells of Arabidopsis and rice. Proceedings of the National Academy of Sciences.
113(52), 15138–15143.
mla: Park, Kyunghyuk, et al. “DNA Demethylation Is Initiated in the Central Cells
of Arabidopsis and Rice.” Proceedings of the National Academy of Sciences,
vol. 113, no. 52, National Academy of Sciences, 2016, pp. 15138–43, doi:10.1073/pnas.1619047114.
short: K. Park, M.Y. Kim, M. Vickers, J.-S. Park, Y. Hyun, T. Okamoto, D. Zilberman,
R.L. Fischer, X. Feng, Y. Choi, S. Scholten, Proceedings of the National Academy
of Sciences 113 (2016) 15138–15143.
date_created: 2021-06-07T07:10:59Z
date_published: 2016-12-27T00:00:00Z
date_updated: 2023-05-08T11:00:07Z
day: '27'
department:
- _id: DaZi
- _id: XiFe
doi: 10.1073/pnas.1619047114
extern: '1'
external_id:
pmid:
- '27956642'
intvolume: ' 113'
issue: '52'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1619047114
month: '12'
oa: 1
oa_version: Published Version
page: 15138-15143
pmid: 1
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: DNA demethylation is initiated in the central cells of Arabidopsis and rice
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 113
year: '2016'
...
---
_id: '948'
abstract:
- lang: eng
text: Experience constantly shapes neural circuits through a variety of plasticity
mechanisms. While the functional roles of some plasticity mechanisms are well-understood,
it remains unclear how changes in neural excitability contribute to learning.
Here, we develop a normative interpretation of intrinsic plasticity (IP) as a
key component of unsupervised learning. We introduce a novel generative mixture
model that accounts for the class-specific statistics of stimulus intensities,
and we derive a neural circuit that learns the input classes and their intensities.
We will analytically show that inference and learning for our generative model
can be achieved by a neural circuit with intensity-sensitive neurons equipped
with a specific form of IP. Numerical experiments verify our analytical derivations
and show robust behavior for artificial and natural stimuli. Our results link
IP to non-trivial input statistics, in particular the statistics of stimulus intensities
for classes to which a neuron is sensitive. More generally, our work paves the
way toward new classification algorithms that are robust to intensity variations.
acknowledgement: DFG Cluster of Excellence EXC 1077/1 (Hearing4all) and LU 1196/5-1
(JL and TM), People Programme (Marie Curie Actions) FP7/2007-2013 grant agreement
no. 291734 (CS)
alternative_title:
- Advances in Neural Information Processing Systems
article_processing_charge: No
author:
- first_name: Travis
full_name: Monk, Travis
last_name: Monk
- first_name: Cristina
full_name: Savin, Cristina
id: 3933349E-F248-11E8-B48F-1D18A9856A87
last_name: Savin
- first_name: Jörg
full_name: Lücke, Jörg
last_name: Lücke
citation:
ama: 'Monk T, Savin C, Lücke J. Neurons equipped with intrinsic plasticity learn
stimulus intensity statistics. In: Vol 29. Neural Information Processing Systems
Foundation; 2016:4285-4293.'
apa: 'Monk, T., Savin, C., & Lücke, J. (2016). Neurons equipped with intrinsic
plasticity learn stimulus intensity statistics (Vol. 29, pp. 4285–4293). Presented
at the NIPS: Neural Information Processing Systems, Barcelona, Spaine: Neural
Information Processing Systems Foundation.'
chicago: Monk, Travis, Cristina Savin, and Jörg Lücke. “Neurons Equipped with Intrinsic
Plasticity Learn Stimulus Intensity Statistics,” 29:4285–93. Neural Information
Processing Systems Foundation, 2016.
ieee: 'T. Monk, C. Savin, and J. Lücke, “Neurons equipped with intrinsic plasticity
learn stimulus intensity statistics,” presented at the NIPS: Neural Information
Processing Systems, Barcelona, Spaine, 2016, vol. 29, pp. 4285–4293.'
ista: 'Monk T, Savin C, Lücke J. 2016. Neurons equipped with intrinsic plasticity
learn stimulus intensity statistics. NIPS: Neural Information Processing Systems,
Advances in Neural Information Processing Systems, vol. 29, 4285–4293.'
mla: Monk, Travis, et al. Neurons Equipped with Intrinsic Plasticity Learn Stimulus
Intensity Statistics. Vol. 29, Neural Information Processing Systems Foundation,
2016, pp. 4285–93.
short: T. Monk, C. Savin, J. Lücke, in:, Neural Information Processing Systems Foundation,
2016, pp. 4285–4293.
conference:
end_date: 2016-12-10
location: Barcelona, Spaine
name: 'NIPS: Neural Information Processing Systems'
start_date: 2016-12-05
date_created: 2018-12-11T11:49:21Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2025-06-03T11:18:32Z
day: '01'
department:
- _id: GaTk
ec_funded: 1
intvolume: ' 29'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://papers.nips.cc/paper/6582-neurons-equipped-with-intrinsic-plasticity-learn-stimulus-intensity-statistics
month: '01'
oa: 1
oa_version: None
page: 4285 - 4293
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication_status: published
publisher: Neural Information Processing Systems Foundation
publist_id: '6469'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Neurons equipped with intrinsic plasticity learn stimulus intensity statistics
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2016'
...
---
_id: '9591'
abstract:
- lang: eng
text: We give several results showing that different discrete structures typically
gain certain spanning substructures (in particular, Hamilton cycles) after a modest
random perturbation. First, we prove that adding linearly many random edges to
a dense k-uniform hypergraph ensures the (asymptotically almost sure) existence
of a perfect matching or a loose Hamilton cycle. The proof involves an interesting
application of Szemerédi's Regularity Lemma, which might be independently useful.
We next prove that digraphs with certain strong expansion properties are pancyclic,
and use this to show that adding a linear number of random edges typically makes
a dense digraph pancyclic. Finally, we prove that perturbing a certain (minimum-degree-dependent)
number of random edges in a tournament typically ensures the existence of multiple
edge-disjoint Hamilton cycles. All our results are tight.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Michael
full_name: Krivelevich, Michael
last_name: Krivelevich
- first_name: Matthew Alan
full_name: Kwan, Matthew Alan
id: 5fca0887-a1db-11eb-95d1-ca9d5e0453b3
last_name: Kwan
orcid: 0000-0002-4003-7567
- first_name: Benny
full_name: Sudakov, Benny
last_name: Sudakov
citation:
ama: Krivelevich M, Kwan MA, Sudakov B. Cycles and matchings in randomly perturbed
digraphs and hypergraphs. Combinatorics, Probability and Computing. 2016;25(6):909-927.
doi:10.1017/s0963548316000079
apa: Krivelevich, M., Kwan, M. A., & Sudakov, B. (2016). Cycles and matchings
in randomly perturbed digraphs and hypergraphs. Combinatorics, Probability
and Computing. Cambridge University Press. https://doi.org/10.1017/s0963548316000079
chicago: Krivelevich, Michael, Matthew Alan Kwan, and Benny Sudakov. “Cycles and
Matchings in Randomly Perturbed Digraphs and Hypergraphs.” Combinatorics, Probability
and Computing. Cambridge University Press, 2016. https://doi.org/10.1017/s0963548316000079.
ieee: M. Krivelevich, M. A. Kwan, and B. Sudakov, “Cycles and matchings in randomly
perturbed digraphs and hypergraphs,” Combinatorics, Probability and Computing,
vol. 25, no. 6. Cambridge University Press, pp. 909–927, 2016.
ista: Krivelevich M, Kwan MA, Sudakov B. 2016. Cycles and matchings in randomly
perturbed digraphs and hypergraphs. Combinatorics, Probability and Computing.
25(6), 909–927.
mla: Krivelevich, Michael, et al. “Cycles and Matchings in Randomly Perturbed Digraphs
and Hypergraphs.” Combinatorics, Probability and Computing, vol. 25, no.
6, Cambridge University Press, 2016, pp. 909–27, doi:10.1017/s0963548316000079.
short: M. Krivelevich, M.A. Kwan, B. Sudakov, Combinatorics, Probability and Computing
25 (2016) 909–927.
date_created: 2021-06-22T12:35:13Z
date_published: 2016-11-01T00:00:00Z
date_updated: 2023-02-23T14:02:07Z
day: '01'
doi: 10.1017/s0963548316000079
extern: '1'
external_id:
arxiv:
- '1501.04816'
intvolume: ' 25'
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1501.04816
month: '11'
oa: 1
oa_version: Preprint
page: 909-927
publication: Combinatorics, Probability and Computing
publication_identifier:
eissn:
- 1469-2163
issn:
- 0963-5483
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cycles and matchings in randomly perturbed digraphs and hypergraphs
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 25
year: '2016'
...
