---
_id: '2512'
abstract:
- lang: eng
text: GABAergic inhibition plays a central role in the control of pyramidal cell
ensemble activities; thus, any signaling mechanism that regulates inhibition is
able to fine-tune network patterns. Here, we provide evidence that the retrograde
nitric oxide (NO)- cGMP cascade triggered by NMDA receptor (NMDAR) activation
plays a role in the control of hippocampal GABAergic transmission in mice. GABAergic
synapses express neuronal nitric oxide synthase (nNOS) postsynaptically and NO
receptors (NO-sensitive guanylyl cyclase) in the presynaptic terminals. We hypothesized
that-similar to glutamatergic synapses-the Ca 2+ transients required to activate
nNOS were provided by NMDA receptor activation. Indeed, administration of 5 μm
NMDA induced a robust nNOS-dependent cGMP production in GABAergic terminals, selectively
in the CA1 and CA3c areas. Furthermore, using preembedding, postembedding, and
SDS-digested freeze-fracture replica immunogold labeling, we provided quantitative
immunocytochemical evidence that NMDAR subunits GluN1, GluN2A, and GluN2B were
present in most somatic GABAergic synapses postsynaptically. These data indicate
that NMDARs can modulate hippocampal GABAergic inhibition via NO- cGMP signaling
in an activity-dependent manner and that this effect is subregion specific in
the mouse hippocampus.
author:
- first_name: Eszter
full_name: Szabadits, Eszter
last_name: Szabadits
- first_name: Csaba
full_name: Cserép, Csaba
last_name: Cserép
- first_name: András
full_name: Szonyi, András
last_name: Szonyi
- first_name: Yugo
full_name: Fukazawa, Yugo
last_name: Fukazawa
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Shigeyoshi
full_name: Itohara, Shigeyoshi
last_name: Itohara
- first_name: Tamás
full_name: Freund, Tamás F
last_name: Freund
- first_name: Gábor
full_name: Nyíri, Gábor
last_name: Nyíri
citation:
ama: Szabadits E, Cserép C, Szonyi A, et al. NMDA receptors in hippocampal GABAergic
synapses and their role in nitric oxide signaling. Journal of Neuroscience.
2011;31(16):5893-5904. doi:10.1523/JNEUROSCI.5938-10.2011
apa: Szabadits, E., Cserép, C., Szonyi, A., Fukazawa, Y., Shigemoto, R., Watanabe,
M., … Nyíri, G. (2011). NMDA receptors in hippocampal GABAergic synapses and their
role in nitric oxide signaling. Journal of Neuroscience. Society for Neuroscience.
https://doi.org/10.1523/JNEUROSCI.5938-10.2011
chicago: Szabadits, Eszter, Csaba Cserép, András Szonyi, Yugo Fukazawa, Ryuichi
Shigemoto, Masahiko Watanabe, Shigeyoshi Itohara, Tamás Freund, and Gábor Nyíri.
“NMDA Receptors in Hippocampal GABAergic Synapses and Their Role in Nitric Oxide
Signaling.” Journal of Neuroscience. Society for Neuroscience, 2011. https://doi.org/10.1523/JNEUROSCI.5938-10.2011.
ieee: E. Szabadits et al., “NMDA receptors in hippocampal GABAergic synapses
and their role in nitric oxide signaling,” Journal of Neuroscience, vol.
31, no. 16. Society for Neuroscience, pp. 5893–5904, 2011.
ista: Szabadits E, Cserép C, Szonyi A, Fukazawa Y, Shigemoto R, Watanabe M, Itohara
S, Freund T, Nyíri G. 2011. NMDA receptors in hippocampal GABAergic synapses and
their role in nitric oxide signaling. Journal of Neuroscience. 31(16), 5893–5904.
mla: Szabadits, Eszter, et al. “NMDA Receptors in Hippocampal GABAergic Synapses
and Their Role in Nitric Oxide Signaling.” Journal of Neuroscience, vol.
31, no. 16, Society for Neuroscience, 2011, pp. 5893–904, doi:10.1523/JNEUROSCI.5938-10.2011.
short: E. Szabadits, C. Cserép, A. Szonyi, Y. Fukazawa, R. Shigemoto, M. Watanabe,
S. Itohara, T. Freund, G. Nyíri, Journal of Neuroscience 31 (2011) 5893–5904.
date_created: 2018-12-11T11:58:06Z
date_published: 2011-04-20T00:00:00Z
date_updated: 2021-01-12T06:57:56Z
day: '20'
doi: 10.1523/JNEUROSCI.5938-10.2011
extern: 1
intvolume: ' 31'
issue: '16'
month: '04'
page: 5893 - 5904
publication: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '4389'
quality_controlled: 0
status: public
title: NMDA receptors in hippocampal GABAergic synapses and their role in nitric oxide
signaling
type: journal_article
volume: 31
year: '2011'
...
---
_id: '2513'
abstract:
- lang: eng
text: 'SK2-containing channels are expressed in the postsynaptic density (PSD) of
dendritic spines on mouse hippocampal area CA1 pyramidal neurons and influence
synaptic responses, plasticity and learning. The Sk2 gene (also known as Kcnn2)
encodes two isoforms that differ only in the length of their N-terminal domains.
SK2-long (SK2-L) and SK2-short (SK2-S) are coexpressed in CA1 pyramidal neurons
and likely form heteromeric channels. In mice lacking SK2-L (SK2-S only mice),
SK2-S-containing channels were expressed in the extrasynaptic membrane, but were
excluded from the PSD. The SK channel contribution to excitatory postsynaptic
potentials was absent in SK2-S only mice and was restored by SK2-L re-expression.
Blocking SK channels increased the amount of long-term potentiation induced in
area CA1 in slices from wild-type mice but had no effect in slices from SK2-S
only mice. Furthermore, SK2-S only mice outperformed wild-type mice in the novel
object recognition task. These results indicate that SK2-L directs synaptic SK2-containing
channel expression and is important for normal synaptic signaling, plasticity
and learning. '
author:
- first_name: Duane
full_name: Allen, Duane H
last_name: Allen
- first_name: Chris
full_name: Bond, Chris T
last_name: Bond
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
- first_name: Carmen
full_name: Ballesteros-Merino, Carmen
last_name: Ballesteros Merino
- first_name: Michael
full_name: Lin, Michael T
last_name: Lin
- first_name: Kang
full_name: Wang, Kang
last_name: Wang
- first_name: Nathan
full_name: Klett, Nathan
last_name: Klett
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Robert
full_name: Stackman, Robert W
last_name: Stackman
- first_name: James
full_name: Maylie, James G
last_name: Maylie
- first_name: John
full_name: Adelman, John P
last_name: Adelman
citation:
ama: Allen D, Bond C, Luján R, et al. The SK2-long isoform directs synaptic localization
and function of SK2-containing channels. Nature Neuroscience. 2011;14(6):744-749.
doi:10.1038/nn.2832
apa: Allen, D., Bond, C., Luján, R., Ballesteros Merino, C., Lin, M., Wang, K.,
… Adelman, J. (2011). The SK2-long isoform directs synaptic localization and function
of SK2-containing channels. Nature Neuroscience. Nature Publishing Group.
https://doi.org/10.1038/nn.2832
chicago: Allen, Duane, Chris Bond, Rafael Luján, Carmen Ballesteros Merino, Michael
Lin, Kang Wang, Nathan Klett, et al. “The SK2-Long Isoform Directs Synaptic Localization
and Function of SK2-Containing Channels.” Nature Neuroscience. Nature Publishing
Group, 2011. https://doi.org/10.1038/nn.2832.
ieee: D. Allen et al., “The SK2-long isoform directs synaptic localization
and function of SK2-containing channels,” Nature Neuroscience, vol. 14,
no. 6. Nature Publishing Group, pp. 744–749, 2011.
ista: Allen D, Bond C, Luján R, Ballesteros Merino C, Lin M, Wang K, Klett N, Watanabe
M, Shigemoto R, Stackman R, Maylie J, Adelman J. 2011. The SK2-long isoform directs
synaptic localization and function of SK2-containing channels. Nature Neuroscience.
