---
_id: '9055'
abstract:
- lang: eng
text: Spontaneous formation of colonies of bacteria or flocks of birds are examples
of self-organization in active living matter. Here, we demonstrate a form of self-organization
from nonequilibrium driving forces in a suspension of synthetic photoactivated
colloidal particles. They lead to two-dimensional "living crystals," which form,
break, explode, and re-form elsewhere. The dynamic assembly results from a competition
between self-propulsion of particles and an attractive interaction induced respectively
by osmotic and phoretic effects and activated by light. We measured a transition
from normal to giant-number fluctuations. Our experiments are quantitatively described
by simple numerical simulations. We show that the existence of the living crystals
is intrinsically related to the out-of-equilibrium collisions of the self-propelled
particles.
article_processing_charge: No
article_type: original
author:
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: S.
full_name: Sacanna, S.
last_name: Sacanna
- first_name: A. P.
full_name: Steinberg, A. P.
last_name: Steinberg
- first_name: D. J.
full_name: Pine, D. J.
last_name: Pine
- first_name: P. M.
full_name: Chaikin, P. M.
last_name: Chaikin
citation:
ama: Palacci JA, Sacanna S, Steinberg AP, Pine DJ, Chaikin PM. Living crystals of
light-activated colloidal surfers. Science. 2013;339(6122):936-940. doi:10.1126/science.1230020
apa: Palacci, J. A., Sacanna, S., Steinberg, A. P., Pine, D. J., & Chaikin,
P. M. (2013). Living crystals of light-activated colloidal surfers. Science.
American Association for the Advancement of Science . https://doi.org/10.1126/science.1230020
chicago: Palacci, Jérémie A, S. Sacanna, A. P. Steinberg, D. J. Pine, and P. M.
Chaikin. “Living Crystals of Light-Activated Colloidal Surfers.” Science.
American Association for the Advancement of Science , 2013. https://doi.org/10.1126/science.1230020.
ieee: J. A. Palacci, S. Sacanna, A. P. Steinberg, D. J. Pine, and P. M. Chaikin,
“Living crystals of light-activated colloidal surfers,” Science, vol. 339,
no. 6122. American Association for the Advancement of Science , pp. 936–940, 2013.
ista: Palacci JA, Sacanna S, Steinberg AP, Pine DJ, Chaikin PM. 2013. Living crystals
of light-activated colloidal surfers. Science. 339(6122), 936–940.
mla: Palacci, Jérémie A., et al. “Living Crystals of Light-Activated Colloidal Surfers.”
Science, vol. 339, no. 6122, American Association for the Advancement of
Science , 2013, pp. 936–40, doi:10.1126/science.1230020.
short: J.A. Palacci, S. Sacanna, A.P. Steinberg, D.J. Pine, P.M. Chaikin, Science
339 (2013) 936–940.
date_created: 2021-02-01T14:37:29Z
date_published: 2013-02-22T00:00:00Z
date_updated: 2022-08-25T14:57:43Z
day: '22'
doi: 10.1126/science.1230020
extern: '1'
external_id:
pmid:
- '23371555'
intvolume: ' 339'
issue: '6122'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '02'
oa_version: None
page: 936-940
pmid: 1
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: 'American Association for the Advancement of Science '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Living crystals of light-activated colloidal surfers
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 339
year: '2013'
...
---
_id: '9153'
abstract:
- lang: eng
text: Internal tide driven mixing plays a key role in sustaining the deep ocean
stratification and meridional overturning circulation. Internal tides can be generated
by topographic horizontal scales ranging from hundreds of meters to tens of kilometers.
State of the art topographic products barely resolve scales smaller than ∼10 km
in the deep ocean. On these scales abyssal hills dominate ocean floor roughness.
The impact of abyssal hill roughness on internal‐tide generation is evaluated
in this study. The conversion of M2 barotropic to baroclinic tidal energy is calculated
based on linear wave theory both in real and spectral space using the Shuttle
Radar Topography Mission SRTM30_PLUS bathymetric product at 1/120° resolution
with and without the addition of synthetic abyssal hill roughness. Internal tide
generation by abyssal hills integrates to 0.1 TW globally or 0.03 TW when the
energy flux is empirically corrected for supercritical slope (i.e., ∼10% of the
energy flux due to larger topographic scales resolved in standard products in
both cases). The abyssal hill driven energy conversion is dominated by mid‐ocean
ridges, where abyssal hill roughness is large. Focusing on two regions located
over the Mid‐Atlantic Ridge and the East Pacific Rise, it is shown that regionally
linear theory predicts an increase of the energy flux due to abyssal hills of
up to 100% or 60% when an empirical correction for supercritical slopes is attempted.
Therefore, abyssal hills, unresolved in state of the art topographic products,
can have a strong impact on internal tide generation, especially over mid‐ocean
ridges.
article_processing_charge: No
article_type: original
author:
- first_name: Angélique
full_name: Melet, Angélique
last_name: Melet
- first_name: Maxim
full_name: Nikurashin, Maxim
last_name: Nikurashin
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: S.
full_name: Falahat, S.
last_name: Falahat
- first_name: Jonas
full_name: Nycander, Jonas
last_name: Nycander
- first_name: Patrick G.
full_name: Timko, Patrick G.
last_name: Timko
- first_name: Brian K.
full_name: Arbic, Brian K.
last_name: Arbic
- first_name: John A.
full_name: Goff, John A.
last_name: Goff
citation:
ama: 'Melet A, Nikurashin M, Muller CJ, et al. Internal tide generation by abyssal
hills using analytical theory. Journal of Geophysical Research: Oceans.
2013;118(11):6303-6318. doi:10.1002/2013jc009212'
apa: 'Melet, A., Nikurashin, M., Muller, C. J., Falahat, S., Nycander, J., Timko,
P. G., … Goff, J. A. (2013). Internal tide generation by abyssal hills using analytical
theory. Journal of Geophysical Research: Oceans. American Geophysical Union.
https://doi.org/10.1002/2013jc009212'
chicago: 'Melet, Angélique, Maxim Nikurashin, Caroline J Muller, S. Falahat, Jonas
Nycander, Patrick G. Timko, Brian K. Arbic, and John A. Goff. “Internal Tide Generation
by Abyssal Hills Using Analytical Theory.” Journal of Geophysical Research:
Oceans. American Geophysical Union, 2013. https://doi.org/10.1002/2013jc009212.'
ieee: 'A. Melet et al., “Internal tide generation by abyssal hills using
analytical theory,” Journal of Geophysical Research: Oceans, vol. 118,
no. 11. American Geophysical Union, pp. 6303–6318, 2013.'
ista: 'Melet A, Nikurashin M, Muller CJ, Falahat S, Nycander J, Timko PG, Arbic
BK, Goff JA. 2013. Internal tide generation by abyssal hills using analytical
theory. Journal of Geophysical Research: Oceans. 118(11), 6303–6318.'
mla: 'Melet, Angélique, et al. “Internal Tide Generation by Abyssal Hills Using
Analytical Theory.” Journal of Geophysical Research: Oceans, vol. 118,
no. 11, American Geophysical Union, 2013, pp. 6303–18, doi:10.1002/2013jc009212.'
short: 'A. Melet, M. Nikurashin, C.J. Muller, S. Falahat, J. Nycander, P.G. Timko,
B.K. Arbic, J.A. Goff, Journal of Geophysical Research: Oceans 118 (2013) 6303–6318.'
date_created: 2021-02-15T15:11:39Z
date_published: 2013-11-07T00:00:00Z
date_updated: 2022-01-24T13:46:15Z
day: '07'
doi: 10.1002/2013jc009212
extern: '1'
intvolume: ' 118'
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/2013JC009212
month: '11'
oa: 1
oa_version: Published Version
page: 6303-6318
publication: 'Journal of Geophysical Research: Oceans'
publication_identifier:
issn:
- 2169-9275
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
status: public
title: Internal tide generation by abyssal hills using analytical theory
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 118
year: '2013'
...
---
_id: '9154'
abstract:
- lang: eng
text: "In this study the response of tropical precipitation extremes to warming
in organized convection is examined using a cloud-resolving model. Vertical shear
is imposed to organize the convection into squall lines. Earlier studies show
that in disorganized convection, the fractional increase of precipitation extremes
is similar to that of surface water vapor, which is substantially smaller than
the increase in column water vapor. It has been suggested that organized convection
could lead to stronger amplifications.\r\nRegardless of the strength of the shear,
amplifications of precipitation extremes in the cloud-resolving simulations are
comparable to those of surface water vapor and are substantially less than increases
in column water vapor. The results without shear and with critical shear, for
which the squall lines are perpendicular to the shear, are surprisingly similar
with a fractional rate of increase of precipitation extremes slightly smaller
than that of surface water vapor. Interestingly, the dependence on shear is nonmonotonic,
and stronger supercritical shear yields larger rates, close to or slightly larger
than surface humidity.\r\nA scaling is used to evaluate the thermodynamic and
dynamic contributions to precipitation extreme changes. To first order, they are
dominated by the thermodynamic component, which has the same magnitude for all
shears, close to the change in surface water vapor. The dynamic contribution plays
a secondary role and tends to weaken extremes without shear and with critical
shear, while it strengthens extremes with supercritical shear. These different
dynamic contributions for different shears are due to different responses of convective
mass fluxes in individual updrafts to warming."
article_processing_charge: No
article_type: original
author:
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
citation:
ama: Muller CJ. Impact of convective organization on the response of tropical precipitation
extremes to warming. Journal of Climate. 2013;26(14):5028-5043. doi:10.1175/jcli-d-12-00655.1
apa: Muller, C. J. (2013). Impact of convective organization on the response of
tropical precipitation extremes to warming. Journal of Climate. American
Meteorological Society. https://doi.org/10.1175/jcli-d-12-00655.1
chicago: Muller, Caroline J. “Impact of Convective Organization on the Response
of Tropical Precipitation Extremes to Warming.” Journal of Climate. American
Meteorological Society, 2013. https://doi.org/10.1175/jcli-d-12-00655.1.
ieee: C. J. Muller, “Impact of convective organization on the response of tropical
precipitation extremes to warming,” Journal of Climate, vol. 26, no. 14.