---
_id: '9654'
abstract:
- lang: eng
text: RNA polymerase I (Pol I) is a highly processive enzyme that transcribes ribosomal
DNA (rDNA) and regulates growth of eukaryotic cells. Crystal structures of free
Pol I from the yeast Saccharomyces cerevisiae have revealed dimers of the enzyme
stabilized by a 'connector' element and an expanded cleft containing the active
centre in an inactive conformation. The central bridge helix was unfolded and
a Pol-I-specific 'expander' element occupied the DNA-template-binding site. The
structure of Pol I in its active transcribing conformation has yet to be determined,
whereas structures of Pol II and Pol III have been solved with bound DNA template
and RNA transcript. Here we report structures of active transcribing Pol I from
yeast solved by two different cryo-electron microscopy approaches. A single-particle
structure at 3.8 Å resolution reveals a contracted active centre cleft with bound
DNA and RNA, and a narrowed pore beneath the active site that no longer holds
the RNA-cleavage-stimulating domain of subunit A12.2. A structure at 29 Å resolution
that was determined from cryo-electron tomograms of Pol I enzymes transcribing
cellular rDNA confirms contraction of the cleft and reveals that incoming and
exiting rDNA enclose an angle of around 150°. The structures suggest a model for
the regulation of transcription elongation in which contracted and expanded polymerase
conformations are associated with active and inactive states, respectively.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Simon
full_name: Neyer, Simon
last_name: Neyer
- first_name: Michael
full_name: Kunz, Michael
last_name: Kunz
- first_name: Christian
full_name: Geiss, Christian
last_name: Geiss
- first_name: Merle
full_name: Hantsche, Merle
last_name: Hantsche
- first_name: Victor-Valentin
full_name: Hodirnau, Victor-Valentin
id: 3661B498-F248-11E8-B48F-1D18A9856A87
last_name: Hodirnau
- first_name: Anja
full_name: Seybert, Anja
last_name: Seybert
- first_name: Christoph
full_name: Engel, Christoph
last_name: Engel
- first_name: Margot P.
full_name: Scheffer, Margot P.
last_name: Scheffer
- first_name: Patrick
full_name: Cramer, Patrick
last_name: Cramer
- first_name: Achilleas S.
full_name: Frangakis, Achilleas S.
last_name: Frangakis
citation:
ama: Neyer S, Kunz M, Geiss C, et al. Structure of RNA polymerase I transcribing
ribosomal DNA genes. Nature. 2016;540(7634):607-610. doi:10.1038/nature20561
apa: Neyer, S., Kunz, M., Geiss, C., Hantsche, M., Hodirnau, V.-V., Seybert, A.,
… Frangakis, A. S. (2016). Structure of RNA polymerase I transcribing ribosomal
DNA genes. Nature. Springer Nature. https://doi.org/10.1038/nature20561
chicago: Neyer, Simon, Michael Kunz, Christian Geiss, Merle Hantsche, Victor-Valentin
Hodirnau, Anja Seybert, Christoph Engel, Margot P. Scheffer, Patrick Cramer, and
Achilleas S. Frangakis. “Structure of RNA Polymerase I Transcribing Ribosomal
DNA Genes.” Nature. Springer Nature, 2016. https://doi.org/10.1038/nature20561.
ieee: S. Neyer et al., “Structure of RNA polymerase I transcribing ribosomal
DNA genes,” Nature, vol. 540, no. 7634. Springer Nature, pp. 607–610, 2016.
ista: Neyer S, Kunz M, Geiss C, Hantsche M, Hodirnau V-V, Seybert A, Engel C, Scheffer
MP, Cramer P, Frangakis AS. 2016. Structure of RNA polymerase I transcribing ribosomal
DNA genes. Nature. 540(7634), 607–610.
mla: Neyer, Simon, et al. “Structure of RNA Polymerase I Transcribing Ribosomal
DNA Genes.” Nature, vol. 540, no. 7634, Springer Nature, 2016, pp. 607–10,
doi:10.1038/nature20561.
short: S. Neyer, M. Kunz, C. Geiss, M. Hantsche, V.-V. Hodirnau, A. Seybert, C.
Engel, M.P. Scheffer, P. Cramer, A.S. Frangakis, Nature 540 (2016) 607–610.
date_created: 2021-07-14T09:04:24Z
date_published: 2016-12-22T00:00:00Z
date_updated: 2021-07-22T09:22:20Z
day: '22'
doi: 10.1038/nature20561
extern: '1'
external_id:
pmid:
- '27842382'
intvolume: ' 540'
issue: '7634'
language:
- iso: eng
month: '12'
oa_version: None
page: 607-610
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: Structure of RNA polymerase I transcribing ribosomal DNA genes
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 540
year: '2016'
...
---
_id: '9681'
abstract:
- lang: eng
text: One of the most prominent consequences of the quantum nature of light atomic
nuclei is that their kinetic energy does not follow a Maxwell–Boltzmann distribution.
Deep inelastic neutron scattering (DINS) experiments can measure this effect.
Thus, the nuclear quantum kinetic energy can be probed directly in both ordered
and disordered samples. However, the relation between the quantum kinetic energy
and the atomic environment is a very indirect one, and cross-validation with theoretical
modeling is therefore urgently needed. Here, we use state of the art path integral
molecular dynamics techniques to compute the kinetic energy of hydrogen and oxygen
nuclei in liquid, solid, and gas-phase water close to the triple point, comparing
three different interatomic potentials and validating our results against equilibrium
isotope fractionation measurements. We will then show how accurate simulations
can draw a link between extremely precise fractionation experiments and DINS,
therefore establishing a reliable benchmark for future measurements and providing
key insights to increase further the accuracy of interatomic potentials for water.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Jörg
full_name: Behler, Jörg
last_name: Behler
- first_name: Michele
full_name: Ceriotti, Michele
last_name: Ceriotti
citation:
ama: 'Cheng B, Behler J, Ceriotti M. Nuclear quantum effects in water at the triple
point: Using theory as a link between experiments. The Journal of Physical
Chemistry Letters. 2016;7(12):2210-2215. doi:10.1021/acs.jpclett.6b00729'
apa: 'Cheng, B., Behler, J., & Ceriotti, M. (2016). Nuclear quantum effects
in water at the triple point: Using theory as a link between experiments. The
Journal of Physical Chemistry Letters. American Chemical Society. https://doi.org/10.1021/acs.jpclett.6b00729'
chicago: 'Cheng, Bingqing, Jörg Behler, and Michele Ceriotti. “Nuclear Quantum Effects
in Water at the Triple Point: Using Theory as a Link between Experiments.” The
Journal of Physical Chemistry Letters. American Chemical Society, 2016. https://doi.org/10.1021/acs.jpclett.6b00729.'
ieee: 'B. Cheng, J. Behler, and M. Ceriotti, “Nuclear quantum effects in water at
the triple point: Using theory as a link between experiments,” The Journal
of Physical Chemistry Letters, vol. 7, no. 12. American Chemical Society,
pp. 2210–2215, 2016.'
ista: 'Cheng B, Behler J, Ceriotti M. 2016. Nuclear quantum effects in water at
the triple point: Using theory as a link between experiments. The Journal of Physical
Chemistry Letters. 7(12), 2210–2215.'
mla: 'Cheng, Bingqing, et al. “Nuclear Quantum Effects in Water at the Triple Point:
Using Theory as a Link between Experiments.” The Journal of Physical Chemistry
Letters, vol. 7, no. 12, American Chemical Society, 2016, pp. 2210–15, doi:10.1021/acs.jpclett.6b00729.'
short: B. Cheng, J. Behler, M. Ceriotti, The Journal of Physical Chemistry Letters
7 (2016) 2210–2215.
date_created: 2021-07-19T08:57:32Z
date_published: 2016-06-16T00:00:00Z
date_updated: 2023-02-23T14:04:49Z
day: '16'
doi: 10.1021/acs.jpclett.6b00729
extern: '1'
external_id:
pmid:
- '27203358'
intvolume: ' 7'
issue: '12'
language:
- iso: eng
month: '06'
oa_version: None
page: 2210-2215
pmid: 1
publication: The Journal of Physical Chemistry Letters
publication_identifier:
eissn:
- 1948-7185
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Nuclear quantum effects in water at the triple point: Using theory as a link
between experiments'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 7
year: '2016'
...
