---
OA_place: repository
OA_type: green
_id: '3416'
abstract:
- lang: eng
text: In the last decade atomic force microscopy has been used to measure the mechanical
stability of single proteins. These force spectroscopy experiments have shown
that many water-soluble and membrane proteins unfold via one or more intermediates.
Recently, Li and co-workers found a linear correlation between the unfolding force
of the native state and the intermediate in fibronectin, which they suggested
indicated the presence of a molecular memory or multiple unfolding pathways (1).
Here, we apply two independent methods in combination with Monte Carlo simulations
to analyze the unfolding of α-helices E and D of bacteriorhodopsin (BR). We show
that correlation analysis of unfolding forces is very sensitive to errors in force
calibration of the instrument. In contrast, a comparison of relative forces provides
a robust measure for the stability of unfolding intermediates. The proposed approach
detects three energetically different states of α-helices E and D in trimeric
BR. These states are not observed for monomeric BR and indicate that substantial
information is hidden in forced unfolding experiments of single proteins.
article_processing_charge: No
article_type: original
author:
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
- first_name: Tanuj
full_name: Sapra, Tanuj
last_name: Sapra
- first_name: Daniel
full_name: Mueller, Daniel
last_name: Mueller
citation:
ama: Janovjak HL, Sapra T, Mueller D. Complex stability of single proteins explored
by forced unfolding experiments. Biophysical Journal. 2005;88(5):37-39.
doi:10.1529/biophysj.105.059774
apa: Janovjak, H. L., Sapra, T., & Mueller, D. (2005). Complex stability of
single proteins explored by forced unfolding experiments. Biophysical Journal.
Biophysical Society. https://doi.org/10.1529/biophysj.105.059774
chicago: Janovjak, Harald L, Tanuj Sapra, and Daniel Mueller. “Complex Stability
of Single Proteins Explored by Forced Unfolding Experiments.” Biophysical Journal.
Biophysical Society, 2005. https://doi.org/10.1529/biophysj.105.059774.
ieee: H. L. Janovjak, T. Sapra, and D. Mueller, “Complex stability of single proteins
explored by forced unfolding experiments,” Biophysical Journal, vol. 88,
no. 5. Biophysical Society, pp. 37–39, 2005.
ista: Janovjak HL, Sapra T, Mueller D. 2005. Complex stability of single proteins
explored by forced unfolding experiments. Biophysical Journal. 88(5), 37–39.
mla: Janovjak, Harald L., et al. “Complex Stability of Single Proteins Explored
by Forced Unfolding Experiments.” Biophysical Journal, vol. 88, no. 5,
Biophysical Society, 2005, pp. 37–39, doi:10.1529/biophysj.105.059774.
short: H.L. Janovjak, T. Sapra, D. Mueller, Biophysical Journal 88 (2005) 37–39.
das_tickbox: '1'
date_created: 2018-12-11T12:03:13Z
date_published: 2005-05-01T00:00:00Z
date_updated: 2026-07-02T07:29:18Z
day: '01'
doi: 10.1529/biophysj.105.059774
extern: '1'
external_id:
pmid:
- '15792967'
fulldoi: https://doi.org/10.1529/biophysj.105.059774
intvolume: ' 88'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1305525/
month: '05'
oa: 1
oa_version: None
page: 37 - 39
pmid: 1
publication: Biophysical Journal
publication_identifier:
eissn:
- 1542-0086
issn:
- 0006-3495
publication_status: published
publisher: Biophysical Society
publist_id: '2985'
status: public
title: Complex stability of single proteins explored by forced unfolding experiments
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 88
year: '2005'
...
---
OA_type: closed access
_id: '3212'
abstract:
- lang: eng
text: "The Full-Domain Hash (FDH) signature scheme [3] forms one the most basic
usages of random oracles. It works with a family F of trapdoor permutations (TDP),
where the signature of m is computed as f−1(h(m)) (here f ∈R F and h is modelled
as a random oracle). It is known to be existentially unforgeable for any TDP family
F [3], although a much tighter security reduction is known for a restrictive class
of TDP’s [10,14] — namely, those induced by a family of claw-free permutations
(CFP) pairs. The latter result was shown [11] to match the best possible “black-box”
security reduction in the random oracle model, irrespective of the TDP family
F (e.g., RSA) one might use.\r\nIn this work we investigate the question if it
is possible to instantiate the random oracle h with a “real” family of hash functions
H such that the corresponding schemes can be proven secure in the standard model,
under some natural assumption on the family F. Our main result rules out the existence
of such instantiations for any assumption on F which (1) is satisfied by a family
of random permutations; and (2) does not allow the attacker to invert f ∈R F on
an a-priori unbounded number of points. Moreover, this holds even if the choice
of H can arbitrarily depend on f. As an immediate corollary, we rule out instantiating
FDH based on general claw-free permutations, which shows that in order to prove
the security of FDH in the standard model one must utilize significantly more
structure on F than what is sufficient for the best proof of security in the random
oracle model."
acknowledgement: Supported by NSF CAREER Award CCR-0133806 and TC Grant No.CCR-0311095.
Supported by the Swiss National Science Foundation, project No. 200020-103847/1
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Yevgeniy
full_name: Dodis, Yevgeniy
last_name: Dodis
- first_name: Roberto
full_name: Oliveira, Roberto
last_name: Oliveira
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Dodis Y, Oliveira R, Pietrzak KZ. On the generic insecurity of the full domain
hash. In: 25th Annual International Cryptology Conference. Vol 3621. Springer
Nature; 2005:449-466. doi:10.1007/11535218_27'
apa: 'Dodis, Y., Oliveira, R., & Pietrzak, K. Z. (2005). On the generic insecurity
of the full domain hash. In 25th Annual International Cryptology Conference
(Vol. 3621, pp. 449–466). Santa Barbara, CA, United States: Springer Nature.
https://doi.org/10.1007/11535218_27'
chicago: Dodis, Yevgeniy, Roberto Oliveira, and Krzysztof Z Pietrzak. “On the Generic
Insecurity of the Full Domain Hash.” In 25th Annual International Cryptology
Conference, 3621:449–66. Springer Nature, 2005. https://doi.org/10.1007/11535218_27.
ieee: Y. Dodis, R. Oliveira, and K. Z. Pietrzak, “On the generic insecurity of the
full domain hash,” in 25th Annual International Cryptology Conference, Santa
Barbara, CA, United States, 2005, vol. 3621, pp. 449–466.
ista: 'Dodis Y, Oliveira R, Pietrzak KZ. 2005. On the generic insecurity of the
full domain hash. 25th Annual International Cryptology Conference. CRYPTO: International
Cryptology Conference, LNCS, vol. 3621, 449–466.'
mla: Dodis, Yevgeniy, et al. “On the Generic Insecurity of the Full Domain Hash.”
25th Annual International Cryptology Conference, vol. 3621, Springer Nature,
2005, pp. 449–66, doi:10.1007/11535218_27.
short: Y. Dodis, R. Oliveira, K.Z. Pietrzak, in:, 25th Annual International Cryptology
Conference, Springer Nature, 2005, pp. 449–466.
conference:
end_date: 2005-08-18
location: ' Santa Barbara, CA, United States'
name: 'CRYPTO: International Cryptology Conference'
start_date: 2005-08-14
das_tickbox: '1'
date_created: 2018-12-11T12:02:03Z
date_published: 2005-09-12T00:00:00Z
date_updated: 2026-07-02T08:05:18Z
day: '12'
doi: 10.1007/11535218_27
extern: '1'
fulldoi: https://doi.org/10.1007/11535218_27
intvolume: ' 3621'
language:
- iso: eng
month: '09'
oa_version: None
page: 449 - 466
publication: 25th Annual International Cryptology Conference
publication_identifier:
eisbn:
- '9783540318705'
isbn:
- '9783540281146'
publication_status: published
publisher: Springer Nature
publist_id: '3470'
status: public
title: On the generic insecurity of the full domain hash
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 3621
year: '2005'
...
---
OA_type: closed access
_id: '3183'
abstract:
- lang: eng
text: This paper describes two algorithms capable of real-time segmentation of foreground
from background layers in stereo video sequences. Automatic separation of layers
from colour/contrast or from stereo alone is known to be error-prone. Here, colour,
contrast and stereo matching information are fused to infer layers accurately
and efficiently. The first algorithm, Layered Dynamic Programming (LDP), solves
stereo in an extended 6-state space that represents both foreground/background
layers and occluded regions. The stereo-match likelihood is then fused with a
contrast-sensitive colour model that is learned on the fly, and stereo disparities
are obtained by dynamic programming. The second algorithm, Layered Graph Cut (LGC),
does not directly solve stereo. Instead the stereo match likelihood is marginalised
over foreground and background hypotheses, and fused with a contrast-sensitive
colour model like the one used in LDP. Segmentation is solved efficiently by ternary
graph cut. Both algorithms are evaluated with respect to ground truth data and
found to have similar perfomance, substantially better than stereo or colour/contrast
alone. However, their characteristics with respect to computational efficiency
are rather different. The algorithms are demonstrated in the application of background
substitution and shown to give good quality composite video output.
article_processing_charge: No
author:
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Antonio
full_name: Criminisi, Antonio
last_name: Criminisi
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Geoffrey
full_name: Cross, Geoffrey
last_name: Cross
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
citation:
ama: 'Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. Bi-layer segmentation
of binocular stereo video. In: Proceedings of the 2005 IEEE Computer Society
Conference on Computer Vision and Pattern Recognition Volume 2 . Vol 2. IEEE;
2005:407-414. doi:10.1109/CVPR.2005.91'
apa: 'Kolmogorov, V., Criminisi, A., Blake, A., Cross, G., & Rother, C. (2005).