American Meteorological Society, pp. 5028–5043, 2013.
ista: Muller CJ. 2013. Impact of convective organization on the response of tropical
precipitation extremes to warming. Journal of Climate. 26(14), 5028–5043.
mla: Muller, Caroline J. “Impact of Convective Organization on the Response of Tropical
Precipitation Extremes to Warming.” Journal of Climate, vol. 26, no. 14,
American Meteorological Society, 2013, pp. 5028–43, doi:10.1175/jcli-d-12-00655.1.
short: C.J. Muller, Journal of Climate 26 (2013) 5028–5043.
date_created: 2021-02-15T15:26:39Z
date_published: 2013-07-15T00:00:00Z
date_updated: 2022-01-24T13:46:41Z
day: '15'
doi: 10.1175/jcli-d-12-00655.1
extern: '1'
intvolume: ' 26'
issue: '14'
keyword:
- Atmospheric Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1175/JCLI-D-12-00655.1
month: '07'
oa: 1
oa_version: Published Version
page: 5028-5043
publication: Journal of Climate
publication_identifier:
issn:
- 0894-8755
- 1520-0442
publication_status: published
publisher: American Meteorological Society
quality_controlled: '1'
status: public
title: Impact of convective organization on the response of tropical precipitation
extremes to warming
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 26
year: '2013'
...
---
_id: '9167'
abstract:
- lang: eng
text: We introduce a self-propelled colloidal hematite docker that can be steered
to a small particle cargo many times its size, dock, transport the cargo to a
remote location, and then release it. The self-propulsion and docking are reversible
and activated by visible light. The docker can be steered either by a weak uniform
magnetic field or by nanoscale tracks in a textured substrate. The light-activated
motion and docking originate from osmotic/phoretic particle transport in a concentration
gradient of fuel, hydrogen peroxide, induced by the photocatalytic activity of
the hematite. The docking mechanism is versatile and can be applied to various
materials and shapes. The hematite dockers are simple single-component particles
and are synthesized in bulk quantities. This system opens up new possibilities
for designing complex micrometer-size factories as well as new biomimetic systems.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: Stefano
full_name: Sacanna, Stefano
last_name: Sacanna
- first_name: Adrian
full_name: Vatchinsky, Adrian
last_name: Vatchinsky
- first_name: Paul M.
full_name: Chaikin, Paul M.
last_name: Chaikin
- first_name: David J.
full_name: Pine, David J.
last_name: Pine
citation:
ama: Palacci JA, Sacanna S, Vatchinsky A, Chaikin PM, Pine DJ. Photoactivated colloidal
dockers for cargo transportation. Journal of the American Chemical Society.
2013;135(43):15978-15981. doi:10.1021/ja406090s
apa: Palacci, J. A., Sacanna, S., Vatchinsky, A., Chaikin, P. M., & Pine, D.
J. (2013). Photoactivated colloidal dockers for cargo transportation. Journal
of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/ja406090s
chicago: Palacci, Jérémie A, Stefano Sacanna, Adrian Vatchinsky, Paul M. Chaikin,
and David J. Pine. “Photoactivated Colloidal Dockers for Cargo Transportation.”
Journal of the American Chemical Society. American Chemical Society, 2013.
https://doi.org/10.1021/ja406090s.
ieee: J. A. Palacci, S. Sacanna, A. Vatchinsky, P. M. Chaikin, and D. J. Pine, “Photoactivated
colloidal dockers for cargo transportation,” Journal of the American Chemical
Society, vol. 135, no. 43. American Chemical Society, pp. 15978–15981, 2013.
ista: Palacci JA, Sacanna S, Vatchinsky A, Chaikin PM, Pine DJ. 2013. Photoactivated
colloidal dockers for cargo transportation. Journal of the American Chemical Society.
135(43), 15978–15981.
mla: Palacci, Jérémie A., et al. “Photoactivated Colloidal Dockers for Cargo Transportation.”
Journal of the American Chemical Society, vol. 135, no. 43, American Chemical
Society, 2013, pp. 15978–81, doi:10.1021/ja406090s.
short: J.A. Palacci, S. Sacanna, A. Vatchinsky, P.M. Chaikin, D.J. Pine, Journal
of the American Chemical Society 135 (2013) 15978–15981.
date_created: 2021-02-18T14:31:26Z
date_published: 2013-10-30T00:00:00Z
date_updated: 2021-02-22T10:10:41Z
day: '30'
doi: 10.1021/ja406090s
extern: '1'
external_id:
arxiv:
- '1310.5724'
pmid:
- '24131488'
intvolume: ' 135'
issue: '43'
keyword:
- Colloid and Surface Chemistry
- Biochemistry
- General Chemistry
- Catalysis
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1310.5724
month: '10'
oa: 1
oa_version: Preprint
page: 15978-15981
pmid: 1
publication: Journal of the American Chemical Society
publication_identifier:
eissn:
- '15205126'
issn:
- '00027863'
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Photoactivated colloidal dockers for cargo transportation
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 135
year: '2013'
...
---
_id: '921'
abstract:
- lang: eng
text: Recent experiments have shown that spreading epithelial sheets exhibit a long-range
coordination of motility forces that leads to a buildup of tension in the tissue,
which may enhance cell division and the speed of wound healing. Furthermore, the
edges of these epithelial sheets commonly show finger-like protrusions whereas
the bulk often displays spontaneous swirls of motile cells. To explain these experimental
observations, we propose a simple flocking-type mechanism, in which cells tend
to align their motility forceswith their velocity. Implementing this idea in amechanical
tissue simulation, the proposed model gives rise to efficient spreading and can
explain the experimentally observed long-range alignment of motility forces in
highly disordered patterns, as well as the buildup of tensile stress throughout
the tissue. Our model also qualitatively reproduces the dependence of swirl size
and swirl velocity on cell density reported in experiments and exhibits an undulation
instability at the edge of the spreading tissue commonly observed in vivo. Finally,
we study the dependence of colony spreading speed on important physical and biological
parameters and derive simple scaling relations that show that coordination of
motility forces leads to an improvement of the wound healing process for realistic
tissue parameters.
acknowledgement: "This work was supported by National Science Foundation (NSF) Grant
DMS-1068869 and by the NSF Center for Theoretical Biological Physics (Grant NSF
PHY-0822283).\r\nWe acknowledge useful discussions with Eshel Ben-Jacob and Assaf
Zaritsky. "
article_processing_charge: No
author:
- first_name: Markus
full_name: Basan, Markus
last_name: Basan
- first_name: Jens
full_name: Elgeti, Jens
last_name: Elgeti
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Wouter
full_name: Rappel, Wouter
last_name: Rappel
- first_name: Herbert
full_name: Levine, Herbert
last_name: Levine
citation:
ama: Basan M, Elgeti J, Hannezo EB, Rappel W, Levine H. Alignment of cellular motility
forces with tissue flow as a mechanism for efficient wound healing. PNAS.
2013;110(7):2452-2459. doi:10.1073/pnas.1219937110
apa: Basan, M., Elgeti, J., Hannezo, E. B., Rappel, W., & Levine, H. (2013).
Alignment of cellular motility forces with tissue flow as a mechanism for efficient
wound healing. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1219937110
chicago: Basan, Markus, Jens Elgeti, Edouard B Hannezo, Wouter Rappel, and Herbert
Levine. “Alignment of Cellular Motility Forces with Tissue Flow as a Mechanism
for Efficient Wound Healing.” PNAS. National Academy of Sciences, 2013.
https://doi.org/10.1073/pnas.1219937110.
ieee: M. Basan, J. Elgeti, E. B. Hannezo, W. Rappel, and H. Levine, “Alignment of
cellular motility forces with tissue flow as a mechanism for efficient wound healing,”
PNAS, vol. 110, no. 7. National Academy of Sciences, pp. 2452–2459, 2013.
ista: Basan M, Elgeti J, Hannezo EB, Rappel W, Levine H. 2013. Alignment of cellular
motility forces with tissue flow as a mechanism for efficient wound healing. PNAS.