14(6), 744–749.
mla: Allen, Duane, et al. “The SK2-Long Isoform Directs Synaptic Localization and
Function of SK2-Containing Channels.” Nature Neuroscience, vol. 14, no.
6, Nature Publishing Group, 2011, pp. 744–49, doi:10.1038/nn.2832.
short: D. Allen, C. Bond, R. Luján, C. Ballesteros Merino, M. Lin, K. Wang, N. Klett,
M. Watanabe, R. Shigemoto, R. Stackman, J. Maylie, J. Adelman, Nature Neuroscience
14 (2011) 744–749.
date_created: 2018-12-11T11:58:07Z
date_published: 2011-06-01T00:00:00Z
date_updated: 2021-01-12T06:57:56Z
day: '01'
doi: 10.1038/nn.2832
extern: 1
intvolume: ' 14'
issue: '6'
month: '06'
page: 744 - 749
publication: Nature Neuroscience
publication_status: published
publisher: Nature Publishing Group
publist_id: '4388'
quality_controlled: 0
status: public
title: The SK2-long isoform directs synaptic localization and function of SK2-containing
channels
type: journal_article
volume: 14
year: '2011'
...
---
_id: '2717'
abstract:
- lang: eng
text: 'We consider Hermitian and symmetric random band matrices H in d ≥ 1 dimensions.
The matrix elements H xy, indexed by, are independent, uniformly distributed random
variables if {pipe}x-y{pipe} is less than the band width W, and zero otherwise.
We prove that the time evolution of a quantum particle subject to the Hamiltonian
H is diffusive on time scales. We also show that the localization length of the
eigenvectors of H is larger than a factor W d/6 times the band width. All results
are uniform in the size of the matrix. '
author:
- first_name: László
full_name: László Erdös
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Antti
full_name: Knowles, Antti
last_name: Knowles
citation:
ama: Erdös L, Knowles A. Quantum diffusion and eigenfunction delocalization in a
random band matrix model. Communications in Mathematical Physics. 2011;303(2):509-554.
doi:10.1007/s00220-011-1204-2
apa: Erdös, L., & Knowles, A. (2011). Quantum diffusion and eigenfunction delocalization
in a random band matrix model. Communications in Mathematical Physics.
Springer. https://doi.org/10.1007/s00220-011-1204-2
chicago: Erdös, László, and Antti Knowles. “Quantum Diffusion and Eigenfunction
Delocalization in a Random Band Matrix Model.” Communications in Mathematical
Physics. Springer, 2011. https://doi.org/10.1007/s00220-011-1204-2.
ieee: L. Erdös and A. Knowles, “Quantum diffusion and eigenfunction delocalization
in a random band matrix model,” Communications in Mathematical Physics,
vol. 303, no. 2. Springer, pp. 509–554, 2011.
ista: Erdös L, Knowles A. 2011. Quantum diffusion and eigenfunction delocalization
in a random band matrix model. Communications in Mathematical Physics. 303(2),
509–554.
mla: Erdös, László, and Antti Knowles. “Quantum Diffusion and Eigenfunction Delocalization
in a Random Band Matrix Model.” Communications in Mathematical Physics,
vol. 303, no. 2, Springer, 2011, pp. 509–54, doi:10.1007/s00220-011-1204-2.
short: L. Erdös, A. Knowles, Communications in Mathematical Physics 303 (2011) 509–554.
date_created: 2018-12-11T11:59:14Z
date_published: 2011-04-01T00:00:00Z
date_updated: 2021-01-12T06:59:15Z
day: '01'
doi: 10.1007/s00220-011-1204-2
extern: 1
intvolume: ' 303'
issue: '2'
month: '04'
page: 509 - 554
publication: Communications in Mathematical Physics
publication_status: published
publisher: Springer
publist_id: '4175'
quality_controlled: 0
status: public
title: Quantum diffusion and eigenfunction delocalization in a random band matrix
model
type: journal_article
volume: 303
year: '2011'
...
---
_id: '2764'
abstract:
- lang: eng
text: Consider the Dyson Brownian motion with parameter β, where β=1,2,4 corresponds
to the eigenvalue flows for the eigenvalues of symmetric, hermitian and quaternion
self-dual ensembles. For any β≥1, we prove that the relaxation time to local equilibrium
for the Dyson Brownian motion is bounded above by N -ζ for some ζ> 0. The proof
is based on an estimate of the entropy flow of the Dyson Brownian motion w. r.
t. a "pseudo equilibrium measure". As an application of this estimate,
we prove that the eigenvalue spacing statistics in the bulk of the spectrum for
N×N symmetric Wigner ensemble is the same as that of the Gaussian Orthogonal Ensemble
(GOE) in the limit N→∞. The assumptions on the probability distribution of the
matrix elements of the Wigner ensemble are a subexponential decay and some minor
restriction on the support.
author:
- first_name: László
full_name: László Erdös
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Benjamin
full_name: Schlein, Benjamin
last_name: Schlein
- first_name: Horng
full_name: Yau, Horng-Tzer
last_name: Yau
citation:
ama: Erdös L, Schlein B, Yau H. Universality of random matrices and local relaxation
flow. Inventiones Mathematicae. 2011;185(1):75-119. doi:10.1007/s00222-010-0302-7
apa: Erdös, L., Schlein, B., & Yau, H. (2011). Universality of random matrices
and local relaxation flow. Inventiones Mathematicae. Springer. https://doi.org/10.1007/s00222-010-0302-7
chicago: Erdös, László, Benjamin Schlein, and Horng Yau. “Universality of Random
Matrices and Local Relaxation Flow.” Inventiones Mathematicae. Springer,
2011. https://doi.org/10.1007/s00222-010-0302-7.
ieee: L. Erdös, B. Schlein, and H. Yau, “Universality of random matrices and local
relaxation flow,” Inventiones Mathematicae, vol. 185, no. 1. Springer,
pp. 75–119, 2011.
ista: Erdös L, Schlein B, Yau H. 2011. Universality of random matrices and local
relaxation flow. Inventiones Mathematicae. 185(1), 75–119.
mla: Erdös, László, et al. “Universality of Random Matrices and Local Relaxation
Flow.” Inventiones Mathematicae, vol. 185, no. 1, Springer, 2011, pp. 75–119,
doi:10.1007/s00222-010-0302-7.
short: L. Erdös, B. Schlein, H. Yau, Inventiones Mathematicae 185 (2011) 75–119.
date_created: 2018-12-11T11:59:29Z
date_published: 2011-07-01T00:00:00Z
date_updated: 2021-01-12T06:59:32Z
day: '01'
doi: 10.1007/s00222-010-0302-7
extern: 1
intvolume: ' 185'
issue: '1'
month: '07'
page: 75 - 119
publication: Inventiones Mathematicae
publication_status: published
publisher: Springer
publist_id: '4126'
quality_controlled: 0
status: public
title: Universality of random matrices and local relaxation flow
type: journal_article
volume: 185
year: '2011'
...
---
_id: '2765'
abstract:
- lang: eng
text: 'This is a study of the universality of spectral statistics for large random
matrices. Considered are N×N symmetric, Hermitian, or quaternion self-dual random
matrices with independent identically distributed entries (Wigner matrices), where
the probability distribution of each matrix element is given by a measure v with
zero expectation and with subexponential decay. The main result is that the correlation
functions of the local eigenvalue statistics in the bulk of the spectrum coincide
with those of the Gaussian Orthogonal Ensemble (GOE), the Gaussian Unitary Ensemble
(GUE), and the Gaussian Symplectic Ensemble (GSE), respectively, in the limit
as N → ∞. This approach is based on a study of the Dyson Brownian motion via a
related new dynamics, the local relaxation flow. As a main input, it is established
that the density of the eigenvalues converges to the Wigner semicircle law, and
this holds even down to the smallest possible scale. Moreover, it is shown that
the eigenvectors are completely delocalized. These results hold even without the
condition that the matrix elements are identically distributed: only independence
is used. In fact, for the matrix elements of the Green function strong estimates
are given that imply that the local statistics of any two ensembles in the bulk
are identical if the first four moments of the matrix elements match. Universality
at the spectral edges requires matching only two moments. A Wigner-type estimate
is also proved, and it is shown that the eigenvalues repel each other on arbitrarily
small scales.'
author:
- first_name: László
full_name: László Erdös
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: 'Erdös L. Universality of Wigner random matrices: A survey of recent results.