---
_id: '9704'
abstract:
- lang: eng
text: Emerging infectious diseases (EIDs) have contributed significantly to the
current biodiversity crisis, leading to widespread epidemics and population loss.
Owing to genetic variation in pathogen virulence, a complete understanding of
species decline requires the accurate identification and characterization of EIDs.
We explore this issue in the Western honeybee, where increasing mortality of populations
in the Northern Hemisphere has caused major concern. Specifically, we investigate
the importance of genetic identity of the main suspect in mortality, deformed
wing virus (DWV), in driving honeybee loss. Using laboratory experiments and a
systematic field survey, we demonstrate that an emerging DWV genotype (DWV-B)
is more virulent than the established DWV genotype (DWV-A) and is widespread in
the landscape. Furthermore, we show in a simple model that colonies infected with
DWV-B collapse sooner than colonies infected with DWV-A. We also identify potential
for rapid DWV evolution by revealing extensive genome-wide recombination in vivo.
The emergence of DWV-B in naive honeybee populations, including via recombination
with DWV-A, could be of significant ecological and economic importance. Our findings
emphasize that knowledge of pathogen genetic identity and diversity is critical
to understanding drivers of species decline.
article_processing_charge: No
author:
- first_name: Dino
full_name: Mcmahon, Dino
last_name: Mcmahon
- first_name: Myrsini
full_name: Natsopoulou, Myrsini
last_name: Natsopoulou
- first_name: Vincent
full_name: Doublet, Vincent
last_name: Doublet
- first_name: Matthias
full_name: Fürst, Matthias
id: 393B1196-F248-11E8-B48F-1D18A9856A87
last_name: Fürst
orcid: 0000-0002-3712-925X
- first_name: Silvio
full_name: Weging, Silvio
last_name: Weging
- first_name: Mark
full_name: Brown, Mark
last_name: Brown
- first_name: Andreas
full_name: Gogol Döring, Andreas
last_name: Gogol Döring
- first_name: Robert
full_name: Paxton, Robert
last_name: Paxton
citation:
ama: 'Mcmahon D, Natsopoulou M, Doublet V, et al. Data from: Elevated virulence
of an emerging viral genotype as a driver of honeybee loss. 2016. doi:10.5061/dryad.cq7t1'
apa: 'Mcmahon, D., Natsopoulou, M., Doublet, V., Fürst, M., Weging, S., Brown, M.,
… Paxton, R. (2016). Data from: Elevated virulence of an emerging viral genotype
as a driver of honeybee loss. Dryad. https://doi.org/10.5061/dryad.cq7t1'
chicago: 'Mcmahon, Dino, Myrsini Natsopoulou, Vincent Doublet, Matthias Fürst, Silvio
Weging, Mark Brown, Andreas Gogol Döring, and Robert Paxton. “Data from: Elevated
Virulence of an Emerging Viral Genotype as a Driver of Honeybee Loss.” Dryad,
2016. https://doi.org/10.5061/dryad.cq7t1.'
ieee: 'D. Mcmahon et al., “Data from: Elevated virulence of an emerging viral
genotype as a driver of honeybee loss.” Dryad, 2016.'
ista: 'Mcmahon D, Natsopoulou M, Doublet V, Fürst M, Weging S, Brown M, Gogol Döring
A, Paxton R. 2016. Data from: Elevated virulence of an emerging viral genotype
as a driver of honeybee loss, Dryad, 10.5061/dryad.cq7t1.'
mla: 'Mcmahon, Dino, et al. Data from: Elevated Virulence of an Emerging Viral
Genotype as a Driver of Honeybee Loss. Dryad, 2016, doi:10.5061/dryad.cq7t1.'
short: D. Mcmahon, M. Natsopoulou, V. Doublet, M. Fürst, S. Weging, M. Brown, A.
Gogol Döring, R. Paxton, (2016).
date_created: 2021-07-23T08:30:38Z
date_published: 2016-05-06T00:00:00Z
date_updated: 2025-09-22T08:59:29Z
day: '06'
department:
- _id: SyCr
doi: 10.5061/dryad.cq7t1
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.cq7t1
month: '05'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '1262'
relation: used_in_publication
status: public
status: public
title: 'Data from: Elevated virulence of an emerging viral genotype as a driver of
honeybee loss'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2016'
...
---
_id: '9710'
abstract:
- lang: eng
text: Much of quantitative genetics is based on the ‘infinitesimal model’, under
which selection has a negligible effect on the genetic variance. This is typically
justified by assuming a very large number of loci with additive effects. However,
it applies even when genes interact, provided that the number of loci is large
enough that selection on each of them is weak relative to random drift. In the
long term, directional selection will change allele frequencies, but even then,
the effects of epistasis on the ultimate change in trait mean due to selection
may be modest. Stabilising selection can maintain many traits close to their optima,
even when the underlying alleles are weakly selected. However, the number of traits
that can be optimised is apparently limited to ~4Ne by the ‘drift load’, and this
is hard to reconcile with the apparent complexity of many organisms. Just as for
the mutation load, this limit can be evaded by a particular form of negative epistasis.
A more robust limit is set by the variance in reproductive success. This suggests
that selection accumulates information most efficiently in the infinitesimal regime,
when selection on individual alleles is weak, and comparable with random drift.
A review of evidence on selection strength suggests that although most variance
in fitness may be because of alleles with large Nes, substantial amounts of adaptation
may be because of alleles in the infinitesimal regime, in which epistasis has
modest effects.
article_processing_charge: No
author:
- 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: 'Barton NH. Data from: How does epistasis influence the response to selection?
2016. doi:10.5061/dryad.s5s7r'
apa: 'Barton, N. H. (2016). Data from: How does epistasis influence the response
to selection? Dryad. https://doi.org/10.5061/dryad.s5s7r'
chicago: 'Barton, Nicholas H. “Data from: How Does Epistasis Influence the Response
to Selection?” Dryad, 2016. https://doi.org/10.5061/dryad.s5s7r.'
ieee: 'N. H. Barton, “Data from: How does epistasis influence the response to selection?”
Dryad, 2016.'
ista: 'Barton NH. 2016. Data from: How does epistasis influence the response to
selection?, Dryad, 10.5061/dryad.s5s7r.'
mla: 'Barton, Nicholas H. Data from: How Does Epistasis Influence the Response
to Selection? Dryad, 2016, doi:10.5061/dryad.s5s7r.'
short: N.H. Barton, (2016).
date_created: 2021-07-23T11:45:47Z
date_published: 2016-09-23T00:00:00Z
date_updated: 2025-04-15T07:11:02Z
day: '23'
department:
- _id: NiBa
doi: 10.5061/dryad.s5s7r
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.s5s7r
month: '09'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '1199'
relation: used_in_publication
status: public
status: public
title: 'Data from: How does epistasis influence the response to selection?'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2016'
...