110(7), 2452–2459.
mla: Basan, Markus, et al. “Alignment of Cellular Motility Forces with Tissue Flow
as a Mechanism for Efficient Wound Healing.” PNAS, vol. 110, no. 7, National
Academy of Sciences, 2013, pp. 2452–59, doi:10.1073/pnas.1219937110.
short: M. Basan, J. Elgeti, E.B. Hannezo, W. Rappel, H. Levine, PNAS 110 (2013)
2452–2459.
date_created: 2018-12-11T11:49:12Z
date_published: 2013-02-12T00:00:00Z
date_updated: 2021-01-12T08:21:55Z
day: '12'
doi: 10.1073/pnas.1219937110
extern: '1'
intvolume: ' 110'
issue: '7'
language:
- iso: eng
month: '02'
oa_version: None
page: 2452 - 2459
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '6518'
status: public
title: Alignment of cellular motility forces with tissue flow as a mechanism for efficient
wound healing
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 110
year: '2013'
...
---
_id: '9459'
abstract:
- lang: eng
text: Nucleosome remodelers of the DDM1/Lsh family are required for DNA methylation
of transposable elements, but the reason for this is unknown. How DDM1 interacts
with other methylation pathways, such as small-RNA-directed DNA methylation (RdDM),
which is thought to mediate plant asymmetric methylation through DRM enzymes,
is also unclear. Here, we show that most asymmetric methylation is facilitated
by DDM1 and mediated by the methyltransferase CMT2 separately from RdDM. We find
that heterochromatic sequences preferentially require DDM1 for DNA methylation
and that this preference depends on linker histone H1. RdDM is instead inhibited
by heterochromatin and absolutely requires the nucleosome remodeler DRD1. Together,
DDM1 and RdDM mediate nearly all transposon methylation and collaborate to repress
transposition and regulate the methylation and expression of genes. Our results
indicate that DDM1 provides DNA methyltransferases access to H1-containing heterochromatin
to allow stable silencing of transposable elements in cooperation with the RdDM
pathway.
article_processing_charge: No
article_type: original
author:
- first_name: Assaf
full_name: Zemach, Assaf
last_name: Zemach
- first_name: M. Yvonne
full_name: Kim, M. Yvonne
last_name: Kim
- first_name: Ping-Hung
full_name: Hsieh, Ping-Hung
last_name: Hsieh
- first_name: Devin
full_name: Coleman-Derr, Devin
last_name: Coleman-Derr
- first_name: Leor
full_name: Eshed-Williams, Leor
last_name: Eshed-Williams
- first_name: Ka
full_name: Thao, Ka
last_name: Thao
- first_name: Stacey L.
full_name: Harmer, Stacey L.
last_name: Harmer
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Zemach A, Kim MY, Hsieh P-H, et al. The Arabidopsis nucleosome remodeler DDM1
allows DNA methyltransferases to access H1-containing heterochromatin. Cell.
2013;153(1):193-205. doi:10.1016/j.cell.2013.02.033
apa: Zemach, A., Kim, M. Y., Hsieh, P.-H., Coleman-Derr, D., Eshed-Williams, L.,
Thao, K., … Zilberman, D. (2013). The Arabidopsis nucleosome remodeler DDM1 allows
DNA methyltransferases to access H1-containing heterochromatin. Cell. Elsevier.
https://doi.org/10.1016/j.cell.2013.02.033
chicago: Zemach, Assaf, M. Yvonne Kim, Ping-Hung Hsieh, Devin Coleman-Derr, Leor
Eshed-Williams, Ka Thao, Stacey L. Harmer, and Daniel Zilberman. “The Arabidopsis
Nucleosome Remodeler DDM1 Allows DNA Methyltransferases to Access H1-Containing
Heterochromatin.” Cell. Elsevier, 2013. https://doi.org/10.1016/j.cell.2013.02.033.
ieee: A. Zemach et al., “The Arabidopsis nucleosome remodeler DDM1 allows
DNA methyltransferases to access H1-containing heterochromatin,” Cell,
vol. 153, no. 1. Elsevier, pp. 193–205, 2013.
ista: Zemach A, Kim MY, Hsieh P-H, Coleman-Derr D, Eshed-Williams L, Thao K, Harmer
SL, Zilberman D. 2013. The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases
to access H1-containing heterochromatin. Cell. 153(1), 193–205.
mla: Zemach, Assaf, et al. “The Arabidopsis Nucleosome Remodeler DDM1 Allows DNA
Methyltransferases to Access H1-Containing Heterochromatin.” Cell, vol.
153, no. 1, Elsevier, 2013, pp. 193–205, doi:10.1016/j.cell.2013.02.033.
short: A. Zemach, M.Y. Kim, P.-H. Hsieh, D. Coleman-Derr, L. Eshed-Williams, K.
Thao, S.L. Harmer, D. Zilberman, Cell 153 (2013) 193–205.
date_created: 2021-06-04T12:23:28Z
date_published: 2013-03-28T00:00:00Z
date_updated: 2021-12-14T08:25:35Z
day: '28'
department:
- _id: DaZi
doi: 10.1016/j.cell.2013.02.033
extern: '1'
external_id:
pmid:
- '23540698'
intvolume: ' 153'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cell.2013.02.033
month: '03'
oa: 1
oa_version: Published Version
page: 193-205
pmid: 1
publication: Cell
publication_identifier:
eissn:
- 1097-4172
issn:
- 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to
access H1-containing heterochromatin
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 153
year: '2013'
...
---
_id: '9481'
abstract:
- lang: eng
text: Arabidopsis thaliana endosperm, a transient tissue that nourishes the embryo,
exhibits extensive localized DNA demethylation on maternally inherited chromosomes.
Demethylation mediates parent-of-origin–specific (imprinted) gene expression but
is apparently unnecessary for the extensive accumulation of maternally biased
small RNA (sRNA) molecules detected in seeds. Endosperm DNA in the distantly related
monocots rice and maize is likewise locally hypomethylated, but whether this hypomethylation
is generally parent-of-origin specific is unknown. Imprinted expression of sRNA
also remains uninvestigated in monocot seeds. Here, we report high-coverage sequencing
of the Kitaake rice cultivar that enabled us to show that localized hypomethylation
in rice endosperm occurs solely on the maternal genome, preferring regions of
high DNA accessibility. Maternally expressed imprinted genes are enriched for
hypomethylation at putative promoter regions and transcriptional termini and paternally
expressed genes at promoters and gene bodies, mirroring our recent results in
A. thaliana. However, unlike in A. thaliana, rice endosperm sRNA populations are
dominated by specific strong sRNA-producing loci, and imprinted 24-nt sRNAs are
expressed from both parental genomes and correlate with hypomethylation. Overlaps
between imprinted sRNA loci and imprinted genes expressed from opposite alleles
suggest that sRNAs may regulate genomic imprinting. Whereas sRNAs in seedling
tissues primarily originate from small class II (cut-and-paste) transposable elements,
those in endosperm are more uniformly derived, including sequences from other
transposon classes, as well as genic and intergenic regions. Our data indicate
that the endosperm exhibits a unique pattern of sRNA expression and suggest that
localized hypomethylation of maternal endosperm DNA is conserved in flowering
plants.
article_processing_charge: No
article_type: original
author:
- first_name: Jessica A.
full_name: Rodrigues, Jessica A.
last_name: Rodrigues
- first_name: Randy
full_name: Ruan, Randy
last_name: Ruan
- first_name: Toshiro
full_name: Nishimura, Toshiro
last_name: Nishimura
- first_name: Manoj K.
full_name: Sharma, Manoj K.
last_name: Sharma
- first_name: Rita
full_name: Sharma, Rita
last_name: Sharma
- first_name: Pamela C
full_name: Ronald, Pamela C
last_name: Ronald
- 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
citation:
ama: Rodrigues JA, Ruan R, Nishimura T, et al. Imprinted expression of genes and
small RNA is associated with localized hypomethylation of the maternal genome
in rice endosperm. Proceedings of the National Academy of Sciences. 2013;110(19):7934-7939.
doi:10.1073/pnas.1306164110
apa: Rodrigues, J. A., Ruan, R., Nishimura, T., Sharma, M. K., Sharma, R., Ronald,
P. C., … Zilberman, D. (2013). Imprinted expression of genes and small RNA is
associated with localized hypomethylation of the maternal genome in rice endosperm.