Russian Mathematical Surveys. 2011;66(3):507-626. doi:10.1070/RM2011v066n03ABEH004749'
apa: 'Erdös, L. (2011). Universality of Wigner random matrices: A survey of recent
results. Russian Mathematical Surveys. IOP Publishing Ltd. https://doi.org/10.1070/RM2011v066n03ABEH004749'
chicago: 'Erdös, László. “Universality of Wigner Random Matrices: A Survey of Recent
Results.” Russian Mathematical Surveys. IOP Publishing Ltd., 2011. https://doi.org/10.1070/RM2011v066n03ABEH004749.'
ieee: 'L. Erdös, “Universality of Wigner random matrices: A survey of recent results,”
Russian Mathematical Surveys, vol. 66, no. 3. IOP Publishing Ltd., pp.
507–626, 2011.'
ista: 'Erdös L. 2011. Universality of Wigner random matrices: A survey of recent
results. Russian Mathematical Surveys. 66(3), 507–626.'
mla: 'Erdös, László. “Universality of Wigner Random Matrices: A Survey of Recent
Results.” Russian Mathematical Surveys, vol. 66, no. 3, IOP Publishing
Ltd., 2011, pp. 507–626, doi:10.1070/RM2011v066n03ABEH004749.'
short: L. Erdös, Russian Mathematical Surveys 66 (2011) 507–626.
date_created: 2018-12-11T11:59:29Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2019-04-26T07:22:20Z
day: '01'
doi: 10.1070/RM2011v066n03ABEH004749
extern: 1
intvolume: ' 66'
issue: '3'
main_file_link:
- open_access: '0'
url: http://arxiv.org/abs/1004.0861
month: '01'
page: 507 - 626
publication: Russian Mathematical Surveys
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '4125'
quality_controlled: 0
status: public
title: 'Universality of Wigner random matrices: A survey of recent results'
type: review
volume: 66
year: '2011'
...
---
_id: '2766'
abstract:
- lang: eng
text: We consider Hermitian and symmetric random band matrices H in d ≥ dimensions.
The matrix elements Hxy, indexed by x,y ∈ Λ ⊂ ℤd are independent and their variances
satisfy σ2xy:= E{pipe}Hxy{pipe}2 = W-d f((x-y)/W for some probability density
f. We assume that the law of each matrix element Hxy is symmetric and exhibits
subexponential decay. We prove that the time evolution of a quantum particle subject
to the Hamiltonian H is diffusive on time scales ≪ Wd/3. We also show that the
localization length of the eigenvectors of H is larger than a factor Wd/6 times
the band width W. All results are uniform in the size {pipe}Λ{pipe} of the matrix.
This extends our recent result (Erdo{double acute}s and Knowles in Commun. Math.
Phys., 2011) to general band matrices. As another consequence of our proof we
show that, for a larger class of random matrices satisfying Σx σ2xy for all y,
the largest eigenvalue of H is bounded with high probability by 2+M-2/3+e{open}
for any e{open} > 0, where M:= 1/(maxx,y σ2xy).
author:
- first_name: László
full_name: László Erdös
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Antti
full_name: Knowles, Antti
last_name: Knowles
citation:
ama: Erdös L, Knowles A. Quantum diffusion and delocalization for band matrices
with general distribution. Annales Henri Poincare. 2011;12(7):1227-1319.
doi:10.1007/s00023-011-0104-5
apa: Erdös, L., & Knowles, A. (2011). Quantum diffusion and delocalization for
band matrices with general distribution. Annales Henri Poincare. Birkhäuser.
https://doi.org/10.1007/s00023-011-0104-5
chicago: Erdös, László, and Antti Knowles. “Quantum Diffusion and Delocalization
for Band Matrices with General Distribution.” Annales Henri Poincare. Birkhäuser,
2011. https://doi.org/10.1007/s00023-011-0104-5.
ieee: L. Erdös and A. Knowles, “Quantum diffusion and delocalization for band matrices
with general distribution,” Annales Henri Poincare, vol. 12, no. 7. Birkhäuser,
pp. 1227–1319, 2011.
ista: Erdös L, Knowles A. 2011. Quantum diffusion and delocalization for band matrices
with general distribution. Annales Henri Poincare. 12(7), 1227–1319.
mla: Erdös, László, and Antti Knowles. “Quantum Diffusion and Delocalization for
Band Matrices with General Distribution.” Annales Henri Poincare, vol.
12, no. 7, Birkhäuser, 2011, pp. 1227–319, doi:10.1007/s00023-011-0104-5.
short: L. Erdös, A. Knowles, Annales Henri Poincare 12 (2011) 1227–1319.
date_created: 2018-12-11T11:59:29Z
date_published: 2011-11-01T00:00:00Z
date_updated: 2021-01-12T06:59:33Z
day: '01'
doi: 10.1007/s00023-011-0104-5
extern: 1
intvolume: ' 12'
issue: '7'
month: '11'
page: 1227 - 1319
publication: Annales Henri Poincare
publication_status: published
publisher: Birkhäuser
publist_id: '4124'
quality_controlled: 0
status: public
title: Quantum diffusion and delocalization for band matrices with general distribution
type: journal_article
volume: 12
year: '2011'
...
---
_id: '2799'
abstract:
- lang: eng
text: Shear flows undergo a sudden transition from laminar to turbulent motion as
the velocity increases, and the onset of turbulence radically changes transport
efficiency and mixing properties. Even for the well-studied case of pipe flow,
it has not been possible to determine at what Reynolds number the motion will
be either persistently turbulent or ultimately laminar. We show that in pipes,
turbulence that is transient at low Reynolds numbers becomes sustained at a distinct
critical point. Through extensive experiments and computer simulations, we were
able to identify and characterize the processes ultimately responsible for sustaining
turbulence. In contrast to the classical Landau-Ruelle-Takens view that turbulence
arises from an increase in the temporal complexity of fluid motion, here, spatial
proliferation of chaotic domains is the decisive process and intrinsic to the
nature of fluid turbulence.
author:
- first_name: Kerstin
full_name: Avila, Kerstin
last_name: Avila
- first_name: David
full_name: Moxey, David
last_name: Moxey
- first_name: Alberto
full_name: de Lózar, Alberto
last_name: De Lózar
- first_name: Marc
full_name: Avila, Marc
last_name: Avila
- first_name: Dwight
full_name: Barkley, Dwight
last_name: Barkley
- first_name: Björn
full_name: Björn Hof
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Avila K, Moxey D, De Lózar A, Avila M, Barkley D, Hof B. The onset of turbulence
in pipe flow. Science. 2011;333(6039):192-196. doi:10.1126/science.1203223
apa: Avila, K., Moxey, D., De Lózar, A., Avila, M., Barkley, D., & Hof, B. (2011).
The onset of turbulence in pipe flow. Science. American Association for
the Advancement of Science. https://doi.org/10.1126/science.1203223
chicago: Avila, Kerstin, David Moxey, Alberto De Lózar, Marc Avila, Dwight Barkley,
and Björn Hof. “The Onset of Turbulence in Pipe Flow.” Science. American
Association for the Advancement of Science, 2011. https://doi.org/10.1126/science.1203223.
ieee: K. Avila, D. Moxey, A. De Lózar, M. Avila, D. Barkley, and B. Hof, “The onset
of turbulence in pipe flow,” Science, vol. 333, no. 6039. American Association
for the Advancement of Science, pp. 192–196, 2011.
ista: Avila K, Moxey D, De Lózar A, Avila M, Barkley D, Hof B. 2011. The onset of
turbulence in pipe flow. Science. 333(6039), 192–196.
mla: Avila, Kerstin, et al. “The Onset of Turbulence in Pipe Flow.” Science,
vol. 333, no. 6039, American Association for the Advancement of Science, 2011,
pp. 192–96, doi:10.1126/science.1203223.
short: K. Avila, D. Moxey, A. De Lózar, M. Avila, D. Barkley, B. Hof, Science 333
(2011) 192–196.
date_created: 2018-12-11T11:59:39Z
date_published: 2011-07-08T00:00:00Z
date_updated: 2021-01-12T06:59:47Z
day: '08'
doi: 10.1126/science.1203223
extern: 1
intvolume: ' 333'
issue: '6039'
month: '07'
page: 192 - 196
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '4090'
quality_controlled: 0
status: public
title: The onset of turbulence in pipe flow
type: journal_article
volume: 333
year: '2011'
...