Bi-layer segmentation of binocular stereo video. In Proceedings of the 2005
IEEE Computer Society Conference on Computer Vision and Pattern Recognition Volume
2 (Vol. 2, pp. 407–414). San Diego, CA, United States: IEEE. https://doi.org/10.1109/CVPR.2005.91'
chicago: Kolmogorov, Vladimir, Antonio Criminisi, Andrew Blake, Geoffrey Cross,
and Carsten Rother. “Bi-Layer Segmentation of Binocular Stereo Video.” In Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition
Volume 2 , 2:407–14. IEEE, 2005. https://doi.org/10.1109/CVPR.2005.91.
ieee: V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, and C. Rother, “Bi-layer
segmentation of binocular stereo video,” in Proceedings of the 2005 IEEE Computer
Society Conference on Computer Vision and Pattern Recognition Volume 2 , San
Diego, CA, United States, 2005, vol. 2, pp. 407–414.
ista: 'Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. 2005. Bi-layer segmentation
of binocular stereo video. Proceedings of the 2005 IEEE Computer Society Conference
on Computer Vision and Pattern Recognition Volume 2 . CVPR: Computer Vision and
Pattern Recognition vol. 2, 407–414.'
mla: Kolmogorov, Vladimir, et al. “Bi-Layer Segmentation of Binocular Stereo Video.”
Proceedings of the 2005 IEEE Computer Society Conference on Computer Vision
and Pattern Recognition Volume 2 , vol. 2, IEEE, 2005, pp. 407–14, doi:10.1109/CVPR.2005.91.
short: V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, C. Rother, in:, Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition
Volume 2 , IEEE, 2005, pp. 407–414.
conference:
end_date: 2005-06-25
location: San Diego, CA, United States
name: 'CVPR: Computer Vision and Pattern Recognition'
start_date: 2005-06-20
das_tickbox: '1'
date_created: 2018-12-11T12:01:52Z
date_published: 2005-07-25T00:00:00Z
date_updated: 2026-07-02T09:00:36Z
day: '25'
doi: 10.1109/CVPR.2005.91
extern: '1'
fulldoi: https://doi.org/10.1109/CVPR.2005.91
intvolume: ' 2'
language:
- iso: eng
main_file_link:
- url: http://research.microsoft.com/pubs/67281/criminisi_cvpr2005.pdf
month: '07'
oa_version: None
page: 407 - 414
publication: 'Proceedings of the 2005 IEEE Computer Society Conference on Computer
Vision and Pattern Recognition Volume 2 '
publication_identifier:
isbn:
- '0769523722'
issn:
- 1063-6919
publication_status: published
publisher: IEEE
publist_id: '3502'
status: public
title: Bi-layer segmentation of binocular stereo video
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 2
year: '2005'
...
---
OA_type: closed access
_id: '3182'
abstract:
- lang: eng
text: In the work of the authors (2003), we showed that graph cuts can find hypersurfaces
of globally minimal length (or area) under any Riemannian metric. Here we show
that graph cuts on directed regular grids can approximate a significantly more
general class of continuous non-symmetric metrics. Using submodularity condition
(Boros and Hammer, 2002 and Kolmogorov and Zabih, 2004), we obtain a tight characterization
of graph-representable metrics. Such "submodular" metrics have an elegant
geometric interpretation via hypersurface functionals combining length/area and
flux. Practically speaking, we attend 'geo-cuts' algorithm to a wider class of
geometrically motivated hypersurface functionals and show how to globally optimize
any combination of length/area and flux of a given vector field. The concept of
flux was recently introduced into computer vision by Vasilevskiy and Siddiqi (2002)
but it was mainly studied within variational framework so far. We are first to
show that flux can be integrated into graph cuts as well. Combining geometric
concepts of flux and length/area within the global optimization framework of graph
cuts allows principled discrete segmentation models and advances the slate of
the art for the graph cuts methods in vision. In particular we address the "shrinking"
problem of graph cuts, improve segmentation of long thin objects, and introduce
useful shape constraints.
article_processing_charge: No
author:
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Yuri
full_name: Boykov, Yuri
last_name: Boykov
citation:
ama: 'Kolmogorov V, Boykov Y. What metrics can be approximated by geo cuts or global
optimization of length area and flux. In: Proceedings of the Tenth IEEE International
Conference on Computer Vision Volume 1. Vol 1. IEEE; 2005:564-571. doi:10.1109/ICCV.2005.252'
apa: 'Kolmogorov, V., & Boykov, Y. (2005). What metrics can be approximated
by geo cuts or global optimization of length area and flux. In Proceedings
of the Tenth IEEE International Conference on Computer Vision Volume 1 (Vol.
1, pp. 564–571). NW Washington, DC, United States: IEEE. https://doi.org/10.1109/ICCV.2005.252'
chicago: Kolmogorov, Vladimir, and Yuri Boykov. “What Metrics Can Be Approximated
by Geo Cuts or Global Optimization of Length Area and Flux.” In Proceedings
of the Tenth IEEE International Conference on Computer Vision Volume 1, 1:564–71.
IEEE, 2005. https://doi.org/10.1109/ICCV.2005.252.
ieee: V. Kolmogorov and Y. Boykov, “What metrics can be approximated by geo cuts
or global optimization of length area and flux,” in Proceedings of the Tenth
IEEE International Conference on Computer Vision Volume 1, NW Washington,
DC, United States, 2005, vol. 1, pp. 564–571.
ista: 'Kolmogorov V, Boykov Y. 2005. What metrics can be approximated by geo cuts
or global optimization of length area and flux. Proceedings of the Tenth IEEE
International Conference on Computer Vision Volume 1. ICCV: International Conference
on Computer Vision vol. 1, 564–571.'
mla: Kolmogorov, Vladimir, and Yuri Boykov. “What Metrics Can Be Approximated by
Geo Cuts or Global Optimization of Length Area and Flux.” Proceedings of the
Tenth IEEE International Conference on Computer Vision Volume 1, vol. 1, IEEE,
2005, pp. 564–71, doi:10.1109/ICCV.2005.252.
short: V. Kolmogorov, Y. Boykov, in:, Proceedings of the Tenth IEEE International
Conference on Computer Vision Volume 1, IEEE, 2005, pp. 564–571.
conference:
end_date: 2005-10-20
location: NW Washington, DC, United States
name: 'ICCV: International Conference on Computer Vision'
start_date: 2005-10-17
das_tickbox: '1'
date_created: 2018-12-11T12:01:52Z
date_published: 2005-12-05T00:00:00Z
date_updated: 2026-07-02T08:53:55Z
day: '05'
doi: 10.1109/ICCV.2005.252
extern: '1'
fulldoi: https://doi.org/10.1109/ICCV.2005.252
intvolume: ' 1'
language:
- iso: eng
month: '12'
oa_version: None
page: 564 - 571
publication: Proceedings of the Tenth IEEE International Conference on Computer Vision
Volume 1
publication_identifier:
eissn:
- 2380-7504
issn:
- 1550-5499
publication_status: published
publisher: IEEE
publist_id: '3501'
status: public
title: What metrics can be approximated by geo cuts or global optimization of length
area and flux
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 1
year: '2005'
...
---
OA_type: closed access
_id: '3175'
abstract:
- lang: eng
text: This paper addresses the novel problem of automatically synthesizing an output
image from a large collection of different input images. The synthesized image,
called a digital tapestry, can be viewed as a visual summary or a virtual 'thumbnail'
of all the images in the input collection. The problem of creating the tapestry
is cast as a multi-class labeling problem such that each region in the tapestry
is constructed from input image blocks that are salient and such that neighboring
blocks satisfy spatial compatibility. This is formulated using a Markov Random
Field and optimized via the graph cut based expansion move algorithm. The standard
expansion move algorithm can only handle energies with metric terms, while our
energy contains non-metric (soft and hard) constraints. Therefore we propose two
novel contributions. First, we extend the expansion move algorithm for energy
functions with non-metric hard constraints. Secondly, we modify it for functions
with "almost" metric soft terms, and show that it gives good results
in practice. The proposed framework was tested on several consumer photograph
collections, and the results are presented.
article_processing_charge: No
author:
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
- first_name: Sanjiv
full_name: Kumar, Sanjiv
last_name: Kumar
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
citation:
ama: 'Rother C, Kumar S, Kolmogorov V, Blake A. Digital tapestry. In: Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition
Volume 1. Vol 1. IEEE; 2005:589-596. doi:10.1109/CVPR.2005.130'
apa: 'Rother, C., Kumar, S., Kolmogorov, V., & Blake, A. (2005). Digital tapestry.