---
_id: '9720'
abstract:
- lang: eng
text: 'Summary: Declining populations of bee pollinators are a cause of concern,
with major repercussions for biodiversity loss and food security. RNA viruses
associated with honeybees represent a potential threat to other insect pollinators,
but the extent of this threat is poorly understood. This study aims to attain
a detailed understanding of the current and ongoing risk of emerging infectious
disease (EID) transmission between managed and wild pollinator species across
a wide range of RNA viruses. Within a structured large-scale national survey across
26 independent sites, we quantify the prevalence and pathogen loads of multiple
RNA viruses in co-occurring managed honeybee (Apis mellifera) and wild bumblebee
(Bombus spp.) populations. We then construct models that compare virus prevalence
between wild and managed pollinators. Multiple RNA viruses associated with honeybees
are widespread in sympatric wild bumblebee populations. Virus prevalence in honeybees
is a significant predictor of virus prevalence in bumblebees, but we remain cautious
in speculating over the principle direction of pathogen transmission. We demonstrate
species-specific differences in prevalence, indicating significant variation in
disease susceptibility or tolerance. Pathogen loads within individual bumblebees
may be high and in the case of at least one RNA virus, prevalence is higher in
wild bumblebees than in managed honeybee populations. Our findings indicate widespread
transmission of RNA viruses between managed and wild bee pollinators, pointing
to an interconnected network of potential disease pressures within and among pollinator
species. In the context of the biodiversity crisis, our study emphasizes the importance
of targeting a wide range of pathogens and defining host associations when considering
potential drivers of population decline.'
article_processing_charge: No
author:
- first_name: Dino
full_name: Mcmahon, Dino
last_name: Mcmahon
- first_name: Matthias
full_name: Fürst, Matthias
id: 393B1196-F248-11E8-B48F-1D18A9856A87
last_name: Fürst
orcid: 0000-0002-3712-925X
- first_name: Jesicca
full_name: Caspar, Jesicca
last_name: Caspar
- first_name: Panagiotis
full_name: Theodorou, Panagiotis
last_name: Theodorou
- first_name: Mark
full_name: Brown, Mark
last_name: Brown
- first_name: Robert
full_name: Paxton, Robert
last_name: Paxton
citation:
ama: 'Mcmahon D, Fürst M, Caspar J, Theodorou P, Brown M, Paxton R. Data from: A
sting in the spit: widespread cross-infection of multiple RNA viruses across wild
and managed bees. 2016. doi:10.5061/dryad.4b565'
apa: 'Mcmahon, D., Fürst, M., Caspar, J., Theodorou, P., Brown, M., & Paxton,
R. (2016). Data from: A sting in the spit: widespread cross-infection of multiple
RNA viruses across wild and managed bees. Dryad. https://doi.org/10.5061/dryad.4b565'
chicago: 'Mcmahon, Dino, Matthias Fürst, Jesicca Caspar, Panagiotis Theodorou, Mark
Brown, and Robert Paxton. “Data from: A Sting in the Spit: Widespread Cross-Infection
of Multiple RNA Viruses across Wild and Managed Bees.” Dryad, 2016. https://doi.org/10.5061/dryad.4b565.'
ieee: 'D. Mcmahon, M. Fürst, J. Caspar, P. Theodorou, M. Brown, and R. Paxton, “Data
from: A sting in the spit: widespread cross-infection of multiple RNA viruses
across wild and managed bees.” Dryad, 2016.'
ista: 'Mcmahon D, Fürst M, Caspar J, Theodorou P, Brown M, Paxton R. 2016. Data
from: A sting in the spit: widespread cross-infection of multiple RNA viruses
across wild and managed bees, Dryad, 10.5061/dryad.4b565.'
mla: 'Mcmahon, Dino, et al. Data from: A Sting in the Spit: Widespread Cross-Infection
of Multiple RNA Viruses across Wild and Managed Bees. Dryad, 2016, doi:10.5061/dryad.4b565.'
short: D. Mcmahon, M. Fürst, J. Caspar, P. Theodorou, M. Brown, R. Paxton, (2016).
date_created: 2021-07-26T09:14:19Z
date_published: 2016-01-22T00:00:00Z
date_updated: 2025-09-23T07:26:23Z
day: '22'
department:
- _id: SyCr
doi: 10.5061/dryad.4b565
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.4b565
month: '01'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '1855'
relation: used_in_publication
status: public
status: public
title: 'Data from: A sting in the spit: widespread cross-infection of multiple RNA
viruses across wild and managed bees'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2016'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '983'
abstract:
- lang: eng
text: The half-filled Landau level is expected to be approximately particle-hole
symmetric, which requires an extension of the Halperin-Lee-Read (HLR) theory of
the compressible state observed at this filling. Recent work indicates that, when
particle-hole symmetry is preserved, the composite fermions experience a quantized
π-Berry phase upon winding around the composite Fermi surface, analogous to Dirac
fermions at the surface of a 3D topological insulator. In contrast, the effective
low-energy theory of the composite fermion liquid originally proposed by HLR lacks
particle-hole symmetry and has vanishing Berry phase. In this paper, we explain
how thermoelectric transport measurements can be used to test the Dirac nature
of the composite fermions by quantitatively extracting this Berry phase. First,
we point out that longitudinal thermopower (Seebeck effect) is nonvanishing because
of the unusual nature of particle-hole symmetry in this context and is not sensitive
to the Berry phase. In contrast, we find that off-diagonal thermopower (Nernst
effect) is directly related to the topological structure of the composite Fermi
surface, vanishing for zero Berry phase and taking its maximal value for π Berry
phase. In contrast, in purely electrical transport signatures, the Berry phase
contributions appear as small corrections to a large background signal, making
the Nernst effect a promising diagnostic of the Dirac nature of composite fermions.
acknowledgement: We thank B. I. Halperin, N. Cooper, C. Wang, J. Alicea, and M. Zaletel
for insightful conversations. A. C. P. and M. S. were supported by the Gordon and
Betty Moore Foundation’s EPiQS Initiative through Grant No. GBMF4307. A. V. was
supported by a Simons Investigator grant.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Andrew
full_name: Potter, Andrew
last_name: Potter
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Ashvin
full_name: Vishwanath, Ashvin
last_name: Vishwanath
citation:
ama: Potter A, Serbyn M, Vishwanath A. Thermoelectric transport signatures of Dirac
composite fermions in the half-filled Landau level. Physical Review X.
2016;6(3). doi:10.1103/PhysRevX.6.031026
apa: Potter, A., Serbyn, M., & Vishwanath, A. (2016). Thermoelectric transport
signatures of Dirac composite fermions in the half-filled Landau level. Physical
Review X. American Physical Society. https://doi.org/10.1103/PhysRevX.6.031026
chicago: Potter, Andrew, Maksym Serbyn, and Ashvin Vishwanath. “Thermoelectric Transport
Signatures of Dirac Composite Fermions in the Half-Filled Landau Level.” Physical
Review X. American Physical Society, 2016. https://doi.org/10.1103/PhysRevX.6.031026.
ieee: A. Potter, M. Serbyn, and A. Vishwanath, “Thermoelectric transport signatures
of Dirac composite fermions in the half-filled Landau level,” Physical Review
X, vol. 6, no. 3. American Physical Society, 2016.
ista: Potter A, Serbyn M, Vishwanath A. 2016. Thermoelectric transport signatures
of Dirac composite fermions in the half-filled Landau level. Physical Review X.
6(3).
mla: Potter, Andrew, et al. “Thermoelectric Transport Signatures of Dirac Composite
Fermions in the Half-Filled Landau Level.” Physical Review X, vol. 6, no.
3, American Physical Society, 2016, doi:10.1103/PhysRevX.6.031026.
short: A. Potter, M. Serbyn, A. Vishwanath, Physical Review X 6 (2016).
date_created: 2018-12-11T11:49:32Z
date_published: 2016-01-01T00:00:00Z
date_updated: 2026-05-20T13:03:47Z
day: '01'
doi: 10.1103/PhysRevX.6.031026
extern: '1'
external_id:
arxiv:
- '1512.06852'
intvolume: ' 6'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1103/PhysRevX.6.031026
month: '01'
oa: 1
oa_version: Published Version
publication: Physical Review X
publication_identifier:
eissn:
- 2160-3308
publication_status: published
publisher: American Physical Society
publist_id: '6417'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Thermoelectric transport signatures of Dirac composite fermions in the half-filled
Landau level
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 6
year: '2016'
...
---
OA_place: repository
OA_type: green
_id: '984'
abstract:
- lang: eng
text: The entanglement spectrum of the reduced density matrix contains information
beyond the von Neumann entropy and provides unique insights into exotic orders
or critical behavior of quantum systems. Here, we show that strongly disordered
systems in the many-body localized phase have power-law entanglement spectra,
arising from the presence of extensively many local integrals of motion. The power-law
entanglement spectrum distinguishes many-body localized systems from ergodic systems,
as well as from ground states of gapped integrable models or free systems in the
vicinity of scale-invariant critical points. We confirm our results using large-scale
exact diagonalization. In addition, we develop a matrix-product state algorithm
which allows us to access the eigenstates of large systems close to the localization
transition, and discuss general implications of our results for variational studies
of highly excited eigenstates in many-body localized systems.
acknowledgement: We thank M. Stoudenmire and C. Turner for useful discussions. M.