Proceedings of the National Academy of Sciences. National Academy of Sciences.
https://doi.org/10.1073/pnas.1306164110
chicago: Rodrigues, Jessica A., Randy Ruan, Toshiro Nishimura, Manoj K. Sharma,
Rita Sharma, Pamela C Ronald, Robert L. Fischer, and Daniel Zilberman. “Imprinted
Expression of Genes and Small RNA Is Associated with Localized Hypomethylation
of the Maternal Genome in Rice Endosperm.” Proceedings of the National Academy
of Sciences. National Academy of Sciences, 2013. https://doi.org/10.1073/pnas.1306164110.
ieee: J. A. Rodrigues et al., “Imprinted expression of genes and small RNA
is associated with localized hypomethylation of the maternal genome in rice endosperm,”
Proceedings of the National Academy of Sciences, vol. 110, no. 19. National
Academy of Sciences, pp. 7934–7939, 2013.
ista: Rodrigues JA, Ruan R, Nishimura T, Sharma MK, Sharma R, Ronald PC, Fischer
RL, Zilberman D. 2013. Imprinted expression of genes and small RNA is associated
with localized hypomethylation of the maternal genome in rice endosperm. Proceedings
of the National Academy of Sciences. 110(19), 7934–7939.
mla: Rodrigues, Jessica A., et al. “Imprinted Expression of Genes and Small RNA
Is Associated with Localized Hypomethylation of the Maternal Genome in Rice Endosperm.”
Proceedings of the National Academy of Sciences, vol. 110, no. 19, National
Academy of Sciences, 2013, pp. 7934–39, doi:10.1073/pnas.1306164110.
short: J.A. Rodrigues, R. Ruan, T. Nishimura, M.K. Sharma, R. Sharma, P.C. Ronald,
R.L. Fischer, D. Zilberman, Proceedings of the National Academy of Sciences 110
(2013) 7934–7939.
date_created: 2021-06-07T07:31:02Z
date_published: 2013-05-07T00:00:00Z
date_updated: 2021-12-14T08:26:44Z
day: '07'
department:
- _id: DaZi
doi: 10.1073/pnas.1306164110
extern: '1'
external_id:
pmid:
- '23613580'
intvolume: ' 110'
issue: '19'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1073/pnas.1306164110
month: '05'
oa: 1
oa_version: Published Version
page: 7934-7939
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: Imprinted expression of genes and small RNA is associated with localized hypomethylation
of the maternal genome in rice endosperm
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 110
year: '2013'
...
---
_id: '9520'
abstract:
- lang: eng
text: Plants undergo alternation of generation in which reproductive cells develop
in the plant body ("sporophytic generation") and then differentiate into a multicellular
gamete-forming "gametophytic generation." Different populations of helper cells
assist in this transgenerational journey, with somatic tissues supporting early
development and single nurse cells supporting gametogenesis. New data reveal a
two-way relationship between early reproductive cells and their helpers involving
complex epigenetic and signaling networks determining cell number and fate. Later,
the egg cell plays a central role in specifying accessory cells, whereas in both
gametophytes, companion cells contribute non-cell-autonomously to the epigenetic
landscape of the gamete genomes.
article_processing_charge: No
article_type: review
author:
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Hugh
full_name: Dickinson, Hugh
last_name: Dickinson
citation:
ama: 'Feng X, Zilberman D, Dickinson H. A conversation across generations: Soma-germ
cell crosstalk in plants. Developmental Cell. 2013;24(3):215-225. doi:10.1016/j.devcel.2013.01.014'
apa: 'Feng, X., Zilberman, D., & Dickinson, H. (2013). A conversation across
generations: Soma-germ cell crosstalk in plants. Developmental Cell. Elsevier.
https://doi.org/10.1016/j.devcel.2013.01.014'
chicago: 'Feng, Xiaoqi, Daniel Zilberman, and Hugh Dickinson. “A Conversation across
Generations: Soma-Germ Cell Crosstalk in Plants.” Developmental Cell. Elsevier,
2013. https://doi.org/10.1016/j.devcel.2013.01.014.'
ieee: 'X. Feng, D. Zilberman, and H. Dickinson, “A conversation across generations:
Soma-germ cell crosstalk in plants,” Developmental Cell, vol. 24, no. 3.
Elsevier, pp. 215–225, 2013.'
ista: 'Feng X, Zilberman D, Dickinson H. 2013. A conversation across generations:
Soma-germ cell crosstalk in plants. Developmental Cell. 24(3), 215–225.'
mla: 'Feng, Xiaoqi, et al. “A Conversation across Generations: Soma-Germ Cell Crosstalk
in Plants.” Developmental Cell, vol. 24, no. 3, Elsevier, 2013, pp. 215–25,
doi:10.1016/j.devcel.2013.01.014.'
short: X. Feng, D. Zilberman, H. Dickinson, Developmental Cell 24 (2013) 215–225.
date_created: 2021-06-08T06:14:50Z
date_published: 2013-02-11T00:00:00Z
date_updated: 2023-05-08T11:00:59Z
day: '11'
department:
- _id: DaZi
- _id: XiFe
doi: 10.1016/j.devcel.2013.01.014
extern: '1'
external_id:
pmid:
- '23410937'
intvolume: ' 24'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2013.01.014
month: '02'
oa: 1
oa_version: Published Version
page: 215-225
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A conversation across generations: Soma-germ cell crosstalk in plants'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2013'
...
---
_id: '9663'
abstract:
- lang: eng
text: 'Molecular dynamics simulations of small Cu nanoparticles using three different
interatomic potentials at rising temperature indicate that small nanoparticles
can undergo solid-solid structural transitions through a direct geometrical conversion
route. The direct geometrical conversion can happen for cuboctahedral nanoparticles,
which turn into an icosahedra shape: one diagonal of the square faces contracts,
and the faces are folded along the diagonal to give rise to two equilateral triangles.
The transition is a kinetic process that cannot be fully explained through an
energetic point of view. It has low activation energy and fast reaction time in
the simulations. The transition mechanism is via the transmission of shear waves
initiated from the particle surface and does not involve dislocation activity.'
article_number: '164314'
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Alfonso H. W.
full_name: Ngan, Alfonso H. W.
last_name: Ngan
citation:
ama: Cheng B, Ngan AHW. Thermally induced solid-solid structural transition of copper
nanoparticles through direct geometrical conversion. The Journal of Chemical
Physics. 2013;138(16). doi:10.1063/1.4802025
apa: Cheng, B., & Ngan, A. H. W. (2013). Thermally induced solid-solid structural
transition of copper nanoparticles through direct geometrical conversion. The
Journal of Chemical Physics. AIP Publishing. https://doi.org/10.1063/1.4802025
chicago: Cheng, Bingqing, and Alfonso H. W. Ngan. “Thermally Induced Solid-Solid
Structural Transition of Copper Nanoparticles through Direct Geometrical Conversion.”
The Journal of Chemical Physics. AIP Publishing, 2013. https://doi.org/10.1063/1.4802025.
ieee: B. Cheng and A. H. W. Ngan, “Thermally induced solid-solid structural transition
of copper nanoparticles through direct geometrical conversion,” The Journal
of Chemical Physics, vol. 138, no. 16. AIP Publishing, 2013.
ista: Cheng B, Ngan AHW. 2013. Thermally induced solid-solid structural transition
of copper nanoparticles through direct geometrical conversion. The Journal of
Chemical Physics. 138(16), 164314.
mla: Cheng, Bingqing, and Alfonso H. W. Ngan. “Thermally Induced Solid-Solid Structural
Transition of Copper Nanoparticles through Direct Geometrical Conversion.” The
Journal of Chemical Physics, vol. 138, no. 16, 164314, AIP Publishing, 2013,
doi:10.1063/1.4802025.
short: B. Cheng, A.H.W. Ngan, The Journal of Chemical Physics 138 (2013).
date_created: 2021-07-15T09:27:58Z
date_published: 2013-04-28T00:00:00Z
date_updated: 2021-08-09T12:35:34Z
day: '28'
doi: 10.1063/1.4802025
extern: '1'
external_id:
pmid:
- '23635145'
intvolume: ' 138'
issue: '16'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://pubmed.ncbi.nlm.nih.gov/23635145/
month: '04'
oa: 1
oa_version: Submitted Version
pmid: 1
publication: The Journal of Chemical Physics
publication_identifier:
eissn:
- 1089-7690
issn:
- 0021-9606
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Thermally induced solid-solid structural transition of copper nanoparticles
through direct geometrical conversion
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 138
year: '2013'
...
---
_id: '9674'
abstract:
- lang: eng
text: The coalescence of nano-crystals during sintering is often found to result
in interesting crystalline structures such as multi-fold twins, and yet the plasticity
mechanism accompanying their formation is unclear. In this work, the sintering
behavior of two unsupported copper nanoparticles initially at room temperature
is investigated by molecular dynamics simulations under the constant-energy ensemble.
The results reveal that once the two nanoparticles are brought into contact, they
often go through drastic structural changes with the inter-particle grain boundary
quickly eliminated, and single- and multi-fold twinning occurs frequently in the
coalesced product. Whereas the formation of single twins is found to be via the
more usual mechanism of emission of Shockley partials on {1 1 1} planes, the formation
of fivefold twins, however, takes place via a novel dislocation-free mechanism
involving a series of shear and rigid-body rotation processes caused by elastic
waves with amplitudes not corresponding to any allowable Burgers vector in the
fcc lattice. Such a lattice-wave, dislocation-free twinning mechanism has never
been reported before.
