---
_id: '1255'
abstract:
- lang: eng
text: Down syndrome cell adhesion molecule 1 (Dscam1) has widereaching and vital
neuronal functions although the role it plays in insect and crustacean immunity
is less well understood. In this study, we combine different approaches to understand
the roles that Dscam1 plays in fitness-related contexts in two model insect species.
Contrary to our expectations, we found no short-term modulation of Dscam1 gene
expression after haemocoelic or oral bacterial exposure in Tribolium castaneum,
or after haemocoelic bacterial exposure in Drosophila melanogaster. Furthermore,
RNAi-mediated Dscam1 knockdown and subsequent bacterial exposure did not reduce
T. castaneum survival. However, Dscam1 knockdown in larvae resulted in adult locomotion
defects, as well as dramatically reduced fecundity in males and females. We suggest
that Dscam1 does not always play a straightforward role in immunity, but strongly
influences behaviour and fecundity. This study takes a step towards understanding
more about the role of this intriguing gene from different phenotypic perspectives.
acknowledgement: "We thank Dietmar Schmucker for reading a draft of this manuscript
and thank him and his group for\r\nhelpful discussions. We thank Barbara Hasert,
Kevin Ferro and Manuel F. Talarico for technical support and helpful\r\ndiscussions.
We also thank two anonymous reviewers for their comments. This study was supported
by grants from the Volkswagen Stiftung (1/83 516 and AZ 86020: both to S.A.O.A.)
and from the DFG priority programme 1399 ‘Host parasite coevolution’ (KU 1929/4-2
to R.P. and J.K.)."
article_number: '160138'
article_processing_charge: No
author:
- first_name: Robert
full_name: Peuß, Robert
last_name: Peuß
- first_name: Kristina
full_name: Wensing, Kristina
last_name: Wensing
- first_name: Luisa
full_name: Woestmann, Luisa
last_name: Woestmann
- first_name: Hendrik
full_name: Eggert, Hendrik
last_name: Eggert
- first_name: Barbara
full_name: Milutinovic, Barbara
id: 2CDC32B8-F248-11E8-B48F-1D18A9856A87
last_name: Milutinovic
orcid: 0000-0002-8214-4758
- first_name: Marlene
full_name: Sroka, Marlene
last_name: Sroka
- first_name: Jörn
full_name: Scharsack, Jörn
last_name: Scharsack
- first_name: Joachim
full_name: Kurtz, Joachim
last_name: Kurtz
- first_name: Sophie
full_name: Armitage, Sophie
last_name: Armitage
citation:
ama: 'Peuß R, Wensing K, Woestmann L, et al. Down syndrome cell adhesion molecule
1: Testing for a role in insect immunity, behaviour and reproduction. Royal
Society Open Science. 2016;3(4). doi:10.1098/rsos.160138'
apa: 'Peuß, R., Wensing, K., Woestmann, L., Eggert, H., Milutinovic, B., Sroka,
M., … Armitage, S. (2016). Down syndrome cell adhesion molecule 1: Testing for
a role in insect immunity, behaviour and reproduction. Royal Society Open Science.
Royal Society. https://doi.org/10.1098/rsos.160138'
chicago: 'Peuß, Robert, Kristina Wensing, Luisa Woestmann, Hendrik Eggert, Barbara
Milutinovic, Marlene Sroka, Jörn Scharsack, Joachim Kurtz, and Sophie Armitage.
“Down Syndrome Cell Adhesion Molecule 1: Testing for a Role in Insect Immunity,
Behaviour and Reproduction.” Royal Society Open Science. Royal Society,
2016. https://doi.org/10.1098/rsos.160138.'
ieee: 'R. Peuß et al., “Down syndrome cell adhesion molecule 1: Testing for
a role in insect immunity, behaviour and reproduction,” Royal Society Open
Science, vol. 3, no. 4. Royal Society, 2016.'
ista: 'Peuß R, Wensing K, Woestmann L, Eggert H, Milutinovic B, Sroka M, Scharsack
J, Kurtz J, Armitage S. 2016. Down syndrome cell adhesion molecule 1: Testing
for a role in insect immunity, behaviour and reproduction. Royal Society Open
Science. 3(4), 160138.'
mla: 'Peuß, Robert, et al. “Down Syndrome Cell Adhesion Molecule 1: Testing for
a Role in Insect Immunity, Behaviour and Reproduction.” Royal Society Open
Science, vol. 3, no. 4, 160138, Royal Society, 2016, doi:10.1098/rsos.160138.'
short: R. Peuß, K. Wensing, L. Woestmann, H. Eggert, B. Milutinovic, M. Sroka, J.
Scharsack, J. Kurtz, S. Armitage, Royal Society Open Science 3 (2016).
date_created: 2018-12-11T11:50:58Z
date_published: 2016-04-01T00:00:00Z
date_updated: 2026-08-12T06:25:23Z
day: '01'
ddc:
- '576'
- '592'
department:
- _id: SyCr
doi: 10.1098/rsos.160138
external_id:
isi:
- '000377969500026'
file:
- access_level: open_access
checksum: c3cd84666c8dc0ce6a784f1c82c1cf68
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:01Z
date_updated: 2020-07-14T12:44:41Z
file_id: '5049'
file_name: IST-2016-704-v1+1_160138.full.pdf
file_size: 627377
relation: main_file
file_date_updated: 2020-07-14T12:44:41Z
fulldoi: https://doi.org/10.1098/rsos.160138
has_accepted_license: '1'
intvolume: ' 3'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
publication: Royal Society Open Science
publication_status: published
publisher: Royal Society
publist_id: '6070'
pubrep_id: '704'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Down syndrome cell adhesion molecule 1: Testing for a role in insect immunity,
behaviour and reproduction'
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: 3
year: '2016'
...
---
_id: '1426'
abstract:
- lang: eng
text: 'Brood parasites exploit their host in order to increase their own fitness.
Typically, this results in an arms race between parasite trickery and host defence.
Thus, it is puzzling to observe hosts that accept parasitism without any resistance.
The ‘mafia’ hypothesis suggests that these hosts accept parasitism to avoid retaliation.
Retaliation has been shown to evolve when the hosts condition their response to
mafia parasites, who use depredation as a targeted response to rejection. However,
it is unclear if acceptance would also emerge when ‘farming’ parasites are present
in the population. Farming parasites use depredation to synchronize the timing
with the host, destroying mature clutches to force the host to re-nest. Herein,
we develop an evolutionary model to analyse the interaction between depredatory
parasites and their hosts. We show that coevolutionary cycles between farmers
and mafia can still induce host acceptance of brood parasites. However, this equilibrium
is unstable and in the long-run the dynamics of this host–parasite interaction
exhibits strong oscillations: when farmers are the majority, accepters conditional
to mafia (the host will reject first and only accept after retaliation by the
parasite) have a higher fitness than unconditional accepters (the host always
accepts parasitism). This leads to an increase in mafia parasites’ fitness and
in turn induce an optimal environment for accepter hosts.'
acknowledgement: C.H. gratefully acknowledges funding by the Schrödinger scholarship
of the Austrian Science Fund (FWF) J3475.
article_number: '160036'
article_processing_charge: No
author:
- first_name: Maria
full_name: Chakra, Maria
last_name: Chakra
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Arne
full_name: Traulsen, Arne
last_name: Traulsen
citation:
ama: Chakra M, Hilbe C, Traulsen A. Coevolutionary interactions between farmers
and mafia induce host acceptance of avian brood parasites. Royal Society Open
Science. 2016;3(5). doi:10.1098/rsos.160036
apa: Chakra, M., Hilbe, C., & Traulsen, A. (2016). Coevolutionary interactions
between farmers and mafia induce host acceptance of avian brood parasites. Royal
Society Open Science. Royal Society. https://doi.org/10.1098/rsos.160036
chicago: Chakra, Maria, Christian Hilbe, and Arne Traulsen. “Coevolutionary Interactions
between Farmers and Mafia Induce Host Acceptance of Avian Brood Parasites.” Royal
Society Open Science. Royal Society, 2016. https://doi.org/10.1098/rsos.160036.
ieee: M. Chakra, C. Hilbe, and A. Traulsen, “Coevolutionary interactions between
farmers and mafia induce host acceptance of avian brood parasites,” Royal Society
Open Science, vol. 3, no. 5. Royal Society, 2016.
ista: Chakra M, Hilbe C, Traulsen A. 2016. Coevolutionary interactions between farmers
and mafia induce host acceptance of avian brood parasites. Royal Society Open
Science. 3(5), 160036.
mla: Chakra, Maria, et al. “Coevolutionary Interactions between Farmers and Mafia
Induce Host Acceptance of Avian Brood Parasites.” Royal Society Open Science,
vol. 3, no. 5, 160036, Royal Society, 2016, doi:10.1098/rsos.160036.
short: M. Chakra, C. Hilbe, A. Traulsen, Royal Society Open Science 3 (2016).
date_created: 2018-12-11T11:51:57Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2026-08-12T06:24:55Z
day: '01'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1098/rsos.160036
external_id:
isi:
- '000377969800008'
file:
- access_level: open_access
checksum: bf84211b31fe87451e738ba301d729c3
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:49Z
date_updated: 2020-07-14T12:44:53Z
file_id: '5104'
file_name: IST-2016-589-v1+1_160036.full.pdf
file_size: 937002
relation: main_file
file_date_updated: 2020-07-14T12:44:53Z
fulldoi: https://doi.org/10.1098/rsos.160036
has_accepted_license: '1'
intvolume: ' 3'
isi: 1
issue: '5'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
publication: Royal Society Open Science
publication_status: published
publisher: Royal Society
publist_id: '5776'
pubrep_id: '589'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coevolutionary interactions between farmers and mafia induce host acceptance
of avian brood parasites
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: 3
year: '2016'
...