S. was supported by Gordon and Betty Moore Foundation's EPiQS Initiative through
Grant No. GBMF4307. This research was supported in part by the National Science
Foundation under Grant No. NSF PHY11-25915, and by the Swiss National Science Foundation
and Alfred Sloan Foundation (D. A.). This work made use of the facilities of N8
HPC Centre of Excellence, provided and funded by the N8 consortium and EPSRC (Grant
No. EP/K000225/1). The Centre is coordinated by the Universities of Leeds and Manchester.
article_number: '160601'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Alexios
full_name: Michailidis, Alexios
id: 36EBAD38-F248-11E8-B48F-1D18A9856A87
last_name: Michailidis
orcid: 0000-0002-8443-1064
- first_name: Dmitry
full_name: Abanin, Dmitry
last_name: Abanin
- first_name: Zlatko
full_name: Papić, Zlatko
last_name: Papić
citation:
ama: Serbyn M, Michailidis A, Abanin D, Papić Z. Power-law entanglement spectrum
in many-body localized phases. Physical Review Letters. 2016;117(16). doi:10.1103/PhysRevLett.117.160601
apa: Serbyn, M., Michailidis, A., Abanin, D., & Papić, Z. (2016). Power-law
entanglement spectrum in many-body localized phases. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/PhysRevLett.117.160601
chicago: Serbyn, Maksym, Alexios Michailidis, Dmitry Abanin, and Zlatko Papić. “Power-Law
Entanglement Spectrum in Many-Body Localized Phases.” Physical Review Letters.
American Physical Society, 2016. https://doi.org/10.1103/PhysRevLett.117.160601.
ieee: M. Serbyn, A. Michailidis, D. Abanin, and Z. Papić, “Power-law entanglement
spectrum in many-body localized phases,” Physical Review Letters, vol.
117, no. 16. American Physical Society, 2016.
ista: Serbyn M, Michailidis A, Abanin D, Papić Z. 2016. Power-law entanglement spectrum
in many-body localized phases. Physical Review Letters. 117(16), 160601.
mla: Serbyn, Maksym, et al. “Power-Law Entanglement Spectrum in Many-Body Localized
Phases.” Physical Review Letters, vol. 117, no. 16, 160601, American Physical
Society, 2016, doi:10.1103/PhysRevLett.117.160601.
short: M. Serbyn, A. Michailidis, D. Abanin, Z. Papić, Physical Review Letters 117
(2016).
date_created: 2018-12-11T11:49:32Z
date_published: 2016-10-14T00:00:00Z
date_updated: 2026-05-20T13:46:33Z
day: '14'
doi: 10.1103/PhysRevLett.117.160601
extern: '1'
external_id:
arxiv:
- '1605.05737'
pmid:
- '27792374'
intvolume: ' 117'
issue: '16'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.1605.05737'
month: '10'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review Letters
publication_identifier:
eissn:
- ' 1079-7114'
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
publist_id: '6414'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Power-law entanglement spectrum in many-body localized phases
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 117
year: '2016'
...
---
_id: '6732'
abstract:
- lang: eng
text: Consider the transmission of a polar code of block length N and rate R over
a binary memoryless symmetric channel W and let P e be the block error probability
under successive cancellation decoding. In this paper, we develop new bounds that
characterize the relationship of the parameters R, N, P e , and the quality of
the channel W quantified by its capacity I(W) and its Bhattacharyya parameter
Z(W). In previous work, two main regimes were studied. In the error exponent regime,
the channel W and the rate R <; I(W) are fixed, and it was proved that the error
probability Pe scales roughly as 2 -√N . In the scaling exponent approach, the
channel W and the error probability Pe are fixed and it was proved that the gap
to capacity I(W) - R scales as N -1/μ . Here, μ is called scaling exponent and
this scaling exponent depends on the channel W. A heuristic computation for the
binary erasure channel (BEC) gives μ = 3.627 and it was shown that, for any channel
W, 3.579 ≤ μ ≤ 5.702. Our contributions are as follows. First, we provide the
tighter upper bound μ <;≤ 4.714 valid for any W. With the same technique, we obtain
the upper bound μ ≤ 3.639 for the case of the BEC; this upper bound approaches
very closely the heuristically derived value for the scaling exponent of the erasure
channel. Second, we develop a trade-off between the gap to capacity I(W)- R and
the error probability Pe as the functions of the block length N. In other words,
we neither fix the gap to capacity (error exponent regime) nor the error probability
(scaling exponent regime), but we do consider a moderate deviations regime in
which we study how fast both quantities, as the functions of the block length
N, simultaneously go to 0. Third, we prove that polar codes are not affected by
error floors. To do so, we fix a polar code of block length N and rate R. Then,
we vary the channel W and study the impact of this variation on the error probability.
We show that the error probability Pe scales as the Bhattacharyya parameter Z(W)
raised to a power that scales roughly like VN. This agrees with the scaling in
the error exponent regime.
article_type: original
arxiv: 1
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: S. Hamed
full_name: Hassani, S. Hamed
last_name: Hassani
- first_name: Rudiger L.
full_name: Urbanke, Rudiger L.
last_name: Urbanke
citation:
ama: 'Mondelli M, Hassani SH, Urbanke RL. Unified scaling of polar codes: Error
exponent, scaling exponent, moderate deviations, and error floors. IEEE Transactions
on Information Theory. 2016;62(12):6698-6712. doi:10.1109/tit.2016.2616117'
apa: 'Mondelli, M., Hassani, S. H., & Urbanke, R. L. (2016). Unified scaling
of polar codes: Error exponent, scaling exponent, moderate deviations, and error
floors. IEEE Transactions on Information Theory. IEEE. https://doi.org/10.1109/tit.2016.2616117'
chicago: 'Mondelli, Marco, S. Hamed Hassani, and Rudiger L. Urbanke. “Unified Scaling
of Polar Codes: Error Exponent, Scaling Exponent, Moderate Deviations, and Error
Floors.” IEEE Transactions on Information Theory. IEEE, 2016. https://doi.org/10.1109/tit.2016.2616117.'
ieee: 'M. Mondelli, S. H. Hassani, and R. L. Urbanke, “Unified scaling of polar
codes: Error exponent, scaling exponent, moderate deviations, and error floors,”
IEEE Transactions on Information Theory, vol. 62, no. 12. IEEE, pp. 6698–6712,
2016.'
ista: 'Mondelli M, Hassani SH, Urbanke RL. 2016. Unified scaling of polar codes:
Error exponent, scaling exponent, moderate deviations, and error floors. IEEE
Transactions on Information Theory. 62(12), 6698–6712.'
mla: 'Mondelli, Marco, et al. “Unified Scaling of Polar Codes: Error Exponent, Scaling
Exponent, Moderate Deviations, and Error Floors.” IEEE Transactions on Information
Theory, vol. 62, no. 12, IEEE, 2016, pp. 6698–712, doi:10.1109/tit.2016.2616117.'
short: M. Mondelli, S.H. Hassani, R.L. Urbanke, IEEE Transactions on Information
Theory 62 (2016) 6698–6712.
date_created: 2019-07-31T06:03:49Z
date_published: 2016-12-01T00:00:00Z
date_updated: 2021-01-12T08:08:44Z
day: '01'
doi: 10.1109/tit.2016.2616117
extern: '1'
external_id:
arxiv:
- '1501.02444'
intvolume: ' 62'
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1501.02444
month: '12'
oa: 1
oa_version: Preprint
page: 6698-6712
publication: IEEE Transactions on Information Theory
publication_identifier:
eissn:
- 1557-9654
issn:
- 0018-9448
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: 'Unified scaling of polar codes: Error exponent, scaling exponent, moderate
deviations, and error floors'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 62
year: '2016'
...
---
_id: '6733'
abstract:
- lang: eng
text: 'The question whether RM codes are capacity-achieving is a long-standing open
problem in coding theory that was recently answered in the affirmative for transmission
over erasure channels [1], [2]. Remarkably, the proof does not rely on specific
properties of RM codes, apart from their symmetry. Indeed, the main technical
result consists in showing that any sequence of linear codes, with doubly-transitive
permutation groups, achieves capacity on the memoryless erasure channel under
bit-MAP decoding. Thus, a natural question is what happens under block-MAP decoding.