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Alfonso H.W.
full_name: Ngan, Alfonso H.W.
last_name: Ngan
citation:
ama: 'Cheng B, Ngan AHW. The crystal structures of sintered copper nanoparticles:
A molecular dynamics study. International Journal of Plasticity. 2013;47:65-79.
doi:10.1016/j.ijplas.2013.01.006'
apa: 'Cheng, B., & Ngan, A. H. W. (2013). The crystal structures of sintered
copper nanoparticles: A molecular dynamics study. International Journal of
Plasticity. Elsevier. https://doi.org/10.1016/j.ijplas.2013.01.006'
chicago: 'Cheng, Bingqing, and Alfonso H.W. Ngan. “The Crystal Structures of Sintered
Copper Nanoparticles: A Molecular Dynamics Study.” International Journal of
Plasticity. Elsevier, 2013. https://doi.org/10.1016/j.ijplas.2013.01.006.'
ieee: 'B. Cheng and A. H. W. Ngan, “The crystal structures of sintered copper nanoparticles:
A molecular dynamics study,” International Journal of Plasticity, vol.
47. Elsevier, pp. 65–79, 2013.'
ista: 'Cheng B, Ngan AHW. 2013. The crystal structures of sintered copper nanoparticles:
A molecular dynamics study. International Journal of Plasticity. 47, 65–79.'
mla: 'Cheng, Bingqing, and Alfonso H. W. Ngan. “The Crystal Structures of Sintered
Copper Nanoparticles: A Molecular Dynamics Study.” International Journal of
Plasticity, vol. 47, Elsevier, 2013, pp. 65–79, doi:10.1016/j.ijplas.2013.01.006.'
short: B. Cheng, A.H.W. Ngan, International Journal of Plasticity 47 (2013) 65–79.
date_created: 2021-07-15T14:27:44Z
date_published: 2013-08-01T00:00:00Z
date_updated: 2023-02-23T14:04:30Z
day: '01'
doi: 10.1016/j.ijplas.2013.01.006
extern: '1'
intvolume: ' 47'
language:
- iso: eng
month: '08'
oa_version: None
page: 65-79
publication: International Journal of Plasticity
publication_identifier:
issn:
- 0749-6419
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The crystal structures of sintered copper nanoparticles: A molecular dynamics
study'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 47
year: '2013'
...
---
_id: '9676'
abstract:
- lang: eng
text: Despite its relevance to a range of technological applications including nanocrystalline
material fabrication, the sintering mechanisms of nanoparticles have not been
well understood. It has been recognized that extrapolation from understanding
of macro-particle sintering is unreliable for the nano-particle size regime. In
this work, the sintering behaviour of copper nanoparticles under periodic boundary
conditions at different temperatures and pressures was investigated by Molecular
Dynamics simulations. It was found that smaller particle sizes, higher temperature
and higher external pressure facilitate densification. Through a comparison with
a two-sphere model, the governing mechanisms for many nanoparticles sintered at
low temperature (T⩽900K) were identified to be a variety of plasticity processes
including dislocation, twinning and even amorphization at the contact neck regions,
due to the presence of high stresses.
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Alfonso H.W.
full_name: Ngan, Alfonso H.W.
last_name: Ngan
citation:
ama: 'Cheng B, Ngan AHW. The sintering and densification behaviour of many copper
nanoparticles: A molecular dynamics study. Computational Materials Science.
2013;74:1-11. doi:10.1016/j.commatsci.2013.03.014'
apa: 'Cheng, B., & Ngan, A. H. W. (2013). The sintering and densification behaviour
of many copper nanoparticles: A molecular dynamics study. Computational Materials
Science. Elsevier. https://doi.org/10.1016/j.commatsci.2013.03.014'
chicago: 'Cheng, Bingqing, and Alfonso H.W. Ngan. “The Sintering and Densification
Behaviour of Many Copper Nanoparticles: A Molecular Dynamics Study.” Computational
Materials Science. Elsevier, 2013. https://doi.org/10.1016/j.commatsci.2013.03.014.'
ieee: 'B. Cheng and A. H. W. Ngan, “The sintering and densification behaviour of
many copper nanoparticles: A molecular dynamics study,” Computational Materials
Science, vol. 74. Elsevier, pp. 1–11, 2013.'
ista: 'Cheng B, Ngan AHW. 2013. The sintering and densification behaviour of many
copper nanoparticles: A molecular dynamics study. Computational Materials Science.
74, 1–11.'
mla: 'Cheng, Bingqing, and Alfonso H. W. Ngan. “The Sintering and Densification
Behaviour of Many Copper Nanoparticles: A Molecular Dynamics Study.” Computational
Materials Science, vol. 74, Elsevier, 2013, pp. 1–11, doi:10.1016/j.commatsci.2013.03.014.'
short: B. Cheng, A.H.W. Ngan, Computational Materials Science 74 (2013) 1–11.
date_created: 2021-07-16T06:46:38Z
date_published: 2013-06-01T00:00:00Z
date_updated: 2023-02-23T14:04:35Z
day: '01'
doi: 10.1016/j.commatsci.2013.03.014
extern: '1'
intvolume: ' 74'
language:
- iso: eng
month: '06'
oa_version: None
page: 1-11
publication: Computational Materials Science
publication_identifier:
issn:
- 0927-0256
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'The sintering and densification behaviour of many copper nanoparticles: A
molecular dynamics study'
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 74
year: '2013'
...
---
_id: '9682'
abstract:
- lang: eng
text: In this work, we simulate the response of two Cu nanoparticles colliding at
different approaching rates at room temperature by MD. For small nanospheres,
the formation of single twins is favored at high approach rates, whereas larger
nanospheres mainly deform by dislocation slip. For small nanocubes with large
{100} flat surfaces, however, a dislocation-free direct geometrical conversion
process that leads to five-fold twinning dominates except at highly retarded approaching
rates. For larger nanocubes, single twin formation is the governing plasticity
mechanism. The probability for plastic deformation by dislocation slip or twinning
is attributed to the abundance of surface steps, which act as sites for dislocation
nucleation.
article_processing_charge: No
article_type: original
author:
- first_name: Bingqing
full_name: Cheng, Bingqing
id: cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9
last_name: Cheng
orcid: 0000-0002-3584-9632
- first_name: Alfonso H.W.
full_name: Ngan, Alfonso H.W.
last_name: Ngan
citation:
ama: 'Cheng B, Ngan AHW. Crystal plasticity of Cu nanocrystals during collision.
Materials Science and Engineering: A. 2013;585:326-334. doi:10.1016/j.msea.2013.07.065'
apa: 'Cheng, B., & Ngan, A. H. W. (2013). Crystal plasticity of Cu nanocrystals
during collision. Materials Science and Engineering: A. Elsevier. https://doi.org/10.1016/j.msea.2013.07.065'
chicago: 'Cheng, Bingqing, and Alfonso H.W. Ngan. “Crystal Plasticity of Cu Nanocrystals
during Collision.” Materials Science and Engineering: A. Elsevier, 2013.
https://doi.org/10.1016/j.msea.2013.07.065.'
ieee: 'B. Cheng and A. H. W. Ngan, “Crystal plasticity of Cu nanocrystals during
collision,” Materials Science and Engineering: A, vol. 585. Elsevier, pp.
326–334, 2013.'
ista: 'Cheng B, Ngan AHW. 2013. Crystal plasticity of Cu nanocrystals during collision.
Materials Science and Engineering: A. 585, 326–334.'
mla: 'Cheng, Bingqing, and Alfonso H. W. Ngan. “Crystal Plasticity of Cu Nanocrystals
during Collision.” Materials Science and Engineering: A, vol. 585, Elsevier,
2013, pp. 326–34, doi:10.1016/j.msea.2013.07.065.'
short: 'B. Cheng, A.H.W. Ngan, Materials Science and Engineering: A 585 (2013) 326–334.'
date_created: 2021-07-19T09:04:36Z
date_published: 2013-11-15T00:00:00Z
date_updated: 2023-02-23T14:04:51Z
day: '15'
doi: 10.1016/j.msea.2013.07.065
extern: '1'
intvolume: ' 585'
language:
- iso: eng
month: '11'
oa_version: None
page: 326-334
publication: 'Materials Science and Engineering: A'
publication_identifier:
issn:
- 0921-5093
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Crystal plasticity of Cu nanocrystals during collision
type: journal_article
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
volume: 585
year: '2013'
...