---
OA_place: publisher
OA_type: free access
_id: '22580'
abstract:
- lang: eng
text: The finite difference ecosystem-scale tree crown hydrodynamics model version
2 (FETCH2) is a tree-scale hydrodynamic model of transpiration. The FETCH2 model
employs a finite difference numerical methodology and a simplified single-beam
conduit system to explicitly resolve xylem water potentials throughout the vertical
extent of a tree. Empirical equations relate water potential within the stem to
stomatal conductance of the leaves at each height throughout the crown. While
highly simplified, this approach brings additional realism to the simulation of
transpiration by linking stomatal responses to stem water potential rather than
directly to soil moisture, as is currently the case in the majority of land surface
models. FETCH2 accounts for plant hydraulic traits, such as the degree of anisohydric/isohydric
response of stomata, maximal xylem conductivity, vertical distribution of leaf
area, and maximal and minimal xylem water content. We used FETCH2 along with sap
flow and eddy covariance data sets collected from a mixed plot of two genera (oak/pine)
in Silas Little Experimental Forest, NJ, USA, to conduct an analysis of the intergeneric
variation of hydraulic strategies and their effects on diurnal and seasonal transpiration
dynamics. We define these strategies through the parameters that describe the
genus level transpiration and xylem conductivity responses to changes in stem
water potential. Our evaluation revealed that FETCH2 considerably improved the
simulation of ecosystem transpiration and latent heat flux in comparison to more
conventional models. A virtual experiment showed that the model was able to capture
the effect of hydraulic strategies such as isohydric/anisohydric behavior on stomatal
conductance under different soil-water availability conditions.
article_processing_charge: No
article_type: original
author:
- first_name: Golnazalsadat
full_name: Mirfenderesgi, Golnazalsadat
last_name: Mirfenderesgi
- first_name: Gil
full_name: Bohrer, Gil
last_name: Bohrer
- first_name: Ashley M.
full_name: Matheny, Ashley M.
last_name: Matheny
- first_name: Simone
full_name: Fatichi, Simone
id: cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6
last_name: Fatichi
- first_name: Renato Prata
full_name: de Moraes Frasson, Renato Prata
last_name: de Moraes Frasson
- first_name: Karina V. R.
full_name: Schäfer, Karina V. R.
last_name: Schäfer
citation:
ama: 'Mirfenderesgi G, Bohrer G, Matheny AM, Fatichi S, de Moraes Frasson RP, Schäfer
KVR. Tree level hydrodynamic approach for resolving aboveground water storage
and stomatal conductance and modeling the effects of tree hydraulic strategy.
Journal of Geophysical Research: Biogeosciences. 2016;121(7):1792-1813.
doi:10.1002/2016jg003467'
apa: 'Mirfenderesgi, G., Bohrer, G., Matheny, A. M., Fatichi, S., de Moraes Frasson,
R. P., & Schäfer, K. V. R. (2016). Tree level hydrodynamic approach for resolving
aboveground water storage and stomatal conductance and modeling the effects of
tree hydraulic strategy. Journal of Geophysical Research: Biogeosciences.
American Geophysical Union. https://doi.org/10.1002/2016jg003467'
chicago: 'Mirfenderesgi, Golnazalsadat, Gil Bohrer, Ashley M. Matheny, Simone Fatichi,
Renato Prata de Moraes Frasson, and Karina V. R. Schäfer. “Tree Level Hydrodynamic
Approach for Resolving Aboveground Water Storage and Stomatal Conductance and
Modeling the Effects of Tree Hydraulic Strategy.” Journal of Geophysical Research:
Biogeosciences. American Geophysical Union, 2016. https://doi.org/10.1002/2016jg003467.'
ieee: 'G. Mirfenderesgi, G. Bohrer, A. M. Matheny, S. Fatichi, R. P. de Moraes Frasson,
and K. V. R. Schäfer, “Tree level hydrodynamic approach for resolving aboveground
water storage and stomatal conductance and modeling the effects of tree hydraulic
strategy,” Journal of Geophysical Research: Biogeosciences, vol. 121, no.
7. American Geophysical Union, pp. 1792–1813, 2016.'
ista: 'Mirfenderesgi G, Bohrer G, Matheny AM, Fatichi S, de Moraes Frasson RP, Schäfer
KVR. 2016. Tree level hydrodynamic approach for resolving aboveground water storage
and stomatal conductance and modeling the effects of tree hydraulic strategy.
Journal of Geophysical Research: Biogeosciences. 121(7), 1792–1813.'
mla: 'Mirfenderesgi, Golnazalsadat, et al. “Tree Level Hydrodynamic Approach for
Resolving Aboveground Water Storage and Stomatal Conductance and Modeling the
Effects of Tree Hydraulic Strategy.” Journal of Geophysical Research: Biogeosciences,
vol. 121, no. 7, American Geophysical Union, 2016, pp. 1792–813, doi:10.1002/2016jg003467.'
short: 'G. Mirfenderesgi, G. Bohrer, A.M. Matheny, S. Fatichi, R.P. de Moraes Frasson,
K.V.R. Schäfer, Journal of Geophysical Research: Biogeosciences 121 (2016) 1792–1813.'
das_tickbox: '1'
date_created: 2026-07-27T12:30:25Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2026-08-12T07:59:30Z
day: '01'
doi: 10.1002/2016jg003467
extern: '1'
fulldoi: https://doi.org/10.1002/2016jg003467
intvolume: ' 121'
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/2016JG003467
month: '07'
oa: 1
oa_version: Published Version
page: 1792-1813
publication: 'Journal of Geophysical Research: Biogeosciences'
publication_identifier:
eissn:
- 2169-8961
issn:
- 2169-8953
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tree level hydrodynamic approach for resolving aboveground water storage and
stomatal conductance and modeling the effects of tree hydraulic strategy
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 121
year: '2016'
...
---
OA_place: publisher
OA_type: free access
_id: '22578'
abstract:
- lang: eng
text: Accurate assessment of erosion rates remains an elusive problem because soil
loss is strongly nonunique with respect to the main drivers. In addressing the
mechanistic causes of erosion responses, we discriminate between macroscale effects
of external factors—long studied and referred to as “geomorphic external variability”,
and microscale effects, introduced as “geomorphic internal variability.” The latter
source of erosion variations represents the knowledge gap, an overlooked but vital
element of geomorphic response, significantly impacting the low predictability
skill of deterministic models at field-catchment scales. This is corroborated
with experiments using a comprehensive physical model that dynamically updates
the soil mass and particle composition. As complete knowledge of microscale conditions
for arbitrary location and time is infeasible, we propose that new predictive
frameworks of soil erosion should embed stochastic components in deterministic
assessments of external and internal types of geomorphic variability.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Jongho
full_name: Kim, Jongho
last_name: Kim
- first_name: Valeriy Y.
full_name: Ivanov, Valeriy Y.
last_name: Ivanov
- first_name: Simone
full_name: Fatichi, Simone
id: cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6
last_name: Fatichi
citation:
ama: Kim J, Ivanov VY, Fatichi S. Soil erosion assessment—Mind the gap. Geophysical
Research Letters. 2016;43(24):12,446-12,456. doi:10.1002/2016gl071480
apa: Kim, J., Ivanov, V. Y., & Fatichi, S. (2016). Soil erosion assessment—Mind
the gap. Geophysical Research Letters. American Geophysical Union. https://doi.org/10.1002/2016gl071480
chicago: Kim, Jongho, Valeriy Y. Ivanov, and Simone Fatichi. “Soil Erosion Assessment—Mind
the Gap.” Geophysical Research Letters. American Geophysical Union, 2016.
https://doi.org/10.1002/2016gl071480.
ieee: J. Kim, V. Y. Ivanov, and S. Fatichi, “Soil erosion assessment—Mind the gap,”
Geophysical Research Letters, vol. 43, no. 24. American Geophysical Union,
p. 12,446-12,456, 2016.
ista: Kim J, Ivanov VY, Fatichi S. 2016. Soil erosion assessment—Mind the gap. Geophysical
Research Letters. 43(24), 12,446-12,456.
mla: Kim, Jongho, et al. “Soil Erosion Assessment—Mind the Gap.” Geophysical
Research Letters, vol. 43, no. 24, American Geophysical Union, 2016, p. 12,446-12,456,
doi:10.1002/2016gl071480.
short: J. Kim, V.Y. Ivanov, S. Fatichi, Geophysical Research Letters 43 (2016) 12,446-12,456.
das_tickbox: '1'
date_created: 2026-07-27T12:30:25Z
date_published: 2016-12-28T00:00:00Z
date_updated: 2026-08-12T07:55:14Z
day: '28'
doi: 10.1002/2016gl071480
extern: '1'
fulldoi: https://doi.org/10.1002/2016gl071480
intvolume: ' 43'
issue: '24'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/2016GL071480
month: '12'
oa: 1
oa_version: Published Version
page: 12,446-12,456
publication: Geophysical Research Letters
publication_identifier:
eissn:
- 1944-8007
issn:
- 0094-8276
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: Soil erosion assessment—Mind the gap
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 43
year: '2016'
...