---
_id: '2800'
abstract:
- lang: eng
text: In shear flows, turbulence first occurs in the form of localized structures
(puffs/spots) surrounded by laminar fluid. We here investigate such spatially
intermittent flows in a pipe experiment showing that turbulent puffs have a well-defined
interaction distance, which sets their minimum spacing as well as the maximum
observable turbulent fraction. Two methodologies are employed. Starting from a
laminar flow, puffs are first created by locally injecting a jet of fluid through
the pipe wall. When the perturbation is applied periodically at low frequencies,
as expected, a regular sequence of puffs is observed where the puff spacing is
given by the ratio of the mean flow speed to the perturbation frequency. At large
frequencies however puffs are found to interact and annihilate each other. Varying
the perturbation frequency, an interaction distance is determined which sets the
highest possible turbulence fraction. This enables us to establish an upper bound
for the friction factor in the transitional regime, which provides a well-defined
link between the Blasius and the Hagen-Poiseuille friction laws. In the second
set of experiments, the Reynolds number is reduced suddenly from fully turbulent
to the intermittent regime. The resulting flow reorganizes itself to a sequence
of constant size puffs which, unlike in Couette and Taylor–Couette flow are randomly
spaced. The minimum distance between the turbulent patches is identical to the
puff interaction length. The puff interaction length is found to be in agreement
with the wavelength of regular stripe and spiral patterns in plane Couette and
Taylor–Couette flow.
author:
- first_name: Devranjan
full_name: Samanta, Devranjan
last_name: Samanta
- first_name: Alberto
full_name: de Lózar, Alberto
last_name: De Lózar
- first_name: Björn
full_name: Björn Hof
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Samanta D, De Lózar A, Hof B. Experimental investigation of laminar turbulent
intermittency in pipe flow. Journal of Fluid Mechanics. 2011;681:193-204.
doi:10.1017/jfm.2011.189
apa: Samanta, D., De Lózar, A., & Hof, B. (2011). Experimental investigation
of laminar turbulent intermittency in pipe flow. Journal of Fluid Mechanics.
Cambridge University Press. https://doi.org/10.1017/jfm.2011.189
chicago: Samanta, Devranjan, Alberto De Lózar, and Björn Hof. “Experimental Investigation
of Laminar Turbulent Intermittency in Pipe Flow.” Journal of Fluid Mechanics.
Cambridge University Press, 2011. https://doi.org/10.1017/jfm.2011.189.
ieee: D. Samanta, A. De Lózar, and B. Hof, “Experimental investigation of laminar
turbulent intermittency in pipe flow,” Journal of Fluid Mechanics, vol.
681. Cambridge University Press, pp. 193–204, 2011.
ista: Samanta D, De Lózar A, Hof B. 2011. Experimental investigation of laminar
turbulent intermittency in pipe flow. Journal of Fluid Mechanics. 681, 193–204.
mla: Samanta, Devranjan, et al. “Experimental Investigation of Laminar Turbulent
Intermittency in Pipe Flow.” Journal of Fluid Mechanics, vol. 681, Cambridge
University Press, 2011, pp. 193–204, doi:10.1017/jfm.2011.189.
short: D. Samanta, A. De Lózar, B. Hof, Journal of Fluid Mechanics 681 (2011) 193–204.
date_created: 2018-12-11T11:59:40Z
date_published: 2011-08-25T00:00:00Z
date_updated: 2021-01-12T06:59:48Z
day: '25'
doi: 10.1017/jfm.2011.189
extern: 1
intvolume: ' 681'
month: '08'
page: 193 - 204
publication: Journal of Fluid Mechanics
publication_status: published
publisher: Cambridge University Press
publist_id: '4089'
quality_controlled: 0
status: public
title: Experimental investigation of laminar turbulent intermittency in pipe flow
type: journal_article
volume: 681
year: '2011'
...
---
_id: '2801'
abstract:
- lang: eng
text: Turbulent puffs in pipe flow are characterized by a sharp laminar-turbulent
interface at the trailing edge and a more diffused leading interface. It is known
that these laminar-turbulent interfaces propagate at a speed that is approximately
equal to the flow rate. Our results from direct numerical simulation show that,
locally, the interface velocity relative to the fluid (i) counteracts the advection
due to the laminar velocity profile so that the puff can preserve its characteristic
overall shape, (ii) is very small in magnitude, but involves a large interface
area so that the global propagation velocity relative to the mean flow can be
large and (iii) is determined by both inertial and viscous effects. The analysis
provides some new insights into the mechanisms that sustain or expand localized
turbulence and might be relevant for the design of new control strategies.
alternative_title:
- 'Journal of Physics: Conference Series'
author:
- first_name: Markus
full_name: Holzner, Markus
last_name: Holzner
- first_name: Marc
full_name: Avila, Marc
last_name: Avila
- first_name: Alberto
full_name: de Lózar, Alberto
last_name: De Lózar
- first_name: Björn
full_name: Björn Hof
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: 'Holzner M, Avila M, De Lózar A, Hof B. A Lagrangian approach to the interface
velocity of turbulent puffs in pipe flow. In: Vol 318. IOP Publishing Ltd.; 2011.
doi:10.1088/1742-6596/318/5/052031'
apa: 'Holzner, M., Avila, M., De Lózar, A., & Hof, B. (2011). A Lagrangian approach
to the interface velocity of turbulent puffs in pipe flow (Vol. 318). Presented
at the ETC13: European Turbulence Conference, IOP Publishing Ltd. https://doi.org/10.1088/1742-6596/318/5/052031'
chicago: Holzner, Markus, Marc Avila, Alberto De Lózar, and Björn Hof. “A Lagrangian
Approach to the Interface Velocity of Turbulent Puffs in Pipe Flow,” Vol. 318.
IOP Publishing Ltd., 2011. https://doi.org/10.1088/1742-6596/318/5/052031.
ieee: 'M. Holzner, M. Avila, A. De Lózar, and B. Hof, “A Lagrangian approach to
the interface velocity of turbulent puffs in pipe flow,” presented at the ETC13:
European Turbulence Conference, 2011, vol. 318, no. 5.'
ista: 'Holzner M, Avila M, De Lózar A, Hof B. 2011. A Lagrangian approach to the
interface velocity of turbulent puffs in pipe flow. ETC13: European Turbulence
Conference, Journal of Physics: Conference Series, vol. 318.'
mla: Holzner, Markus, et al. A Lagrangian Approach to the Interface Velocity
of Turbulent Puffs in Pipe Flow. Vol. 318, no. 5, IOP Publishing Ltd., 2011,
doi:10.1088/1742-6596/318/5/052031.
short: M. Holzner, M. Avila, A. De Lózar, B. Hof, in:, IOP Publishing Ltd., 2011.
conference:
name: 'ETC13: European Turbulence Conference'
date_created: 2018-12-11T11:59:40Z
date_published: 2011-09-01T00:00:00Z
date_updated: 2019-04-26T07:22:20Z
day: '01'
doi: 10.1088/1742-6596/318/5/052031
extern: 1
intvolume: ' 318'
issue: '5'
month: '09'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '4088'
quality_controlled: 0
status: public
title: A Lagrangian approach to the interface velocity of turbulent puffs in pipe
flow
type: conference
volume: 318
year: '2011'
...
