---
_id: '3376'
abstract:
- lang: eng
text: Regulatory conflicts occur when two signals that individually trigger opposite
cellular responses are present simultaneously. Here, we investigate regulatory
conflicts in the bacterial response to antibiotic combinations. We use an Escherichia
coli promoter-GFP library to study the transcriptional response of many promoters
to either additive or antagonistic drug pairs at fine two-dimensional (2D) resolution
of drug concentration. Surprisingly, we find that this data set can be characterized
as a linear sum of only two principal components. Component one, accounting for
over 70% of the response, represents the response to growth inhibition by the
drugs. Component two describes how regulatory conflicts are resolved. For the
additive drug pair, conflicts are resolved by linearly interpolating the single
drug responses, while for the antagonistic drug pair, the growth-limiting drug
dominates the response. Importantly, for a given drug pair, the same conflict
resolution strategy applies to almost all genes. These results provide a recipe
for predicting gene expression responses to antibiotic combinations.
acknowledgement: This work was supported by a Feodor Lynen Fellowship of the Alexander
von Humboldt Foundation (to T.B.).
article_processing_charge: No
author:
- first_name: Mark Tobias
full_name: Bollenbach, Mark Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
- first_name: Roy
full_name: Kishony, Roy
last_name: Kishony
citation:
ama: Bollenbach MT, Kishony R. Resolution of gene regulatory conflicts caused by
combinations of antibiotics. Molecular Cell. 2011;42(4):413-425. doi:10.1016/j.molcel.2011.04.016
apa: Bollenbach, M. T., & Kishony, R. (2011). Resolution of gene regulatory
conflicts caused by combinations of antibiotics. Molecular Cell. Cell Press.
https://doi.org/10.1016/j.molcel.2011.04.016
chicago: Bollenbach, Mark Tobias, and Roy Kishony. “Resolution of Gene Regulatory
Conflicts Caused by Combinations of Antibiotics.” Molecular Cell. Cell
Press, 2011. https://doi.org/10.1016/j.molcel.2011.04.016.
ieee: M. T. Bollenbach and R. Kishony, “Resolution of gene regulatory conflicts
caused by combinations of antibiotics,” Molecular Cell, vol. 42, no. 4.
Cell Press, pp. 413–425, 2011.
ista: Bollenbach MT, Kishony R. 2011. Resolution of gene regulatory conflicts caused
by combinations of antibiotics. Molecular Cell. 42(4), 413–425.
mla: Bollenbach, Mark Tobias, and Roy Kishony. “Resolution of Gene Regulatory Conflicts
Caused by Combinations of Antibiotics.” Molecular Cell, vol. 42, no. 4,
Cell Press, 2011, pp. 413–25, doi:10.1016/j.molcel.2011.04.016.
short: M.T. Bollenbach, R. Kishony, Molecular Cell 42 (2011) 413–425.
date_created: 2018-12-11T12:02:59Z
date_published: 2011-05-20T00:00:00Z
date_updated: 2025-09-30T08:54:28Z
day: '20'
department:
- _id: ToBo
doi: 10.1016/j.molcel.2011.04.016
external_id:
isi:
- '000291113800005'
intvolume: ' 42'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3143497/
month: '05'
oa: 1
oa_version: Submitted Version
page: 413 - 425
publication: Molecular Cell
publication_status: published
publisher: Cell Press
publist_id: '3231'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Resolution of gene regulatory conflicts caused by combinations of antibiotics
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 42
year: '2011'
...
---
_id: '3377'
abstract:
- lang: eng
text: By definition, transverse intersections are stable under in- finitesimal perturbations.
Using persistent homology, we ex- tend this notion to sizeable perturbations.
Specifically, we assign to each homology class of the intersection its robust-
ness, the magnitude of a perturbation necessary to kill it, and prove that robustness
is stable. Among the applications of this result is a stable notion of robustness
for fixed points of continuous mappings and a statement of stability for con-
tours of smooth mappings.
acknowledgement: This research is partially supported by the Defense Advanced Research
Projects Agency (DARPA) under grants HR0011-05-1-0007 and HR0011-05-1-0057.
article_processing_charge: No
arxiv: 1
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Dmitriy
full_name: Morozov, Dmitriy
last_name: Morozov
- first_name: Amit
full_name: Patel, Amit
id: 34A254A0-F248-11E8-B48F-1D18A9856A87
last_name: Patel
citation:
ama: Edelsbrunner H, Morozov D, Patel A. Quantifying transversality by measuring
the robustness of intersections. Foundations of Computational Mathematics.
2011;11(3):345-361. doi:10.1007/s10208-011-9090-8
apa: Edelsbrunner, H., Morozov, D., & Patel, A. (2011). Quantifying transversality
by measuring the robustness of intersections. Foundations of Computational
Mathematics. Springer. https://doi.org/10.1007/s10208-011-9090-8
chicago: Edelsbrunner, Herbert, Dmitriy Morozov, and Amit Patel. “Quantifying Transversality
by Measuring the Robustness of Intersections.” Foundations of Computational
Mathematics. Springer, 2011. https://doi.org/10.1007/s10208-011-9090-8.
ieee: H. Edelsbrunner, D. Morozov, and A. Patel, “Quantifying transversality by
measuring the robustness of intersections,” Foundations of Computational Mathematics,
vol. 11, no. 3. Springer, pp. 345–361, 2011.
ista: Edelsbrunner H, Morozov D, Patel A. 2011. Quantifying transversality by measuring
the robustness of intersections. Foundations of Computational Mathematics. 11(3),
345–361.
mla: Edelsbrunner, Herbert, et al. “Quantifying Transversality by Measuring the
Robustness of Intersections.” Foundations of Computational Mathematics,
vol. 11, no. 3, Springer, 2011, pp. 345–61, doi:10.1007/s10208-011-9090-8.
short: H. Edelsbrunner, D. Morozov, A. Patel, Foundations of Computational Mathematics
11 (2011) 345–361.
corr_author: '1'
date_created: 2018-12-11T12:02:59Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2025-09-30T08:53:52Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/s10208-011-9090-8
external_id:
arxiv:
- '0911.2142'
isi:
- '000290038800004'
intvolume: ' 11'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/0911.2142
month: '06'
oa: 1
oa_version: Submitted Version
page: 345 - 361
publication: Foundations of Computational Mathematics
publication_status: published
publisher: Springer
publist_id: '3230'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantifying transversality by measuring the robustness of intersections
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 11
year: '2011'
...
---
_id: '3378'
abstract:
- lang: eng
text: The theory of intersection homology was developed to study the singularities
of a topologically stratified space. This paper in- corporates this theory into
the already developed framework of persistent homology. We demonstrate that persistent
intersec- tion homology gives useful information about the relationship between
an embedded stratified space and its singularities. We give, and prove the correctness
of, an algorithm for the computa- tion of the persistent intersection homology
groups of a filtered simplicial complex equipped with a stratification by subcom-
plexes. We also derive, from Poincare ́ Duality, some structural results about
persistent intersection homology.
acknowledgement: This research was partially supported by the Defense Advanced Research
Projects Agency (DARPA) under grant HR0011-05-1-0007.
article_processing_charge: No
author:
- first_name: Paul
full_name: Bendich, Paul
id: 43F6EC54-F248-11E8-B48F-1D18A9856A87
last_name: Bendich
- first_name: John
full_name: Harer, John
last_name: Harer
citation:
ama: Bendich P, Harer J. Persistent intersection homology. Foundations of Computational
Mathematics. 2011;11(3):305-336. doi:10.1007/s10208-010-9081-1
apa: Bendich, P., & Harer, J. (2011). Persistent intersection homology. Foundations
of Computational Mathematics. Springer. https://doi.org/10.1007/s10208-010-9081-1
chicago: Bendich, Paul, and John Harer. “Persistent Intersection Homology.” Foundations
of Computational Mathematics. Springer, 2011. https://doi.org/10.1007/s10208-010-9081-1.
ieee: P. Bendich and J. Harer, “Persistent intersection homology,” Foundations
of Computational Mathematics, vol. 11, no. 3. Springer, pp. 305–336, 2011.
ista: Bendich P, Harer J. 2011. Persistent intersection homology. Foundations of
Computational Mathematics. 11(3), 305–336.
mla: Bendich, Paul, and John Harer. “Persistent Intersection Homology.” Foundations
of Computational Mathematics, vol. 11, no. 3, Springer, 2011, pp. 305–36,
doi:10.1007/s10208-010-9081-1.
short: P. Bendich, J. Harer, Foundations of Computational Mathematics 11 (2011)
305–336.
corr_author: '1'
date_created: 2018-12-11T12:02:59Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2025-09-30T08:53:15Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/s10208-010-9081-1
external_id:
isi:
- '000290038800002'
intvolume: ' 11'
isi: 1
issue: '3'
language:
- iso: eng
month: '06'
oa_version: None
page: 305 - 336
publication: Foundations of Computational Mathematics
publication_status: published
publisher: Springer
publist_id: '3229'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Persistent intersection homology
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 11
year: '2011'
...