---
_id: '1339'
abstract:
- lang: eng
text: "We present a microelectromechanical system, in which a silicon beam is attached
to a comb-drive\r\nactuator, which is used to tune the tension in the silicon
beam and thus its resonance frequency. By\r\nmeasuring the resonance frequencies
of the system, we show that the comb-drive actuator and the\r\nsilicon beam behave
as two strongly coupled resonators. Interestingly, the effective coupling rate\r\n(1.5
MHz) is tunable with the comb-drive actuator (10%) as well as with a side-gate
(10%)\r\nplaced close to the silicon beam. In contrast, the effective spring constant
of the system is insensitive\r\nto either of them and changes only by 60.5%. Finally,
we show that the comb-drive actuator\r\ncan be used to switch between different
coupling rates with a frequency of at least 10 kHz.\r\n"
acknowledgement: We acknowledge the support from the Helmholtz Nanoelectronic Facility
(HNF) and funding from the ERC (GA-Nr. 280140).
article_number: '143507'
article_processing_charge: No
arxiv: 1
author:
- first_name: Gerard
full_name: Verbiest, Gerard
last_name: Verbiest
- first_name: Duo
full_name: Xu, Duo
id: 3454D55E-F248-11E8-B48F-1D18A9856A87
last_name: Xu
- first_name: Matthias
full_name: Goldsche, Matthias
last_name: Goldsche
- first_name: Timofiy
full_name: Khodkov, Timofiy
last_name: Khodkov
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: Nils
full_name: Von Den Driesch, Nils
last_name: Von Den Driesch
- first_name: Dan
full_name: Buca, Dan
last_name: Buca
- first_name: Christoph
full_name: Stampfer, Christoph
last_name: Stampfer
citation:
ama: Verbiest G, Xu D, Goldsche M, et al. Tunable mechanical coupling between driven
microelectromechanical resonators. Applied Physics Letters. 2016;109. doi:10.1063/1.4964122
apa: Verbiest, G., Xu, D., Goldsche, M., Khodkov, T., Barzanjeh, S., Von Den Driesch,
N., … Stampfer, C. (2016). Tunable mechanical coupling between driven microelectromechanical
resonators. Applied Physics Letters. American Institute of Physics. https://doi.org/10.1063/1.4964122
chicago: Verbiest, Gerard, Duo Xu, Matthias Goldsche, Timofiy Khodkov, Shabir Barzanjeh,
Nils Von Den Driesch, Dan Buca, and Christoph Stampfer. “Tunable Mechanical Coupling
between Driven Microelectromechanical Resonators.” Applied Physics Letters.
American Institute of Physics, 2016. https://doi.org/10.1063/1.4964122.
ieee: G. Verbiest et al., “Tunable mechanical coupling between driven microelectromechanical
resonators,” Applied Physics Letters, vol. 109. American Institute of Physics,
2016.
ista: Verbiest G, Xu D, Goldsche M, Khodkov T, Barzanjeh S, Von Den Driesch N, Buca
D, Stampfer C. 2016. Tunable mechanical coupling between driven microelectromechanical
resonators. Applied Physics Letters. 109, 143507.
mla: Verbiest, Gerard, et al. “Tunable Mechanical Coupling between Driven Microelectromechanical
Resonators.” Applied Physics Letters, vol. 109, 143507, American Institute
of Physics, 2016, doi:10.1063/1.4964122.
short: G. Verbiest, D. Xu, M. Goldsche, T. Khodkov, S. Barzanjeh, N. Von Den Driesch,
D. Buca, C. Stampfer, Applied Physics Letters 109 (2016).
das_tickbox: '1'
date_created: 2018-12-11T11:51:28Z
date_published: 2016-10-04T00:00:00Z
date_updated: 2026-08-12T09:26:37Z
day: '04'
department:
- _id: JoFi
doi: 10.1063/1.4964122
external_id:
arxiv:
- '1607.04406'
isi:
- '000386152800065'
fulldoi: https://doi.org/10.1063/1.4964122
intvolume: ' 109'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.04406
month: '10'
oa: 1
oa_version: Preprint
publication: Applied Physics Letters
publication_status: published
publisher: American Institute of Physics
publist_id: '5928'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Tunable mechanical coupling between driven microelectromechanical resonators
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2016'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '22451'
abstract:
- lang: eng
text: "Understanding soil erosion by water is essential for a range of research
areas but the predictive skill of\r\nprognostic models has been repeatedly questioned
because of scale limitations of empirical data and\r\nthe high variability of
soil loss across space and time scales. Improved understanding of the underlying\r\nprocesses
and their interactions are needed to infer scaling properties of soil loss and
better inform\r\npredictive methods. This study uses data from multiple environments
to highlight temporal-scale\r\ndependency of soil loss: erosion variability decreases
at larger scales but the reduction rate varies with\r\nenvironment. The reduction
of variability of the geomorphic response is attributed to a ‘compensation\r\neffect’:
temporal alternation of events that exhibit either source-limited or transport-limited
regimes.\r\nThe rate of reduction is related to environment stochasticity and
a novel index is derived to reflect the\r\nlevel of variability of intra- and
inter-event hydrometeorologic conditions. A higher stochasticity index\r\nimplies
a larger reduction of soil loss variability (enhanced predictability at the aggregated
temporal\r\nscales) with respect to the mean hydrologic forcing, offering a promising
indicator for estimating the\r\ndegree of uncertainty of erosion assessments."
article_number: '22065'
article_processing_charge: No
article_type: original
author:
- first_name: Jongho
full_name: Kim, Jongho
last_name: Kim
- first_name: Valeriy Y.
full_name: Ivanov, Valeriy Y.
last_name: Ivanov
- first_name: Simone
full_name: Fatichi, Simone
id: cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6
last_name: Fatichi
citation:
ama: Kim J, Ivanov VY, Fatichi S. Environmental stochasticity controls soil erosion
variability. Scientific Reports. 2016;6. doi:10.1038/srep22065
apa: Kim, J., Ivanov, V. Y., & Fatichi, S. (2016). Environmental stochasticity
controls soil erosion variability. Scientific Reports. Springer Nature.
https://doi.org/10.1038/srep22065
chicago: Kim, Jongho, Valeriy Y. Ivanov, and Simone Fatichi. “Environmental Stochasticity
Controls Soil Erosion Variability.” Scientific Reports. Springer Nature,
2016. https://doi.org/10.1038/srep22065.
ieee: J. Kim, V. Y. Ivanov, and S. Fatichi, “Environmental stochasticity controls
soil erosion variability,” Scientific Reports, vol. 6. Springer Nature,
2016.
ista: Kim J, Ivanov VY, Fatichi S. 2016. Environmental stochasticity controls soil
erosion variability. Scientific Reports. 6, 22065.
mla: Kim, Jongho, et al. “Environmental Stochasticity Controls Soil Erosion Variability.”
Scientific Reports, vol. 6, 22065, Springer Nature, 2016, doi:10.1038/srep22065.
short: J. Kim, V.Y. Ivanov, S. Fatichi, Scientific Reports 6 (2016).
das_tickbox: '1'
date_created: 2026-07-27T12:30:23Z
date_published: 2016-03-01T00:00:00Z
date_updated: 2026-08-12T13:18:29Z
day: '01'
doi: 10.1038/srep22065
extern: '1'
external_id:
pmid:
- '26925542'
fulldoi: https://doi.org/10.1038/srep22065
intvolume: ' 6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/srep22065
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Scientific Reports
publication_identifier:
eissn:
- 2045-2322
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Environmental stochasticity controls soil erosion variability
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 6
year: '2016'
...
---
OA_place: publisher
OA_type: free access
_id: '22484'
abstract:
- lang: eng
text: Plant stomata couple the energy, water, and carbon cycles. We use the framework
of Regional Climate Modeling to simulate the 2003 European heat wave and assess
how higher levels of surface CO2 may affect such an extreme event through land-atmosphere
interactions. Increased CO2 modifies the seasonality of the water cycle through
stomatal regulation and increased leaf area. As a result, the water saved during
the growing season through higher water use efficiency mitigates summer dryness
and the heat wave impact. Land-atmosphere interactions and CO2 fertilization together
synergistically contribute to increased summer transpiration. This, in turn, alters
the surface energy budget and decreases sensible heat flux, mitigating air temperature
rise. Accurate representation of the response to higher CO2 levels and of the
coupling between the carbon and water cycles is therefore critical to forecasting
seasonal climate, water cycle dynamics, and to enhance the accuracy of extreme
event prediction under future climate.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Léo
full_name: Lemordant, Léo
last_name: Lemordant
- first_name: Pierre
full_name: Gentine, Pierre
last_name: Gentine
- first_name: Marc
full_name: Stéfanon, Marc
last_name: Stéfanon
- first_name: Philippe
full_name: Drobinski, Philippe
last_name: Drobinski
- first_name: Simone
full_name: Fatichi, Simone
id: cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6
last_name: Fatichi
citation:
ama: 'Lemordant L, Gentine P, Stéfanon M, Drobinski P, Fatichi S. Modification of
land-atmosphere interactions by CO2 effects: Implications for summer dryness and
heat wave amplitude. Geophysical Research Letters. 2016;43(19):10,240-10,248.
doi:10.1002/2016gl069896'
apa: 'Lemordant, L., Gentine, P., Stéfanon, M., Drobinski, P., & Fatichi, S.
(2016). Modification of land-atmosphere interactions by CO2 effects: Implications
for summer dryness and heat wave amplitude. Geophysical Research Letters.
American Geophysical Union. https://doi.org/10.1002/2016gl069896'
chicago: 'Lemordant, Léo, Pierre Gentine, Marc Stéfanon, Philippe Drobinski, and
Simone Fatichi. “Modification of Land-Atmosphere Interactions by CO2 Effects:
Implications for Summer Dryness and Heat Wave Amplitude.” Geophysical Research
Letters. American Geophysical Union, 2016. https://doi.org/10.1002/2016gl069896.'
ieee: 'L. Lemordant, P. Gentine, M. Stéfanon, P. Drobinski, and S. Fatichi, “Modification
of land-atmosphere interactions by CO2 effects: Implications for summer dryness
and heat wave amplitude,” Geophysical Research Letters, vol. 43, no. 19.