In [1], [2], by exploiting further symmetries of the code, the bit-MAP threshold
was shown to be sharp enough so that the block erasure probability also converges
to 0. However, this technique relies heavily on the fact that the transmission
is over an erasure channel. We present an alternative approach to strengthen results
regarding the bit-MAP threshold to block-MAP thresholds. This approach is based
on a careful analysis of the weight distribution of RM codes. In particular, the
flavor of the main result is the following: assume that the bit-MAP error probability
decays as N -δ , for some δ > 0. Then, the block-MAP error probability also converges
to 0. This technique applies to transmission over any binary memoryless symmetric
channel. Thus, it can be thought of as a first step in extending the proof that
RM codes are capacity-achieving to the general case.'
arxiv: 1
author:
- first_name: Shrinivas
full_name: Kudekar, Shrinivas
last_name: Kudekar
- first_name: Santhosh
full_name: Kumar, Santhosh
last_name: Kumar
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Henry D.
full_name: Pfister, Henry D.
last_name: Pfister
- first_name: Rudiger
full_name: Urbankez, Rudiger
last_name: Urbankez
citation:
ama: 'Kudekar S, Kumar S, Mondelli M, Pfister HD, Urbankez R. Comparing the bit-MAP
and block-MAP decoding thresholds of Reed-Muller codes on BMS channels. In: 2016
IEEE International Symposium on Information Theory . IEEE; 2016:1755-1759.
doi:10.1109/isit.2016.7541600'
apa: 'Kudekar, S., Kumar, S., Mondelli, M., Pfister, H. D., & Urbankez, R. (2016).
Comparing the bit-MAP and block-MAP decoding thresholds of Reed-Muller codes on
BMS channels. In 2016 IEEE International Symposium on Information Theory
(pp. 1755–1759). Barcelona, Spain: IEEE. https://doi.org/10.1109/isit.2016.7541600'
chicago: Kudekar, Shrinivas, Santhosh Kumar, Marco Mondelli, Henry D. Pfister, and
Rudiger Urbankez. “Comparing the Bit-MAP and Block-MAP Decoding Thresholds of
Reed-Muller Codes on BMS Channels.” In 2016 IEEE International Symposium on
Information Theory , 1755–59. IEEE, 2016. https://doi.org/10.1109/isit.2016.7541600.
ieee: S. Kudekar, S. Kumar, M. Mondelli, H. D. Pfister, and R. Urbankez, “Comparing
the bit-MAP and block-MAP decoding thresholds of Reed-Muller codes on BMS channels,”
in 2016 IEEE International Symposium on Information Theory , Barcelona,
Spain, 2016, pp. 1755–1759.
ista: 'Kudekar S, Kumar S, Mondelli M, Pfister HD, Urbankez R. 2016. Comparing the
bit-MAP and block-MAP decoding thresholds of Reed-Muller codes on BMS channels.
2016 IEEE International Symposium on Information Theory . ISIT: International
Symposium on Information Theory, 1755–1759.'
mla: Kudekar, Shrinivas, et al. “Comparing the Bit-MAP and Block-MAP Decoding Thresholds
of Reed-Muller Codes on BMS Channels.” 2016 IEEE International Symposium on
Information Theory , IEEE, 2016, pp. 1755–59, doi:10.1109/isit.2016.7541600.
short: S. Kudekar, S. Kumar, M. Mondelli, H.D. Pfister, R. Urbankez, in:, 2016 IEEE
International Symposium on Information Theory , IEEE, 2016, pp. 1755–1759.
conference:
end_date: 2016-07-15
location: Barcelona, Spain
name: 'ISIT: International Symposium on Information Theory'
start_date: 2016-07-10
date_created: 2019-07-31T06:36:16Z
date_published: 2016-08-11T00:00:00Z
date_updated: 2021-01-12T08:08:44Z
day: '11'
doi: 10.1109/isit.2016.7541600
extern: '1'
external_id:
arxiv:
- '1601.06048'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1601.06048
month: '08'
oa: 1
oa_version: Preprint
page: 1755-1759
publication: '2016 IEEE International Symposium on Information Theory '
publication_status: published
publisher: IEEE
quality_controlled: '1'
status: public
title: Comparing the bit-MAP and block-MAP decoding thresholds of Reed-Muller codes
on BMS channels
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '6770'
abstract:
- lang: eng
text: "We describe a new method to compare the bit-MAP and block-MAP decoding thresholds
of Reed-Muller (RM) codes for transmission over a binary memoryless symmetric
channel. The question whether RM codes are capacity-achieving is a long-standing
open problem in coding theory and it has recently been answered in the affirmative
for transmission over\r\nerasure channels. Remarkably, the proof does not rely
on specific properties of RM codes, apart from their symmetry. Indeed, the main
technical result consists in showing that any sequence of linear codes, with doubly-transitive
permutation groups, achieves capacity on the memoryless erasure channel under
bit-MAP decoding. A natural question is what happens under block-MAP decoding.
If the minimum distance of the code family is close to linear (e.g., of order
N/ log(N)), then one can combine an upper bound on the bit-MAP error probability
with a lower bound on the minimum distance to show that the code family is also
capacity-achieving under block-MAP decoding. This strategy is successful for BCH
codes. Unfortunately, the minimum distance of RM codes scales only as √N, which
does not suffice to obtain the desired result. Then, one can exploit further symmetries
of RM codes to show that the bit-MAP threshold is sharp enough so that the block
erasure probability also tends to 0. However, this technique relies heavily on
the fact that the transmission is over an erasure channel.\r\nWe present an alternative
approach to strengthen results regarding the bit-MAP threshold to block-MAP thresholds.
This approach is based on a careful analysis of the weight distribution of RM
codes. In particular, the flavor of the main result is the following: assume that
the bit-MAP error probability decays as N−δ, for some δ > 0. Then, the block-MAP\r\nerror
probability also converges to 0. This technique applies to the transmission over
any binary memoryless symmetric channel. Thus, it can be thought of as a first
step in extending the proof that RM codes are capacity-achieving to the general
case."
author:
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Shrinivas
full_name: Kudekar, Shrinivas
last_name: Kudekar
- first_name: Santosh
full_name: Kumar, Santosh
last_name: Kumar
- first_name: Henry D.
full_name: Pfister, Henry D.
last_name: Pfister
- first_name: Eren
full_name: Şaşoğlu, Eren
last_name: Şaşoğlu
- first_name: Rüdiger
full_name: Urbanke, Rüdiger
last_name: Urbanke
citation:
ama: 'Mondelli M, Kudekar S, Kumar S, Pfister HD, Şaşoğlu E, Urbanke R. Reed-Muller
codes: Thresholds and weight distribution. In: 24th International Zurich Seminar
on Communications. ETH Zürich; 2016:50. doi:10.3929/ETHZ-A-010646484'
apa: 'Mondelli, M., Kudekar, S., Kumar, S., Pfister, H. D., Şaşoğlu, E., & Urbanke,
R. (2016). Reed-Muller codes: Thresholds and weight distribution. In 24th International
Zurich Seminar on Communications (p. 50). Zurich, Switzerland: ETH Zürich.
https://doi.org/10.3929/ETHZ-A-010646484'
chicago: 'Mondelli, Marco, Shrinivas Kudekar, Santosh Kumar, Henry D. Pfister, Eren
Şaşoğlu, and Rüdiger Urbanke. “Reed-Muller Codes: Thresholds and Weight Distribution.”
In 24th International Zurich Seminar on Communications, 50. ETH Zürich,
2016. https://doi.org/10.3929/ETHZ-A-010646484.'
ieee: 'M. Mondelli, S. Kudekar, S. Kumar, H. D. Pfister, E. Şaşoğlu, and R. Urbanke,
“Reed-Muller codes: Thresholds and weight distribution,” in 24th International
Zurich Seminar on Communications, Zurich, Switzerland, 2016, p. 50.'
ista: 'Mondelli M, Kudekar S, Kumar S, Pfister HD, Şaşoğlu E, Urbanke R. 2016. Reed-Muller
codes: Thresholds and weight distribution. 24th International Zurich Seminar on
Communications. IZS: International Zurich Seminar on Communications, 50.'
mla: 'Mondelli, Marco, et al. “Reed-Muller Codes: Thresholds and Weight Distribution.”
24th International Zurich Seminar on Communications, ETH Zürich, 2016,
p. 50, doi:10.3929/ETHZ-A-010646484.'
short: M. Mondelli, S. Kudekar, S. Kumar, H.D. Pfister, E. Şaşoğlu, R. Urbanke,
in:, 24th International Zurich Seminar on Communications, ETH Zürich, 2016, p.