---
_id: '3379'
abstract:
- lang: eng
text: The process of gastrulation is highly conserved across vertebrates on both
the genetic and morphological levels, despite great variety in embryonic shape
and speed of development. This mechanism spatially separates the germ layers and
establishes the organizational foundation for future development. Mesodermal identity
is specified in a superficial layer of cells, the epiblast, where cells maintain
an epithelioid morphology. These cells involute to join the deeper hypoblast layer
where they adopt a migratory, mesenchymal morphology. Expression of a cascade
of related transcription factors orchestrates the parallel genetic transition
from primitive to mature mesoderm. Although the early and late stages of this
process are increasingly well understood, the transition between them has remained
largely mysterious. We present here the first high resolution in vivo observations
of the blebby transitional morphology of involuting mesodermal cells in a vertebrate
embryo. We further demonstrate that the zebrafish spadetail mutation creates a
reversible block in the maturation program, stalling cells in the transition state.
This mutation creates an ideal system for dissecting the specific properties of
cells undergoing the morphological transition of maturing mesoderm, as we demonstrate
with a direct measurement of cell–cell adhesion.
article_processing_charge: No
article_type: original
author:
- first_name: Richard
full_name: Row, Richard
last_name: Row
- first_name: Jean-Léon
full_name: Maître, Jean-Léon
id: 48F1E0D8-F248-11E8-B48F-1D18A9856A87
last_name: Maître
orcid: 0000-0002-3688-1474
- first_name: Benjamin
full_name: Martin, Benjamin
last_name: Martin
- first_name: Petra
full_name: Stockinger, Petra
id: 261CB030-E90D-11E9-B182-F697D44B663C
last_name: Stockinger
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
- first_name: David
full_name: Kimelman, David
last_name: Kimelman
citation:
ama: Row R, Maître J-L, Martin B, Stockinger P, Heisenberg C-PJ, Kimelman D. Completion
of the epithelial to mesenchymal transition in zebrafish mesoderm requires Spadetail.
Developmental Biology. 2011;354(1):102-110. doi:10.1016/j.ydbio.2011.03.025
apa: Row, R., Maître, J.-L., Martin, B., Stockinger, P., Heisenberg, C.-P. J., &
Kimelman, D. (2011). Completion of the epithelial to mesenchymal transition in
zebrafish mesoderm requires Spadetail. Developmental Biology. Elsevier.
https://doi.org/10.1016/j.ydbio.2011.03.025
chicago: Row, Richard, Jean-Léon Maître, Benjamin Martin, Petra Stockinger, Carl-Philipp
J Heisenberg, and David Kimelman. “Completion of the Epithelial to Mesenchymal
Transition in Zebrafish Mesoderm Requires Spadetail.” Developmental Biology.
Elsevier, 2011. https://doi.org/10.1016/j.ydbio.2011.03.025.
ieee: R. Row, J.-L. Maître, B. Martin, P. Stockinger, C.-P. J. Heisenberg, and D.
Kimelman, “Completion of the epithelial to mesenchymal transition in zebrafish
mesoderm requires Spadetail,” Developmental Biology, vol. 354, no. 1. Elsevier,
pp. 102–110, 2011.
ista: Row R, Maître J-L, Martin B, Stockinger P, Heisenberg C-PJ, Kimelman D. 2011.
Completion of the epithelial to mesenchymal transition in zebrafish mesoderm requires
Spadetail. Developmental Biology. 354(1), 102–110.
mla: Row, Richard, et al. “Completion of the Epithelial to Mesenchymal Transition
in Zebrafish Mesoderm Requires Spadetail.” Developmental Biology, vol.
354, no. 1, Elsevier, 2011, pp. 102–10, doi:10.1016/j.ydbio.2011.03.025.
short: R. Row, J.-L. Maître, B. Martin, P. Stockinger, C.-P.J. Heisenberg, D. Kimelman,
Developmental Biology 354 (2011) 102–110.
date_created: 2018-12-11T12:03:00Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2025-09-30T08:51:06Z
day: '01'
department:
- _id: CaHe
doi: 10.1016/j.ydbio.2011.03.025
external_id:
isi:
- '000290550500010'
pmid:
- '1463614'
intvolume: ' 354'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3090540/
month: '06'
oa: 1
oa_version: Submitted Version
page: 102 - 110
pmid: 1
publication: Developmental Biology
publication_status: published
publisher: Elsevier
publist_id: '3228'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Completion of the epithelial to mesenchymal transition in zebrafish mesoderm
requires Spadetail
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 354
year: '2011'
...
---
_id: '3380'
abstract:
- lang: eng
text: Linkage between markers and genes that affect a phenotype of interest may
be determined by examining differences in marker allele frequency in the extreme
progeny of a cross between two inbred lines. This strategy is usually employed
when pooling is used to reduce genotyping costs. When the cross progeny are asexual,
the extreme progeny may be selected by multiple generations of asexual reproduction
and selection. We analyse this method of measuring phenotype in asexual progeny
and examine the changes in marker allele frequency due to selection over many
generations. Stochasticity in marker frequency in the selected population arises
due to the finite initial population size. We derive the distribution of marker
frequency as a result of selection at a single major locus, and show that in order
to avoid spurious changes in marker allele frequency in the selected population,
the initial population size should be in the low to mid hundreds.
article_processing_charge: No
article_type: original
author:
- first_name: Sayanthan
full_name: Logeswaran, Sayanthan
last_name: Logeswaran
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Logeswaran S, Barton NH. Mapping Mendelian traits in asexual progeny using
changes in marker allele frequency. Genetical Research. 2011;93(3):221-232.
doi:10.1017/S0016672311000115
apa: Logeswaran, S., & Barton, N. H. (2011). Mapping Mendelian traits in asexual
progeny using changes in marker allele frequency. Genetical Research. Cambridge
University Press. https://doi.org/10.1017/S0016672311000115
chicago: Logeswaran, Sayanthan, and Nicholas H Barton. “Mapping Mendelian Traits
in Asexual Progeny Using Changes in Marker Allele Frequency.” Genetical Research.
Cambridge University Press, 2011. https://doi.org/10.1017/S0016672311000115.
ieee: S. Logeswaran and N. H. Barton, “Mapping Mendelian traits in asexual progeny
using changes in marker allele frequency,” Genetical Research, vol. 93,
no. 3. Cambridge University Press, pp. 221–232, 2011.
ista: Logeswaran S, Barton NH. 2011. Mapping Mendelian traits in asexual progeny
using changes in marker allele frequency. Genetical Research. 93(3), 221–232.
mla: Logeswaran, Sayanthan, and Nicholas H. Barton. “Mapping Mendelian Traits in
Asexual Progeny Using Changes in Marker Allele Frequency.” Genetical Research,
vol. 93, no. 3, Cambridge University Press, 2011, pp. 221–32, doi:10.1017/S0016672311000115.
short: S. Logeswaran, N.H. Barton, Genetical Research 93 (2011) 221–232.
date_created: 2018-12-11T12:03:00Z
date_published: 2011-05-18T00:00:00Z
date_updated: 2025-09-30T08:49:38Z
day: '18'
department:
- _id: NiBa
doi: 10.1017/S0016672311000115
external_id:
isi:
- '000291114300005'
intvolume: ' 93'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.pure.ed.ac.uk/ws/files/8144621/GR_2011_Barton.pdf
month: '05'
oa: 1
oa_version: Published Version
page: 221 - 232
publication: Genetical Research
publication_status: published
publisher: Cambridge University Press
publist_id: '3227'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mapping Mendelian traits in asexual progeny using changes in marker allele
frequency
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 93
year: '2011'
...
---
_id: '3381'
abstract:
- lang: eng
text: In this survey, we compare several languages for specifying Markovian population
models such as queuing networks and chemical reaction networks. All these languages
— matrix descriptions, stochastic Petri nets, stoichiometric equations, stochastic
process algebras, and guarded command models — describe continuous-time Markov
chains, but they differ according to important properties, such as compositionality,
expressiveness and succinctness, executability, and ease of use. Moreover, they
provide different support for checking the well-formedness of a model and for
analyzing a model.
article_processing_charge: No
author:
- 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: Barbara
full_name: Jobstmann, Barbara
last_name: Jobstmann
- first_name: Verena
full_name: Wolf, Verena
last_name: Wolf
citation:
ama: 'Henzinger TA, Jobstmann B, Wolf V. Formalisms for specifying Markovian population
models. IJFCS: International Journal of Foundations of Computer Science.