---
_id: '2871'
abstract:
- lang: eng
text: Despite their relatively simple appearance, roots are incredibly complex organs
that are highly adapted to differing environments. Many aspects of root development
are co-ordinated by subtle spatial differences in the concentrations of the phytohormones
auxin and cytokinin. Events from the formation of a root during embryogenesis
to the determination of the network of lateral roots are controlled by interactions
between these hormones. Recently, interactions have been defined where auxin signaling
promotes the expression of cytokinin signaling inhibitors, cytokinin signaling
promotes the expression of auxin signaling inhibitors and finally where cytokinin
signaling regulates the complex network of auxin transport proteins to position
zones of high auxin signaling. We are witnessing a period of discovery in which
we are beginning to understand how these hormonal pathways communicate to regulate
root formation.
author:
- first_name: Anthony
full_name: Bishopp, Anthony
last_name: Bishopp
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Ykä
full_name: Helariutta, Ykä
last_name: Helariutta
citation:
ama: 'Bishopp A, Benková E, Helariutta Y. Sending mixed messages: Auxin-cytokinin
crosstalk in roots. Current Opinion in Plant Biology. 2011;14(1):10-16.
doi:10.1016/j.pbi.2010.08.014'
apa: 'Bishopp, A., Benková, E., & Helariutta, Y. (2011). Sending mixed messages:
Auxin-cytokinin crosstalk in roots. Current Opinion in Plant Biology. Elsevier.
https://doi.org/10.1016/j.pbi.2010.08.014'
chicago: 'Bishopp, Anthony, Eva Benková, and Ykä Helariutta. “Sending Mixed Messages:
Auxin-Cytokinin Crosstalk in Roots.” Current Opinion in Plant Biology.
Elsevier, 2011. https://doi.org/10.1016/j.pbi.2010.08.014.'
ieee: 'A. Bishopp, E. Benková, and Y. Helariutta, “Sending mixed messages: Auxin-cytokinin
crosstalk in roots,” Current Opinion in Plant Biology, vol. 14, no. 1.
Elsevier, pp. 10–16, 2011.'
ista: 'Bishopp A, Benková E, Helariutta Y. 2011. Sending mixed messages: Auxin-cytokinin
crosstalk in roots. Current Opinion in Plant Biology. 14(1), 10–16.'
mla: 'Bishopp, Anthony, et al. “Sending Mixed Messages: Auxin-Cytokinin Crosstalk
in Roots.” Current Opinion in Plant Biology, vol. 14, no. 1, Elsevier,
2011, pp. 10–16, doi:10.1016/j.pbi.2010.08.014.'
short: A. Bishopp, E. Benková, Y. Helariutta, Current Opinion in Plant Biology 14
(2011) 10–16.
date_created: 2018-12-11T12:00:03Z
date_published: 2011-02-01T00:00:00Z
date_updated: 2021-01-12T07:00:23Z
day: '01'
doi: 10.1016/j.pbi.2010.08.014
extern: 1
intvolume: ' 14'
issue: '1'
month: '02'
page: 10 - 16
publication: Current Opinion in Plant Biology
publication_status: published
publisher: Elsevier
publist_id: '3894'
quality_controlled: 0
status: public
title: 'Sending mixed messages: Auxin-cytokinin crosstalk in roots'
type: journal_article
volume: 14
year: '2011'
...
---
_id: '2874'
abstract:
- lang: eng
text: The apical hook develops in the upper part of the hypocotyl when seeds buried
in the soil germinate, and serves to protect cotyledons and the shoot apical meristem
from possible damage caused by pushing through the soil. The curvature is formed
through differential cell growth that occurs at the two opposite sides of the
hypocotyl, and it is established by a gradient of auxin activity and refined by
the coordinated action of auxin and ethylene. Here we show that gibberellins (GAs)
promote hook development through the transcriptional regulation of several genes
of the ethylene and auxin pathways in Arabidopsis. The level of GA activity determines
the speed of hook formation and the extent of the curvature during the formation
phase independently of ethylene, probably by modulating auxin transport and response
through HLS1, PIN3, and PIN7. Moreover, GAs cooperate with ethylene in preventing
hook opening, in part through the induction of ethylene production mediated by
ACS5/ETO2 and ACS8.
author:
- first_name: Javier
full_name: Gallego-Bartolomé, Javier
last_name: Gallego Bartolomé
- first_name: María
full_name: Arana, María V
last_name: Arana
- first_name: Filip
full_name: Vandenbussche, Filip
last_name: Vandenbussche
- first_name: Petra
full_name: Žádníková, Petra
last_name: Žádníková
- first_name: Eugenio
full_name: Minguet, Eugenio G
last_name: Minguet
- first_name: Vicente
full_name: Guardiola, Vicente
last_name: Guardiola
- first_name: Dominique
full_name: Van Der Straeten, Dominique
last_name: Van Der Straeten
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: David
full_name: Alabadí, David
last_name: Alabadí
- first_name: Miguel
full_name: Blázquez, Miguel A
last_name: Blázquez
citation:
ama: Gallego Bartolomé J, Arana M, Vandenbussche F, et al. Hierarchy of hormone
action controlling apical hook development in Arabidopsis. Plant Journal.
2011;67(4):622-634. doi:10.1111/j.1365-313X.2011.04621.x
apa: Gallego Bartolomé, J., Arana, M., Vandenbussche, F., Žádníková, P., Minguet,
E., Guardiola, V., … Blázquez, M. (2011). Hierarchy of hormone action controlling
apical hook development in Arabidopsis. Plant Journal. Wiley-Blackwell.
https://doi.org/10.1111/j.1365-313X.2011.04621.x
chicago: Gallego Bartolomé, Javier, María Arana, Filip Vandenbussche, Petra Žádníková,
Eugenio Minguet, Vicente Guardiola, Dominique Van Der Straeten, Eva Benková, David
Alabadí, and Miguel Blázquez. “Hierarchy of Hormone Action Controlling Apical
Hook Development in Arabidopsis.” Plant Journal. Wiley-Blackwell, 2011.
https://doi.org/10.1111/j.1365-313X.2011.04621.x.
ieee: J. Gallego Bartolomé et al., “Hierarchy of hormone action controlling
apical hook development in Arabidopsis,” Plant Journal, vol. 67, no. 4.
Wiley-Blackwell, pp. 622–634, 2011.
ista: Gallego Bartolomé J, Arana M, Vandenbussche F, Žádníková P, Minguet E, Guardiola
V, Van Der Straeten D, Benková E, Alabadí D, Blázquez M. 2011. Hierarchy of hormone
action controlling apical hook development in Arabidopsis. Plant Journal. 67(4),
622–634.
mla: Gallego Bartolomé, Javier, et al. “Hierarchy of Hormone Action Controlling
Apical Hook Development in Arabidopsis.” Plant Journal, vol. 67, no. 4,
Wiley-Blackwell, 2011, pp. 622–34, doi:10.1111/j.1365-313X.2011.04621.x.
short: J. Gallego Bartolomé, M. Arana, F. Vandenbussche, P. Žádníková, E. Minguet,
V. Guardiola, D. Van Der Straeten, E. Benková, D. Alabadí, M. Blázquez, Plant
Journal 67 (2011) 622–634.
date_created: 2018-12-11T12:00:04Z
date_published: 2011-08-01T00:00:00Z
date_updated: 2021-01-12T07:00:24Z
day: '01'
doi: 10.1111/j.1365-313X.2011.04621.x
extern: 1
intvolume: ' 67'
issue: '4'
month: '08'
page: 622 - 634
publication: Plant Journal
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3891'
quality_controlled: 0
status: public
title: Hierarchy of hormone action controlling apical hook development in Arabidopsis
type: journal_article
volume: 67
year: '2011'
...
---
_id: '2897'
acknowledgement: TFs regulate gene expression by binding to specific sequences in
the promoter regions of their target genes. Promoters often contain multiple copies
of the same TF binding sites. How does this multiplicity evolve? One possibility
is that individuals with multiple, redundant binding sites have higher fitness.