In Proceedings of the 2005 IEEE Computer Society Conference on Computer Vision
and Pattern Recognition Volume 1 (Vol. 1, pp. 589–596). San Diego, CA, United
States: IEEE. https://doi.org/10.1109/CVPR.2005.130'
chicago: Rother, Carsten, Sanjiv Kumar, Vladimir Kolmogorov, and Andrew Blake. “Digital
Tapestry.” In Proceedings of the 2005 IEEE Computer Society Conference on Computer
Vision and Pattern Recognition Volume 1, 1:589–96. IEEE, 2005. https://doi.org/10.1109/CVPR.2005.130.
ieee: C. Rother, S. Kumar, V. Kolmogorov, and A. Blake, “Digital tapestry,” in Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition
Volume 1, San Diego, CA, United States, 2005, vol. 1, pp. 589–596.
ista: 'Rother C, Kumar S, Kolmogorov V, Blake A. 2005. Digital tapestry. Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition
Volume 1. CVPR: Computer Vision and Pattern Recognition vol. 1, 589–596.'
mla: Rother, Carsten, et al. “Digital Tapestry.” Proceedings of the 2005 IEEE
Computer Society Conference on Computer Vision and Pattern Recognition Volume
1, vol. 1, IEEE, 2005, pp. 589–96, doi:10.1109/CVPR.2005.130.
short: C. Rother, S. Kumar, V. Kolmogorov, A. Blake, in:, Proceedings of the 2005
IEEE Computer Society Conference on Computer Vision and Pattern Recognition Volume
1, IEEE, 2005, pp. 589–596.
conference:
end_date: 2005-06-25
location: San Diego, CA, United States
name: 'CVPR: Computer Vision and Pattern Recognition'
start_date: 2005-06-20
das_tickbox: '1'
date_created: 2018-12-11T12:01:50Z
date_published: 2005-07-25T00:00:00Z
date_updated: 2026-07-02T09:06:43Z
day: '25'
doi: 10.1109/CVPR.2005.130
extern: '1'
fulldoi: https://doi.org/10.1109/CVPR.2005.130
intvolume: ' 1'
language:
- iso: eng
main_file_link:
- url: http://research.microsoft.com/en-us/um/people/ablake/papers/ablake/rother_cvpr05.pdf
month: '07'
oa_version: None
page: 589 - 596
publication: Proceedings of the 2005 IEEE Computer Society Conference on Computer
Vision and Pattern Recognition Volume 1
publication_identifier:
isbn:
- '0769523722'
issn:
- 1063-6919
publication_status: published
publisher: IEEE
publist_id: '3503'
status: public
title: Digital tapestry
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 1
year: '2005'
...
---
OA_place: repository
OA_type: green
_id: '3181'
abstract:
- lang: eng
text: Tree-reweighted max-product (TRW) message passing [9] is a modified form of
the ordinary max-product algorithm for attempting to find minimal energy configurations
in Markov random field with cycles. For a TRW fixed point satisfying the strong
tree agreement condition, the algorithm outputs a configuration that is provably
optimal. In this paper, we focus on the case of binary variables with pairwise
couplings, and establish stronger properties of TRW fixed points that satisfy
only the milder condition of weak tree agreement (WTA). First, we demonstrate
how it is possible to identify part of the optimal solution - i.e., a provably
optimal solution for a subset of nodes - without knowing a complete solution.
Second, we show that for submodular functions, a WTA fixed point always yields
a globally optimal solution. We establish that for binary variables, any WTA fixed
point always achieves the global maximum of the linear programming relaxation
underlying the TRW method.
article_processing_charge: No
arxiv: 1
author:
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Martin
full_name: Wainwright, Martin
last_name: Wainwright
citation:
ama: 'Kolmogorov V, Wainwright M. On the optimality of tree reweighted max product
message passing. In: Proceedings of the Twenty-First Conference on Uncertainty
in Artificial Intelligence. AUAI Press; 2005:316-323.'
apa: 'Kolmogorov, V., & Wainwright, M. (2005). On the optimality of tree reweighted
max product message passing. In Proceedings of the Twenty-First Conference
on Uncertainty in Artificial Intelligence (pp. 316–323). Edinburgh, Scotland:
AUAI Press.'
chicago: Kolmogorov, Vladimir, and Martin Wainwright. “On the Optimality of Tree
Reweighted Max Product Message Passing.” In Proceedings of the Twenty-First
Conference on Uncertainty in Artificial Intelligence, 316–23. AUAI Press,
2005.
ieee: V. Kolmogorov and M. Wainwright, “On the optimality of tree reweighted max
product message passing,” in Proceedings of the Twenty-First Conference on
Uncertainty in Artificial Intelligence, Edinburgh, Scotland, 2005, pp. 316–323.
ista: 'Kolmogorov V, Wainwright M. 2005. On the optimality of tree reweighted max
product message passing. Proceedings of the Twenty-First Conference on Uncertainty
in Artificial Intelligence. UAI: Uncertainty in Artificial Intelligence, 316–323.'
mla: Kolmogorov, Vladimir, and Martin Wainwright. “On the Optimality of Tree Reweighted
Max Product Message Passing.” Proceedings of the Twenty-First Conference on
Uncertainty in Artificial Intelligence, AUAI Press, 2005, pp. 316–23.
short: V. Kolmogorov, M. Wainwright, in:, Proceedings of the Twenty-First Conference
on Uncertainty in Artificial Intelligence, AUAI Press, 2005, pp. 316–323.
conference:
end_date: 2005-07-29
location: Edinburgh, Scotland
name: 'UAI: Uncertainty in Artificial Intelligence'
start_date: 2005-07-26
das_tickbox: '1'
date_created: 2018-12-11T12:01:51Z
date_published: 2005-07-01T00:00:00Z
date_updated: 2026-07-02T08:19:20Z
day: '01'
extern: '1'
external_id:
arxiv:
- '1207.1395'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.1207.1395'
month: '07'
oa: 1
oa_version: Preprint
page: 316 - 323
publication: Proceedings of the Twenty-First Conference on Uncertainty in Artificial
Intelligence
publication_identifier:
isbn:
- '9780974903910'
publication_status: published
publisher: AUAI Press
publist_id: '3500'
status: public
title: On the optimality of tree reweighted max product message passing
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2005'
...
---
OA_place: publisher
OA_type: gold
_id: '3211'
abstract:
- lang: eng
text: We present an improved bound on the advantage of any q-query adversary at
distinguishing between the CBC MAC over a random n-bit permutation and a random
function outputting n bits. The result assumes that no message queried is a prefix
of any other, as is the case when all messages to be MACed have the same length.
We go on to give an improved analysis of the encrypted CBC MAC, where there is
no restriction on queried messages. Letting m be the block length of the longest
query, our bounds are about mq2/2n for the basic CBC MAC and mo(1)q2/2n for the
encrypted CBC MAC, improving prior bounds of m2q2/2n. The new bounds translate
into improved guarantees on the probability of forging these MACs.
acknowledgement: Pietrzak was supported by the Swiss National Science Foundation,
project No. 200020-103847/1.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Mihir
full_name: Bellare, Mihir
last_name: Bellare
- first_name: Krzysztof Z
full_name: Pietrzak, Krzysztof Z
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
- first_name: Phillip
full_name: Rogaway, Phillip
last_name: Rogaway
citation:
ama: 'Bellare M, Pietrzak KZ, Rogaway P. Improved security analyses for CBC MACs.
In: 25th Annual International Cryptology Conference. Vol 3621. Springer
Nature; 2005:527-545. doi:10.1007/11535218_32'
apa: 'Bellare, M., Pietrzak, K. Z., & Rogaway, P. (2005). Improved security
analyses for CBC MACs. In 25th Annual International Cryptology Conference
(Vol. 3621, pp. 527–545). Santa Barbara, CA, United States: Springer Nature. https://doi.org/10.1007/11535218_32'
chicago: Bellare, Mihir, Krzysztof Z Pietrzak, and Phillip Rogaway. “Improved Security
Analyses for CBC MACs.” In 25th Annual International Cryptology Conference,
3621:527–45. Springer Nature, 2005. https://doi.org/10.1007/11535218_32.
ieee: M. Bellare, K. Z. Pietrzak, and P. Rogaway, “Improved security analyses for
CBC MACs,” in 25th Annual International Cryptology Conference, Santa Barbara,
CA, United States, 2005, vol. 3621, pp. 527–545.
ista: 'Bellare M, Pietrzak KZ, Rogaway P. 2005. Improved security analyses for CBC
MACs. 25th Annual International Cryptology Conference. CRYPTO: International Cryptology
Conference, LNCS, vol. 3621, 527–545.'
mla: Bellare, Mihir, et al. “Improved Security Analyses for CBC MACs.” 25th Annual
International Cryptology Conference, vol. 3621, Springer Nature, 2005, pp.
527–45, doi:10.1007/11535218_32.
short: M. Bellare, K.Z. Pietrzak, P. Rogaway, in:, 25th Annual International Cryptology
Conference, Springer Nature, 2005, pp. 527–545.
conference:
end_date: 2005-08-18
location: Santa Barbara, CA, United States
name: 'CRYPTO: International Cryptology Conference'
start_date: 2005-08-14
date_created: 2018-12-11T12:02:02Z
date_published: 2005-09-12T00:00:00Z
date_updated: 2026-07-02T07:55:53Z
day: '12'
doi: 10.1007/11535218_32
extern: '1'
fulldoi: https://doi.org/10.1007/11535218_32
intvolume: ' 3621'
language:
- iso: eng
month: '09'
oa_version: None
page: 527 - 545
publication: 25th Annual International Cryptology Conference
publication_identifier:
eisbn:
- '9783540318705'
isbn:
- '9783540281146'
publication_status: published
publisher: Springer Nature
publist_id: '3469'
status: public
title: Improved security analyses for CBC MACs
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 3621
year: '2005'
...