2011;22(4):823-841. doi:10.1142/S0129054111008441'
apa: 'Henzinger, T. A., Jobstmann, B., & Wolf, V. (2011). Formalisms for specifying
Markovian population models. IJFCS: International Journal of Foundations of
Computer Science. World Scientific Publishing. https://doi.org/10.1142/S0129054111008441'
chicago: 'Henzinger, Thomas A, Barbara Jobstmann, and Verena Wolf. “Formalisms for
Specifying Markovian Population Models.” IJFCS: International Journal of Foundations
of Computer Science. World Scientific Publishing, 2011. https://doi.org/10.1142/S0129054111008441.'
ieee: 'T. A. Henzinger, B. Jobstmann, and V. Wolf, “Formalisms for specifying Markovian
population models,” IJFCS: International Journal of Foundations of Computer
Science, vol. 22, no. 4. World Scientific Publishing, pp. 823–841, 2011.'
ista: 'Henzinger TA, Jobstmann B, Wolf V. 2011. Formalisms for specifying Markovian
population models. IJFCS: International Journal of Foundations of Computer Science.
22(4), 823–841.'
mla: 'Henzinger, Thomas A., et al. “Formalisms for Specifying Markovian Population
Models.” IJFCS: International Journal of Foundations of Computer Science,
vol. 22, no. 4, World Scientific Publishing, 2011, pp. 823–41, doi:10.1142/S0129054111008441.'
short: 'T.A. Henzinger, B. Jobstmann, V. Wolf, IJFCS: International Journal of Foundations
of Computer Science 22 (2011) 823–841.'
date_created: 2018-12-11T12:03:00Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2025-09-30T08:49:01Z
day: '01'
ddc:
- '000'
department:
- _id: ToHe
doi: 10.1142/S0129054111008441
external_id:
isi:
- '000291552600005'
file:
- access_level: open_access
checksum: df88431872586c773fbcfea37d7b36a2
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:45Z
date_updated: 2020-07-14T12:46:11Z
file_id: '4707'
file_name: IST-2016-628-v1+1_journals-ijfcs-HenzingerJW11.pdf
file_size: 222840
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 22'
isi: 1
issue: '4'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 823 - 841
publication: 'IJFCS: International Journal of Foundations of Computer Science'
publication_status: published
publisher: World Scientific Publishing
publist_id: '3226'
pubrep_id: '628'
quality_controlled: '1'
related_material:
record:
- id: '3841'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Formalisms for specifying Markovian population models
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 22
year: '2011'
...
---
_id: '3382'
abstract:
- lang: eng
text: Dynamic tactile sensing is a fundamental ability to recognize materials and
objects. However, while humans are born with partially developed dynamic tactile
sensing and quickly master this skill, today's robots remain in their infancy.
The development of such a sense requires not only better sensors but the right
algorithms to deal with these sensors' data as well. For example, when classifying
a material based on touch, the data are noisy, high-dimensional, and contain irrelevant
signals as well as essential ones. Few classification methods from machine learning
can deal with such problems. In this paper, we propose an efficient approach to
infer suitable lower dimensional representations of the tactile data. In order
to classify materials based on only the sense of touch, these representations
are autonomously discovered using visual information of the surfaces during training.
However, accurately pairing vision and tactile samples in real-robot applications
is a difficult problem. The proposed approach, therefore, works with weak pairings
between the modalities. Experiments show that the resulting approach is very robust
and yields significantly higher classification performance based on only dynamic
tactile sensing.
article_processing_charge: No
author:
- first_name: Oliver
full_name: Kroemer, Oliver
last_name: Kroemer
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Jan
full_name: Peters, Jan
last_name: Peters
citation:
ama: Kroemer O, Lampert C, Peters J. Learning dynamic tactile sensing with robust
vision based training. IEEE Transactions on Robotics. 2011;27(3):545-557.
doi:10.1109/TRO.2011.2121130
apa: Kroemer, O., Lampert, C., & Peters, J. (2011). Learning dynamic tactile
sensing with robust vision based training. IEEE Transactions on Robotics.
IEEE. https://doi.org/10.1109/TRO.2011.2121130
chicago: Kroemer, Oliver, Christoph Lampert, and Jan Peters. “Learning Dynamic Tactile
Sensing with Robust Vision Based Training.” IEEE Transactions on Robotics.
IEEE, 2011. https://doi.org/10.1109/TRO.2011.2121130.
ieee: O. Kroemer, C. Lampert, and J. Peters, “Learning dynamic tactile sensing with
robust vision based training,” IEEE Transactions on Robotics, vol. 27,
no. 3. IEEE, pp. 545–557, 2011.
ista: Kroemer O, Lampert C, Peters J. 2011. Learning dynamic tactile sensing with
robust vision based training. IEEE Transactions on Robotics. 27(3), 545–557.
mla: Kroemer, Oliver, et al. “Learning Dynamic Tactile Sensing with Robust Vision
Based Training.” IEEE Transactions on Robotics, vol. 27, no. 3, IEEE, 2011,
pp. 545–57, doi:10.1109/TRO.2011.2121130.
short: O. Kroemer, C. Lampert, J. Peters, IEEE Transactions on Robotics 27 (2011)
545–557.
date_created: 2018-12-11T12:03:01Z
date_published: 2011-05-21T00:00:00Z
date_updated: 2025-09-30T08:48:31Z
day: '21'
department:
- _id: ChLa
doi: 10.1109/TRO.2011.2121130
external_id:
isi:
- '000291404600015'
intvolume: ' 27'
isi: 1
issue: '3'
language:
- iso: eng
month: '05'
oa_version: None
page: 545 - 557
publication: IEEE Transactions on Robotics
publication_status: published
publisher: IEEE
publist_id: '3225'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Learning dynamic tactile sensing with robust vision based training
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 27
year: '2011'
...
---
_id: '3383'
author:
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Heisenberg C-PJ. Invited Lectures ‐ Symposia Area. FEBS Journal. 2011;278(S1):24-24.
doi:10.1111/j.1742-4658.2011.08136.x
apa: Heisenberg, C.-P. J. (2011). Invited Lectures ‐ Symposia Area. FEBS Journal.
Wiley-Blackwell. https://doi.org/10.1111/j.1742-4658.2011.08136.x
chicago: Heisenberg, Carl-Philipp J. “Invited Lectures ‐ Symposia Area.” FEBS
Journal. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1742-4658.2011.08136.x.
ieee: C.-P. J. Heisenberg, “Invited Lectures ‐ Symposia Area,” FEBS Journal,
vol. 278, no. S1. Wiley-Blackwell, pp. 24–24, 2011.
ista: Heisenberg C-PJ. 2011. Invited Lectures ‐ Symposia Area. FEBS Journal. 278(S1),
24–24.
mla: Heisenberg, Carl-Philipp J. “Invited Lectures ‐ Symposia Area.” FEBS Journal,
vol. 278, no. S1, Wiley-Blackwell, 2011, pp. 24–24, doi:10.1111/j.1742-4658.2011.08136.x.
short: C.-P.J. Heisenberg, FEBS Journal 278 (2011) 24–24.
date_created: 2018-12-11T12:03:01Z
date_published: 2011-07-01T00:00:00Z
date_updated: 2021-01-12T07:43:06Z
day: '01'
department:
- _id: CaHe
doi: 10.1111/j.1742-4658.2011.08136.x
intvolume: ' 278'
issue: S1
language:
- iso: eng
month: '07'
oa_version: None
page: 24 - 24
publication: FEBS Journal
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3224'
status: public
title: Invited Lectures ‐ Symposia Area
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 278
year: '2011'
...