American Geophysical Union, p. 10,240-10,248, 2016.'
ista: 'Lemordant L, Gentine P, Stéfanon M, Drobinski P, Fatichi S. 2016. Modification
of land-atmosphere interactions by CO2 effects: Implications for summer dryness
and heat wave amplitude. Geophysical Research Letters. 43(19), 10,240-10,248.'
mla: 'Lemordant, Léo, et al. “Modification of Land-Atmosphere Interactions by CO2
Effects: Implications for Summer Dryness and Heat Wave Amplitude.” Geophysical
Research Letters, vol. 43, no. 19, American Geophysical Union, 2016, p. 10,240-10,248,
doi:10.1002/2016gl069896.'
short: L. Lemordant, P. Gentine, M. Stéfanon, P. Drobinski, S. Fatichi, Geophysical
Research Letters 43 (2016) 10,240-10,248.
das_tickbox: '1'
date_created: 2026-07-27T12:30:23Z
date_published: 2016-10-16T00:00:00Z
date_updated: 2026-08-12T13:28:33Z
day: '16'
doi: 10.1002/2016gl069896
extern: '1'
fulldoi: https://doi.org/10.1002/2016gl069896
intvolume: ' 43'
issue: '19'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1002/2016GL069896
month: '10'
oa: 1
oa_version: Published Version
page: 10,240-10,248
publication: Geophysical Research Letters
publication_identifier:
eissn:
- 1944-8007
issn:
- 0094-8276
publication_status: published
publisher: American Geophysical Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Modification of land-atmosphere interactions by CO2 effects: Implications
for summer dryness and heat wave amplitude'
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 43
year: '2016'
...
---
OA_type: closed access
_id: '22439'
abstract:
- lang: eng
text: 'Vegetation and the water cycles are inherently coupled across a wide range
ofspatial and temporal scales. Water availability interacts with plant ecophysiologyand
controls vegetation functioning. Concurrently, vegetation has direct andindirect
effects on energy, water, carbon, and nutrient cycles. To better under-stand and
model plant–water interactions, highly interdisciplinary approachesare required.
We present an overview of the main processes and relevant inter-actions between
water and plants across a range of spatial scales, from the celllevel of leaves,
where stomatal controls occur, to drought stress at the level of asingle tree,
to the integrating scales of a watershed, region, and the globe.A review of process
representations in models at different scales is presented.More specifically, three
main model families are identified: (1) models of planthydraulics that mechanistically
simulate stomatal controls and/or water transportat the tree level; (2) ecohydrological
models that simulate plot- to catchment-scale water, energy, and carbon fluxes;
and (3) terrestrial biosphere models thatsimulate carbon, water, and nutrient
dynamics at the regional and global scalesand address feedback between Earth’s
vegetation and the climate system. Weidentify special features and similarities
across the model families. Examplesof where plant–water interactions are especially
important and have led to keyscientific findings are also highlighted. Finally,
we discuss the various datasources that are currently available to force and validate
existing models, and wepresent perspectives on the evolution of the field.'
article_processing_charge: No
article_type: original
author:
- first_name: Simone
full_name: Fatichi, Simone
id: cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6
last_name: Fatichi
- first_name: Christoforos
full_name: Pappas, Christoforos
last_name: Pappas
- first_name: Valeriy Y.
full_name: Ivanov, Valeriy Y.
last_name: Ivanov
citation:
ama: 'Fatichi S, Pappas C, Ivanov VY. Modeling plant–water interactions: an ecohydrological
overview from the cell to the global scale. WIREs Water. 2016;3(3):327-368.
doi:10.1002/wat2.1125'
apa: 'Fatichi, S., Pappas, C., & Ivanov, V. Y. (2016). Modeling plant–water
interactions: an ecohydrological overview from the cell to the global scale. WIREs
Water. Wiley. https://doi.org/10.1002/wat2.1125'
chicago: 'Fatichi, Simone, Christoforos Pappas, and Valeriy Y. Ivanov. “Modeling
Plant–Water Interactions: An Ecohydrological Overview from the Cell to the Global
Scale.” WIREs Water. Wiley, 2016. https://doi.org/10.1002/wat2.1125.'
ieee: 'S. Fatichi, C. Pappas, and V. Y. Ivanov, “Modeling plant–water interactions:
an ecohydrological overview from the cell to the global scale,” WIREs Water,
vol. 3, no. 3. Wiley, pp. 327–368, 2016.'
ista: 'Fatichi S, Pappas C, Ivanov VY. 2016. Modeling plant–water interactions:
an ecohydrological overview from the cell to the global scale. WIREs Water. 3(3),
327–368.'
mla: 'Fatichi, Simone, et al. “Modeling Plant–Water Interactions: An Ecohydrological
Overview from the Cell to the Global Scale.” WIREs Water, vol. 3, no. 3,
Wiley, 2016, pp. 327–68, doi:10.1002/wat2.1125.'
short: S. Fatichi, C. Pappas, V.Y. Ivanov, WIREs Water 3 (2016) 327–368.
das_tickbox: '1'
date_created: 2026-07-27T12:30:23Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2026-08-12T13:32:20Z
day: '01'
doi: 10.1002/wat2.1125
extern: '1'
fulldoi: https://doi.org/10.1002/wat2.1125
intvolume: ' 3'
issue: '3'
language:
- iso: eng
month: '05'
oa_version: None
page: 327-368
publication: WIREs Water
publication_identifier:
eissn:
- 2049-1948
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Modeling plant–water interactions: an ecohydrological overview from the cell
to the global scale'
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 3
year: '2016'
...
---
_id: '1486'
abstract:
- lang: eng
text: We review recent results concerning the mathematical properties of the Bardeen-Cooper-Schrieffer
(BCS) functional of superconductivity, which were obtained in a series of papers,
partly in collaboration with R. Frank, E. Hamza, S. Naboko, and J. P. Solovej.
Our discussion includes, in particular, an investigation of the critical temperature
for a general class of interaction potentials, as well as a study of its dependence
on external fields. We shall explain how the Ginzburg-Landau model can be derived
from the BCS theory in a suitable parameter regime.
article_number: '021101'
article_processing_charge: No
arxiv: 1
author:
- first_name: Christian
full_name: Hainzl, Christian
last_name: Hainzl
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Hainzl C, Seiringer R. The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties. Journal of Mathematical Physics. 2016;57(2).
doi:10.1063/1.4941723
apa: Hainzl, C., & Seiringer, R. (2016). The Bardeen–Cooper–Schrieffer functional
of superconductivity and its mathematical properties. Journal of Mathematical
Physics. AIP Publishing. https://doi.org/10.1063/1.4941723
chicago: Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer
Functional of Superconductivity and Its Mathematical Properties.” Journal of
Mathematical Physics. AIP Publishing, 2016. https://doi.org/10.1063/1.4941723.
ieee: C. Hainzl and R. Seiringer, “The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties,” Journal of Mathematical Physics, vol.
57, no. 2. AIP Publishing, 2016.
ista: Hainzl C, Seiringer R. 2016. The Bardeen–Cooper–Schrieffer functional of superconductivity
and its mathematical properties. Journal of Mathematical Physics. 57(2), 021101.
mla: Hainzl, Christian, and Robert Seiringer. “The Bardeen–Cooper–Schrieffer Functional
of Superconductivity and Its Mathematical Properties.” Journal of Mathematical
Physics, vol. 57, no. 2, 021101, AIP Publishing, 2016, doi:10.1063/1.4941723.
short: C. Hainzl, R. Seiringer, Journal of Mathematical Physics 57 (2016).
date_created: 2018-12-11T11:52:18Z
date_published: 2016-02-24T00:00:00Z
date_updated: 2026-08-12T13:59:20Z
day: '24'
department:
- _id: RoSe
doi: 10.1063/1.4941723
external_id:
arxiv:
- '1511.01995'
isi:
- '000371620000001'
fulldoi: https://doi.org/10.1063/1.4941723
intvolume: ' 57'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1511.01995
month: '02'
oa: 1
oa_version: Preprint
publication: Journal of Mathematical Physics
publication_status: published
publisher: AIP Publishing
publist_id: '5701'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Bardeen–Cooper–Schrieffer functional of superconductivity and its mathematical
properties
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 57
year: '2016'
...
---
_id: '1496'
abstract:
- lang: eng
text: The two-photon 1s2 2s 2p 3P0 1s22s2 1S0 transition in berylliumlike ions is
theoretically investigated within a fully relativistic framework and a second-order
perturbation theory. We focus our analysis on how electron correlation, as well
as the negative-energy spectrum, can affect the forbidden E1M1 decay rate. For
this purpose, we include the electronic correlation via an effective local potential
and within a single configuration-state model. Due to its experimental interest,
evaluations of decay rates are performed for berylliumlike xenon and uranium.
We find that the negative-energy contribution can be neglected at the present
level of accuracy in the evaluation of the decay rate. On the other hand, if contributions
of electronic correlation are not carefully taken into account, it may change
the lifetime of the metastable state by up to 20%. By performing a full-relativistic
jj-coupling calculation, we found a decrease of the decay rate by two orders of
magnitude compared to non-relativistic LS-coupling calculations, for the selected
heavy ions.
acknowledgement: 'This research was supported in part by FCT, Portugal, through
Project No. PTDC/FIS/117606/2010, financed by the European Community Fund FEDER through the COMPETE. '
article_number: '032502'
article_processing_charge: No
arxiv: 1
author:
- first_name: Pedro
full_name: Amaro, Pedro
last_name: Amaro
- first_name: Filippo
full_name: Fratini, Filippo
last_name: Fratini
- first_name: Laleh
full_name: Safari, Laleh
id: 3C325E5E-F248-11E8-B48F-1D18A9856A87
last_name: Safari
- first_name: Jorge
full_name: Machado, Jorge
last_name: Machado
- first_name: Mauro
full_name: Guerra, Mauro
last_name: Guerra
- first_name: Paul
full_name: Indelicato, Paul
last_name: Indelicato
- first_name: José
full_name: Santos, José
last_name: Santos
citation:
ama: Amaro P, Fratini F, Safari L, et al. Relativistic evaluation of the two-photon
decay of the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential
model. Physical Review A. 2016;93(3). doi:10.1103/PhysRevA.93.032502
apa: Amaro, P., Fratini, F., Safari, L., Machado, J., Guerra, M., Indelicato, P.,
& Santos, J. (2016). Relativistic evaluation of the two-photon decay of the
metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential
model. Physical Review A. American Physical Society. https://doi.org/10.1103/PhysRevA.93.032502
chicago: Amaro, Pedro, Filippo Fratini, Laleh Safari, Jorge Machado, Mauro Guerra,
Paul Indelicato, and José Santos. “Relativistic Evaluation of the Two-Photon Decay
of the Metastable 1s22s2p3P0 State in Berylliumlike Ions with an Effective-Potential
Model.” Physical Review A. American Physical Society, 2016. https://doi.org/10.1103/PhysRevA.93.032502.
ieee: P. Amaro et al., “Relativistic evaluation of the two-photon decay of
the metastable 1s22s2p3P0 state in berylliumlike ions with an effective-potential
model,” Physical Review A, vol. 93, no. 3. American Physical Society, 2016.
ista: Amaro P, Fratini F, Safari L, Machado J, Guerra M, Indelicato P, Santos J.