---
OA_type: closed access
_id: '4249'
abstract:
- lang: eng
text: We examined causes of speciation in asexual populations in both sympatry and
parapatry, providing an alternative explanation for the speciation patterns reported
by Dieckmann and Doebeli (1999) and Doebeli and Dieckmann (2003). Both in sympatry
and parapatry, they find that speciation occurs relatively easily. We reveal that
in the sympatric clonal model, the equilibrium distribution is continuous and
the disruptive selection driving evolution of discrete clusters is only transient.
Hence, if discrete phenotypes are to remain stable in the sympatric sexual model,
there should be some source of nontransient disruptive selection that will drive
evolution of assortment. We analyze sexually reproducing populations using the
Bulmer’s infinitesimal model and show that cost-free assortment alone leads to
speciation and disruptive selection only arises when the optimal distribution
cannot be matched—in this example, because the phenotypic range is limited. In
addition, Doebeli and Dieckmann’s analyses assumed a high genetic variance and
a high mutation rate. Thus, these theoretical models do not support the conclusion
that sympatric speciation is a likely outcome of competition for resources. In
their parapatric model (Doebeli and Dieckmann 2003), clustering into distinct
phenotypes is driven by edge effects, rather than by frequency-dependent competition.
article_processing_charge: No
article_type: original
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. Speciation through competition: A critical review.
Evolution; International Journal of Organic Evolution. 2005;59(6):1194-1210.
doi:10.1111/j.0014-3820.2005.tb01771.x'
apa: 'Polechova, J., & Barton, N. H. (2005). Speciation through competition:
A critical review. Evolution; International Journal of Organic Evolution.
Wiley-Blackwell. https://doi.org/10.1111/j.0014-3820.2005.tb01771.x'
chicago: 'Polechova, Jitka, and Nicholas H Barton. “Speciation through Competition:
A Critical Review.” Evolution; International Journal of Organic Evolution.
Wiley-Blackwell, 2005. https://doi.org/10.1111/j.0014-3820.2005.tb01771.x.'
ieee: 'J. Polechova and N. H. Barton, “Speciation through competition: A critical
review,” Evolution; International Journal of Organic Evolution, vol. 59,
no. 6. Wiley-Blackwell, pp. 1194–1210, 2005.'
ista: 'Polechova J, Barton NH. 2005. Speciation through competition: A critical
review. Evolution; International Journal of Organic Evolution. 59(6), 1194–1210.'
mla: 'Polechova, Jitka, and Nicholas H. Barton. “Speciation through Competition:
A Critical Review.” Evolution; International Journal of Organic Evolution,
vol. 59, no. 6, Wiley-Blackwell, 2005, pp. 1194–210, doi:10.1111/j.0014-3820.2005.tb01771.x.'
short: J. Polechova, N.H. Barton, Evolution; International Journal of Organic Evolution
59 (2005) 1194–1210.
das_tickbox: '1'
date_created: 2018-12-11T12:07:50Z
date_published: 2005-06-01T00:00:00Z
date_updated: 2026-07-03T10:56:31Z
day: '01'
doi: 10.1111/j.0014-3820.2005.tb01771.x
extern: '1'
external_id:
pmid:
- '16050097'
fulldoi: https://doi.org/10.1111/j.0014-3820.2005.tb01771.x
intvolume: ' 59'
issue: '6'
language:
- iso: eng
month: '06'
oa_version: None
page: 1194 - 1210
pmid: 1
publication: Evolution; International Journal of Organic Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Wiley-Blackwell
publist_id: '1849'
status: public
title: 'Speciation through competition: A critical review'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 59
year: '2005'
...
---
OA_type: closed access
_id: '4251'
abstract:
- lang: eng
text: In finite populations subject to selection, genetic drift generates negative
linkage disequilibrium, on average, even if selection acts independently (i.e.
multiplicatively) upon all loci. Negative disequilibrium reduces the variance
in fitness and hence, by FISHER's Fundamental Theorem (1930), slows the rate of
increase in mean fitness. Modifiers that increase recombination eliminate the
negative disequilibria that impede selection and consequently increase in frequency
by 'hitch-hiking'. In addition, recombinant progeny are more fit on average than
non-recombinant progeny when there is negative linkage disequilibrium and loci
interact multiplicatively. For both these reasons, stochastic fluctuations in
linkage disequilibrium in finite populations favor the evolution of increased
rates of recombination, even in the absence of epistatic interactions among loci
and even when disequilibrium is initially absent. The method developed within
this paper quantifies the strength of selection on a modifier allele that increases
recombination due to stochastically generated linkage disequilibria. The analysis
indicates that, in a population subject to multiplicative selection, genetic associations
generated by drift do select for increased recombination, a result that is confirmed
by Monte Carlo simulations. Selection for a modifier that increases recombination
is highest when linkage among all loci is tight, when beneficial alleles rise
from low to high frequency, and when the population size is small.
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: Sarah
full_name: Otto, Sarah
last_name: Otto
citation:
ama: Barton NH, Otto S. Evolution of recombination due to random drift. Genetics.
2005;169(4):2353-2370. doi:10.1534/genetics.104.032821
apa: Barton, N. H., & Otto, S. (2005). Evolution of recombination due to random
drift. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.104.032821
chicago: Barton, Nicholas H, and Sarah Otto. “Evolution of Recombination Due to
Random Drift.” Genetics. Genetics Society of America, 2005. https://doi.org/10.1534/genetics.104.032821.
ieee: N. H. Barton and S. Otto, “Evolution of recombination due to random drift,”
Genetics, vol. 169, no. 4. Genetics Society of America, pp. 2353–2370,
2005.
ista: Barton NH, Otto S. 2005. Evolution of recombination due to random drift. Genetics.
169(4), 2353–2370.
mla: Barton, Nicholas H., and Sarah Otto. “Evolution of Recombination Due to Random
Drift.” Genetics, vol. 169, no. 4, Genetics Society of America, 2005, pp.
2353–70, doi:10.1534/genetics.104.032821.
short: N.H. Barton, S. Otto, Genetics 169 (2005) 2353–2370.
das_tickbox: '1'
date_created: 2018-12-11T12:07:51Z
date_published: 2005-03-01T00:00:00Z
date_updated: 2026-07-03T08:18:26Z
day: '01'
doi: 10.1534/genetics.104.032821
extern: '1'
external_id:
pmid:
- '15687279'
fulldoi: https://doi.org/10.1534/genetics.104.032821
intvolume: ' 169'
issue: '4'
language:
- iso: eng
month: '03'
oa_version: None
page: 2353 - 2370
pmid: 1
publication: Genetics
publication_identifier:
eissn:
- 1943-2631
issn:
- 0016-6731
publication_status: published
publisher: Genetics Society of America
publist_id: '1846'
status: public
title: Evolution of recombination due to random drift
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 169
year: '2005'
...
---
OA_place: repository
OA_type: green
_id: '4252'
abstract:
- lang: eng
text: Empirical studies of quantitative genetic variation have revealed robust patterns
that are observed both across traits and across species. However, these patterns
have no compelling explanation, and some of the observations even appear to be
mutually incompatible. We review and extend a major class of theoretical models,
‘mutation–selection models’, that have been proposed to explain quantitative genetic
variation. We also briefly review an alternative class of ‘balancing selection
models’. We consider to what extent the models are compatible with the general
observations, and argue that a key issue is understanding and modelling pleiotropy.
We discuss some
article_processing_charge: No
article_type: original
author:
- first_name: Toby
full_name: Johnson, Toby
last_name: Johnson
- 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: Johnson T, Barton NH. Theoretical models of selection and mutationon quantitative
traits. Philosophical Transactions of the Royal Society of London Series B,
Biological Sciences. 2005;360(1459):1411-1425. doi:10.1098/rstb.2005.1667
apa: Johnson, T., & Barton, N. H. (2005). Theoretical models of selection and
mutationon quantitative traits. Philosophical Transactions of the Royal Society
of London. Series B, Biological Sciences. Royal Society, The. https://doi.org/10.1098/rstb.2005.1667
chicago: Johnson, Toby, and Nicholas H Barton. “Theoretical Models of Selection
and Mutationon Quantitative Traits.” Philosophical Transactions of the Royal
Society of London. Series B, Biological Sciences. Royal Society, The, 2005.
https://doi.org/10.1098/rstb.2005.1667.
ieee: T. Johnson and N. H. Barton, “Theoretical models of selection and mutationon
quantitative traits,” Philosophical Transactions of the Royal Society of London.
Series B, Biological Sciences, vol. 360, no. 1459. Royal Society, The, pp.
1411–1425, 2005.
ista: Johnson T, Barton NH. 2005. Theoretical models of selection and mutationon
quantitative traits. Philosophical Transactions of the Royal Society of London.