---
_id: '970'
abstract:
- lang: eng
text: 'Recently a new high-mobility Dirac material, trilayer graphene, was realized
experimentally. The band structure of ABA-stacked trilayer graphene consists of
a monolayer-like and a bilayer-like pair of bands. Here we study electronic properties
of ABA-stacked trilayer graphene biased by a perpendicular electric field. We
find that the combination of the bias and trigonal warping gives rise to a set
of new Dirac points: In each valley, seven species of Dirac fermions with small
masses of order of a few meV emerge. The positions and masses of the emergent
Dirac fermions are tunable by bias, and one group of Dirac fermions becomes massless
at a certain bias value. Therefore, in contrast to bilayer graphene, the conductivity
at the neutrality point is expected to show nonmonotonic behavior, becoming of
the order of a few e2/h when some Dirac masses vanish. Further, we analyze the
evolution of the Landau level spectrum as a function of bias. The emergence of
new Dirac points in the band structure translates into new threefold-degenerate
groups of Landau levels. This leads to an anomalous quantum Hall effect, in which
some quantum Hall steps have a height of 3e2/h. At an intermediate bias, the degeneracies
of all Landau levels get lifted, and in this regime all quantum Hall plateaus
are spaced by e2/h. Finally, we show that the pattern of Landau level crossings
is very sensitive to certain band structure parameters, and can therefore provide
a useful tool for determining their precise values.'
acknowledgement: We thank Pablo Jarillo-Herrero, Leonardo Campos, and Thiti Taychatanapat
for attracting our attention to the problem of biased trilayer graphene, and for
many helpful discussions.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Dmitry
full_name: Abanin, Dmitry A
last_name: Abanin
citation:
ama: Serbyn M, Abanin D. New Dirac points and multiple Landau level crossings in
biased trilayer graphene. Physical Review B - Condensed Matter and Materials
Physics. 2013;87(11). doi:10.1103/PhysRevB.87.115422
apa: Serbyn, M., & Abanin, D. (2013). New Dirac points and multiple Landau level
crossings in biased trilayer graphene. Physical Review B - Condensed Matter
and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.87.115422
chicago: Serbyn, Maksym, and Dmitry Abanin. “New Dirac Points and Multiple Landau
Level Crossings in Biased Trilayer Graphene.” Physical Review B - Condensed
Matter and Materials Physics. American Physical Society, 2013. https://doi.org/10.1103/PhysRevB.87.115422.
ieee: M. Serbyn and D. Abanin, “New Dirac points and multiple Landau level crossings
in biased trilayer graphene,” Physical Review B - Condensed Matter and Materials
Physics, vol. 87, no. 11. American Physical Society, 2013.
ista: Serbyn M, Abanin D. 2013. New Dirac points and multiple Landau level crossings
in biased trilayer graphene. Physical Review B - Condensed Matter and Materials
Physics. 87(11).
mla: Serbyn, Maksym, and Dmitry Abanin. “New Dirac Points and Multiple Landau Level
Crossings in Biased Trilayer Graphene.” Physical Review B - Condensed Matter
and Materials Physics, vol. 87, no. 11, American Physical Society, 2013, doi:10.1103/PhysRevB.87.115422.
short: M. Serbyn, D. Abanin, Physical Review B - Condensed Matter and Materials
Physics 87 (2013).
date_created: 2018-12-11T11:49:28Z
date_published: 2013-03-18T00:00:00Z
date_updated: 2021-01-12T08:22:20Z
day: '18'
doi: 10.1103/PhysRevB.87.115422
extern: 1
intvolume: ' 87'
issue: '11'
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1212.6251
month: '03'
oa: 1
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '6428'
quality_controlled: 0
status: public
title: New Dirac points and multiple Landau level crossings in biased trilayer graphene
type: journal_article
volume: 87
year: '2013'
...
---
_id: '971'
abstract:
- lang: eng
text: We study the stability of the normal state in a mesoscopic NSN junction biased
by a constant voltage V with respect to the formation of the superconducting order.
Using the linearized time-dependent Ginzburg-Landau equation, we obtain the temperature
dependence of the instability line, V inst(T), where nucleation of superconductivity
takes place. For sufficiently low biases, a stationary symmetric superconducting
state emerges below the instability line. For higher biases, the normal phase
is destroyed by the formation of a nonstationary bimodal state with two superconducting
nuclei localized near the opposite terminals. The low-temperature and large-voltage
behavior of the instability line is highly sensitive to the details of the inelastic
relaxation mechanism in the wire. Therefore, experimental studies of Vinst(T)
in NSN junctions may be used as an effective tool to access the parameters of
the inelastic relaxation in the normal state.
acknowledgement: We are grateful to M. V. Feigel'man, A. Kamenev, T. M. Klapwijk,
J. P. Pekola, V. V. Ryazanov, J. C. W. Song, and D. Y. Vodolazov for discussions.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Mikhail
full_name: Skvortsov, Mikhail A
last_name: Skvortsov
citation:
ama: Serbyn M, Skvortsov M. Onset of superconductivity in a voltage-biased normal-superconducting-normal
microbridge. Physical Review B - Condensed Matter and Materials Physics.
2013;87(2). doi:10.1103/PhysRevB.87.020501
apa: Serbyn, M., & Skvortsov, M. (2013). Onset of superconductivity in a voltage-biased
normal-superconducting-normal microbridge. Physical Review B - Condensed Matter
and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.87.020501
chicago: Serbyn, Maksym, and Mikhail Skvortsov. “Onset of Superconductivity in a
Voltage-Biased Normal-Superconducting-Normal Microbridge.” Physical Review
B - Condensed Matter and Materials Physics. American Physical Society, 2013.
https://doi.org/10.1103/PhysRevB.87.020501.
ieee: M. Serbyn and M. Skvortsov, “Onset of superconductivity in a voltage-biased
normal-superconducting-normal microbridge,” Physical Review B - Condensed Matter
and Materials Physics, vol. 87, no. 2. American Physical Society, 2013.
ista: Serbyn M, Skvortsov M. 2013. Onset of superconductivity in a voltage-biased
normal-superconducting-normal microbridge. Physical Review B - Condensed Matter
and Materials Physics. 87(2).
mla: Serbyn, Maksym, and Mikhail Skvortsov. “Onset of Superconductivity in a Voltage-Biased
Normal-Superconducting-Normal Microbridge.” Physical Review B - Condensed Matter
and Materials Physics, vol. 87, no. 2, American Physical Society, 2013, doi:10.1103/PhysRevB.87.020501.
short: M. Serbyn, M. Skvortsov, Physical Review B - Condensed Matter and Materials
Physics 87 (2013).
date_created: 2018-12-11T11:49:28Z
date_published: 2013-01-02T00:00:00Z
date_updated: 2021-01-12T08:22:20Z
day: '02'
doi: 10.1103/PhysRevB.87.020501
extern: 1
intvolume: ' 87'
issue: '2'
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1208.6004
month: '01'
oa: 1
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '6429'
quality_controlled: 0
status: public
title: Onset of superconductivity in a voltage-biased normal-superconducting-normal
microbridge
type: journal_article
volume: 87
year: '2013'
...
---
_id: '972'
abstract:
- lang: eng
text: In topological crystalline insulators (TCIs), topology and crystal symmetry
intertwine to create surface states with distinct characteristics. The breaking
of crystal symmetry in TCIs is predicted to impart mass to the massless Dirac
fermions. Here, we report high-resolution scanning tunneling microscopy studies
of a TCI, Pb1-xSnxSe that reveal the coexistence of zero-mass Dirac fermions protected
by crystal symmetry with massive Dirac fermions consistent with crystal symmetry
breaking. In addition, we show two distinct regimes of the Fermi surface topology
separated by a Van-Hove singularity at the Lifshitz transition point. Our work
paves the way for engineering the Dirac band gap and realizing interaction-driven
topological quantum phenomena in TCIs.
arxiv: 1
author:
- first_name: Yoshinori
full_name: Okada, Yoshinori
last_name: Okada
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Hsin
full_name: Lin, Hsin
last_name: Lin
- first_name: Daniel
full_name: Walkup, Daniel
last_name: Walkup
- first_name: Wenwen
full_name: Zhou, Wenwen
last_name: Zhou
- first_name: Chetan
full_name: Dhital, Chetan
last_name: Dhital
- first_name: Madhab
full_name: Neupane, Madhab
last_name: Neupane
- first_name: Suyang
full_name: Xu, Suyang
last_name: Xu
- first_name: Yungjui
full_name: Wang, Yungjui
last_name: Wang
- first_name: Raman
full_name: Sankar, Raman
last_name: Sankar
- first_name: Fangcheng
full_name: Chou, Fangcheng
last_name: Chou
- first_name: Arun
full_name: Bansil, Arun
last_name: Bansil
- first_name: Md
full_name: Hasan, Md
last_name: Hasan
- first_name: Stephen
full_name: Wilson, Stephen
last_name: Wilson
- first_name: Liang
full_name: Fu, Liang
last_name: Fu
- first_name: Vidya
full_name: Madhavan, Vidya
last_name: Madhavan
citation:
ama: Okada Y, Serbyn M, Lin H, et al. Observation of dirac node formation and mass
acquisition in a topological crystalline insulator. Science. 2013;341(6153):1496-1499.
doi:10.1126/science.1239451
apa: Okada, Y., Serbyn, M., Lin, H., Walkup, D., Zhou, W., Dhital, C., … Madhavan,
V. (2013). Observation of dirac node formation and mass acquisition in a topological
crystalline insulator. Science. American Association for the Advancement
of Science. https://doi.org/10.1126/science.1239451
chicago: Okada, Yoshinori, Maksym Serbyn, Hsin Lin, Daniel Walkup, Wenwen Zhou,
Chetan Dhital, Madhab Neupane, et al. “Observation of Dirac Node Formation and
Mass Acquisition in a Topological Crystalline Insulator.” Science. American
Association for the Advancement of Science, 2013. https://doi.org/10.1126/science.1239451.
ieee: Y. Okada et al., “Observation of dirac node formation and mass acquisition
in a topological crystalline insulator,” Science, vol. 341, no. 6153. American
Association for the Advancement of Science, pp. 1496–1499, 2013.
ista: Okada Y, Serbyn M, Lin H, Walkup D, Zhou W, Dhital C, Neupane M, Xu S, Wang
Y, Sankar R, Chou F, Bansil A, Hasan M, Wilson S, Fu L, Madhavan V. 2013. Observation
of dirac node formation and mass acquisition in a topological crystalline insulator.