50.
conference:
end_date: 2016-03-04
location: Zurich, Switzerland
name: 'IZS: International Zurich Seminar on Communications'
start_date: 2016-03-02
date_created: 2019-08-05T12:43:48Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2021-01-12T08:08:57Z
day: '01'
doi: 10.3929/ETHZ-A-010646484
extern: '1'
language:
- iso: eng
month: '03'
oa_version: None
page: '50'
publication: 24th International Zurich Seminar on Communications
publication_status: published
publisher: ETH Zürich
quality_controlled: '1'
status: public
title: 'Reed-Muller codes: Thresholds and weight distribution'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '7068'
abstract:
- lang: eng
text: Electrons in materials with linear dispersion behave as massless Weyl- or
Dirac-quasiparticles, and continue to intrigue due to their close resemblance
to elusive ultra-relativistic particles as well as their potential for future
electronics. Yet the experimental signatures of Weyl-fermions are often subtle
and indirect, in particular if they coexist with conventional, massive quasiparticles.
Here we show a pronounced anomaly in the magnetic torque of the Weyl semimetal
NbAs upon entering the quantum limit state in high magnetic fields. The torque
changes sign in the quantum limit, signalling a reversal of the magnetic anisotropy
that can be directly attributed to the topological nature of the Weyl electrons.
Our results establish that anomalous quantum limit torque measurements provide
a direct experimental method to identify and distinguish Weyl and Dirac systems.
article_number: '12492'
article_processing_charge: No
article_type: original
author:
- first_name: Philip J. W.
full_name: Moll, Philip J. W.
last_name: Moll
- first_name: Andrew C.
full_name: Potter, Andrew C.
last_name: Potter
- first_name: Nityan L.
full_name: Nair, Nityan L.
last_name: Nair
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: Scott
full_name: Riggs, Scott
last_name: Riggs
- first_name: Bin
full_name: Zeng, Bin
last_name: Zeng
- first_name: Nirmal J.
full_name: Ghimire, Nirmal J.
last_name: Ghimire
- first_name: Eric D.
full_name: Bauer, Eric D.
last_name: Bauer
- first_name: Robert
full_name: Kealhofer, Robert
last_name: Kealhofer
- first_name: Filip
full_name: Ronning, Filip
last_name: Ronning
- first_name: James G.
full_name: Analytis, James G.
last_name: Analytis
citation:
ama: Moll PJW, Potter AC, Nair NL, et al. Magnetic torque anomaly in the quantum
limit of Weyl semimetals. Nature Communications. 2016;7. doi:10.1038/ncomms12492
apa: Moll, P. J. W., Potter, A. C., Nair, N. L., Ramshaw, B. J., Modic, K. A., Riggs,
S., … Analytis, J. G. (2016). Magnetic torque anomaly in the quantum limit of
Weyl semimetals. Nature Communications. Springer Nature. https://doi.org/10.1038/ncomms12492
chicago: Moll, Philip J. W., Andrew C. Potter, Nityan L. Nair, B. J. Ramshaw, Kimberly
A Modic, Scott Riggs, Bin Zeng, et al. “Magnetic Torque Anomaly in the Quantum
Limit of Weyl Semimetals.” Nature Communications. Springer Nature, 2016.
https://doi.org/10.1038/ncomms12492.
ieee: P. J. W. Moll et al., “Magnetic torque anomaly in the quantum limit
of Weyl semimetals,” Nature Communications, vol. 7. Springer Nature, 2016.
ista: Moll PJW, Potter AC, Nair NL, Ramshaw BJ, Modic KA, Riggs S, Zeng B, Ghimire
NJ, Bauer ED, Kealhofer R, Ronning F, Analytis JG. 2016. Magnetic torque anomaly
in the quantum limit of Weyl semimetals. Nature Communications. 7, 12492.
mla: Moll, Philip J. W., et al. “Magnetic Torque Anomaly in the Quantum Limit of
Weyl Semimetals.” Nature Communications, vol. 7, 12492, Springer Nature,
2016, doi:10.1038/ncomms12492.
short: P.J.W. Moll, A.C. Potter, N.L. Nair, B.J. Ramshaw, K.A. Modic, S. Riggs,
B. Zeng, N.J. Ghimire, E.D. Bauer, R. Kealhofer, F. Ronning, J.G. Analytis, Nature
Communications 7 (2016).
date_created: 2019-11-19T13:20:53Z
date_published: 2016-08-22T00:00:00Z
date_updated: 2021-01-12T08:11:40Z
day: '22'
ddc:
- '530'
doi: 10.1038/ncomms12492
extern: '1'
file:
- access_level: open_access
checksum: e3272ed18d22187406b30be48a56e7b2
content_type: application/pdf
creator: dernst
date_created: 2019-11-26T12:52:19Z
date_updated: 2020-07-14T12:47:48Z
file_id: '7114'
file_name: 2016_NatureComm_Moll.pdf
file_size: 663911
relation: main_file
file_date_updated: 2020-07-14T12:47:48Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Magnetic torque anomaly in the quantum limit of Weyl semimetals
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: 7
year: '2016'
...
---
OA_place: publisher
OA_type: gold
_id: '7069'
abstract:
- lang: eng
text: The observation of a reconstructed Fermi surface via quantum oscillations
in hole-doped cuprates opened a path towards identifying broken symmetry states
in the pseudogap regime. However, such an identification has remained inconclusive
due to the multi-frequency quantum oscillation spectra and complications accounting
for bilayer effects in most studies. We overcome these impediments with high-resolution
measurements on the structurally simpler cuprate HgBa2CuO4+δ (Hg1201), which features
one CuO2 plane per primitive unit cell. We find only a single oscillatory component
with no signatures of magnetic breakdown tunnelling to additional orbits. Therefore,
the Fermi surface comprises a single quasi-two-dimensional pocket. Quantitative
modelling of these results indicates that a biaxial charge density wave within
each CuO2 plane is responsible for the reconstruction and rules out criss-crossed
charge stripes between layers as a viable alternative in Hg1201. Lastly, we determine
that the characteristic gap between reconstructed pockets is a significant fraction
of the pseudogap energy.
article_number: '12244'
article_processing_charge: No
article_type: original
author:
- first_name: M. K.
full_name: Chan, M. K.
last_name: Chan
- first_name: N.
full_name: Harrison, N.
last_name: Harrison
- first_name: R. D.
full_name: McDonald, R. D.
last_name: McDonald
- first_name: B. J.
full_name: Ramshaw, B. J.
last_name: Ramshaw
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: N.
full_name: Barišić, N.
last_name: Barišić
- first_name: M.
full_name: Greven, M.
last_name: Greven
citation:
ama: Chan MK, Harrison N, McDonald RD, et al. Single reconstructed Fermi surface
pocket in an underdoped single-layer cuprate superconductor. Nature Communications.
2016;7. doi:10.1038/ncomms12244
apa: Chan, M. K., Harrison, N., McDonald, R. D., Ramshaw, B. J., Modic, K. A., Barišić,
N., & Greven, M. (2016). Single reconstructed Fermi surface pocket in an underdoped
single-layer cuprate superconductor. Nature Communications. Springer Nature.
https://doi.org/10.1038/ncomms12244
chicago: Chan, M. K., N. Harrison, R. D. McDonald, B. J. Ramshaw, Kimberly A Modic,
N. Barišić, and M. Greven. “Single Reconstructed Fermi Surface Pocket in an Underdoped
Single-Layer Cuprate Superconductor.” Nature Communications. Springer Nature,
2016. https://doi.org/10.1038/ncomms12244.
ieee: M. K. Chan et al., “Single reconstructed Fermi surface pocket in an
underdoped single-layer cuprate superconductor,” Nature Communications,
vol. 7. Springer Nature, 2016.
ista: Chan MK, Harrison N, McDonald RD, Ramshaw BJ, Modic KA, Barišić N, Greven
M. 2016. Single reconstructed Fermi surface pocket in an underdoped single-layer
cuprate superconductor. Nature Communications. 7, 12244.
mla: Chan, M. K., et al. “Single Reconstructed Fermi Surface Pocket in an Underdoped
Single-Layer Cuprate Superconductor.” Nature Communications, vol. 7, 12244,
Springer Nature, 2016, doi:10.1038/ncomms12244.
short: M.K. Chan, N. Harrison, R.D. McDonald, B.J. Ramshaw, K.A. Modic, N. Barišić,
M. Greven, Nature Communications 7 (2016).
date_created: 2019-11-19T13:21:23Z
date_published: 2016-07-22T00:00:00Z
date_updated: 2025-01-22T14:31:10Z
day: '22'
doi: 10.1038/ncomms12244
extern: '1'
intvolume: ' 7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/ncomms12244
month: '07'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Single reconstructed Fermi surface pocket in an underdoped single-layer cuprate
superconductor
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2016'
...