Series B, Biological Sciences. 360(1459), 1411–1425.
mla: Johnson, Toby, and Nicholas H. Barton. “Theoretical Models of Selection and
Mutationon Quantitative Traits.” Philosophical Transactions of the Royal Society
of London. Series B, Biological Sciences, vol. 360, no. 1459, Royal Society,
The, 2005, pp. 1411–25, doi:10.1098/rstb.2005.1667.
short: T. Johnson, N.H. Barton, Philosophical Transactions of the Royal Society
of London. Series B, Biological Sciences 360 (2005) 1411–1425.
das_tickbox: '1'
date_created: 2018-12-11T12:07:51Z
date_published: 2005-07-29T00:00:00Z
date_updated: 2026-07-03T10:17:54Z
day: '29'
doi: 10.1098/rstb.2005.1667
extern: '1'
external_id:
pmid:
- '16048784'
fulldoi: https://doi.org/10.1098/rstb.2005.1667
intvolume: ' 360'
issue: '1459'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1569515/
month: '07'
oa: 1
oa_version: None
page: 1411 - 1425
pmid: 1
publication: Philosophical Transactions of the Royal Society of London. Series B,
Biological Sciences
publication_identifier:
eissn:
- 1471-2970
issn:
- 0962-8436
publication_status: published
publisher: Royal Society, The
publist_id: '1847'
status: public
title: Theoretical models of selection and mutationon quantitative traits
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 360
year: '2005'
...
---
OA_place: repository
OA_type: green
_id: '3176'
abstract:
- lang: eng
text: "This paper demonstrates the high quality, real-time segmentation techniques.
We achieve real-time segmentation of foreground from background layers in stereo
video sequences. Automatic separation of layers from colour/contrast or from stereo
alone is known to be error-prone. Here, colour, contrast and stereo matching information
are fused to infer layers accurately and efficiently. The first algorithm, layered
dynamic programming (LDP), solves stereo in an extended 6-state space that represents
both foreground/background layers and occluded regions. The stereo-match likelihood
is then fused with a contrast-sensitive colour model that is learned on the fly,
and stereo disparities are obtained by dynamic programming. The second algorithm,
layered graph cut (LGC), does not directly solve stereo. Instead the stereo match
likelihood is marginalised over foreground and background hypotheses, and fused
with a contrast-sensitive colour model like the one used in LDP. Segmentation
is solved efficiently by ternary graph cut. Both algorithms are evaluated with
respect to ground truth data and found to have similar performance, substantially
better than stereo or colour/contrast alone. However, their characteristics with
respect to computational efficiency are rather different. The algorithms are demonstrated
in the application of background substitution and shown to give good quality composite
video output.\r\n"
article_processing_charge: No
author:
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Antonio
full_name: Criminisi, Antonio
last_name: Criminisi
- first_name: Andrew
full_name: Blake, Andrew
last_name: Blake
- first_name: Geoffrey
full_name: Cross, Geoffrey
last_name: Cross
- first_name: Carsten
full_name: Rother, Carsten
last_name: Rother
citation:
ama: 'Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. Bi-layer segmentation
of binocular stereo video. In: Proceedings of the 2005 IEEE Computer Society
Conference on Computer Vision and Pattern Recognition. IEEE; 2005:1186-1186.
doi:10.1109/CVPR.2005.90'
apa: 'Kolmogorov, V., Criminisi, A., Blake, A., Cross, G., & Rother, C. (2005).
Bi-layer segmentation of binocular stereo video. In Proceedings of the 2005
IEEE Computer Society Conference on Computer Vision and Pattern Recognition
(pp. 1186–1186). San Diego, CA, United States: IEEE. https://doi.org/10.1109/CVPR.2005.90'
chicago: Kolmogorov, Vladimir, Antonio Criminisi, Andrew Blake, Geoffrey Cross,
and Carsten Rother. “Bi-Layer Segmentation of Binocular Stereo Video.” In Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition,
1186–1186. IEEE, 2005. https://doi.org/10.1109/CVPR.2005.90.
ieee: V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, and C. Rother, “Bi-layer
segmentation of binocular stereo video,” in Proceedings of the 2005 IEEE Computer
Society Conference on Computer Vision and Pattern Recognition, San Diego,
CA, United States, 2005, pp. 1186–1186.
ista: 'Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. 2005. Bi-layer segmentation
of binocular stereo video. Proceedings of the 2005 IEEE Computer Society Conference
on Computer Vision and Pattern Recognition. CVPR: Computer Vision and Pattern
Recognition, 1186–1186.'
mla: Kolmogorov, Vladimir, et al. “Bi-Layer Segmentation of Binocular Stereo Video.”
Proceedings of the 2005 IEEE Computer Society Conference on Computer Vision
and Pattern Recognition, IEEE, 2005, pp. 1186–1186, doi:10.1109/CVPR.2005.90.
short: V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, C. Rother, in:, Proceedings
of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition,
IEEE, 2005, pp. 1186–1186.
conference:
end_date: 2005-06-25
location: San Diego, CA, United States
name: 'CVPR: Computer Vision and Pattern Recognition'
start_date: 2005-06-20
das_tickbox: '1'
date_created: 2018-12-11T12:01:50Z
date_published: 2005-06-20T00:00:00Z
date_updated: 2026-07-15T12:24:09Z
day: '20'
doi: 10.1109/CVPR.2005.90
extern: '1'
fulldoi: https://doi.org/10.1109/CVPR.2005.90
language:
- iso: eng
month: '06'
oa_version: None
page: 1186 - 1186
publication: Proceedings of the 2005 IEEE Computer Society Conference on Computer
Vision and Pattern Recognition
publication_identifier:
isbn:
- '0769523722'
issn:
- 1063-6919
publication_status: published
publisher: IEEE
publist_id: '3504'
status: public
title: Bi-layer segmentation of binocular stereo video
type: conference
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2005'
...
---
_id: '2867'
abstract:
- lang: eng
text: The plant hormone auxin elicits many specific context-dependent developmental
responses. Auxin promotes degradation of Aux/IAA proteins that prevent transcription
factors of the auxin response factor (ARF) family from regulating auxin-responsive
target genes. Aux/IAAs and ARFs are represented by large gene families in Arabidopsis.
Here we show that stabilization of BDL/IAA12 or its sister protein IAA13 prevents
MP/ARF5-dependent embryonic root formation whereas stabilized SHY2/IAA3 interferes
with seedling growth. Although both bdl and shy2-2 proteins inhibited MP/ARF5-dependent
reporter gene activation, shy2-2 was much less efficient than bdl to interfere
with embryonic root initiation when expressed from the BDL promoter. Similarly,
MP was much more efficient than ARF16 in this process. When expressed from the
SHY2 promoter, both shy2-2 and bdl inhibited cell elongation and auxin-induced
gene expression in the seedling hypocotyl. By contrast, gravitropism and auxin-induced
gene expression in the root, which were promoted by functionally redundant NPH4/ARF7
and ARF19 proteins, were inhibited by shy2-2, but not by bdl protein. Our results
suggest that auxin signals are converted into specific responses by matching pairs
of coexpressed ARF and Aux/IAA proteins.
article_processing_charge: No
article_type: original
author:
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Katja
full_name: Jäger, Katja
last_name: Jäger
- first_name: Alexandra
full_name: Schlereth, Alexandra
last_name: Schlereth
- first_name: Thorsten
full_name: Hamann, Thorsten
last_name: Hamann
- first_name: Marika
full_name: Kientz, Marika
last_name: Kientz
- first_name: Jill
full_name: Wilmoth, Jill
last_name: Wilmoth
- first_name: Jason
full_name: Reed, Jason
last_name: Reed
- first_name: Gerd
full_name: Jürgens, Gerd
last_name: Jürgens
citation:
ama: Weijers D, Benková E, Jäger K, et al. Developmental specificity of auxin response
by pairs of ARF and Aux/IAA transcriptional regulators. EMBO Journal. 2005;24(10):1874-1885.
doi:10.1038/sj.emboj.7600659
apa: Weijers, D., Benková, E., Jäger, K., Schlereth, A., Hamann, T., Kientz, M.,
… Jürgens, G. (2005). Developmental specificity of auxin response by pairs of
ARF and Aux/IAA transcriptional regulators. EMBO Journal. Wiley-Blackwell.
https://doi.org/10.1038/sj.emboj.7600659
chicago: Weijers, Dolf, Eva Benková, Katja Jäger, Alexandra Schlereth, Thorsten
Hamann, Marika Kientz, Jill Wilmoth, Jason Reed, and Gerd Jürgens. “Developmental
Specificity of Auxin Response by Pairs of ARF and Aux/IAA Transcriptional Regulators.”
EMBO Journal. Wiley-Blackwell, 2005. https://doi.org/10.1038/sj.emboj.7600659.
ieee: D. Weijers et al., “Developmental specificity of auxin response by
pairs of ARF and Aux/IAA transcriptional regulators,” EMBO Journal, vol.
24, no. 10. Wiley-Blackwell, pp. 1874–1885, 2005.
ista: Weijers D, Benková E, Jäger K, Schlereth A, Hamann T, Kientz M, Wilmoth J,
Reed J, Jürgens G. 2005. Developmental specificity of auxin response by pairs
of ARF and Aux/IAA transcriptional regulators. EMBO Journal. 24(10), 1874–1885.
mla: Weijers, Dolf, et al. “Developmental Specificity of Auxin Response by Pairs
of ARF and Aux/IAA Transcriptional Regulators.” EMBO Journal, vol. 24,
no. 10, Wiley-Blackwell, 2005, pp. 1874–85, doi:10.1038/sj.emboj.7600659.
short: D. Weijers, E. Benková, K. Jäger, A. Schlereth, T. Hamann, M. Kientz, J.