---
_id: '3384'
abstract:
- lang: eng
text: Here we introduce a database of calibrated natural images publicly available
through an easy-to-use web interface. Using a Nikon D70 digital SLR camera, we
acquired about six-megapixel images of Okavango Delta of Botswana, a tropical
savanna habitat similar to where the human eye is thought to have evolved. Some
sequences of images were captured unsystematically while following a baboon troop,
while others were designed to vary a single parameter such as aperture, object
distance, time of day or position on the horizon. Images are available in the
raw RGB format and in grayscale. Images are also available in units relevant to
the physiology of human cone photoreceptors, where pixel values represent the
expected number of photoisomerizations per second for cones sensitive to long
(L), medium (M) and short (S) wavelengths. This database is distributed under
a Creative Commons Attribution-Noncommercial Unported license to facilitate research
in computer vision, psychophysics of perception, and visual neuroscience.
article_number: e20409
article_processing_charge: No
author:
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Patrick
full_name: Garrigan, Patrick
last_name: Garrigan
- first_name: Charles
full_name: Ratliff, Charles
last_name: Ratliff
- first_name: Grega
full_name: Milcinski, Grega
last_name: Milcinski
- first_name: Jennifer
full_name: Klein, Jennifer
last_name: Klein
- first_name: Lucia
full_name: Seyfarth, Lucia
last_name: Seyfarth
- first_name: Peter
full_name: Sterling, Peter
last_name: Sterling
- first_name: David
full_name: Brainard, David
last_name: Brainard
- first_name: Vijay
full_name: Balasubramanian, Vijay
last_name: Balasubramanian
citation:
ama: Tkačik G, Garrigan P, Ratliff C, et al. Natural images from the birthplace
of the human eye. PLoS One. 2011;6(6). doi:10.1371/journal.pone.0020409
apa: Tkačik, G., Garrigan, P., Ratliff, C., Milcinski, G., Klein, J., Seyfarth,
L., … Balasubramanian, V. (2011). Natural images from the birthplace of the human
eye. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0020409
chicago: Tkačik, Gašper, Patrick Garrigan, Charles Ratliff, Grega Milcinski, Jennifer
Klein, Lucia Seyfarth, Peter Sterling, David Brainard, and Vijay Balasubramanian.
“Natural Images from the Birthplace of the Human Eye.” PLoS One. Public
Library of Science, 2011. https://doi.org/10.1371/journal.pone.0020409.
ieee: G. Tkačik et al., “Natural images from the birthplace of the human
eye,” PLoS One, vol. 6, no. 6. Public Library of Science, 2011.
ista: Tkačik G, Garrigan P, Ratliff C, Milcinski G, Klein J, Seyfarth L, Sterling
P, Brainard D, Balasubramanian V. 2011. Natural images from the birthplace of
the human eye. PLoS One. 6(6), e20409.
mla: Tkačik, Gašper, et al. “Natural Images from the Birthplace of the Human Eye.”
PLoS One, vol. 6, no. 6, e20409, Public Library of Science, 2011, doi:10.1371/journal.pone.0020409.
short: G. Tkačik, P. Garrigan, C. Ratliff, G. Milcinski, J. Klein, L. Seyfarth,
P. Sterling, D. Brainard, V. Balasubramanian, PLoS One 6 (2011).
corr_author: '1'
date_created: 2018-12-11T12:03:01Z
date_published: 2011-06-16T00:00:00Z
date_updated: 2025-09-30T08:47:57Z
day: '16'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.1371/journal.pone.0020409
external_id:
isi:
- '000291734100007'
file:
- access_level: open_access
checksum: 307d4356916471306e3705ac65b82fa1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:25Z
date_updated: 2020-07-14T12:46:11Z
file_id: '4749'
file_name: IST-2015-379-v1+1_journal.pone.0020409.pdf
file_size: 1424768
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '3223'
pubrep_id: '379'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Natural images from the birthplace of the human eye
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 6
year: '2011'
...
---
_id: '3385'
article_processing_charge: No
article_type: review
author:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Sixt MK. Interstitial locomotion of leukocytes. Immunology Letters.
2011;138(1):32-34. doi:10.1016/j.imlet.2011.02.013
apa: Sixt, M. K. (2011). Interstitial locomotion of leukocytes. Immunology Letters.
Elsevier. https://doi.org/10.1016/j.imlet.2011.02.013
chicago: Sixt, Michael K. “Interstitial Locomotion of Leukocytes.” Immunology
Letters. Elsevier, 2011. https://doi.org/10.1016/j.imlet.2011.02.013.
ieee: M. K. Sixt, “Interstitial locomotion of leukocytes,” Immunology Letters,
vol. 138, no. 1. Elsevier, pp. 32–34, 2011.
ista: Sixt MK. 2011. Interstitial locomotion of leukocytes. Immunology Letters.
138(1), 32–34.
mla: Sixt, Michael K. “Interstitial Locomotion of Leukocytes.” Immunology Letters,
vol. 138, no. 1, Elsevier, 2011, pp. 32–34, doi:10.1016/j.imlet.2011.02.013.
short: M.K. Sixt, Immunology Letters 138 (2011) 32–34.
corr_author: '1'
date_created: 2018-12-11T12:03:02Z
date_published: 2011-07-01T00:00:00Z
date_updated: 2025-09-30T08:47:13Z
day: '01'
department:
- _id: MiSi
doi: 10.1016/j.imlet.2011.02.013
external_id:
isi:
- '000292714800011'
intvolume: ' 138'
isi: 1
issue: '1'
language:
- iso: eng
month: '07'
oa_version: None
page: 32 - 34
publication: Immunology Letters
publication_status: published
publisher: Elsevier
publist_id: '3222'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Interstitial locomotion of leukocytes
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 138
year: '2011'
...
---
_id: '3386'
abstract:
- lang: eng
text: 'Evolutionary theories of ageing predict that life span increases with decreasing
extrinsic mortality, and life span variation among queens in ant species seems
to corroborate this prediction: queens, which are the only reproductive in a colony,
live much longer than queens in multi-queen colonies. The latter often inhabit
ephemeral nest sites and accordingly are assumed to experience a higher mortality
risk. Yet, all prior studies compared queens from different single- and multi-queen
species. Here, we demonstrate an effect of queen number on longevity and fecundity
within a single, socially plastic species, where queens experience the similar
level of extrinsic mortality. Queens from single- and two-queen colonies had significantly
longer lifespan and higher fecundity than queens living in associations of eight
queens. As queens also differ neither in morphology nor the mode of colony foundation,
our study shows that the social environment itself strongly affects ageing rate.'
article_processing_charge: No
author:
- first_name: Alexandra
full_name: Schrempf, Alexandra
last_name: Schrempf
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
citation:
ama: Schrempf A, Cremer S, Heinze J. Social influence on age and reproduction reduced
lifespan and fecundity in multi queen ant colonies. Journal of Evolutionary
Biology. 2011;24(7):1455-1461. doi:10.1111/j.1420-9101.2011.02278.x
apa: Schrempf, A., Cremer, S., & Heinze, J. (2011). Social influence on age
and reproduction reduced lifespan and fecundity in multi queen ant colonies. Journal
of Evolutionary Biology. Wiley-Blackwell. https://doi.org/10.1111/j.1420-9101.2011.02278.x
chicago: Schrempf, Alexandra, Sylvia Cremer, and Jürgen Heinze. “Social Influence
on Age and Reproduction Reduced Lifespan and Fecundity in Multi Queen Ant Colonies.”
Journal of Evolutionary Biology. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1420-9101.2011.02278.x.
ieee: A. Schrempf, S. Cremer, and J. Heinze, “Social influence on age and reproduction
reduced lifespan and fecundity in multi queen ant colonies,” Journal of Evolutionary
Biology, vol. 24, no. 7. Wiley-Blackwell, pp. 1455–1461, 2011.
ista: Schrempf A, Cremer S, Heinze J. 2011. Social influence on age and reproduction
reduced lifespan and fecundity in multi queen ant colonies. Journal of Evolutionary
Biology. 24(7), 1455–1461.
mla: Schrempf, Alexandra, et al. “Social Influence on Age and Reproduction Reduced
Lifespan and Fecundity in Multi Queen Ant Colonies.” Journal of Evolutionary
Biology, vol. 24, no. 7, Wiley-Blackwell, 2011, pp. 1455–61, doi:10.1111/j.1420-9101.2011.02278.x.
short: A. Schrempf, S. Cremer, J. Heinze, Journal of Evolutionary Biology 24 (2011)
1455–1461.
corr_author: '1'
date_created: 2018-12-11T12:03:02Z
date_published: 2011-04-21T00:00:00Z
date_updated: 2025-09-30T08:46:43Z
day: '21'
department:
- _id: SyCr
doi: 10.1111/j.1420-9101.2011.02278.x
external_id:
isi:
- '000292698700007'
intvolume: ' 24'
isi: 1
issue: '7'
language:
- iso: eng
month: '04'
oa_version: None
page: 1455 - 1461
publication: Journal of Evolutionary Biology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3221'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Social influence on age and reproduction reduced lifespan and fecundity in
multi queen ant colonies
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 24
year: '2011'
...
---
_id: '3387'
abstract:
- lang: eng
text: 'Background: Supertree methods combine overlapping input trees into a larger
supertree. Here, I consider split-based supertree methods that first extract the
split information of the input trees and subsequently combine this split information
into a phylogeny. Well known split-based supertree methods are matrix representation
with parsimony and matrix representation with compatibility. Combining input trees
on the same taxon set, as in the consensus setting, is a well-studied task and
it is thus desirable to generalize consensus methods to supertree methods. Results:
Here, three variants of majority-rule (MR) supertrees that generalize majority-rule
consensus trees are investigated. I provide simple formulas for computing the
respective score for bifurcating input- and supertrees. These score computations,
together with a heuristic tree search minmizing the scores, were implemented in
the python program PluMiST (Plus- and Minus SuperTrees) available from http://www.cibiv.at/software/
plumist. The different MR methods were tested by simulation and on real data sets.