Science. 341(6153), 1496–1499.
mla: Okada, Yoshinori, et al. “Observation of Dirac Node Formation and Mass Acquisition
in a Topological Crystalline Insulator.” Science, vol. 341, no. 6153, American
Association for the Advancement of Science, 2013, pp. 1496–99, doi:10.1126/science.1239451.
short: Y. Okada, M. Serbyn, H. Lin, D. Walkup, W. Zhou, C. Dhital, M. Neupane, S.
Xu, Y. Wang, R. Sankar, F. Chou, A. Bansil, M. Hasan, S. Wilson, L. Fu, V. Madhavan,
Science 341 (2013) 1496–1499.
date_created: 2018-12-11T11:49:29Z
date_published: 2013-01-01T00:00:00Z
date_updated: 2021-01-12T08:22:20Z
day: '01'
doi: 10.1126/science.1239451
extern: '1'
external_id:
arxiv:
- '1305.2823'
intvolume: ' 341'
issue: '6153'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1305.2823
month: '01'
oa: 1
oa_version: Preprint
page: 1496 - 1499
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '6430'
quality_controlled: '1'
status: public
title: Observation of dirac node formation and mass acquisition in a topological crystalline
insulator
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 341
year: '2013'
...
---
_id: '973'
abstract:
- lang: eng
text: We construct a complete set of local integrals of motion that characterize
the many-body localized (MBL) phase. Our approach relies on the assumption that
local perturbations act locally on the eigenstates in the MBL phase, which is
supported by numerical simulations of the random-field XXZ spin chain. We describe
the structure of the eigenstates in the MBL phase and discuss the implications
of local conservation laws for its nonequilibrium quantum dynamics. We argue that
the many-body localization can be used to protect coherence in the system by suppressing
relaxation between eigenstates with different local integrals of motion.
acknowledgement: We thank J. Moore for useful discussions. Research at Perimeter Institute
is supported by the Government of Canada through Industry Canada and by the Province
of Ontario through the Ministry of Economic Development & Innovation. Z. P. was
supported by DOE Grant No. DE-SC0002140. M. S. was supported by the National Science
Foundation under Grant No. DMR-1104498. The simulations presented in this article
were performed on computational resources supported by the High Performance Computing
Center (PICSciE) at Princeton University.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Zlatko
full_name: Papić, Zlatko
last_name: Papić
- first_name: Dmitry
full_name: Abanin, Dmitry A
last_name: Abanin
citation:
ama: Serbyn M, Papić Z, Abanin D. Local conservation laws and the structure of the
many body localized states. Physical Review Letters. 2013;111(12). doi:10.1103/PhysRevLett.111.127201
apa: Serbyn, M., Papić, Z., & Abanin, D. (2013). Local conservation laws and
the structure of the many body localized states. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/PhysRevLett.111.127201
chicago: Serbyn, Maksym, Zlatko Papić, and Dmitry Abanin. “Local Conservation Laws
and the Structure of the Many Body Localized States.” Physical Review Letters.
American Physical Society, 2013. https://doi.org/10.1103/PhysRevLett.111.127201.
ieee: M. Serbyn, Z. Papić, and D. Abanin, “Local conservation laws and the structure
of the many body localized states,” Physical Review Letters, vol. 111,
no. 12. American Physical Society, 2013.
ista: Serbyn M, Papić Z, Abanin D. 2013. Local conservation laws and the structure
of the many body localized states. Physical Review Letters. 111(12).
mla: Serbyn, Maksym, et al. “Local Conservation Laws and the Structure of the Many
Body Localized States.” Physical Review Letters, vol. 111, no. 12, American
Physical Society, 2013, doi:10.1103/PhysRevLett.111.127201.
short: M. Serbyn, Z. Papić, D. Abanin, Physical Review Letters 111 (2013).
date_created: 2018-12-11T11:49:29Z
date_published: 2013-09-17T00:00:00Z
date_updated: 2021-01-12T08:22:21Z
day: '17'
doi: 10.1103/PhysRevLett.111.127201
extern: 1
intvolume: ' 111'
issue: '12'
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1305.5554
month: '09'
oa: 1
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6424'
quality_controlled: 0
status: public
title: Local conservation laws and the structure of the many body localized states
type: journal_article
volume: 111
year: '2013'
...
---
_id: '974'
abstract:
- lang: eng
text: We propose a possible realization of the overscreened Kondo impurity problem
by a magnetic s=1/2 impurity embedded in a two-dimensional S=1 U(1) spin liquid
with a Fermi surface. This problem contains an interesting interplay between non-Fermi-liquid
behavior induced by a U(1) gauge field coupled to fermions and a non-Fermi-liquid
fixed point in the overscreened Kondo problem. Using a large-N expansion together
with an expansion in the dynamical exponent of the gauge field, we find that the
coupling to the gauge field leads to weak but observable changes in the physical
properties of the system at the overscreened Kondo fixed point. We discuss the
extrapolation of this result to a physical case and argue that the realization
of overscreened Kondo physics could lead to observations of effects due to gauge
fields.
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: Todadri
full_name: Senthil, Todadri
last_name: Senthil
- first_name: Patrick
full_name: Lee, Patrick
last_name: Lee
citation:
ama: Serbyn M, Senthil T, Lee P. Overscreened Kondo fixed point in S=1 spin liquid.
Physical Review B - Condensed Matter and Materials Physics. 2013;88(2).
doi:10.1103/PhysRevB.88.024419
apa: Serbyn, M., Senthil, T., & Lee, P. (2013). Overscreened Kondo fixed point
in S=1 spin liquid. Physical Review B - Condensed Matter and Materials Physics.
American Physical Society. https://doi.org/10.1103/PhysRevB.88.024419
chicago: Serbyn, Maksym, Todadri Senthil, and Patrick Lee. “Overscreened Kondo Fixed
Point in S=1 Spin Liquid.” Physical Review B - Condensed Matter and Materials
Physics. American Physical Society, 2013. https://doi.org/10.1103/PhysRevB.88.024419.
ieee: M. Serbyn, T. Senthil, and P. Lee, “Overscreened Kondo fixed point in S=1
spin liquid,” Physical Review B - Condensed Matter and Materials Physics,
vol. 88, no. 2. American Physical Society, 2013.
ista: Serbyn M, Senthil T, Lee P. 2013. Overscreened Kondo fixed point in S=1 spin
liquid. Physical Review B - Condensed Matter and Materials Physics. 88(2).
mla: Serbyn, Maksym, et al. “Overscreened Kondo Fixed Point in S=1 Spin Liquid.”
Physical Review B - Condensed Matter and Materials Physics, vol. 88, no.
2, American Physical Society, 2013, doi:10.1103/PhysRevB.88.024419.
short: M. Serbyn, T. Senthil, P. Lee, Physical Review B - Condensed Matter and Materials
Physics 88 (2013).
date_created: 2018-12-11T11:49:29Z
date_published: 2013-07-19T00:00:00Z
date_updated: 2021-01-12T08:22:21Z
day: '19'
doi: 10.1103/PhysRevB.88.024419
extern: '1'
external_id:
arxiv:
- '1212.5179'
intvolume: ' 88'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1212.5179
month: '07'
oa: 1
oa_version: Preprint
publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '6425'
quality_controlled: '1'
status: public
title: Overscreened Kondo fixed point in S=1 spin liquid
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 88
year: '2013'
...