---
_id: '7141'
article_processing_charge: No
article_type: original
author:
- first_name: Chiara
full_name: Rolando, Chiara
last_name: Rolando
- first_name: Andrea
full_name: Erni, Andrea
last_name: Erni
- first_name: Alice
full_name: Grison, Alice
last_name: Grison
- 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: Anna
full_name: Engler, Anna
last_name: Engler
- first_name: Paul J.
full_name: Gokhale, Paul J.
last_name: Gokhale
- first_name: Marta
full_name: Milo, Marta
last_name: Milo
- first_name: Thomas
full_name: Wegleiter, Thomas
last_name: Wegleiter
- first_name: Sebastian
full_name: Jessberger, Sebastian
last_name: Jessberger
- first_name: Verdon
full_name: Taylor, Verdon
last_name: Taylor
citation:
ama: Rolando C, Erni A, Grison A, et al. Multipotency of adult hippocampal NSCs
in vivo is restricted by Drosha/NFIB. Cell Stem Cell. 2016;19(5):653-662.
doi:10.1016/j.stem.2016.07.003
apa: Rolando, C., Erni, A., Grison, A., Beattie, R. J., Engler, A., Gokhale, P.
J., … Taylor, V. (2016). Multipotency of adult hippocampal NSCs in vivo is restricted
by Drosha/NFIB. Cell Stem Cell. Elsevier. https://doi.org/10.1016/j.stem.2016.07.003
chicago: Rolando, Chiara, Andrea Erni, Alice Grison, Robert J Beattie, Anna Engler,
Paul J. Gokhale, Marta Milo, Thomas Wegleiter, Sebastian Jessberger, and Verdon
Taylor. “Multipotency of Adult Hippocampal NSCs in Vivo Is Restricted by Drosha/NFIB.”
Cell Stem Cell. Elsevier, 2016. https://doi.org/10.1016/j.stem.2016.07.003.
ieee: C. Rolando et al., “Multipotency of adult hippocampal NSCs in vivo
is restricted by Drosha/NFIB,” Cell Stem Cell, vol. 19, no. 5. Elsevier,
pp. 653–662, 2016.
ista: Rolando C, Erni A, Grison A, Beattie RJ, Engler A, Gokhale PJ, Milo M, Wegleiter
T, Jessberger S, Taylor V. 2016. Multipotency of adult hippocampal NSCs in vivo
is restricted by Drosha/NFIB. Cell Stem Cell. 19(5), 653–662.
mla: Rolando, Chiara, et al. “Multipotency of Adult Hippocampal NSCs in Vivo Is
Restricted by Drosha/NFIB.” Cell Stem Cell, vol. 19, no. 5, Elsevier, 2016,
pp. 653–62, doi:10.1016/j.stem.2016.07.003.
short: C. Rolando, A. Erni, A. Grison, R.J. Beattie, A. Engler, P.J. Gokhale, M.
Milo, T. Wegleiter, S. Jessberger, V. Taylor, Cell Stem Cell 19 (2016) 653–662.
date_created: 2019-11-28T13:09:09Z
date_published: 2016-08-16T00:00:00Z
date_updated: 2021-01-12T08:12:00Z
day: '16'
doi: 10.1016/j.stem.2016.07.003
extern: '1'
intvolume: ' 19'
issue: '5'
language:
- iso: eng
month: '08'
oa_version: None
page: 653-662
publication: Cell Stem Cell
publication_identifier:
issn:
- 1934-5909
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Multipotency of adult hippocampal NSCs in vivo is restricted by Drosha/NFIB
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '2016'
...
---
_id: '7279'
abstract:
- lang: eng
text: Kinetics of electrochemical reactions are several orders of magnitude slower
in solids than in liquids as a result of the much lower ion diffusivity. Yet,
the solid state maximizes the density of redox species, which is at least two
orders of magnitude lower in liquids because of solubility limitations. With regard
to electrochemical energy storage devices, this leads to high-energy batteries
with limited power and high-power supercapacitors with a well-known energy deficiency.
For such devices the ideal system should endow the liquid state with a density
of redox species close to the solid state. Here we report an approach based on
biredox ionic liquids to achieve bulk-like redox density at liquid-like fast kinetics.
The cation and anion of these biredox ionic liquids bear moieties that undergo
very fast reversible redox reactions. As a first demonstration of their potential
for high-capacity/high-rate charge storage, we used them in redox supercapacitors.
These ionic liquids are able to decouple charge storage from an ion-accessible
electrode surface, by storing significant charge in the pores of the electrodes,
to minimize self-discharge and leakage current as a result of retaining the redox
species in the pores, and to raise working voltage due to their wide electrochemical
window.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Eléonore
full_name: Mourad, Eléonore
last_name: Mourad
- first_name: Laura
full_name: Coustan, Laura
last_name: Coustan
- first_name: Pierre
full_name: Lannelongue, Pierre
last_name: Lannelongue
- first_name: Dodzi
full_name: Zigah, Dodzi
last_name: Zigah
- first_name: Ahmad
full_name: Mehdi, Ahmad
last_name: Mehdi
- first_name: André
full_name: Vioux, André
last_name: Vioux
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Frédéric
full_name: Favier, Frédéric
last_name: Favier
- first_name: Olivier
full_name: Fontaine, Olivier
last_name: Fontaine
citation:
ama: Mourad E, Coustan L, Lannelongue P, et al. Biredox ionic liquids with solid-like
redox density in the liquid state for high-energy supercapacitors. Nature Materials.
2016;16(4):446-453. doi:10.1038/nmat4808
apa: Mourad, E., Coustan, L., Lannelongue, P., Zigah, D., Mehdi, A., Vioux, A.,
… Fontaine, O. (2016). Biredox ionic liquids with solid-like redox density in
the liquid state for high-energy supercapacitors. Nature Materials. Springer
Nature. https://doi.org/10.1038/nmat4808
chicago: Mourad, Eléonore, Laura Coustan, Pierre Lannelongue, Dodzi Zigah, Ahmad
Mehdi, André Vioux, Stefan Alexander Freunberger, Frédéric Favier, and Olivier
Fontaine. “Biredox Ionic Liquids with Solid-like Redox Density in the Liquid State
for High-Energy Supercapacitors.” Nature Materials. Springer Nature, 2016.
https://doi.org/10.1038/nmat4808.
ieee: E. Mourad et al., “Biredox ionic liquids with solid-like redox density
in the liquid state for high-energy supercapacitors,” Nature Materials,
vol. 16, no. 4. Springer Nature, pp. 446–453, 2016.
ista: Mourad E, Coustan L, Lannelongue P, Zigah D, Mehdi A, Vioux A, Freunberger
SA, Favier F, Fontaine O. 2016. Biredox ionic liquids with solid-like redox density
in the liquid state for high-energy supercapacitors. Nature Materials. 16(4),
446–453.
mla: Mourad, Eléonore, et al. “Biredox Ionic Liquids with Solid-like Redox Density
in the Liquid State for High-Energy Supercapacitors.” Nature Materials,
vol. 16, no. 4, Springer Nature, 2016, pp. 446–53, doi:10.1038/nmat4808.
short: E. Mourad, L. Coustan, P. Lannelongue, D. Zigah, A. Mehdi, A. Vioux, S.A.
Freunberger, F. Favier, O. Fontaine, Nature Materials 16 (2016) 446–453.
date_created: 2020-01-15T07:27:54Z
date_published: 2016-11-28T00:00:00Z
date_updated: 2021-01-12T08:12:43Z
day: '28'
doi: 10.1038/nmat4808
extern: '1'
external_id:
arxiv:
- '1711.11518'
intvolume: ' 16'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1711.11518
month: '11'
oa: 1
oa_version: Preprint
page: 446-453
publication: Nature Materials
publication_identifier:
issn:
- 1476-1122
- 1476-4660
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Biredox ionic liquids with solid-like redox density in the liquid state for
high-energy supercapacitors
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2016'
...