The search heuristic was successful in combining compatible input trees. When
combining incompatible input trees, especially one variant, MR(-) supertrees,
performed well. Conclusions: The presented framework allows for an efficient score
computation of three majority-rule supertree variants and input trees. I combined
the score computation with a heuristic search over the supertree space. The implementation
was tested by simulation and on real data sets and showed promising results. Especially
the MR(-) variant seems to be a reasonable score for supertree reconstruction.
Generalizing these computations to multifurcating trees is an open problem, which
may be tackled using this framework.'
article_number: '205'
article_processing_charge: No
author:
- first_name: Anne
full_name: Kupczok, Anne
id: 2BB22BC2-F248-11E8-B48F-1D18A9856A87
last_name: Kupczok
citation:
ama: Kupczok A. Split based computation of majority rule supertrees. BMC Evolutionary
Biology. 2011;11(205). doi:10.1186/1471-2148-11-205
apa: Kupczok, A. (2011). Split based computation of majority rule supertrees. BMC
Evolutionary Biology. BioMed Central. https://doi.org/10.1186/1471-2148-11-205
chicago: Kupczok, Anne. “Split Based Computation of Majority Rule Supertrees.” BMC
Evolutionary Biology. BioMed Central, 2011. https://doi.org/10.1186/1471-2148-11-205.
ieee: A. Kupczok, “Split based computation of majority rule supertrees,” BMC
Evolutionary Biology, vol. 11, no. 205. BioMed Central, 2011.
ista: Kupczok A. 2011. Split based computation of majority rule supertrees. BMC
Evolutionary Biology. 11(205), 205.
mla: Kupczok, Anne. “Split Based Computation of Majority Rule Supertrees.” BMC
Evolutionary Biology, vol. 11, no. 205, 205, BioMed Central, 2011, doi:10.1186/1471-2148-11-205.
short: A. Kupczok, BMC Evolutionary Biology 11 (2011).
corr_author: '1'
date_created: 2018-12-11T12:03:03Z
date_published: 2011-07-13T00:00:00Z
date_updated: 2025-09-30T08:45:48Z
day: '13'
ddc:
- '576'
department:
- _id: JoBo
doi: 10.1186/1471-2148-11-205
external_id:
isi:
- '000294663400001'
file:
- access_level: open_access
checksum: 68da8d04af1b97b4cbe8606e2f92ddd8
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:09Z
date_updated: 2020-07-14T12:46:11Z
file_id: '5058'
file_name: IST-2015-372-v1+1_1471-2148-11-205.pdf
file_size: 465042
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '205'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: BMC Evolutionary Biology
publication_status: published
publisher: BioMed Central
publist_id: '3219'
pubrep_id: '372'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Split based computation of majority rule supertrees
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 11
year: '2011'
...
---
_id: '3388'
abstract:
- lang: eng
text: 'Background: Fragmentation of terrestrial ecosystems has had detrimental effects
on metapopulations of habitat specialists. Maculinea butterflies have been particularly
affected because of their specialized lifecycles, requiring both specific food-plants
and host-ants. However, the interaction between dispersal, effective population
size, and long-term genetic erosion of these endangered butterflies remains unknown.
Using non-destructive sampling, we investigated the genetic diversity of the last
extant population of M. arion in Denmark, which experienced critically low numbers
in the 1980s. Results: Using nine microsatellite markers, we show that the population
is genetically impoverished compared to nearby populations in Sweden, but less
so than monitoring programs suggested. Ten additional short repeat microsatellites
were used to reconstruct changes in genetic diversity and population structure
over the last 77 years from museum specimens. We also tested amplification efficiency
in such historical samples as a function of repeat length and sample age. Low
population numbers in the 1980s did not affect genetic diversity, but considerable
turnover of alleles has characterized this population throughout the time-span
of our analysis. Conclusions: Our results suggest that M. arion is less sensitive
to genetic erosion via population bottlenecks than previously thought, and that
managing clusters of high quality habitat may be key for long-term conservation.'
article_number: '201'
article_processing_charge: No
author:
- first_name: Line V
full_name: Ugelvig, Line V
id: 3DC97C8E-F248-11E8-B48F-1D18A9856A87
last_name: Ugelvig
orcid: 0000-0003-1832-8883
- first_name: Per
full_name: Nielsen, Per
last_name: Nielsen
- first_name: Jacobus
full_name: Boomsma, Jacobus
last_name: Boomsma
- first_name: David
full_name: Nash, David
last_name: Nash
citation:
ama: Ugelvig LV, Nielsen P, Boomsma J, Nash D. Reconstructing eight decades of genetic
variation in an isolated Danish population of the large blue butterfly Maculinea
arion. BMC Evolutionary Biology. 2011;11(201). doi:10.1186/1471-2148-11-201
apa: Ugelvig, L. V., Nielsen, P., Boomsma, J., & Nash, D. (2011). Reconstructing
eight decades of genetic variation in an isolated Danish population of the large
blue butterfly Maculinea arion. BMC Evolutionary Biology. BioMed Central.
https://doi.org/10.1186/1471-2148-11-201
chicago: Ugelvig, Line V, Per Nielsen, Jacobus Boomsma, and David Nash. “Reconstructing
Eight Decades of Genetic Variation in an Isolated Danish Population of the Large
Blue Butterfly Maculinea Arion.” BMC Evolutionary Biology. BioMed Central,
2011. https://doi.org/10.1186/1471-2148-11-201.
ieee: L. V. Ugelvig, P. Nielsen, J. Boomsma, and D. Nash, “Reconstructing eight
decades of genetic variation in an isolated Danish population of the large blue
butterfly Maculinea arion,” BMC Evolutionary Biology, vol. 11, no. 201.
BioMed Central, 2011.
ista: Ugelvig LV, Nielsen P, Boomsma J, Nash D. 2011. Reconstructing eight decades
of genetic variation in an isolated Danish population of the large blue butterfly
Maculinea arion. BMC Evolutionary Biology. 11(201), 201.
mla: Ugelvig, Line V., et al. “Reconstructing Eight Decades of Genetic Variation
in an Isolated Danish Population of the Large Blue Butterfly Maculinea Arion.”
BMC Evolutionary Biology, vol. 11, no. 201, 201, BioMed Central, 2011,
doi:10.1186/1471-2148-11-201.
short: L.V. Ugelvig, P. Nielsen, J. Boomsma, D. Nash, BMC Evolutionary Biology 11
(2011).
corr_author: '1'
date_created: 2018-12-11T12:03:03Z
date_published: 2011-07-11T00:00:00Z
date_updated: 2025-09-30T08:46:17Z
day: '11'
ddc:
- '576'
department:
- _id: SyCr
doi: 10.1186/1471-2148-11-201
external_id:
isi:
- '000293275300002'
file:
- access_level: open_access
checksum: 9ebfed0740f1fa071d02ec32c2b8c17f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:18Z
date_updated: 2020-07-14T12:46:11Z
file_id: '5069'
file_name: IST-2015-371-v1+1_1471-2148-11-201.pdf
file_size: 2166556
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '201'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: BMC Evolutionary Biology
publication_status: published
publisher: BioMed Central
publist_id: '3220'
pubrep_id: '371'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Reconstructing eight decades of genetic variation in an isolated Danish population
of the large blue butterfly Maculinea arion
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 11
year: '2011'
...
---
_id: '3389'
abstract:
- lang: eng
text: Kernel canonical correlation analysis (KCCA) is a general technique for subspace
learning that incorporates principal components analysis (PCA) and Fisher linear
discriminant analysis (LDA) as special cases. By finding directions that maximize
correlation, KCCA learns representations that are more closely tied to the underlying
process that generates the data and can ignore high-variance noise directions.