Wilmoth, J. Reed, G. Jürgens, EMBO Journal 24 (2005) 1874–1885.
das_tickbox: '1'
date_created: 2018-12-11T12:00:01Z
date_published: 2005-05-18T00:00:00Z
date_updated: 2026-07-15T13:21:20Z
day: '18'
doi: 10.1038/sj.emboj.7600659
extern: '1'
external_id:
pmid:
- '15889151'
fulldoi: https://doi.org/10.1038/sj.emboj.7600659
intvolume: ' 24'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1142592/
month: '05'
oa: 1
oa_version: None
page: 1874 - 1885
pmid: 1
publication: EMBO Journal
publication_identifier:
eissn:
- 1460-2075
issn:
- 0261-4189
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3918'
status: public
title: Developmental specificity of auxin response by pairs of ARF and Aux/IAA transcriptional
regulators
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 24
year: '2005'
...
---
OA_type: closed access
_id: '3004'
abstract:
- lang: eng
text: Molecular mechanisms of pattern formation in the plant embryo are not well
understood. Recent molecular and cellular studies, in conjunction with earlier
microsurgical, physiological, and genetic work, are now starting to define the
outlines of a model where gradients of the signaling molecule auxin play a central
role in embryo patterning. It is relatively clear how these gradients are established
and interpreted, but how they are maintained is still unresolved. Here, we have
studied the contributions of auxin biosynthesis, conjugation, and transport pathways
to the maintenance of embryonic auxin gradients. Auxin homeostasis in the embryo
was manipulated by region-specific conditional expression of indoleacetic acid-tryptophan
monooxygenase or indoleacetic acid-lysine synthetase, bacterial enzymes for auxin
biosynthesis or conjugation. Neither manipulation of auxin biosynthesis nor of
auxin conjugation interfered with auxin gradients and patterning in the embryo.
This result suggests a compensatory mechanism for buffering auxin gradients in
the embryo. Chemical and genetic inhibition revealed that auxin transport activity,
in particular that of the PIN-FORMED1 (PIN1) and PIN4 proteins, is a major factor
in the maintenance of these gradients.
article_processing_charge: No
article_type: original
author:
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Michael
full_name: Sauer, Michael
last_name: Sauer
- first_name: Olivier
full_name: Meurette, Olivier
last_name: Meurette
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Karin
full_name: Ljung, Karin
last_name: Ljung
- first_name: Göran
full_name: Sandberg, Göran
last_name: Sandberg
- first_name: Paul
full_name: Hooykaas, Paul
last_name: Hooykaas
- first_name: Remko
full_name: Offringa, Remko
last_name: Offringa
citation:
ama: Weijers D, Sauer M, Meurette O, et al. Maintenance of embryonic auxin distribution
for apical basal patterning by PIN FORMED dependent auxin transport in Arabidopsis.
Plant Cell. 2005;17(9):2517-2526. doi:10.1105/tpc.105.034637
apa: Weijers, D., Sauer, M., Meurette, O., Friml, J., Ljung, K., Sandberg, G., …
Offringa, R. (2005). Maintenance of embryonic auxin distribution for apical basal
patterning by PIN FORMED dependent auxin transport in Arabidopsis. Plant Cell.
American Society of Plant Biologists. https://doi.org/10.1105/tpc.105.034637
chicago: Weijers, Dolf, Michael Sauer, Olivier Meurette, Jiří Friml, Karin Ljung,
Göran Sandberg, Paul Hooykaas, and Remko Offringa. “Maintenance of Embryonic Auxin
Distribution for Apical Basal Patterning by PIN FORMED Dependent Auxin Transport
in Arabidopsis.” Plant Cell. American Society of Plant Biologists, 2005.
https://doi.org/10.1105/tpc.105.034637.
ieee: D. Weijers et al., “Maintenance of embryonic auxin distribution for
apical basal patterning by PIN FORMED dependent auxin transport in Arabidopsis,”
Plant Cell, vol. 17, no. 9. American Society of Plant Biologists, pp. 2517–2526,
2005.
ista: Weijers D, Sauer M, Meurette O, Friml J, Ljung K, Sandberg G, Hooykaas P,
Offringa R. 2005. Maintenance of embryonic auxin distribution for apical basal
patterning by PIN FORMED dependent auxin transport in Arabidopsis. Plant Cell.
17(9), 2517–2526.
mla: Weijers, Dolf, et al. “Maintenance of Embryonic Auxin Distribution for Apical
Basal Patterning by PIN FORMED Dependent Auxin Transport in Arabidopsis.” Plant
Cell, vol. 17, no. 9, American Society of Plant Biologists, 2005, pp. 2517–26,
doi:10.1105/tpc.105.034637.
short: D. Weijers, M. Sauer, O. Meurette, J. Friml, K. Ljung, G. Sandberg, P. Hooykaas,
R. Offringa, Plant Cell 17 (2005) 2517–2526.
das_tickbox: '1'
date_created: 2018-12-11T12:00:48Z
date_published: 2005-07-29T00:00:00Z
date_updated: 2026-07-15T12:50:09Z
day: '29'
doi: 10.1105/tpc.105.034637
extern: '1'
external_id:
pmid:
- '16055631'
fulldoi: https://doi.org/10.1105/tpc.105.034637
intvolume: ' 17'
issue: '9'
language:
- iso: eng
month: '07'
oa_version: None
page: 2517 - 2526
pmid: 1
publication: Plant Cell
publication_identifier:
eissn:
- 1532-298X
issn:
- 1040-4651
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '3698'
status: public
title: Maintenance of embryonic auxin distribution for apical basal patterning by
PIN FORMED dependent auxin transport in Arabidopsis
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 17
year: '2005'
...
---
OA_type: closed access
_id: '3003'
abstract:
- lang: eng
text: 'Plant development displays an exceptional plasticity and adaptability that
involves the dynamic, asymmetric distribution of the phytohormone auxin. Polar
auxin flow, which requires polarly localized transport facilitators of the PIN
family, largely contributes to the establishment and maintenance of the auxin
gradients. Functionally overlapping action of PIN proteins mediates multiple developmental
processes, including embryo formation, organ development and tropisms. Here we
show that PIN proteins exhibit synergistic interactions, which involve cross-regulation
of PIN gene expression in pin mutants or plants with inhibited auxin transport.
Auxin itself positively feeds back on PIN gene expression in a tissue-specific
manner through an AUX/IAA-dependent signalling pathway. This regulatory switch
is indicative of a mechanism by which the loss of a specific PIN protein is compensated
for by auxin-dependent ectopic: expression of its homologues. The compensatory
properties of the PIN-dependent transport network might enable the stabilization
of auxin gradients and potentially contribute to the robustness of plant adaptive
development.'
article_processing_charge: No
article_type: original
author:
- first_name: Anne
full_name: Vieten, Anne
last_name: Vieten
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
- first_name: Justyna
full_name: Wiśniewska, Justyna
last_name: Wiśniewska
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: René
full_name: Benjamins, René
last_name: Benjamins
- first_name: Tom
full_name: Beeckman, Tom
last_name: Beeckman
- first_name: Christian
full_name: Luschnig, Christian
last_name: Luschnig
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Vieten A, Vanneste S, Wiśniewska J, et al. Functional redundancy of PIN proteins
is accompanied by auxin-dependent cross-regulation of PIN expression. Development.
2005;132(20):4521-4531. doi:10.1242/dev.02027
apa: Vieten, A., Vanneste, S., Wiśniewska, J., Benková, E., Benjamins, R., Beeckman,
T., … Friml, J. (2005). Functional redundancy of PIN proteins is accompanied by
auxin-dependent cross-regulation of PIN expression. Development. Company
of Biologists. https://doi.org/10.1242/dev.02027
chicago: Vieten, Anne, Steffen Vanneste, Justyna Wiśniewska, Eva Benková, René Benjamins,
Tom Beeckman, Christian Luschnig, and Jiří Friml. “Functional Redundancy of PIN
Proteins Is Accompanied by Auxin-Dependent Cross-Regulation of PIN Expression.”
Development. Company of Biologists, 2005. https://doi.org/10.1242/dev.02027.
ieee: A. Vieten et al., “Functional redundancy of PIN proteins is accompanied
by auxin-dependent cross-regulation of PIN expression,” Development, vol.
132, no. 20. Company of Biologists, pp. 4521–4531, 2005.
ista: Vieten A, Vanneste S, Wiśniewska J, Benková E, Benjamins R, Beeckman T, Luschnig
C, Friml J. 2005. Functional redundancy of PIN proteins is accompanied by auxin-dependent
cross-regulation of PIN expression. Development. 132(20), 4521–4531.
mla: Vieten, Anne, et al. “Functional Redundancy of PIN Proteins Is Accompanied
by Auxin-Dependent Cross-Regulation of PIN Expression.” Development, vol.