2016. Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0
state in berylliumlike ions with an effective-potential model. Physical Review
A. 93(3), 032502.
mla: Amaro, Pedro, et al. “Relativistic Evaluation of the Two-Photon Decay of the
Metastable 1s22s2p3P0 State in Berylliumlike Ions with an Effective-Potential
Model.” Physical Review A, vol. 93, no. 3, 032502, American Physical Society,
2016, doi:10.1103/PhysRevA.93.032502.
short: P. Amaro, F. Fratini, L. Safari, J. Machado, M. Guerra, P. Indelicato, J.
Santos, Physical Review A 93 (2016).
date_created: 2018-12-11T11:52:21Z
date_published: 2016-03-07T00:00:00Z
date_updated: 2026-08-12T14:21:10Z
day: '07'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.93.032502
ec_funded: 1
external_id:
arxiv:
- '1508.06169'
isi:
- '000371724100008'
fulldoi: https://doi.org/10.1103/PhysRevA.93.032502
intvolume: ' 93'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1508.06169
month: '03'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review A
publication_status: published
publisher: American Physical Society
publist_id: '5683'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Relativistic evaluation of the two-photon decay of the metastable 1s22s2p3P0
state in berylliumlike ions with an effective-potential model
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1286'
abstract:
- lang: eng
text: We use recently developed angulon theory [R. Schmidt and M. Lemeshko, Phys.
Rev. Lett. 114, 203001 (2015)PRLTAO0031-900710.1103/PhysRevLett.114.203001] to
study the rotational spectrum of a cyanide molecular anion immersed into Bose-Einstein
condensates of rubidium and strontium. Based on ab initio potential energy surfaces,
we provide a detailed study of the rotational Lamb shift and many-body-induced
fine structure which arise due to dressing of molecular rotation by a field of
phonon excitations. We demonstrate that the magnitude of these effects is large
enough in order to be observed in modern experiments on cold molecular ions. Furthermore,
we introduce a novel method to construct pseudopotentials starting from the ab
initio potential energy surfaces, which provides a means to obtain effective coupling
constants for low-energy polaron models.
acknowledgement: The work was supported by the NSF through a grant for the Institute
for Theoretical Atomic, Molecular, and Optical Physics at Harvard University and
the Smithsonian Astrophysical Observatory. B.M. acknowledges financial support received
from the People Programme (Marie Curie Actions) of the European Union's Seventh
Framework Programme (FP7/2007-2013) under REA grant agreement No. 291734. M.T. acknowledges
support from the EU Marie Curie COFUND action (ICFOnest), the EU Grants ERC AdG
OSYRIS, FP7 SIQS and EQuaM, FETPROACT QUIC, the Spanish Ministry Grants FOQUS (FIS2013-46768-P)
and Severo Ochoa (SEV-2015-0522), Generalitat de Catalunya (SGR 874), Fundacio Cellex,
the National Science Centre (2015/19/D/ST4/02173), and the PL-Grid Infrastructure.
article_number: '041601'
article_processing_charge: No
arxiv: 1
author:
- first_name: Bikashkali
full_name: Midya, Bikashkali
id: 456187FC-F248-11E8-B48F-1D18A9856A87
last_name: Midya
- first_name: Michał
full_name: Tomza, Michał
last_name: Tomza
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Midya B, Tomza M, Schmidt R, Lemeshko M. Rotation of cold molecular ions inside
a Bose-Einstein condensate. Physical Review A. 2016;94(4). doi:10.1103/PhysRevA.94.041601
apa: Midya, B., Tomza, M., Schmidt, R., & Lemeshko, M. (2016). Rotation of cold
molecular ions inside a Bose-Einstein condensate. Physical Review A. American
Physical Society. https://doi.org/10.1103/PhysRevA.94.041601
chicago: Midya, Bikashkali, Michał Tomza, Richard Schmidt, and Mikhail Lemeshko.
“Rotation of Cold Molecular Ions inside a Bose-Einstein Condensate.” Physical
Review A. American Physical Society, 2016. https://doi.org/10.1103/PhysRevA.94.041601.
ieee: B. Midya, M. Tomza, R. Schmidt, and M. Lemeshko, “Rotation of cold molecular
ions inside a Bose-Einstein condensate,” Physical Review A, vol. 94, no.
4. American Physical Society, 2016.
ista: Midya B, Tomza M, Schmidt R, Lemeshko M. 2016. Rotation of cold molecular
ions inside a Bose-Einstein condensate. Physical Review A. 94(4), 041601.
mla: Midya, Bikashkali, et al. “Rotation of Cold Molecular Ions inside a Bose-Einstein
Condensate.” Physical Review A, vol. 94, no. 4, 041601, American Physical
Society, 2016, doi:10.1103/PhysRevA.94.041601.
short: B. Midya, M. Tomza, R. Schmidt, M. Lemeshko, Physical Review A 94 (2016).
corr_author: '1'
date_created: 2018-12-11T11:51:09Z
date_published: 2016-10-13T00:00:00Z
date_updated: 2026-08-12T14:21:54Z
day: '13'
department:
- _id: MiLe
doi: 10.1103/PhysRevA.94.041601
ec_funded: 1
external_id:
arxiv:
- '1607.06092'
isi:
- '000385618500001'
fulldoi: https://doi.org/10.1103/PhysRevA.94.041601
intvolume: ' 94'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1607.06092
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review A
publication_status: published
publisher: American Physical Society
publist_id: '6030'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rotation of cold molecular ions inside a Bose-Einstein condensate
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1352'
abstract:
- lang: eng
text: We study the interplay of nematic and superconducting order in the two-dimensional
Hubbard model and show that they can coexist, especially when superconductivity
is not the energetically dominant phase. Due to a breaking of the C4 symmetry,
the coexisting phase inherently contains admixture of the s-wave pairing components.
As a result, the superconducting gap exhibits nonstandard features including changed
nodal directions. Our results also show that in the optimally doped regime the
pure superconducting phase is typically unstable towards developing nematicity
(breaking of the C4 symmetry). This has implications for the cuprate high-Tc superconductors,
for which in this regime the so-called intertwined orders have recently been observed.
Namely, the coexisting phase may be viewed as a precursor to such more involved
patterns of symmetry breaking.
acknowledgement: The authors are grateful to Florian Gebhard and Mikhail Lemeshko
for discussions and critical reading of the manuscript. The work was supported by
the Ministry of Science and Higher Education in Poland through the Iuventus Plus
Grant No. IP2012 017172, as well as by the People Programme (Marie Curie Actions)
of the European Union's Seventh Framework Programme (FP7/2007-2013) under REA Grant
Agreement No. 291734. J.K. acknowledges hospitality of the Leibniz Universität in
Hannover where a large part of the work was performed.
article_number: '085152'
article_processing_charge: No
arxiv: 1
author:
- first_name: Jan
full_name: Kaczmarczyk, Jan
id: 46C405DE-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarczyk
orcid: 0000-0002-1629-3675
- first_name: Tobias
full_name: Schickling, Tobias
last_name: Schickling
- first_name: Jörg
full_name: Bünemann, Jörg
last_name: Bünemann
citation:
ama: Kaczmarczyk J, Schickling T, Bünemann J. Coexistence of nematic order and superconductivity
in the Hubbard model. Physical Review B. 2016;94(8). doi:10.1103/PhysRevB.94.085152
apa: Kaczmarczyk, J., Schickling, T., & Bünemann, J. (2016). Coexistence of
nematic order and superconductivity in the Hubbard model. Physical Review B.
American Physical Society. https://doi.org/10.1103/PhysRevB.94.085152
chicago: Kaczmarczyk, Jan, Tobias Schickling, and Jörg Bünemann. “Coexistence of
Nematic Order and Superconductivity in the Hubbard Model.” Physical Review
B. American Physical Society, 2016. https://doi.org/10.1103/PhysRevB.94.085152.
ieee: J. Kaczmarczyk, T. Schickling, and J. Bünemann, “Coexistence of nematic order
and superconductivity in the Hubbard model,” Physical Review B, vol. 94,
no. 8. American Physical Society, 2016.
ista: Kaczmarczyk J, Schickling T, Bünemann J. 2016. Coexistence of nematic order
and superconductivity in the Hubbard model. Physical Review B. 94(8), 085152.
mla: Kaczmarczyk, Jan, et al. “Coexistence of Nematic Order and Superconductivity
in the Hubbard Model.” Physical Review B, vol. 94, no. 8, 085152, American
Physical Society, 2016, doi:10.1103/PhysRevB.94.085152.
short: J. Kaczmarczyk, T. Schickling, J. Bünemann, Physical Review B 94 (2016).
date_created: 2018-12-11T11:51:32Z
date_published: 2016-08-30T00:00:00Z
date_updated: 2026-08-12T14:23:24Z
day: '30'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.94.085152
ec_funded: 1
external_id:
arxiv:
- '1512.06688'
isi:
- '000382127700005'
fulldoi: https://doi.org/10.1103/PhysRevB.94.085152
intvolume: ' 94'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1512.06688
month: '08'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review B
publication_status: published
publisher: American Physical Society
publist_id: '5897'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Coexistence of nematic order and superconductivity in the Hubbard model
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1368'
abstract:
- lang: eng
text: Superconductivity in heavy-fermion systems has an unconventional nature and
is considered to originate from the universal features of the electronic structure.