However, for data where acquisition in one or more modalities is expensive or
otherwise limited, KCCA may suffer from small sample effects. We propose to use
semi-supervised Laplacian regularization to utilize data that are present in only
one modality. This approach is able to find highly correlated directions that
also lie along the data manifold, resulting in a more robust estimate of correlated
subspaces. Functional magnetic resonance imaging (fMRI) acquired data are naturally
amenable to subspace techniques as data are well aligned. fMRI data of the human
brain are a particularly interesting candidate. In this study we implemented various
supervised and semi-supervised versions of KCCA on human fMRI data, with regression
to single and multi-variate labels (corresponding to video content subjects viewed
during the image acquisition). In each variate condition, the semi-supervised
variants of KCCA performed better than the supervised variants, including a supervised
variant with Laplacian regularization. We additionally analyze the weights learned
by the regression in order to infer brain regions that are important to different
types of visual processing.
acknowledgement: The research leading to these results has received funding from the
European Research Council under the European Community’s Seventh Framework Programme
(FP7/2007-2013)/ERC Grant Agreement No. 228180. This work was funded in part by
the EC project CLASS, IST 027978, and the PASCAL2 network of excellence, IST 2002-506778.
article_processing_charge: No
author:
- first_name: Matthew
full_name: Blaschko, Matthew
last_name: Blaschko
- first_name: Jacquelyn
full_name: Shelton, Jacquelyn
last_name: Shelton
- first_name: Andreas
full_name: Bartels, Andreas
last_name: Bartels
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Arthur
full_name: Gretton, Arthur
last_name: Gretton
citation:
ama: Blaschko M, Shelton J, Bartels A, Lampert C, Gretton A. Semi supervised kernel
canonical correlation analysis with application to human fMRI. Pattern Recognition
Letters. 2011;32(11):1572-1583. doi:10.1016/j.patrec.2011.02.011
apa: Blaschko, M., Shelton, J., Bartels, A., Lampert, C., & Gretton, A. (2011).
Semi supervised kernel canonical correlation analysis with application to human
fMRI. Pattern Recognition Letters. Elsevier. https://doi.org/10.1016/j.patrec.2011.02.011
chicago: Blaschko, Matthew, Jacquelyn Shelton, Andreas Bartels, Christoph Lampert,
and Arthur Gretton. “Semi Supervised Kernel Canonical Correlation Analysis with
Application to Human FMRI.” Pattern Recognition Letters. Elsevier, 2011.
https://doi.org/10.1016/j.patrec.2011.02.011.
ieee: M. Blaschko, J. Shelton, A. Bartels, C. Lampert, and A. Gretton, “Semi supervised
kernel canonical correlation analysis with application to human fMRI,” Pattern
Recognition Letters, vol. 32, no. 11. Elsevier, pp. 1572–1583, 2011.
ista: Blaschko M, Shelton J, Bartels A, Lampert C, Gretton A. 2011. Semi supervised
kernel canonical correlation analysis with application to human fMRI. Pattern
Recognition Letters. 32(11), 1572–1583.
mla: Blaschko, Matthew, et al. “Semi Supervised Kernel Canonical Correlation Analysis
with Application to Human FMRI.” Pattern Recognition Letters, vol. 32,
no. 11, Elsevier, 2011, pp. 1572–83, doi:10.1016/j.patrec.2011.02.011.
short: M. Blaschko, J. Shelton, A. Bartels, C. Lampert, A. Gretton, Pattern Recognition
Letters 32 (2011) 1572–1583.
date_created: 2018-12-11T12:03:03Z
date_published: 2011-08-01T00:00:00Z
date_updated: 2025-09-30T08:45:21Z
day: '01'
department:
- _id: ChLa
doi: 10.1016/j.patrec.2011.02.011
external_id:
isi:
- '000293050700010'
intvolume: ' 32'
isi: 1
issue: '11'
language:
- iso: eng
month: '08'
oa_version: None
page: 1572 - 1583
publication: Pattern Recognition Letters
publication_status: published
publisher: Elsevier
publist_id: '3218'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Semi supervised kernel canonical correlation analysis with application to human
fMRI
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 32
year: '2011'
...
---
_id: '3390'
abstract:
- lang: eng
text: 'What determines the genetic contribution that an individual makes to future
generations? With biparental reproduction, each individual leaves a ''pedigree''
of descendants, determined by the biparental relationships in the population.
The pedigree of an individual constrains the lines of descent of each of its genes.
An individual''s reproductive value is the expected number of copies of each of
its genes that is passed on to distant generations conditional on its pedigree.
For the simplest model of biparental reproduction analogous to the Wright-Fisher
model, an individual''s reproductive value is determined within ~10 generations,
independent of population size. Partial selfing and subdivision do not greatly
slow this convergence. Our central result is that the probability that a gene
will survive is proportional to the reproductive value of the individual that
carries it, and that conditional on survival, after a few tens of generations,
the distribution of the number of surviving copies is the same for all individuals,
whatever their reproductive value. These results can be generalized to the joint
distribution of surviving blocks of ancestral genome. Selection on unlinked loci
in the genetic background may greatly increase the variance in reproductive value,
but the above results nevertheless still hold. The almost linear relationship
between survival probability and reproductive value also holds for weakly favored
alleles. Thus, the influence of the complex pedigree of descendants on an individual''s
genetic contribution to the population can be summarized through a single number:
its reproductive value.'
article_processing_charge: No
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Alison
full_name: Etheridge, Alison
last_name: Etheridge
citation:
ama: Barton NH, Etheridge A. The relation between reproductive value and genetic
contribution. Genetics. 2011;188(4):953-973. doi:10.1534/genetics.111.127555
apa: Barton, N. H., & Etheridge, A. (2011). The relation between reproductive
value and genetic contribution. Genetics. Genetics Society of America.
https://doi.org/10.1534/genetics.111.127555
chicago: Barton, Nicholas H, and Alison Etheridge. “The Relation between Reproductive
Value and Genetic Contribution.” Genetics. Genetics Society of America,
2011. https://doi.org/10.1534/genetics.111.127555.
ieee: N. H. Barton and A. Etheridge, “The relation between reproductive value and
genetic contribution,” Genetics, vol. 188, no. 4. Genetics Society of America,
pp. 953–973, 2011.
ista: Barton NH, Etheridge A. 2011. The relation between reproductive value and
genetic contribution. Genetics. 188(4), 953–973.
mla: Barton, Nicholas H., and Alison Etheridge. “The Relation between Reproductive
Value and Genetic Contribution.” Genetics, vol. 188, no. 4, Genetics Society
of America, 2011, pp. 953–73, doi:10.1534/genetics.111.127555.
short: N.H. Barton, A. Etheridge, Genetics 188 (2011) 953–973.
corr_author: '1'
date_created: 2018-12-11T12:03:04Z
date_published: 2011-08-01T00:00:00Z
date_updated: 2025-09-30T08:44:55Z
day: '01'
department:
- _id: NiBa
doi: 10.1534/genetics.111.127555
ec_funded: 1
external_id:
isi:
- '000293700000018'
intvolume: ' 188'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176105/
month: '08'
oa: 1
oa_version: Submitted Version
page: 953 - 973
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '3217'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The relation between reproductive value and genetic contribution
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 188
year: '2011'
...
---
_id: '3391'
abstract:
- lang: eng
text: 'Evolutionary biology shares many concepts with statistical physics: both
deal with populations, whether of molecules or organisms, and both seek to simplify
evolution in very many dimensions. Often, methodologies have undergone parallel
and independent development, as with stochastic methods in population genetics.
Here, we discuss aspects of population genetics that have embraced methods from
physics: non-equilibrium statistical mechanics, travelling waves and Monte-Carlo
methods, among others, have been used to study polygenic evolution, rates of adaptation
and range expansions. These applications indicate that evolutionary biology can
further benefit from interactions with other areas of statistical physics; for
example, by following the distribution of paths taken by a population through
time'
article_processing_charge: No
arxiv: 1
author:
- 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: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: de Vladar H, Barton NH. The contribution of statistical physics to evolutionary
biology. Trends in Ecology and Evolution. 2011;26(8):424-432. doi:10.1016/j.tree.2011.04.002
apa: de Vladar, H., & Barton, N. H. (2011). The contribution of statistical
physics to evolutionary biology. Trends in Ecology and Evolution. Cell
Press. https://doi.org/10.1016/j.tree.2011.04.002
chicago: Vladar, Harold de, and Nicholas H Barton. “The Contribution of Statistical
Physics to Evolutionary Biology.” Trends in Ecology and Evolution. Cell
Press, 2011. https://doi.org/10.1016/j.tree.2011.04.002.
ieee: H. de Vladar and N. H. Barton, “The contribution of statistical physics to
evolutionary biology,” Trends in Ecology and Evolution, vol. 26, no. 8.
Cell Press, pp. 424–432, 2011.
ista: de Vladar H, Barton NH. 2011. The contribution of statistical physics to evolutionary
biology. Trends in Ecology and Evolution. 26(8), 424–432.
mla: de Vladar, Harold, and Nicholas H. Barton. “The Contribution of Statistical
Physics to Evolutionary Biology.” Trends in Ecology and Evolution, vol.