---
_id: '9749'
abstract:
- lang: eng
text: Cooperative behavior, where one individual incurs a cost to help another,
is a wide spread phenomenon. Here we study direct reciprocity in the context of
the alternating Prisoner's Dilemma. We consider all strategies that can be implemented
by one and two-state automata. We calculate the payoff matrix of all pairwise
encounters in the presence of noise. We explore deterministic selection dynamics
with and without mutation. Using different error rates and payoff values, we observe
convergence to a small number of distinct equilibria. Two of them are uncooperative
strict Nash equilibria representing always-defect (ALLD) and Grim. The third equilibrium
is mixed and represents a cooperative alliance of several strategies, dominated
by a strategy which we call Forgiver. Forgiver cooperates whenever the opponent
has cooperated; it defects once when the opponent has defected, but subsequently
Forgiver attempts to re-establish cooperation even if the opponent has defected
again. Forgiver is not an evolutionarily stable strategy, but the alliance, which
it rules, is asymptotically stable. For a wide range of parameter values the most
commonly observed outcome is convergence to the mixed equilibrium, dominated by
Forgiver. Our results show that although forgiving might incur a short-term loss
it can lead to a long-term gain. Forgiveness facilitates stable cooperation in
the presence of exploitation and noise.
article_processing_charge: No
author:
- first_name: Benjamin
full_name: Zagorsky, Benjamin
last_name: Zagorsky
- first_name: Johannes
full_name: Reiter, Johannes
id: 4A918E98-F248-11E8-B48F-1D18A9856A87
last_name: Reiter
orcid: 0000-0002-0170-7353
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Zagorsky B, Reiter J, Chatterjee K, Nowak M. Forgiver triumphs in alternating
prisoner’s dilemma . 2013. doi:10.1371/journal.pone.0080814.s001
apa: Zagorsky, B., Reiter, J., Chatterjee, K., & Nowak, M. (2013). Forgiver
triumphs in alternating prisoner’s dilemma . Public Library of Science. https://doi.org/10.1371/journal.pone.0080814.s001
chicago: Zagorsky, Benjamin, Johannes Reiter, Krishnendu Chatterjee, and Martin
Nowak. “Forgiver Triumphs in Alternating Prisoner’s Dilemma .” Public Library
of Science, 2013. https://doi.org/10.1371/journal.pone.0080814.s001.
ieee: B. Zagorsky, J. Reiter, K. Chatterjee, and M. Nowak, “Forgiver triumphs in
alternating prisoner’s dilemma .” Public Library of Science, 2013.
ista: Zagorsky B, Reiter J, Chatterjee K, Nowak M. 2013. Forgiver triumphs in alternating
prisoner’s dilemma , Public Library of Science, 10.1371/journal.pone.0080814.s001.
mla: Zagorsky, Benjamin, et al. Forgiver Triumphs in Alternating Prisoner’s Dilemma
. Public Library of Science, 2013, doi:10.1371/journal.pone.0080814.s001.
short: B. Zagorsky, J. Reiter, K. Chatterjee, M. Nowak, (2013).
date_created: 2021-07-28T15:45:07Z
date_published: 2013-12-12T00:00:00Z
date_updated: 2025-09-29T14:30:03Z
day: '12'
department:
- _id: KrCh
doi: 10.1371/journal.pone.0080814.s001
month: '12'
oa_version: Published Version
publisher: Public Library of Science
related_material:
record:
- id: '2247'
relation: used_in_publication
status: public
status: public
title: 'Forgiver triumphs in alternating prisoner''s dilemma '
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2013'
...
---
_id: '975'
abstract:
- lang: eng
text: Recent numerical work by Bardarson, Pollmann, and Moore revealed a slow, logarithmic
in time, growth of the entanglement entropy for initial product states in a putative
many-body localized phase. We show that this surprising phenomenon results from
the dephasing due to exponentially small interaction-induced corrections to the
eigenenergies of different states. For weak interactions, we find that the entanglement
entropy grows as ξln (Vt/), where V is the interaction strength, and ξ is the
single-particle localization length. The saturated value of the entanglement entropy
at long times is determined by the participation ratios of the initial state over
the eigenstates of the subsystem. Our work shows that the logarithmic entanglement
growth is a universal phenomenon characteristic of the many-body localized phase
in any number of spatial dimensions, and reveals a broad hierarchy of dephasing
time scales present in such a phase.
acknowledgement: We would like to thank E. Altman and J. Moore for useful comments
on the manuscript. This research was supported in part by Perimeter Institute for
Theoretical Physics. Research at Perimeter Institute is supported by the Government
of Canada through Industry Canada and by the Province of Ontario through the Ministry
of Economic Development & Innovation. Z. P. was supported by DOE Grant No. DE-SC0002140.
The simulations presented in this article were performed on computational resources
supported by the High Performance Computing Center (PICSciE) at Princeton University.
author:
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Zlatko
full_name: Papić, Zlatko
last_name: Papić
- first_name: Dmitry
full_name: Abanin, Dmitry A
last_name: Abanin
citation:
ama: Serbyn M, Papić Z, Abanin D. Universal slow growth of entanglement in interacting
strongly disordered systems. Physical Review Letters. 2013;110(26). doi:10.1103/PhysRevLett.110.260601
apa: Serbyn, M., Papić, Z., & Abanin, D. (2013). Universal slow growth of entanglement
in interacting strongly disordered systems. Physical Review Letters. American
Physical Society. https://doi.org/10.1103/PhysRevLett.110.260601
chicago: Serbyn, Maksym, Zlatko Papić, and Dmitry Abanin. “Universal Slow Growth
of Entanglement in Interacting Strongly Disordered Systems.” Physical Review
Letters. American Physical Society, 2013. https://doi.org/10.1103/PhysRevLett.110.260601.
ieee: M. Serbyn, Z. Papić, and D. Abanin, “Universal slow growth of entanglement
in interacting strongly disordered systems,” Physical Review Letters, vol.
110, no. 26. American Physical Society, 2013.
ista: Serbyn M, Papić Z, Abanin D. 2013. Universal slow growth of entanglement in
interacting strongly disordered systems. Physical Review Letters. 110(26).
mla: Serbyn, Maksym, et al. “Universal Slow Growth of Entanglement in Interacting
Strongly Disordered Systems.” Physical Review Letters, vol. 110, no. 26,
American Physical Society, 2013, doi:10.1103/PhysRevLett.110.260601.
short: M. Serbyn, Z. Papić, D. Abanin, Physical Review Letters 110 (2013).
date_created: 2018-12-11T11:49:29Z
date_published: 2013-06-28T00:00:00Z
date_updated: 2021-01-12T08:22:22Z
day: '28'
doi: 10.1103/PhysRevLett.110.260601
extern: 1
intvolume: ' 110'
issue: '26'
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1304.4605
month: '06'
oa: 1
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6426'
quality_controlled: 0
status: public
title: Universal slow growth of entanglement in interacting strongly disordered systems
type: journal_article
volume: 110
year: '2013'
...
---
_id: '9751'
abstract:
- lang: eng
text: High relatedness among interacting individuals has generally been considered
a precondition for the evolution of altruism. However, kin-selection theory also
predicts the evolution of altruism when relatedness is low, as long as the cost
of the altruistic act is minor compared to its benefit. Here, we demonstrate evidence
for a low-cost altruistic act in bacteria. We investigated Escherichia coli responding
to the attack of an obligately lytic phage by committing suicide in order to prevent
parasite transmission to nearby relatives. We found that bacterial suicide provides
large benefits to survivors at marginal costs to committers. The cost of suicide
was low because infected cells are moribund, rapidly dying upon phage infection,
such that no more opportunity for reproduction remains. As a consequence of its
marginal cost, host suicide was selectively favoured even when relatedness between
committers and survivors approached zero. Altogether, our findings demonstrate
that low-cost suicide can evolve with ease, represents an effective host-defence
strategy, and seems to be widespread among microbes. Moreover, low-cost suicide
might also occur in higher organisms as exemplified by infected social insect
workers leaving the colony to die in isolation.
article_processing_charge: No
author:
- first_name: Dominik
full_name: Refardt, Dominik
last_name: Refardt
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Rolf
full_name: Kümmerli, Rolf
last_name: Kümmerli
citation:
ama: 'Refardt D, Bergmiller T, Kümmerli R. Data from: Altruism can evolve when relatedness
is low: evidence from bacteria committing suicide upon phage infection. 2013.
doi:10.5061/dryad.b1q2n'
apa: 'Refardt, D., Bergmiller, T., & Kümmerli, R. (2013). Data from: Altruism
can evolve when relatedness is low: evidence from bacteria committing suicide
upon phage infection. Dryad. https://doi.org/10.5061/dryad.b1q2n'
chicago: 'Refardt, Dominik, Tobias Bergmiller, and Rolf Kümmerli. “Data from: Altruism
Can Evolve When Relatedness Is Low: Evidence from Bacteria Committing Suicide
upon Phage Infection.” Dryad, 2013. https://doi.org/10.5061/dryad.b1q2n.'
ieee: 'D. Refardt, T. Bergmiller, and R. Kümmerli, “Data from: Altruism can evolve
when relatedness is low: evidence from bacteria committing suicide upon phage
infection.” Dryad, 2013.'
ista: 'Refardt D, Bergmiller T, Kümmerli R. 2013. Data from: Altruism can evolve
when relatedness is low: evidence from bacteria committing suicide upon phage
infection, Dryad, 10.5061/dryad.b1q2n.'
mla: 'Refardt, Dominik, et al. Data from: Altruism Can Evolve When Relatedness
Is Low: Evidence from Bacteria Committing Suicide upon Phage Infection. Dryad,
2013, doi:10.5061/dryad.b1q2n.'
short: D. Refardt, T. Bergmiller, R. Kümmerli, (2013).
date_created: 2021-07-30T08:08:09Z
date_published: 2013-03-21T00:00:00Z
date_updated: 2025-09-29T13:41:12Z
day: '21'
department:
- _id: CaGu
doi: 10.5061/dryad.b1q2n
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.b1q2n
month: '03'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '2853'
relation: used_in_publication
status: public
status: public
title: 'Data from: Altruism can evolve when relatedness is low: evidence from bacteria
committing suicide upon phage infection'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2013'
...