However, nonadaptive processes are also likely to be important. Here, we develop
a mathematical model of the evolution of TF binding sites to help us disentangle
how different evolutionary mechanisms contribute to the evolution of binding site
redundancy and multiplicity. We show that recombination is expected to promote the
evolution of multiple binding sites. This prediction is corroborated by genome-wide
data from yeast. Another important factor in the evolution of multiplicity predicted
in our analysis is TF promiscuity, that is, the ability of a TF to bind to multiple
sequences. In addition, our analysis indicated that direct selection can have large
effects on the evolution of redundancy and multiplicity. Data from yeast identified
selection for changes in expression level as a candidate mechanism for the evolution
of multiple binding sites. We conclude that, although selection may play a major
role in the evolution of multiplicity in regulatory regions, nonadaptive forces
can also lead to high levels of multiplicity.
author:
- first_name: Tiago
full_name: Tiago Paixao
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
- first_name: Ricardo
full_name: Azevedo, Ricardo B
last_name: Azevedo
citation:
ama: Paixao T, Azevedo R. Redundancy and the Evolution of Cis Regulatory Element
Multiplicity. PLoS Computational Biology. 2011;6(7). doi:10.1371/journal.pcbi.1000848
apa: Paixao, T., & Azevedo, R. (2011). Redundancy and the Evolution of Cis Regulatory
Element Multiplicity. PLoS Computational Biology. Public Library of Science.
https://doi.org/10.1371/journal.pcbi.1000848
chicago: Paixao, Tiago, and Ricardo Azevedo. “Redundancy and the Evolution of Cis
Regulatory Element Multiplicity.” PLoS Computational Biology. Public Library
of Science, 2011. https://doi.org/10.1371/journal.pcbi.1000848.
ieee: T. Paixao and R. Azevedo, “Redundancy and the Evolution of Cis Regulatory
Element Multiplicity,” PLoS Computational Biology, vol. 6, no. 7. Public
Library of Science, 2011.
ista: Paixao T, Azevedo R. 2011. Redundancy and the Evolution of Cis Regulatory
Element Multiplicity. PLoS Computational Biology. 6(7).
mla: Paixao, Tiago, and Ricardo Azevedo. “Redundancy and the Evolution of Cis Regulatory
Element Multiplicity.” PLoS Computational Biology, vol. 6, no. 7, Public
Library of Science, 2011, doi:10.1371/journal.pcbi.1000848.
short: T. Paixao, R. Azevedo, PLoS Computational Biology 6 (2011).
date_created: 2018-12-11T12:00:13Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:00:33Z
day: '01'
doi: 10.1371/journal.pcbi.1000848
extern: 1
intvolume: ' 6'
issue: '7'
license: https://creativecommons.org/licenses/by/4.0/
month: '01'
publication: PLoS Computational Biology
publication_status: published
publisher: Public Library of Science
publist_id: '3861'
quality_controlled: 0
status: public
title: Redundancy and the Evolution of Cis Regulatory Element Multiplicity
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
volume: 6
year: '2011'
...
---
_id: '2898'
abstract:
- lang: eng
text: Sex allocation theory has been remarkably successful at explaining the prevalence
of even sex ratios in natural populations and at identifying specific conditions
that can result in biased sex ratios. Much of this theory focuses on parental
sex determination (SD) strategies. Here, we consider instead the evolutionary
causes and consequences of mixed offspring SD strategies, in which the genotype
of an individual determines not its sex, but the probability of developing one
of multiple sexes. We find that alleles specifying mixed offspring SD strategies
can generally outcompete alleles that specify pure strategies, but generate constraints
that may prevent a population from reaching an even sex ratio. We use our model
to analyze sex ratios in natural populations of Tetrahymena thermophila, a ciliate
with seven sexes determined by mixed SD alleles. We show that probabilistic SD
is sufficient to account for the occurrence of skewed sex ratios in natural populations
of T. thermophila, provided that their effective population sizes are small. Our
results highlight the importance of genetic drift in sex ratio evolution and suggest
that mixed offspring SD strategies should be more common than currently thought.
author:
- first_name: Tiago
full_name: Tiago Paixao
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
- first_name: Sujal
full_name: Phadke, Sujal S
last_name: Phadke
- first_name: Ricardo
full_name: Azevedo, Ricardo B
last_name: Azevedo
- first_name: Rebecca
full_name: Zufall, Rebecca A
last_name: Zufall
citation:
ama: Paixao T, Phadke S, Azevedo R, Zufall R. Sex ratio evolution under probabilistic
sex determination. Evolution; International Journal of Organic Evolution.
2011;65(7):2050-2060. doi:10.1111/j.1558-5646.2011.01266.x
apa: Paixao, T., Phadke, S., Azevedo, R., & Zufall, R. (2011). Sex ratio evolution
under probabilistic sex determination. Evolution; International Journal of
Organic Evolution. Wiley-Blackwell. https://doi.org/10.1111/j.1558-5646.2011.01266.x
chicago: Paixao, Tiago, Sujal Phadke, Ricardo Azevedo, and Rebecca Zufall. “Sex
Ratio Evolution under Probabilistic Sex Determination.” Evolution; International
Journal of Organic Evolution. Wiley-Blackwell, 2011. https://doi.org/10.1111/j.1558-5646.2011.01266.x.
ieee: T. Paixao, S. Phadke, R. Azevedo, and R. Zufall, “Sex ratio evolution under
probabilistic sex determination,” Evolution; International Journal of Organic
Evolution, vol. 65, no. 7. Wiley-Blackwell, pp. 2050–2060, 2011.
ista: Paixao T, Phadke S, Azevedo R, Zufall R. 2011. Sex ratio evolution under probabilistic
sex determination. Evolution; International Journal of Organic Evolution. 65(7),
2050–2060.
mla: Paixao, Tiago, et al. “Sex Ratio Evolution under Probabilistic Sex Determination.”
Evolution; International Journal of Organic Evolution, vol. 65, no. 7,
Wiley-Blackwell, 2011, pp. 2050–60, doi:10.1111/j.1558-5646.2011.01266.x.
short: T. Paixao, S. Phadke, R. Azevedo, R. Zufall, Evolution; International Journal
of Organic Evolution 65 (2011) 2050–2060.
date_created: 2018-12-11T12:00:13Z
date_published: 2011-03-01T00:00:00Z
date_updated: 2021-01-12T07:00:33Z
day: '01'
doi: 10.1111/j.1558-5646.2011.01266.x
extern: 1
intvolume: ' 65'
issue: '7'
month: '03'
page: 2050 - 2060
publication: Evolution; International Journal of Organic Evolution
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3860'
quality_controlled: 0
status: public
title: Sex ratio evolution under probabilistic sex determination
type: journal_article
volume: 65
year: '2011'
...
---
_id: '2922'
author:
- first_name: Sara
full_name: Vicente, Sara
last_name: Vicente
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
citation:
ama: 'Vicente S, Kolmogorov V, Rother C. Graph-cut Based Image Segmentation with
Connectivity Priors. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields
for Vision and Image Processing. Massachusetts Institute of Technology Press;
2011.'
apa: Vicente, S., Kolmogorov, V., & Rother, C. (2011). Graph-cut Based Image
Segmentation with Connectivity Priors. In A. Blake, P. Kohli, & C. Rother
(Eds.), Markov Random Fields for Vision and Image Processing. Massachusetts
Institute of Technology Press.
chicago: Vicente, Sara, Vladimir Kolmogorov, and Carsten Rother. “Graph-Cut Based
Image Segmentation with Connectivity Priors.” In Markov Random Fields for Vision
and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten
Rother. Massachusetts Institute of Technology Press, 2011.
ieee: S. Vicente, V. Kolmogorov, and C. Rother, “Graph-cut Based Image Segmentation
with Connectivity Priors,” in Markov Random Fields for Vision and Image Processing,
A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology
Press, 2011.
ista: 'Vicente S, Kolmogorov V, Rother C. 2011.Graph-cut Based Image Segmentation
with Connectivity Priors. In: Markov Random Fields for Vision and Image Processing.