26, no. 8, Cell Press, 2011, pp. 424–32, doi:10.1016/j.tree.2011.04.002.
short: H. de Vladar, N.H. Barton, Trends in Ecology and Evolution 26 (2011) 424–432.
corr_author: '1'
date_created: 2018-12-11T12:03:04Z
date_published: 2011-08-01T00:00:00Z
date_updated: 2025-09-30T08:44:25Z
day: '01'
department:
- _id: NiBa
doi: 10.1016/j.tree.2011.04.002
ec_funded: 1
external_id:
arxiv:
- '1104.2854'
isi:
- '000293940800010'
intvolume: ' 26'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1104.2854
month: '08'
oa: 1
oa_version: Submitted Version
page: 424 - 432
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Trends in Ecology and Evolution
publication_status: published
publisher: Cell Press
publist_id: '3216'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The contribution of statistical physics to evolutionary biology
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 26
year: '2011'
...
---
_id: '3392'
abstract:
- lang: eng
text: Migrating lymphocytes acquire a polarized phenotype with a leading and a trailing
edge, or uropod. Although in vitro experiments in cell lines or activated primary
cell cultures have established that Rho-p160 coiled-coil kinase (ROCK)-myosin
II-mediated uropod contractility is required for integrin de-adhesion on two-dimensional
surfaces and nuclear propulsion through narrow pores in three-dimensional matrices,
less is known about the role of these two events during the recirculation of primary,
nonactivated lymphocytes. Using pharmacological antagonists of ROCK and myosin
II, we report that inhibition of uropod contractility blocked integrin-independent
mouse T cell migration through narrow, but not large, pores in vitro. T cell crawling
on chemokine-coated endothelial cells under shear was severely impaired by ROCK
inhibition, whereas transendothelial migration was only reduced through endothelial
cells with high, but not low, barrier properties. Using three-dimensional thick-tissue
imaging and dynamic two-photon microscopy of T cell motility in lymphoid tissue,
we demonstrated a significant role for uropod contractility in intraluminal crawling
and transendothelial migration through lymph node, but not bone marrow, endothelial
cells. Finally, we demonstrated that ICAM-1, but not anatomical constraints or
integrin-independent interactions, reduced parenchymal motility of inhibitor-treated
T cells within the dense lymphoid microenvironment, thus assigning context-dependent
roles for uropod contraction during lymphocyte recirculation.
article_processing_charge: No
article_type: original
author:
- first_name: Silvia
full_name: Soriano, Silvia
last_name: Soriano
- first_name: Miroslav
full_name: Hons, Miroslav
last_name: Hons
orcid: 0000-0002-6625-3348
- first_name: Kathrin
full_name: Schumann, Kathrin
last_name: Schumann
- first_name: Varsha
full_name: Kumar, Varsha
last_name: Kumar
- first_name: Timo
full_name: Dennier, Timo
last_name: Dennier
- first_name: Ruth
full_name: Lyck, Ruth
last_name: Lyck
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Jens
full_name: Stein, Jens
last_name: Stein
citation:
ama: Soriano S, Hons M, Schumann K, et al. In vivo analysis of uropod function during
physiological T cell trafficking. Journal of Immunology. 2011;187(5):2356-2364.
doi:10.4049/jimmunol.1100935
apa: Soriano, S., Hons, M., Schumann, K., Kumar, V., Dennier, T., Lyck, R., … Stein,
J. (2011). In vivo analysis of uropod function during physiological T cell trafficking.
Journal of Immunology. American Association of Immunologists. https://doi.org/10.4049/jimmunol.1100935
chicago: Soriano, Silvia, Miroslav Hons, Kathrin Schumann, Varsha Kumar, Timo Dennier,
Ruth Lyck, Michael K Sixt, and Jens Stein. “In Vivo Analysis of Uropod Function
during Physiological T Cell Trafficking.” Journal of Immunology. American
Association of Immunologists, 2011. https://doi.org/10.4049/jimmunol.1100935.
ieee: S. Soriano et al., “In vivo analysis of uropod function during physiological
T cell trafficking,” Journal of Immunology, vol. 187, no. 5. American Association
of Immunologists, pp. 2356–2364, 2011.
ista: Soriano S, Hons M, Schumann K, Kumar V, Dennier T, Lyck R, Sixt MK, Stein
J. 2011. In vivo analysis of uropod function during physiological T cell trafficking.
Journal of Immunology. 187(5), 2356–2364.
mla: Soriano, Silvia, et al. “In Vivo Analysis of Uropod Function during Physiological
T Cell Trafficking.” Journal of Immunology, vol. 187, no. 5, American Association
of Immunologists, 2011, pp. 2356–64, doi:10.4049/jimmunol.1100935.
short: S. Soriano, M. Hons, K. Schumann, V. Kumar, T. Dennier, R. Lyck, M.K. Sixt,
J. Stein, Journal of Immunology 187 (2011) 2356–2364.
date_created: 2018-12-11T12:03:04Z
date_published: 2011-09-01T00:00:00Z
date_updated: 2025-09-30T08:43:55Z
day: '01'
department:
- _id: MiSi
doi: 10.4049/jimmunol.1100935
external_id:
isi:
- '000294059500040'
intvolume: ' 187'
isi: 1
issue: '5'
language:
- iso: eng
month: '09'
oa_version: None
page: 2356 - 2364
publication: Journal of Immunology
publication_identifier:
eissn:
- 1550-6606
issn:
- 0022-1767
publication_status: published
publisher: American Association of Immunologists
publist_id: '3215'
quality_controlled: '1'
scopus_import: '1'
status: public
title: In vivo analysis of uropod function during physiological T cell trafficking
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 187
year: '2011'
...
---
_id: '3393'
abstract:
- lang: eng
text: 'Unlike unconditionally advantageous “Fisherian” variants that tend to spread
throughout a species range once introduced anywhere, “bistable” variants, such
as chromosome translocations, have two alternative stable frequencies, absence
and (near) fixation. Analogous to populations with Allee effects, bistable variants
tend to increase locally only once they become sufficiently common, and their
spread depends on their rate of increase averaged over all frequencies. Several
proposed manipulations of insect populations, such as using Wolbachia or “engineered
underdominance” to suppress vector-borne diseases, produce bistable rather than
Fisherian dynamics. We synthesize and extend theoretical analyses concerning three
features of their spatial behavior: rate of spread, conditions to initiate spread
from a localized introduction, and wave stopping caused by variation in population
densities or dispersal rates. Unlike Fisherian variants, bistable variants tend
to spread spatially only for particular parameter combinations and initial conditions.
Wave initiation requires introduction over an extended region, while subsequent
spatial spread is slower than for Fisherian waves and can easily be halted by
local spatial inhomogeneities. We present several new results, including robust
sufficient conditions to initiate (and stop) spread, using a one-parameter cubic
approximation applicable to several models. The results have both basic and applied
implications.'
article_processing_charge: No
article_type: original
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Michael
full_name: Turelli, Michael
last_name: Turelli
citation:
ama: 'Barton NH, Turelli M. Spatial waves of advance with bistable dynamics: Cytoplasmic
and genetic analogues of Allee effects. American Naturalist. 2011;178(3):E48-E75.
doi:10.1086/661246'
apa: 'Barton, N. H., & Turelli, M. (2011). Spatial waves of advance with bistable
dynamics: Cytoplasmic and genetic analogues of Allee effects. American Naturalist.
The University of Chicago Press. https://doi.org/10.1086/661246'
chicago: 'Barton, Nicholas H, and Michael Turelli. “Spatial Waves of Advance with
Bistable Dynamics: Cytoplasmic and Genetic Analogues of Allee Effects.” American
Naturalist. The University of Chicago Press, 2011. https://doi.org/10.1086/661246.'
ieee: 'N. H. Barton and M. Turelli, “Spatial waves of advance with bistable dynamics:
Cytoplasmic and genetic analogues of Allee effects,” American Naturalist,
vol. 178, no. 3. The University of Chicago Press, pp. E48–E75, 2011.'
ista: 'Barton NH, Turelli M. 2011. Spatial waves of advance with bistable dynamics:
Cytoplasmic and genetic analogues of Allee effects. American Naturalist. 178(3),
E48–E75.'
mla: 'Barton, Nicholas H., and Michael Turelli. “Spatial Waves of Advance with Bistable
Dynamics: Cytoplasmic and Genetic Analogues of Allee Effects.” American Naturalist,
vol. 178, no. 3, The University of Chicago Press, 2011, pp. E48–75, doi:10.1086/661246.'
short: N.H. Barton, M. Turelli, American Naturalist 178 (2011) E48–E75.
date_created: 2018-12-11T12:03:05Z
date_published: 2011-09-01T00:00:00Z
date_updated: 2025-09-30T08:43:28Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1086/661246
external_id:
isi:
- '000294256800001'
file:
- access_level: open_access
checksum: 7fd22a2ef3321a6fca6a439b3be5d8f4
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:31Z
date_updated: 2020-07-14T12:46:11Z
file_id: '4692'
file_name: IST-2016-554-v1+1_BartonTurelli2011_copy.pdf
file_size: 629130
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 178'
isi: 1
issue: '3'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: E48 - E75
publication: American Naturalist
publication_identifier:
eissn:
- 1537-5323
issn:
- 0003-0147
publication_status: published
publisher: The University of Chicago Press
publist_id: '3214'
pubrep_id: '554'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Spatial waves of advance with bistable dynamics: Cytoplasmic and genetic analogues
of Allee effects'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 178
year: '2011'
...