132, no. 20, Company of Biologists, 2005, pp. 4521–31, doi:10.1242/dev.02027.
short: A. Vieten, S. Vanneste, J. Wiśniewska, E. Benková, R. Benjamins, T. Beeckman,
C. Luschnig, J. Friml, Development 132 (2005) 4521–4531.
das_tickbox: '1'
date_created: 2018-12-11T12:00:48Z
date_published: 2005-10-01T00:00:00Z
date_updated: 2026-07-15T12:56:50Z
day: '01'
doi: 10.1242/dev.02027
extern: '1'
external_id:
pmid:
- '16192309 '
fulldoi: https://doi.org/10.1242/dev.02027
intvolume: ' 132'
issue: '20'
language:
- iso: eng
month: '10'
oa_version: None
page: 4521 - 4531
pmid: 1
publication: Development
publication_identifier:
eissn:
- 1477-9129
issn:
- 0950-1991
publication_status: published
publisher: Company of Biologists
publist_id: '3700'
status: public
title: Functional redundancy of PIN proteins is accompanied by auxin-dependent cross-regulation
of PIN expression
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 132
year: '2005'
...
---
_id: '3001'
abstract:
- lang: eng
text: 'One of the mechanisms by which signalling molecules regulate cellular behaviour
is modulating subcellular protein translocation. This mode of regulation is often
based on specialized vesicle trafficking, termed constitutive cycling, which consists
of repeated internalization and recycling of proteins to and from the plasma membrane.
No such mechanism of hormone action has been shown in plants although several
proteins, including the PIN auxin efflux facilitators, exhibit constitutive cycling.
Here we show that a major regulator of plant development, auxin, inhibits endocytosis.
This effect is specific to biologically active auxins and requires activity of
the Calossin-like protein BIG. By inhibiting the internalization step of PIN constitutive
cycling, auxin increases levels of PINs at the plasma membrane. Concomitantly,
auxin promotes its own efflux from cells by a vesicle-trafficking-dependent mechanism.
Furthermore, asymmetric auxin translocation during gravitropism is correlated
with decreased PIN internalization. Our data imply a previously undescribed mode
of plant hormone action: by modulating PIN protein trafficking, auxin regulates
PIN abundance and activity at the cell surface, providing a mechanism for the
feedback regulation of auxin transport.'
article_processing_charge: No
article_type: original
author:
- first_name: Tomasz
full_name: Paciorek, Tomasz
last_name: Paciorek
- first_name: Eva
full_name: Zažímalová, Eva
last_name: Zažímalová
- first_name: Nadia
full_name: Ruthardt, Nadia
last_name: Ruthardt
- first_name: Jan
full_name: Petrášek, Jan
last_name: Petrášek
- first_name: York
full_name: Stierhof, York
last_name: Stierhof
- first_name: Jürgen
full_name: Kleine Vehn, Jürgen
last_name: Kleine Vehn
- first_name: David
full_name: Morris, David
last_name: Morris
- first_name: Neil
full_name: Emans, Neil
last_name: Emans
- first_name: Gerd
full_name: Jürgens, Gerd
last_name: Jürgens
- first_name: Niko
full_name: Geldner, Niko
last_name: Geldner
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Paciorek T, Zažímalová E, Ruthardt N, et al. Auxin inhibits endocytosis and
promotes its own efflux from cells. Nature. 2005;435(7046):1251-1256. doi:10.1038/nature03633
apa: Paciorek, T., Zažímalová, E., Ruthardt, N., Petrášek, J., Stierhof, Y., Kleine
Vehn, J., … Friml, J. (2005). Auxin inhibits endocytosis and promotes its own
efflux from cells. Nature. Nature Publishing Group. https://doi.org/10.1038/nature03633
chicago: Paciorek, Tomasz, Eva Zažímalová, Nadia Ruthardt, Jan Petrášek, York Stierhof,
Jürgen Kleine Vehn, David Morris, et al. “Auxin Inhibits Endocytosis and Promotes
Its Own Efflux from Cells.” Nature. Nature Publishing Group, 2005. https://doi.org/10.1038/nature03633.
ieee: T. Paciorek et al., “Auxin inhibits endocytosis and promotes its own
efflux from cells,” Nature, vol. 435, no. 7046. Nature Publishing Group,
pp. 1251–1256, 2005.
ista: Paciorek T, Zažímalová E, Ruthardt N, Petrášek J, Stierhof Y, Kleine Vehn
J, Morris D, Emans N, Jürgens G, Geldner N, Friml J. 2005. Auxin inhibits endocytosis
and promotes its own efflux from cells. Nature. 435(7046), 1251–1256.
mla: Paciorek, Tomasz, et al. “Auxin Inhibits Endocytosis and Promotes Its Own Efflux
from Cells.” Nature, vol. 435, no. 7046, Nature Publishing Group, 2005,
pp. 1251–56, doi:10.1038/nature03633.
short: T. Paciorek, E. Zažímalová, N. Ruthardt, J. Petrášek, Y. Stierhof, J. Kleine
Vehn, D. Morris, N. Emans, G. Jürgens, N. Geldner, J. Friml, Nature 435 (2005)
1251–1256.
das_tickbox: '1'
date_created: 2018-12-11T12:00:47Z
date_published: 2005-06-30T00:00:00Z
date_updated: 2026-07-15T13:02:15Z
day: '30'
doi: 10.1038/nature03633
extern: '1'
external_id:
pmid:
- '15988527 '
fulldoi: https://doi.org/10.1038/nature03633
intvolume: ' 435'
issue: '7046'
language:
- iso: eng
month: '06'
oa_version: None
page: 1251 - 1256
pmid: 1
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Nature Publishing Group
publist_id: '3702'
status: public
title: Auxin inhibits endocytosis and promotes its own efflux from cells
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 435
year: '2005'
...
---
OA_type: free access
_id: '2895'
abstract:
- lang: eng
text: One of the fundamental properties of the immune system is its capacity to
avoid autoimmune diseases. The mechanism underlying this process, known as self-tolerance,
is hitherto unresolved but seems to involve the control of clonal expansion of
autoreactive lymphocytes. This article reviews mathematical modeling of self-tolerance,
addressing two specific hypotheses. The first hypothesis posits that self-tolerance
is mediated by tuning of activation thresholds, which makes autoreactive T lymphocytes
reversibly "anergic" and unable to proliferate. The second hypothesis
posits that the proliferation of autoreactive T lymphocytes is instead controlled
by specific regulatory T lymphocytes. Models representing the population dynamics
of autoreactive T lymphocytes according to these two hypotheses were derived.
For each model we identified how cell density affects tolerance, and predicted
the corresponding phase spaces and bifurcations. We show that the simple induction
of proliferative anergy, as modeled here, has a density dependence that is only
partially compatible with adoptive transfers of tolerance, and that the models
of tolerance mediated by specific regulatory T cells are closer to the observations.
acknowledgement: 'The work was financially supported by Fundação para a Ciência e
Tecnologia: grants P/BIA/10094/1998, POCTI/36413/99, and POCTI/MGI/46477/2002;
and fellowships to JF (Praxis/BCC/18972/98), JS (BD/13546/97), KL (SFRH/BPD+/1157/2002),
DM (SFRH/BD/2960/2000) and TP (SFRH/BD/10550/2002).'
article_processing_charge: No
article_type: original
author:
- first_name: Jorge
full_name: Carneiro, Jorge
last_name: Carneiro
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
- first_name: Dejan
full_name: Milutinovic, Dejan
last_name: Milutinovic
- first_name: João
full_name: Sousa, João
last_name: Sousa
- first_name: Kalet
full_name: Leon, Kalet
last_name: Leon
- first_name: Rui
full_name: Gardner, Rui
last_name: Gardner
- first_name: Jose
full_name: Faro, Jose
last_name: Faro
citation:
ama: 'Carneiro J, Paixao T, Milutinovic D, et al. Immunological self tolerance:
Lessons from mathematical modeling. Journal of Computational and Applied Mathematics.
2005;184(1):77-100. doi:10.1016/j.cam.2004.10.025'
apa: 'Carneiro, J., Paixao, T., Milutinovic, D., Sousa, J., Leon, K., Gardner, R.,
& Faro, J. (2005). Immunological self tolerance: Lessons from mathematical
modeling. Journal of Computational and Applied Mathematics. Elsevier. https://doi.org/10.1016/j.cam.2004.10.025'
chicago: 'Carneiro, Jorge, Tiago Paixao, Dejan Milutinovic, João Sousa, Kalet Leon,
Rui Gardner, and Jose Faro. “Immunological Self Tolerance: Lessons from Mathematical
Modeling.” Journal of Computational and Applied Mathematics. Elsevier,
2005. https://doi.org/10.1016/j.cam.2004.10.025.'
ieee: 'J. Carneiro et al., “Immunological self tolerance: Lessons from mathematical
modeling,” Journal of Computational and Applied Mathematics, vol. 184,
no. 1. Elsevier, pp. 77–100, 2005.'
ista: 'Carneiro J, Paixao T, Milutinovic D, Sousa J, Leon K, Gardner R, Faro J.
2005. Immunological self tolerance: Lessons from mathematical modeling. Journal
of Computational and Applied Mathematics. 184(1), 77–100.'
mla: 'Carneiro, Jorge, et al. “Immunological Self Tolerance: Lessons from Mathematical
Modeling.” Journal of Computational and Applied Mathematics, vol. 184,
no. 1, Elsevier, 2005, pp. 77–100, doi:10.1016/j.cam.2004.10.025.'
short: J. Carneiro, T. Paixao, D. Milutinovic, J. Sousa, K. Leon, R. Gardner, J.