.'
mla: Vicente, Sara, et al. “Graph-Cut Based Image Segmentation with Connectivity
Priors.” Markov Random Fields for Vision and Image Processing, edited by
Andrew Blake et al., Massachusetts Institute of Technology Press, 2011.
short: S. Vicente, V. Kolmogorov, C. Rother, in:, A. Blake, P. Kohli, C. Rother
(Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts Institute
of Technology Press, 2011.
date_created: 2018-12-11T12:00:21Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:00:43Z
day: '01'
editor:
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Pushmeet
full_name: Kohli, Pushmeet
last_name: Kohli
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
extern: 1
month: '01'
publication: Markov Random Fields for Vision and Image Processing
publication_status: published
publisher: Massachusetts Institute of Technology Press
publist_id: '3815'
quality_controlled: 0
status: public
title: Graph-cut Based Image Segmentation with Connectivity Priors
type: book_chapter
year: '2011'
...
---
_id: '2923'
author:
- first_name: M Pawan
full_name: Kumar, M Pawan
last_name: Kumar
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Philip
full_name: Torr, Philip H
last_name: Torr
citation:
ama: 'Kumar MP, Kolmogorov V, Torr P. Analyzing Convex Relaxations for MAP Estimation.
In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image
Processing. Massachusetts Institute of Technology Press; 2011.'
apa: Kumar, M. P., Kolmogorov, V., & Torr, P. (2011). Analyzing Convex Relaxations
for MAP Estimation. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random
Fields for Vision and Image Processing. Massachusetts Institute of Technology
Press.
chicago: Kumar, M Pawan, Vladimir Kolmogorov, and Philip Torr. “Analyzing Convex
Relaxations for MAP Estimation.” In Markov Random Fields for Vision and Image
Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother. Massachusetts
Institute of Technology Press, 2011.
ieee: M. P. Kumar, V. Kolmogorov, and P. Torr, “Analyzing Convex Relaxations for
MAP Estimation,” in Markov Random Fields for Vision and Image Processing,
A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology
Press, 2011.
ista: 'Kumar MP, Kolmogorov V, Torr P. 2011.Analyzing Convex Relaxations for MAP
Estimation. In: Markov Random Fields for Vision and Image Processing. .'
mla: Kumar, M. Pawan, et al. “Analyzing Convex Relaxations for MAP Estimation.”
Markov Random Fields for Vision and Image Processing, edited by Andrew
Blake et al., Massachusetts Institute of Technology Press, 2011.
short: M.P. Kumar, V. Kolmogorov, P. Torr, in:, A. Blake, P. Kohli, C. Rother (Eds.),
Markov Random Fields for Vision and Image Processing, Massachusetts Institute
of Technology Press, 2011.
date_created: 2018-12-11T12:00:21Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:00:43Z
day: '01'
editor:
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Pushmeet
full_name: Kohli, Pushmeet
last_name: Kohli
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
extern: 1
month: '01'
publication: Markov Random Fields for Vision and Image Processing
publication_status: published
publisher: Massachusetts Institute of Technology Press
publist_id: '3814'
quality_controlled: 0
status: public
title: Analyzing Convex Relaxations for MAP Estimation
type: book_chapter
year: '2011'
...
---
_id: '2924'
author:
- first_name: Antonio
full_name: Criminisi, Antonio
last_name: Criminisi
- first_name: Geoffrey
full_name: Cross, Geoffrey
last_name: Cross
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: 'Criminisi A, Cross G, Blake A, Kolmogorov V. Bilayer Segmentation of Video.
In: Blake A, Kohli P, Rother C, eds. Markov Random Fields for Vision and Image
Processing. Massachusetts Institute of Technology Press; 2011.'
apa: Criminisi, A., Cross, G., Blake, A., & Kolmogorov, V. (2011). Bilayer Segmentation
of Video. In A. Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields
for Vision and Image Processing. Massachusetts Institute of Technology Press.
chicago: Criminisi, Antonio, Geoffrey Cross, Andrew Blake, and Vladimir Kolmogorov.
“Bilayer Segmentation of Video.” In Markov Random Fields for Vision and Image
Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten Rother. Massachusetts
Institute of Technology Press, 2011.
ieee: A. Criminisi, G. Cross, A. Blake, and V. Kolmogorov, “Bilayer Segmentation
of Video,” in Markov Random Fields for Vision and Image Processing, A.
Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology Press,
2011.
ista: 'Criminisi A, Cross G, Blake A, Kolmogorov V. 2011.Bilayer Segmentation of
Video. In: Markov Random Fields for Vision and Image Processing. .'
mla: Criminisi, Antonio, et al. “Bilayer Segmentation of Video.” Markov Random
Fields for Vision and Image Processing, edited by Andrew Blake et al., Massachusetts
Institute of Technology Press, 2011.
short: A. Criminisi, G. Cross, A. Blake, V. Kolmogorov, in:, A. Blake, P. Kohli,
C. Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts
Institute of Technology Press, 2011.
date_created: 2018-12-11T12:00:22Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:00:43Z
day: '01'
editor:
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Pushmeet
full_name: Kohli, Pushmeet
last_name: Kohli
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
extern: 1
month: '01'
publication: Markov Random Fields for Vision and Image Processing
publication_status: published
publisher: Massachusetts Institute of Technology Press
publist_id: '3813'
quality_controlled: 0
status: public
title: Bilayer Segmentation of Video
type: book_chapter
year: '2011'
...
---
_id: '2925'
author:
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Yuri
full_name: Boykov, Yuri
last_name: Boykov
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
citation:
ama: 'Rother C, Kolmogorov V, Boykov Y, Blake A. Interactive Foreground Extraction
using graph cut. In: Blake A, Kohli P, Rother C, eds. Markov Random Fields
for Vision and Image Processing. Massachusetts Institute of Technology Press;
2011.'
apa: Rother, C., Kolmogorov, V., Boykov, Y., & Blake, A. (2011). Interactive
Foreground Extraction using graph cut. In A. Blake, P. Kohli, & C. Rother
(Eds.), Markov Random Fields for Vision and Image Processing. Massachusetts
Institute of Technology Press.
chicago: Rother, Carsten, Vladimir Kolmogorov, Yuri Boykov, and Andrew Blake. “Interactive
Foreground Extraction Using Graph Cut.” In Markov Random Fields for Vision
and Image Processing, edited by Andrew Blake, Pushmeet Kohli, and Carsten
Rother. Massachusetts Institute of Technology Press, 2011.
ieee: C. Rother, V. Kolmogorov, Y. Boykov, and A. Blake, “Interactive Foreground
Extraction using graph cut,” in Markov Random Fields for Vision and Image Processing,
A. Blake, P. Kohli, and C. Rother, Eds. Massachusetts Institute of Technology
Press, 2011.
ista: 'Rother C, Kolmogorov V, Boykov Y, Blake A. 2011.Interactive Foreground Extraction
using graph cut. In: Markov Random Fields for Vision and Image Processing. .'
mla: Rother, Carsten, et al. “Interactive Foreground Extraction Using Graph Cut.”
Markov Random Fields for Vision and Image Processing, edited by Andrew
Blake et al., Massachusetts Institute of Technology Press, 2011.
short: C. Rother, V. Kolmogorov, Y. Boykov, A. Blake, in:, A. Blake, P. Kohli, C.
Rother (Eds.), Markov Random Fields for Vision and Image Processing, Massachusetts
Institute of Technology Press, 2011.
date_created: 2018-12-11T12:00:22Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:00:44Z
day: '01'
editor:
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Pushmeet
full_name: Kohli, Pushmeet
last_name: Kohli
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
extern: 1
month: '01'
publication: Markov Random Fields for Vision and Image Processing
publication_status: published
publisher: Massachusetts Institute of Technology Press
publist_id: '3812'
quality_controlled: 0
status: public
title: Interactive Foreground Extraction using graph cut
type: book_chapter
year: '2011'
...
---
_id: '2935'
author:
- first_name: Yuri
full_name: Boykov, Yuri
last_name: Boykov
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: 'Boykov Y, Kolmogorov V. Basic graph cut algorithms. In: Blake A, Kohli P,
Rother C, eds. Markov Random Fields for Vision and Image Processing. Massachusetts
Institute of Technology Press; 2011:31-50.'
apa: Boykov, Y., & Kolmogorov, V. (2011). Basic graph cut algorithms. In A.