---
_id: '3394'
abstract:
- lang: eng
text: 'Random genetic drift shifts clines in space, alters their width, and distorts
their shape. Such random fluctuations complicate inferences from cline width and
position. Notably, the effect of genetic drift on the expected shape of the cline
is opposite to the naive (but quite common) misinterpretation of classic results
on the expected cline. While random drift on average broadens the overall cline
in expected allele frequency, it narrows the width of any particular cline. The
opposing effects arise because locally, drift drives alleles to fixation—but fluctuations
in position widen the expected cline. The effect of genetic drift can be predicted
from standardized variance in allele frequencies, averaged across the habitat:
〈F〉. A cline maintained by spatially varying selection (step change) is expected
to be narrower by a factor of relative to the cline in the absence of drift.
The expected cline is broader by the inverse of this factor. In a tension zone
maintained by underdominance, the expected cline width is narrower by about 1
– 〈F〉relative to the width in the absence of drift. Individual clines can differ
substantially from the expectation, and we give quantitative predictions for the
variance in cline position and width. The predictions apply to clines in almost
one-dimensional circumstances such as hybrid zones in rivers, deep valleys, or
along a coast line and give a guide to what patterns to expect in two dimensions.'
article_processing_charge: No
author:
- first_name: Jitka
full_name: Polechova, Jitka
id: 3BBFB084-F248-11E8-B48F-1D18A9856A87
last_name: Polechova
orcid: 0000-0003-0951-3112
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Polechova J, Barton NH. Genetic drift widens the expected cline but narrows
the expected cline width. Genetics. 2011;189(1):227-235. doi:10.1534/genetics.111.129817
apa: Polechova, J., & Barton, N. H. (2011). Genetic drift widens the expected
cline but narrows the expected cline width. Genetics. Genetics Society
of America. https://doi.org/10.1534/genetics.111.129817
chicago: Polechova, Jitka, and Nicholas H Barton. “Genetic Drift Widens the Expected
Cline but Narrows the Expected Cline Width.” Genetics. Genetics Society
of America, 2011. https://doi.org/10.1534/genetics.111.129817.
ieee: J. Polechova and N. H. Barton, “Genetic drift widens the expected cline but
narrows the expected cline width,” Genetics, vol. 189, no. 1. Genetics
Society of America, pp. 227–235, 2011.
ista: Polechova J, Barton NH. 2011. Genetic drift widens the expected cline but
narrows the expected cline width. Genetics. 189(1), 227–235.
mla: Polechova, Jitka, and Nicholas H. Barton. “Genetic Drift Widens the Expected
Cline but Narrows the Expected Cline Width.” Genetics, vol. 189, no. 1,
Genetics Society of America, 2011, pp. 227–35, doi:10.1534/genetics.111.129817.
short: J. Polechova, N.H. Barton, Genetics 189 (2011) 227–235.
corr_author: '1'
date_created: 2018-12-11T12:03:05Z
date_published: 2011-09-01T00:00:00Z
date_updated: 2025-09-30T08:42:59Z
day: '01'
department:
- _id: NiBa
doi: 10.1534/genetics.111.129817
ec_funded: 1
external_id:
isi:
- '000294721600018'
intvolume: ' 189'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176109/
month: '09'
oa: 1
oa_version: Submitted Version
page: 227 - 235
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '3213'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Genetic drift widens the expected cline but narrows the expected cline width
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 189
year: '2011'
...
---
_id: '3395'
abstract:
- lang: eng
text: Defining population structure and genetic diversity levels is of the utmost
importance for developing efficient conservation strategies. Overfishing has caused
mean annual catches of the European spiny lobster (Palinurus elephas) to decrease
alarmingly along its distribution area. In this context, there is a need for comprehensive
studies aiming to evaluate the genetic health of the exploited populations. The
present study is based on a set of ten nuclear markers amplified in 331 individuals
from ten different localities covering most of P. elephas distribution area. Samples
from Atlantic and Mediterranean basins showed small but significant differences,
indicating that P. elephas populations do not behave as a single panmictic unit
but form two partially-overlapping groups. Despite intense overfishing, our dataset
did not recover a recent bottleneck signal, and instead showed a large and stable
historical effective size. This result could be accounted for by specific life-history
traits (reproduction and longevity) and the limitations of molecular markers in
covering recent timescales for nontemporal samples. The findings of the present
study emphasize the need to integrate information on effective population sizes
and life-history parameters when evaluating population connectivity levels from
genetic data.
acknowledgement: This work was supported by a pre-doctoral fellowship awarded by the
Autonomous Government of Catalonia to F.P. (2006FIC-00082). Research was funded
by projects FBBVA-BIOCON 08-187/09, CGL2006-13423, and CTM2007-66635. The authors
are part of the research group 2009SGR-636, 2009SGR-655, and 2009SGR-1364 of the
Generalitat de Catalunya. F.P. acknowledges EU-Synthesys grant (GB-TAF-4474).
article_processing_charge: No
author:
- first_name: Ferran
full_name: Palero, Ferran
id: 3F0E2A22-F248-11E8-B48F-1D18A9856A87
last_name: Palero
orcid: 0000-0002-0343-8329
- first_name: Pere
full_name: Abello, Pere
last_name: Abello
- first_name: Enrique
full_name: Macpherson, Enrique
last_name: Macpherson
- first_name: Mark
full_name: Beaumont, Mark
last_name: Beaumont
- first_name: Marta
full_name: Pascual, Marta
last_name: Pascual
citation:
ama: Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. Effect of oceanographic
barriers and overfishing on the population genetic structure of the European spiny
lobster Palinurus elephas. Biological Journal of the Linnean Society. 2011;104(2):407-418.
doi:10.1111/j.1095-8312.2011.01728.x
apa: Palero, F., Abello, P., Macpherson, E., Beaumont, M., & Pascual, M. (2011).
Effect of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster Palinurus elephas. Biological Journal of the
Linnean Society. Wiley-Blackwell. https://doi.org/10.1111/j.1095-8312.2011.01728.x
chicago: Palero, Ferran, Pere Abello, Enrique Macpherson, Mark Beaumont, and Marta
Pascual. “Effect of Oceanographic Barriers and Overfishing on the Population Genetic
Structure of the European Spiny Lobster Palinurus Elephas.” Biological Journal
of the Linnean Society. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1095-8312.2011.01728.x.
ieee: F. Palero, P. Abello, E. Macpherson, M. Beaumont, and M. Pascual, “Effect
of oceanographic barriers and overfishing on the population genetic structure
of the European spiny lobster Palinurus elephas,” Biological Journal of the
Linnean Society, vol. 104, no. 2. Wiley-Blackwell, pp. 407–418, 2011.
ista: Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. 2011. Effect of oceanographic
barriers and overfishing on the population genetic structure of the European spiny
lobster Palinurus elephas. Biological Journal of the Linnean Society. 104(2),
407–418.
mla: Palero, Ferran, et al. “Effect of Oceanographic Barriers and Overfishing on
the Population Genetic Structure of the European Spiny Lobster Palinurus Elephas.”
Biological Journal of the Linnean Society, vol. 104, no. 2, Wiley-Blackwell,
2011, pp. 407–18, doi:10.1111/j.1095-8312.2011.01728.x.
short: F. Palero, P. Abello, E. Macpherson, M. Beaumont, M. Pascual, Biological
Journal of the Linnean Society 104 (2011) 407–418.
corr_author: '1'
date_created: 2018-12-11T12:03:06Z
date_published: 2011-09-14T00:00:00Z
date_updated: 2025-09-30T08:42:31Z
day: '14'
department:
- _id: NiBa
doi: 10.1111/j.1095-8312.2011.01728.x
external_id:
isi:
- '000294902700013'
intvolume: ' 104'
isi: 1
issue: '2'
language:
- iso: eng
month: '09'
oa_version: None
page: 407 - 418
publication: Biological Journal of the Linnean Society
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3212'
quality_controlled: '1'
related_material:
record:
- id: '9762'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Effect of oceanographic barriers and overfishing on the population genetic
structure of the European spiny lobster Palinurus elephas
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 104
year: '2011'
...