Here, the Anderson lattice model is studied by means of the full variational Gutzwiller
wave function incorporating nonlocal effects of the on-site interaction. We show
that the d-wave superconducting ground state can be driven solely by interelectronic
correlations. The proposed microscopic mechanism leads to a multigap superconductivity
with the dominant contribution due to f electrons and in the dx2−y2-wave channel.
Our results rationalize several important observations for CeCoIn5.
acknowledgement: "The work has been supported by the National Science Center
\ (NCN) under the Grant MAESTRO, No.\r\nDEC-2012/04/A/ST3/00342. "
article_number: '024517'
article_processing_charge: No
arxiv: 1
author:
- first_name: Marcin
full_name: Wysokiński, Marcin
last_name: Wysokiński
- first_name: Jan
full_name: Kaczmarczyk, Jan
id: 46C405DE-F248-11E8-B48F-1D18A9856A87
last_name: Kaczmarczyk
orcid: 0000-0002-1629-3675
- first_name: Jozef
full_name: Spałek, Jozef
last_name: Spałek
citation:
ama: 'Wysokiński M, Kaczmarczyk J, Spałek J. Correlation driven d wave superconductivity
in Anderson lattice model: Two gaps. Physical Review B. 2016;94(2). doi:10.1103/PhysRevB.94.024517'
apa: 'Wysokiński, M., Kaczmarczyk, J., & Spałek, J. (2016). Correlation driven
d wave superconductivity in Anderson lattice model: Two gaps. Physical Review
B. American Physical Society. https://doi.org/10.1103/PhysRevB.94.024517'
chicago: 'Wysokiński, Marcin, Jan Kaczmarczyk, and Jozef Spałek. “Correlation Driven
d Wave Superconductivity in Anderson Lattice Model: Two Gaps.” Physical Review
B. American Physical Society, 2016. https://doi.org/10.1103/PhysRevB.94.024517.'
ieee: 'M. Wysokiński, J. Kaczmarczyk, and J. Spałek, “Correlation driven d wave
superconductivity in Anderson lattice model: Two gaps,” Physical Review B,
vol. 94, no. 2. American Physical Society, 2016.'
ista: 'Wysokiński M, Kaczmarczyk J, Spałek J. 2016. Correlation driven d wave superconductivity
in Anderson lattice model: Two gaps. Physical Review B. 94(2), 024517.'
mla: 'Wysokiński, Marcin, et al. “Correlation Driven d Wave Superconductivity in
Anderson Lattice Model: Two Gaps.” Physical Review B, vol. 94, no. 2, 024517,
American Physical Society, 2016, doi:10.1103/PhysRevB.94.024517.'
short: M. Wysokiński, J. Kaczmarczyk, J. Spałek, Physical Review B 94 (2016).
date_created: 2018-12-11T11:51:37Z
date_published: 2016-07-01T00:00:00Z
date_updated: 2026-08-12T14:22:55Z
day: '01'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.94.024517
ec_funded: 1
external_id:
arxiv:
- '1510.00224'
isi:
- '000380098600005'
fulldoi: https://doi.org/10.1103/PhysRevB.94.024517
intvolume: ' 94'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1510.00224
month: '07'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review B
publication_status: published
publisher: American Physical Society
publist_id: '5844'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Correlation driven d wave superconductivity in Anderson lattice model: Two
gaps'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2016'
...
---
_id: '1416'
abstract:
- lang: eng
text: Anisotropic dipole-dipole interactions between ultracold dipolar fermions
break the symmetry of the Fermi surface and thereby deform it. Here we demonstrate
that such a Fermi surface deformation induces a topological phase transition -
the so-called Lifshitz transition - in the regime accessible to present-day experiments.
We describe the impact of the Lifshitz transition on observable quantities such
as the Fermi surface topology, the density-density correlation function, and the
excitation spectrum of the system. The Lifshitz transition in ultracold atoms
can be controlled by tuning the dipole orientation and, in contrast to the transition
studied in crystalline solids, is completely interaction driven.
article_number: '195145'
article_processing_charge: No
arxiv: 1
author:
- first_name: Erik
full_name: Van Loon, Erik
last_name: Van Loon
- first_name: Mikhail
full_name: Katsnelson, Mikhail
last_name: Katsnelson
- first_name: Lauriane
full_name: Chomaz, Lauriane
last_name: Chomaz
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Van Loon E, Katsnelson M, Chomaz L, Lemeshko M. Interaction-driven Lifshitz
transition with dipolar fermions in optical lattices. Physical Review B.
2016;93(19). doi:10.1103/PhysRevB.93.195145
apa: Van Loon, E., Katsnelson, M., Chomaz, L., & Lemeshko, M. (2016). Interaction-driven
Lifshitz transition with dipolar fermions in optical lattices. Physical Review
B. American Physical Society. https://doi.org/10.1103/PhysRevB.93.195145
chicago: Van Loon, Erik, Mikhail Katsnelson, Lauriane Chomaz, and Mikhail Lemeshko.
“Interaction-Driven Lifshitz Transition with Dipolar Fermions in Optical Lattices.”
Physical Review B. American Physical Society, 2016. https://doi.org/10.1103/PhysRevB.93.195145.
ieee: E. Van Loon, M. Katsnelson, L. Chomaz, and M. Lemeshko, “Interaction-driven
Lifshitz transition with dipolar fermions in optical lattices,” Physical Review
B, vol. 93, no. 19. American Physical Society, 2016.
ista: Van Loon E, Katsnelson M, Chomaz L, Lemeshko M. 2016. Interaction-driven Lifshitz
transition with dipolar fermions in optical lattices. Physical Review B. 93(19),
195145.
mla: Van Loon, Erik, et al. “Interaction-Driven Lifshitz Transition with Dipolar
Fermions in Optical Lattices.” Physical Review B, vol. 93, no. 19, 195145,
American Physical Society, 2016, doi:10.1103/PhysRevB.93.195145.
short: E. Van Loon, M. Katsnelson, L. Chomaz, M. Lemeshko, Physical Review B 93
(2016).
corr_author: '1'
date_created: 2018-12-11T11:51:54Z
date_published: 2016-05-15T00:00:00Z
date_updated: 2026-08-12T14:22:37Z
day: '15'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.93.195145
external_id:
arxiv:
- '1603.09358'
isi:
- '000376636900002'
fulldoi: https://doi.org/10.1103/PhysRevB.93.195145
intvolume: ' 93'
isi: 1
issue: '19'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1603.09358
month: '05'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_status: published
publisher: American Physical Society
publist_id: '5791'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Interaction-driven Lifshitz transition with dipolar fermions in optical lattices
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1370'
abstract:
- lang: eng
text: 'We study coherent phonon oscillations and tunneling between two coupled nonlinear
nanomechanical resonators. We show that the coupling between two nanomechanical
resonators creates an effective phonon Josephson junction, which exhibits two
different dynamical behaviors: Josephson oscillation (phonon-Rabi oscillation)
and macroscopic self-trapping (phonon blockade). Self-trapping originates from
mechanical nonlinearities, meaning that when the nonlinearity exceeds its critical
value, the energy exchange between the two resonators is suppressed, and phonon
Josephson oscillations between them are completely blocked. An effective classical
Hamiltonian for the phonon Josephson junction is derived and its mean-field dynamics
is studied in phase space. Finally, we study the phonon-phonon coherence quantified
by the mean fringe visibility, and show that the interaction between the two resonators
may lead to the loss of coherence in the phononic junction.'
acknowledgement: 'The work of S.B. has been supported by the European Commission (Belgium)
via the SCALEQIT program and by the Alexander von Humboldt Foundation. '
article_number: '033846'
article_processing_charge: No
arxiv: 1
author:
- first_name: Shabir
full_name: Barzanjeh, Shabir
id: 2D25E1F6-F248-11E8-B48F-1D18A9856A87
last_name: Barzanjeh
orcid: 0000-0003-0415-1423
- first_name: David
full_name: Vitali, David
last_name: Vitali
citation:
ama: Barzanjeh S, Vitali D. Phonon Josephson junction with nanomechanical resonators.
Physical Review A. 2016;93(3). doi:10.1103/PhysRevA.93.033846
apa: Barzanjeh, S., & Vitali, D. (2016). Phonon Josephson junction with nanomechanical
resonators. Physical Review A. American Physical Society. https://doi.org/10.1103/PhysRevA.93.033846
chicago: Barzanjeh, Shabir, and David Vitali. “Phonon Josephson Junction with Nanomechanical
Resonators.” Physical Review A. American Physical Society, 2016. https://doi.org/10.1103/PhysRevA.93.033846.
ieee: S. Barzanjeh and D. Vitali, “Phonon Josephson junction with nanomechanical
resonators,” Physical Review A, vol. 93, no. 3. American Physical Society,
2016.
ista: Barzanjeh S, Vitali D. 2016. Phonon Josephson junction with nanomechanical
resonators. Physical Review A. 93(3), 033846.
mla: Barzanjeh, Shabir, and David Vitali. “Phonon Josephson Junction with Nanomechanical
Resonators.” Physical Review A, vol. 93, no. 3, 033846, American Physical
Society, 2016, doi:10.1103/PhysRevA.93.033846.
short: S. Barzanjeh, D. Vitali, Physical Review A 93 (2016).
date_created: 2018-12-11T11:51:38Z
date_published: 2016-03-28T00:00:00Z
date_updated: 2026-08-12T14:21:27Z
day: '28'
department:
- _id: JoFi
doi: 10.1103/PhysRevA.93.033846
external_id:
arxiv:
- '1601.01818'
isi:
- '000372797700010'
fulldoi: https://doi.org/10.1103/PhysRevA.93.033846
intvolume: ' 93'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1601.01818
month: '03'
oa: 1
oa_version: Preprint
publication: Physical Review A
publication_status: published
publisher: American Physical Society
publist_id: '5841'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Phonon Josephson junction with nanomechanical resonators
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1242'
abstract:
- lang: eng
text: A crucial step in the regulation of gene expression is binding of transcription
factor (TF) proteins to regulatory sites along the DNA. But transcription factors
act at nanomolar concentrations, and noise due to random arrival of these molecules
at their binding sites can severely limit the precision of regulation. Recent
work on the optimization of information flow through regulatory networks indicates
that the lower end of the dynamic range of concentrations is simply inaccessible,
overwhelmed by the impact of this noise. Motivated by the behavior of homeodomain
proteins, such as the maternal morphogen Bicoid in the fruit fly embryo, we suggest
a scheme in which transcription factors also act as indirect translational regulators,
binding to the mRNA of other regulatory proteins. Intuitively, each mRNA molecule
acts as an independent sensor of the input concentration, and averaging over these
multiple sensors reduces the noise. We analyze information flow through this scheme
and identify conditions under which it outperforms direct transcriptional regulation.