Blake, P. Kohli, & C. Rother (Eds.), Markov Random Fields for Vision and
Image Processing (pp. 31–50). Massachusetts Institute of Technology Press.
chicago: Boykov, Yuri, and Vladimir Kolmogorov. “Basic Graph Cut Algorithms.” In
Markov Random Fields for Vision and Image Processing, edited by Andrew
Blake, Pushmeet Kohli, and Carsten Rother, 31–50. Massachusetts Institute of Technology
Press, 2011.
ieee: Y. Boykov and V. Kolmogorov, “Basic graph cut algorithms,” in Markov Random
Fields for Vision and Image Processing, A. Blake, P. Kohli, and C. Rother,
Eds. Massachusetts Institute of Technology Press, 2011, pp. 31–50.
ista: 'Boykov Y, Kolmogorov V. 2011.Basic graph cut algorithms. In: Markov Random
Fields for Vision and Image Processing. , 31–50.'
mla: Boykov, Yuri, and Vladimir Kolmogorov. “Basic Graph Cut Algorithms.” Markov
Random Fields for Vision and Image Processing, edited by Andrew Blake et al.,
Massachusetts Institute of Technology Press, 2011, pp. 31–50.
short: Y. Boykov, V. Kolmogorov, in:, A. Blake, P. Kohli, C. Rother (Eds.), Markov
Random Fields for Vision and Image Processing, Massachusetts Institute of Technology
Press, 2011, pp. 31–50.
date_created: 2018-12-11T12:00:26Z
date_published: 2011-07-22T00:00:00Z
date_updated: 2021-01-12T07:39:53Z
day: '22'
editor:
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Pushmeet
full_name: Kohli, Pushmeet
last_name: Kohli
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
extern: 1
month: '07'
page: 31 - 50
publication: Markov Random Fields for Vision and Image Processing
publication_status: published
publisher: Massachusetts Institute of Technology Press
publist_id: '3801'
quality_controlled: 0
status: public
title: Basic graph cut algorithms
type: book_chapter
year: '2011'
...
---
_id: '2960'
abstract:
- lang: eng
text: Traditional statistical methods for the confidentiality protection for statistical
databases do not scale well to deal with GWAS (genome-wide association studies)
databases and external information on them. The more recent concept of differential
privacy, introduced by the cryptographic community, is an approach which provides
a rigorous definition of privacy with meaningful privacy guarantees in the presence
of arbitrary external information. Building on such notions, we propose new methods
to release aggregate GWAS data without compromising an individual's privacy. We
present methods for releasing differentially private minor allele frequencies,
chi-square statistics and p-values. We compare these approaches on simulated data
and on a GWAS study of canine hair length involving 685 dogs. We also propose
a privacy-preserving method for finding genome-wide associations based on a differentially
private approach to penalized logistic regression.
author:
- first_name: Stephen
full_name: Fienberg, Stephen E
last_name: Fienberg
- first_name: Aleksandra
full_name: Slavkovic, Aleksandra
last_name: Slavkovic
- first_name: Caroline
full_name: Caroline Uhler
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
citation:
ama: 'Fienberg S, Slavkovic A, Uhler C. Privacy Preserving GWAS Data Sharing. In:
IEEE; 2011. doi:10.1109/ICDMW.2011.140'
apa: Fienberg, S., Slavkovic, A., & Uhler, C. (2011). Privacy Preserving GWAS
Data Sharing. Presented at the Proceedings of the 11th IEEE International Conference
on Data Mining, IEEE. https://doi.org/10.1109/ICDMW.2011.140
chicago: Fienberg, Stephen, Aleksandra Slavkovic, and Caroline Uhler. “Privacy Preserving
GWAS Data Sharing.” IEEE, 2011. https://doi.org/10.1109/ICDMW.2011.140.
ieee: S. Fienberg, A. Slavkovic, and C. Uhler, “Privacy Preserving GWAS Data Sharing,”
presented at the Proceedings of the 11th IEEE International Conference on Data
Mining, 2011.
ista: Fienberg S, Slavkovic A, Uhler C. 2011. Privacy Preserving GWAS Data Sharing.
Proceedings of the 11th IEEE International Conference on Data Mining.
mla: Fienberg, Stephen, et al. Privacy Preserving GWAS Data Sharing. IEEE,
2011, doi:10.1109/ICDMW.2011.140.
short: S. Fienberg, A. Slavkovic, C. Uhler, in:, IEEE, 2011.
conference:
name: Proceedings of the 11th IEEE International Conference on Data Mining
date_created: 2018-12-11T12:00:34Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:40:05Z
day: '01'
doi: 10.1109/ICDMW.2011.140
extern: 1
month: '01'
publication_status: published
publisher: IEEE
publist_id: '3766'
quality_controlled: 0
status: public
title: Privacy Preserving GWAS Data Sharing
type: conference
year: '2011'
...
---
_id: '2961'
abstract:
- lang: eng
text: |-
Rapid research progress in genotyping techniques have allowed large genome-wide association studies. Existing methods often focus on determining associations between single loci and a specic phenotype. However, a particular phenotype is usually the result of complex relationships between multiple loci and the environment. In this paper, we describe a two-stage method for detecting epistasis by combining the traditionally used single-locus search with a search for multiway interactions. Our method is based on an extended version of Fisher's exact test. To
perform this test, a Markov chain is constructed on the space of multidimensional contingency tables using the elements of a Markov basis as moves. We test our method on simulated data and compare it to a two-stage logistic regression method and to a fully Bayesian method, showing that we are able to detect the interacting loci when other methods fail to do so. Finally, we apply our method to a genome-wide data set consisting of 685 dogs and identify epistasis associated with canine hair length for four pairs of single nucleotide polymorphisms (SNPs).
acknowledgement: Anna-Sapfo Malaspinas is supported by a Janggen-Poehn Fellowship.
Caroline Uhler is supported by an International Fulbright Science and Technology
Fellowship.
author:
- first_name: Anna
full_name: 'Malaspinas, Anna-Sapfo '
last_name: Malaspinas
- first_name: Caroline
full_name: Caroline Uhler
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
citation:
ama: Malaspinas A, Uhler C. Detecting epistasis via Markov bases. Journal of
Algebraic Statistics. 2011;2(1):36-53. doi:http://dx.doi.org/10.18409/jas.v2i1.27
apa: Malaspinas, A., & Uhler, C. (2011). Detecting epistasis via Markov bases.
Journal of Algebraic Statistics. Public Knowledge Project. http://dx.doi.org/10.18409/jas.v2i1.27
chicago: Malaspinas, Anna, and Caroline Uhler. “Detecting Epistasis via Markov Bases.”
Journal of Algebraic Statistics. Public Knowledge Project, 2011. http://dx.doi.org/10.18409/jas.v2i1.27.
ieee: A. Malaspinas and C. Uhler, “Detecting epistasis via Markov bases,” Journal
of Algebraic Statistics, vol. 2, no. 1. Public Knowledge Project, pp. 36–53,
2011.
ista: Malaspinas A, Uhler C. 2011. Detecting epistasis via Markov bases. Journal
of Algebraic Statistics. 2(1), 36–53.
mla: Malaspinas, Anna, and Caroline Uhler. “Detecting Epistasis via Markov Bases.”
Journal of Algebraic Statistics, vol. 2, no. 1, Public Knowledge Project,
2011, pp. 36–53, doi:http://dx.doi.org/10.18409/jas.v2i1.27.
short: A. Malaspinas, C. Uhler, Journal of Algebraic Statistics 2 (2011) 36–53.
date_created: 2018-12-11T12:00:34Z
date_published: 2011-01-01T00:00:00Z
date_updated: 2021-01-12T07:40:05Z
day: '01'
doi: http://dx.doi.org/10.18409/jas.v2i1.27
extern: 1
intvolume: ' 2'
issue: '1'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1006.4929
month: '01'
oa: 1
page: 36 - 53
publication: Journal of Algebraic Statistics
publication_status: published
publisher: Public Knowledge Project
publist_id: '3764'
quality_controlled: 0
status: public
title: Detecting epistasis via Markov bases
type: journal_article
volume: 2
year: '2011'
...