Our results suggest that the dual role of homeodomain proteins is not just a historical
accident, but a solution to a crucial physics problem in the regulation of gene
expression.
acknowledgement: "We thank T. Gregor, A. Prochaintz, and others for\r\nhelpful discussions.
This work was supported in part by\r\nGrants No. PHY-1305525 and No. CCF-0939370
from the\r\nUS National Science Foundation and by the W.M. Keck\r\nFoundation. A.M.W.
acknowledges the support by European\r\nResearch Council (ERC) Grant No. MCCIG PCIG10–GA-\r\n2011–303561.
G.T. and T.R.S. were supported by Austrian\r\nScience Fund (FWF) Grant No. P28844S."
article_number: '022404'
article_processing_charge: No
arxiv: 1
author:
- first_name: Thomas R
full_name: Sokolowski, Thomas R
id: 3E999752-F248-11E8-B48F-1D18A9856A87
last_name: Sokolowski
orcid: 0000-0002-1287-3779
- first_name: Aleksandra
full_name: Walczak, Aleksandra
last_name: Walczak
- first_name: William
full_name: Bialek, William
last_name: Bialek
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
citation:
ama: Sokolowski TR, Walczak A, Bialek W, Tkačik G. Extending the dynamic range of
transcription factor action by translational regulation. Physical Review E.
2016;93(2). doi:10.1103/PhysRevE.93.022404
apa: Sokolowski, T. R., Walczak, A., Bialek, W., & Tkačik, G. (2016). Extending
the dynamic range of transcription factor action by translational regulation.
Physical Review E. American Physical Society. https://doi.org/10.1103/PhysRevE.93.022404
chicago: Sokolowski, Thomas R, Aleksandra Walczak, William Bialek, and Gašper Tkačik.
“Extending the Dynamic Range of Transcription Factor Action by Translational Regulation.”
Physical Review E. American Physical Society, 2016. https://doi.org/10.1103/PhysRevE.93.022404.
ieee: T. R. Sokolowski, A. Walczak, W. Bialek, and G. Tkačik, “Extending the dynamic
range of transcription factor action by translational regulation,” Physical
Review E, vol. 93, no. 2. American Physical Society, 2016.
ista: Sokolowski TR, Walczak A, Bialek W, Tkačik G. 2016. Extending the dynamic
range of transcription factor action by translational regulation. Physical Review
E. 93(2), 022404.
mla: Sokolowski, Thomas R., et al. “Extending the Dynamic Range of Transcription
Factor Action by Translational Regulation.” Physical Review E, vol. 93,
no. 2, 022404, American Physical Society, 2016, doi:10.1103/PhysRevE.93.022404.
short: T.R. Sokolowski, A. Walczak, W. Bialek, G. Tkačik, Physical Review E 93 (2016).
date_created: 2018-12-11T11:50:54Z
date_published: 2016-02-04T00:00:00Z
date_updated: 2026-08-12T14:28:33Z
day: '04'
department:
- _id: GaTk
doi: 10.1103/PhysRevE.93.022404
external_id:
arxiv:
- '1507.02562'
isi:
- '000369439100005'
fulldoi: https://doi.org/10.1103/PhysRevE.93.022404
intvolume: ' 93'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1507.02562
month: '02'
oa: 1
oa_version: Preprint
project:
- _id: 254E9036-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28844-B27
name: Biophysics of information processing in gene regulation
publication: Physical Review E
publication_status: published
publisher: American Physical Society
publist_id: '6088'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extending the dynamic range of transcription factor action by translational
regulation
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 93
year: '2016'
...
---
_id: '1138'
abstract:
- lang: eng
text: Automata with monitor counters, where the transitions do not depend on counter
values, and nested weighted automata are two expressive automata-theoretic frameworks
for quantitative properties. For a well-studied and wide class of quantitative
functions, we establish that automata with monitor counters and nested weighted
automata are equivalent. We study for the first time such quantitative automata
under probabilistic semantics. We show that several problems that are undecidable
for the classical questions of emptiness and universality become decidable under
the probabilistic semantics. We present a complete picture of decidability for
such automata, and even an almost-complete picture of computational complexity,
for the probabilistic questions we consider.
acknowledgement: This research was funded in part by the European Research Council
(ERC) under grant agreement 267989 (QUAREM), by the Austrian Science Fund (FWF)
projects S11402-N23 (RiSE) and Z211-N23 (Wittgenstein Award), FWF Grant No P23499-
N23, FWF NFN Grant No S114
article_processing_charge: No
arxiv: 1
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Jan
full_name: Otop, Jan
id: 2FC5DA74-F248-11E8-B48F-1D18A9856A87
last_name: Otop
citation:
ama: 'Chatterjee K, Henzinger TA, Otop J. Quantitative automata under probabilistic
semantics. In: Proceedings of the 31st Annual ACM/IEEE Symposium. IEEE;
2016:76-85. doi:10.1145/2933575.2933588'
apa: 'Chatterjee, K., Henzinger, T. A., & Otop, J. (2016). Quantitative automata
under probabilistic semantics. In Proceedings of the 31st Annual ACM/IEEE Symposium
(pp. 76–85). New York, NY, USA: IEEE. https://doi.org/10.1145/2933575.2933588'
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, and Jan Otop. “Quantitative
Automata under Probabilistic Semantics.” In Proceedings of the 31st Annual
ACM/IEEE Symposium, 76–85. IEEE, 2016. https://doi.org/10.1145/2933575.2933588.
ieee: K. Chatterjee, T. A. Henzinger, and J. Otop, “Quantitative automata under
probabilistic semantics,” in Proceedings of the 31st Annual ACM/IEEE Symposium,
New York, NY, USA, 2016, pp. 76–85.
ista: 'Chatterjee K, Henzinger TA, Otop J. 2016. Quantitative automata under probabilistic
semantics. Proceedings of the 31st Annual ACM/IEEE Symposium. LICS: Logic in Computer
Science, 76–85.'
mla: Chatterjee, Krishnendu, et al. “Quantitative Automata under Probabilistic Semantics.”
Proceedings of the 31st Annual ACM/IEEE Symposium, IEEE, 2016, pp. 76–85,
doi:10.1145/2933575.2933588.
short: K. Chatterjee, T.A. Henzinger, J. Otop, in:, Proceedings of the 31st Annual
ACM/IEEE Symposium, IEEE, 2016, pp. 76–85.
conference:
end_date: 2016-07-08
location: New York, NY, USA
name: 'LICS: Logic in Computer Science'
start_date: 2016-07-05
date_created: 2018-12-11T11:50:21Z
date_published: 2016-07-05T00:00:00Z
date_updated: 2026-08-19T09:35:52Z
day: '05'
department:
- _id: KrCh
- _id: ToHe
doi: 10.1145/2933575.2933588
ec_funded: 1
external_id:
arxiv:
- '1604.06764'
isi:
- '000387609200008'
fulldoi: https://doi.org/10.1145/2933575.2933588
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1604.06764
month: '07'
oa: 1
oa_version: Preprint
page: 76 - 85
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: Formal methods for the design and analysis of complex systems
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25892FC0-B435-11E9-9278-68D0E5697425
grant_number: ICT15-003
name: Efficient Algorithms for Computer Aided Verification
publication: Proceedings of the 31st Annual ACM/IEEE Symposium
publication_status: published
publisher: IEEE
publist_id: '6220'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantitative automata under probabilistic semantics
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
_id: '1529'
abstract:
- lang: eng
text: 'We consider partially observable Markov decision processes (POMDPs) with
a set of target states and an integer cost associated with every transition. The
optimization objective we study asks to minimize the expected total cost of reaching
a state in the target set, while ensuring that the target set is reached almost
surely (with probability 1). We show that for integer costs approximating the
optimal cost is undecidable. For positive costs, our results are as follows: (i)
we establish matching lower and upper bounds for the optimal cost, both double
exponential in the POMDP state space size; (ii) we show that the problem of approximating
the optimal cost is decidable and present approximation algorithms developing
on the existing algorithms for POMDPs with finite-horizon objectives. While the
worst-case running time of our algorithm is double exponential, we also present
efficient stopping criteria for the algorithm and show experimentally that it
performs well in many examples of interest.'
acknowledgement: 'We thank Blai Bonet for helping us with RTDP-Bel. The research was
partly supported by Austrian Science Fund (FWF) Grant No P23499-N23, FWF NFN Grant
No S11407-N23 (RiSE), ERC Start grant (279307: Graph Games), and Microsoft faculty
fellows award.'
article_processing_charge: No
arxiv: 1
author:
- 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: Chmelik, Martin
id: 3624234E-F248-11E8-B48F-1D18A9856A87
last_name: Chmelik
- first_name: Raghav
full_name: Gupta, Raghav
last_name: Gupta
- first_name: Ayush
full_name: Kanodia, Ayush
last_name: Kanodia
citation:
ama: Chatterjee K, Chmelik M, Gupta R, Kanodia A. Optimal cost almost-sure reachability
in POMDPs. Artificial Intelligence. 2016;234:26-48. doi:10.1016/j.artint.2016.01.007
apa: Chatterjee, K., Chmelik, M., Gupta, R., & Kanodia, A. (2016). Optimal cost
almost-sure reachability in POMDPs. Artificial Intelligence. Elsevier.
https://doi.org/10.1016/j.artint.2016.01.007
chicago: Chatterjee, Krishnendu, Martin Chmelik, Raghav Gupta, and Ayush Kanodia.
“Optimal Cost Almost-Sure Reachability in POMDPs.” Artificial Intelligence.
Elsevier, 2016. https://doi.org/10.1016/j.artint.2016.01.007.
ieee: K. Chatterjee, M. Chmelik, R. Gupta, and A. Kanodia, “Optimal cost almost-sure
reachability in POMDPs,” Artificial Intelligence, vol. 234. Elsevier, pp.
26–48, 2016.
ista: Chatterjee K, Chmelik M, Gupta R, Kanodia A. 2016. Optimal cost almost-sure
reachability in POMDPs. Artificial Intelligence. 234, 26–48.
mla: Chatterjee, Krishnendu, et al. “Optimal Cost Almost-Sure Reachability in POMDPs.”
Artificial Intelligence, vol. 234, Elsevier, 2016, pp. 26–48, doi:10.1016/j.artint.2016.01.007.
short: K. Chatterjee, M. Chmelik, R. Gupta, A. Kanodia, Artificial Intelligence
234 (2016) 26–48.
corr_author: '1'
date_created: 2018-12-11T11:52:33Z
date_published: 2016-05-01T00:00:00Z
date_updated: 2026-08-19T09:31:46Z
day: '01'
department:
- _id: KrCh
doi: 10.1016/j.artint.2016.01.007
ec_funded: 1
external_id:
arxiv:
- '1411.3880'
isi:
- '000372683700002'
fulldoi: https://doi.org/10.1016/j.artint.2016.01.007
intvolume: ' 234'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1411.3880
month: '05'
oa: 1
oa_version: Preprint
page: 26 - 48
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Artificial Intelligence
publication_status: published
publisher: Elsevier
publist_id: '5642'
quality_controlled: '1'
related_material:
record:
- id: '5425'
relation: earlier_version
status: public
- id: '1820'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Optimal cost almost-sure reachability in POMDPs
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 234
year: '2016'
...
---
_id: '9864'
abstract:
- lang: eng
text: Viral capsids are structurally constrained by interactions among the amino
acids (AAs) of their constituent proteins. Therefore, epistasis is expected to
evolve among physically interacting sites and to influence the rates of substitution.
To study the evolution of epistasis, we focused on the major structural protein
of the ϕX174 phage family by, first, reconstructing the ancestral protein sequences
of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction
differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each
ancestral haplotype and the extant species, we estimated, in silico, the distribution
of free energies and epistasis of the capsid structure. We found that free energy
has not significantly increased but epistasis has. We decomposed epistasis up
to fifth order and found that higher-order epistasis sometimes compensates pairwise
interactions making the free energy seem additive. The dN/dS ratio is low, suggesting
strong purifying selection, and that structure is under stabilizing selection.
We synthesized phages carrying ancestral haplotypes of the coat protein gene and
measured their fitness experimentally. Our findings indicate that stabilizing
mutations can have higher fitness, and that fitness optima do not necessarily
coincide with energy minima.
article_processing_charge: No
author:
- first_name: Rodrigo A
full_name: Fernandes Redondo, Rodrigo A
id: 409D5C96-F248-11E8-B48F-1D18A9856A87
last_name: Fernandes Redondo
orcid: 0000-0002-5837-2793
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: Tomasz
full_name: Włodarski, Tomasz
last_name: Włodarski
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Data from evolutionary
interplay between structure, energy and epistasis in the coat protein of the ϕX174
phage family. 2016. doi:10.6084/m9.figshare.4315652.v1
apa: Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., & Bollback, J.
P. (2016). Data from evolutionary interplay between structure, energy and epistasis
in the coat protein of the ϕX174 phage family. The Royal Society. https://doi.org/10.6084/m9.figshare.4315652.v1
chicago: Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan
P Bollback. “Data from Evolutionary Interplay between Structure, Energy and Epistasis
in the Coat Protein of the ΦX174 Phage Family.” The Royal Society, 2016. https://doi.org/10.6084/m9.figshare.4315652.v1.
ieee: R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Data
from evolutionary interplay between structure, energy and epistasis in the coat
protein of the ϕX174 phage family.” The Royal Society, 2016.
ista: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2016. Data from
evolutionary interplay between structure, energy and epistasis in the coat protein
of the ϕX174 phage family, The Royal Society, 10.6084/m9.figshare.4315652.v1.
mla: Fernandes Redondo, Rodrigo A., et al. Data from Evolutionary Interplay between
Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.
The Royal Society, 2016, doi:10.6084/m9.figshare.4315652.v1.
short: R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, (2016).
date_created: 2021-08-10T08:29:47Z
date_published: 2016-12-14T00:00:00Z
date_updated: 2026-08-27T12:09:34Z
day: '14'
department:
- _id: NiBa
- _id: JoBo
doi: 10.6084/m9.figshare.4315652.v1
fulldoi: https://doi.org/10.6084/m9.figshare.4315652.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.4315652.v1
month: '12'
oa: 1
oa_version: Published Version
publisher: The Royal Society
related_material:
record:
- id: '1077'
relation: used_in_publication
status: public
status: public
title: Data from evolutionary interplay between structure, energy and epistasis in
the coat protein of the ϕX174 phage family
type: research_data_reference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2016'
...
---
_id: '1262'
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.
acknowledgement: "This work was supported by the Federal Ministry of Food, Agriculture
and Consumer Protection (Germany): Fit Bee project (grant 511-06.01-28-1-71.007-10),
the EU: BeeDoc (grant 244956), iDiv (2013 NGS-Fast Track grant W47004118) and the
Insect Pollinators Initiative (IPI grant BB/I000100/1 and BB/I000151/1). The IPI
is funded jointly by the Biotechnology and Biological Sciences Research Council,
the Department for Environment, Food and Rural Affairs, the Natural Environment
Research Council, the Scottish Government and the Wellcome Trust, under the Living
with Environmental Change Partnership. We thank A. Abrahams, M. Husemann and A.
Soro\r\nfor support in obtaining\r\nV. destructor\r\n-free honeybees; and BBKA\r\nPresident
D. Aston for access to records of colony overwinter\r\n2011–2012 mortality in the
UK. We also thank the anonymous refe-\r\nrees and Stephen Martin for comments that
led to substantial\r\nimprovement of the manuscript."
article_number: '20160811'
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. Elevated virulence of an emerging
viral genotype as a driver of honeybee loss. Proceedings of the Royal Society
of London Series B Biological Sciences. 2016;283(1833). doi:10.1098/rspb.2016.0811
apa: Mcmahon, D., Natsopoulou, M., Doublet, V., Fürst, M., Weging, S., Brown, M.,
… Paxton, R. (2016). Elevated virulence of an emerging viral genotype as a driver
of honeybee loss. Proceedings of the Royal Society of London Series B Biological
Sciences. Royal Society. https://doi.org/10.1098/rspb.2016.0811
chicago: Mcmahon, Dino, Myrsini Natsopoulou, Vincent Doublet, Matthias Fürst, Silvio
Weging, Mark Brown, Andreas Gogol Döring, and Robert Paxton. “Elevated Virulence
of an Emerging Viral Genotype as a Driver of Honeybee Loss.” Proceedings of
the Royal Society of London Series B Biological Sciences. Royal Society, 2016.
https://doi.org/10.1098/rspb.2016.0811.
ieee: D. Mcmahon et al., “Elevated virulence of an emerging viral genotype
as a driver of honeybee loss,” Proceedings of the Royal Society of London Series
B Biological Sciences, vol. 283, no. 1833. Royal Society, 2016.
ista: Mcmahon D, Natsopoulou M, Doublet V, Fürst M, Weging S, Brown M, Gogol Döring
A, Paxton R. 2016. Elevated virulence of an emerging viral genotype as a driver
of honeybee loss. Proceedings of the Royal Society of London Series B Biological
Sciences. 283(1833), 20160811.
mla: Mcmahon, Dino, et al. “Elevated Virulence of an Emerging Viral Genotype as
a Driver of Honeybee Loss.” Proceedings of the Royal Society of London Series
B Biological Sciences, vol. 283, no. 1833, 20160811, Royal Society, 2016,
doi:10.1098/rspb.2016.0811.
short: D. Mcmahon, M. Natsopoulou, V. Doublet, M. Fürst, S. Weging, M. Brown, A.
Gogol Döring, R. Paxton, Proceedings of the Royal Society of London Series B Biological
Sciences 283 (2016).
date_created: 2018-12-11T11:51:00Z
date_published: 2016-06-29T00:00:00Z
date_updated: 2026-08-27T12:13:27Z
day: '29'
ddc:
- '576'
- '592'
department:
- _id: SyCr
doi: 10.1098/rspb.2016.0811
external_id:
isi:
- '000381247300009'
file:
- access_level: open_access
checksum: 0b0d1be38b497d004064650acb3baced
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:46Z
date_updated: 2020-07-14T12:44:42Z
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file_name: IST-2016-701-v1+1_20160811.full.pdf
file_size: 796872
relation: main_file
file_date_updated: 2020-07-14T12:44:42Z
fulldoi: https://doi.org/10.1098/rspb.2016.0811
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intvolume: ' 283'
isi: 1
issue: '1833'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Proceedings of the Royal Society of London Series B Biological Sciences
publication_status: published
publisher: Royal Society
publist_id: '6060'
pubrep_id: '701'
quality_controlled: '1'
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scopus_import: '1'
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title: Elevated virulence of an emerging viral genotype as a driver of honeybee loss
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: 283
year: '2016'
...