Faro, Journal of Computational and Applied Mathematics 184 (2005) 77–100.
das_tickbox: '1'
date_created: 2018-12-11T12:00:12Z
date_published: 2005-12-01T00:00:00Z
date_updated: 2026-07-15T13:16:15Z
day: '01'
doi: 10.1016/j.cam.2004.10.025
extern: '1'
fulldoi: https://doi.org/10.1016/j.cam.2004.10.025
intvolume: ' 184'
issue: '1'
language:
- iso: eng
month: '12'
oa_version: None
page: 77 - 100
publication: Journal of Computational and Applied Mathematics
publication_identifier:
eissn:
- 1879-1778
issn:
- 0377-0427
publication_status: published
publisher: Elsevier
publist_id: '3863'
status: public
title: 'Immunological self tolerance: Lessons from mathematical modeling'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 184
year: '2005'
...
---
OA_place: publisher
OA_type: gold
_id: '3143'
abstract:
- lang: eng
text: Two ETS transcription factors of the Pea3 subfamily are induced in subpopulations
of dorsal root ganglion (DRG) sensory and spinal motor neurons by target-derived
factors. Their expression controls late aspects of neuronal differentiation such
as target invasion and branching. Here, we show that the late onset of ETS gene
expression is an essential requirement for normal sensory neuron differentiation.
We provide genetic evidence in the mouse that precocious ETS expression in DRG
sensory neurons perturbs axonal projections, the acquisition of terminal differentiation
markers, and their dependence on neurotrophic support. Together, our findings
indicate that DRG sensory neurons exhibit a temporal developmental switch that
can be revealed by distinct responses to ETS transcription factor signaling at
sequential steps of neuronal maturation.
article_processing_charge: No
article_type: original
author:
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Eline
full_name: Vrieseling, Eline
last_name: Vrieseling
- first_name: Markus
full_name: Sigrist, Markus
last_name: Sigrist
- first_name: Thomas
full_name: Portmann, Thomas
last_name: Portmann
- first_name: Celia
full_name: Laengle, Celia
last_name: Laengle
- first_name: David
full_name: Ladle, David
last_name: Ladle
- first_name: Silvia
full_name: Arber, Silvia
last_name: Arber
citation:
ama: Hippenmeyer S, Vrieseling E, Sigrist M, et al. A developmental switch in the
response of DRG neurons to ETS transcription factor signaling. PLoS Biology.
2005;3(5):0878-0890. doi:10.1371/journal.pbio.0030159
apa: Hippenmeyer, S., Vrieseling, E., Sigrist, M., Portmann, T., Laengle, C., Ladle,
D., & Arber, S. (2005). A developmental switch in the response of DRG neurons
to ETS transcription factor signaling. PLoS Biology. Public Library of
Science. https://doi.org/10.1371/journal.pbio.0030159
chicago: Hippenmeyer, Simon, Eline Vrieseling, Markus Sigrist, Thomas Portmann,
Celia Laengle, David Ladle, and Silvia Arber. “A Developmental Switch in the Response
of DRG Neurons to ETS Transcription Factor Signaling.” PLoS Biology. Public
Library of Science, 2005. https://doi.org/10.1371/journal.pbio.0030159.
ieee: S. Hippenmeyer et al., “A developmental switch in the response of DRG
neurons to ETS transcription factor signaling,” PLoS Biology, vol. 3, no.
5. Public Library of Science, pp. 0878–0890, 2005.
ista: Hippenmeyer S, Vrieseling E, Sigrist M, Portmann T, Laengle C, Ladle D, Arber
S. 2005. A developmental switch in the response of DRG neurons to ETS transcription
factor signaling. PLoS Biology. 3(5), 0878–0890.
mla: Hippenmeyer, Simon, et al. “A Developmental Switch in the Response of DRG Neurons
to ETS Transcription Factor Signaling.” PLoS Biology, vol. 3, no. 5, Public
Library of Science, 2005, pp. 0878–90, doi:10.1371/journal.pbio.0030159.
short: S. Hippenmeyer, E. Vrieseling, M. Sigrist, T. Portmann, C. Laengle, D. Ladle,
S. Arber, PLoS Biology 3 (2005) 0878–0890.
das_tickbox: '1'
date_created: 2018-12-11T12:01:38Z
date_published: 2005-04-26T00:00:00Z
date_updated: 2026-07-15T12:28:30Z
day: '26'
doi: 10.1371/journal.pbio.0030159
extern: '1'
external_id:
pmid:
- '15836427'
fulldoi: https://doi.org/10.1371/journal.pbio.0030159
intvolume: ' 3'
issue: '5'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '04'
oa_version: None
page: 0878 - 0890
pmid: 1
publication: PLoS Biology
publication_identifier:
eissn:
- 1545-7885
issn:
- 1544-9173
publication_status: published
publisher: Public Library of Science
publist_id: '3552'
status: public
title: A developmental switch in the response of DRG neurons to ETS transcription
factor signaling
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: 3
year: '2005'
...
---
OA_type: closed access
_id: '2790'
abstract:
- lang: eng
text: We present the results of an experimental investigation of the effect of a
magnetic field on the stability of convection in a liquid metal. A rectangular
container of gallium is subjected to a horizontal temperature gradient and a uniform
magnetic field is applied separately in three directions. The magnetic field suppresses
the oscillation most effectively when it is applied in the vertical direction
and is least efficient when applied in the direction of the temperature gradient.
The critical temperature difference required for the onset of oscillations is
found to scale exponentially with the magnitude of the magnetic field for all
three orientations. Comparisons are made with available theory and qualitative
differences are discussed.
article_processing_charge: No
article_type: original
author:
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Anne
full_name: Juel, Anne
last_name: Juel
- first_name: Tom
full_name: Mullin, Tom
last_name: Mullin
citation:
ama: Hof B, Juel A, Mullin T. Magnetohydrodynamic damping of oscillations in low-Prandtl-number
convection. Journal of Fluid Mechanics. 2005;545:193-201. doi:10.1017/S0022112005006762
apa: Hof, B., Juel, A., & Mullin, T. (2005). Magnetohydrodynamic damping of
oscillations in low-Prandtl-number convection. Journal of Fluid Mechanics.
Cambridge University Press. https://doi.org/10.1017/S0022112005006762
chicago: Hof, Björn, Anne Juel, and Tom Mullin. “Magnetohydrodynamic Damping of
Oscillations in Low-Prandtl-Number Convection.” Journal of Fluid Mechanics.
Cambridge University Press, 2005. https://doi.org/10.1017/S0022112005006762.
ieee: B. Hof, A. Juel, and T. Mullin, “Magnetohydrodynamic damping of oscillations
in low-Prandtl-number convection,” Journal of Fluid Mechanics, vol. 545.
Cambridge University Press, pp. 193–201, 2005.
ista: Hof B, Juel A, Mullin T. 2005. Magnetohydrodynamic damping of oscillations
in low-Prandtl-number convection. Journal of Fluid Mechanics. 545, 193–201.
mla: Hof, Björn, et al. “Magnetohydrodynamic Damping of Oscillations in Low-Prandtl-Number
Convection.” Journal of Fluid Mechanics, vol. 545, Cambridge University
Press, 2005, pp. 193–201, doi:10.1017/S0022112005006762.
short: B. Hof, A. Juel, T. Mullin, Journal of Fluid Mechanics 545 (2005) 193–201.
date_created: 2018-12-11T11:59:37Z
date_published: 2005-12-25T00:00:00Z
date_updated: 2026-07-29T10:59:51Z
day: '25'
doi: 10.1017/S0022112005006762
extern: '1'
fulldoi: https://doi.org/10.1017/S0022112005006762
intvolume: ' 545'
language:
- iso: eng
month: '12'
oa_version: None
page: 193 - 201
publication: Journal of Fluid Mechanics
publication_identifier:
eissn:
- 1469-7645
issn:
- 0022-1120
publication_status: published
publisher: Cambridge University Press
publist_id: '4099'
status: public
title: Magnetohydrodynamic damping of oscillations in low-Prandtl-number convection
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 545
year: '2005'
...
---
OA_type: closed access
_id: '2788'
abstract:
- lang: eng
text: We present the results of an experimental investigation into the nature and
structure of turbulent pipe flow at moderate Reynolds numbers. A turbulence regeneration
mechanism is identified which sustains a symmetric traveling wave within the flow.
The periodicity of the mechanism allows comparison to the wavelength of numerically
observed exact traveling wave solutions and close agreement is found. The advection
speed of the upstream turbulence laminar interface in the experimental flow is
observed to form a lower bound on the phase velocities of the exact traveling
wave solutions. Overall our observations suggest that the dynamics of the turbulent
flow at moderate Reynolds numbers are governed by unstable nonlinear traveling
waves.
article_processing_charge: No
article_type: original
author:
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Casimir
full_name: Van Doorne, Casimir
last_name: Van Doorne
- first_name: Jerry
full_name: Westerweel, Jerry
last_name: Westerweel
- first_name: Frans
full_name: Nieuwstadt, Frans
last_name: Nieuwstadt
citation:
ama: Hof B, Van Doorne C, Westerweel J, Nieuwstadt F. Turbulence regeneration in
pipe flow at moderate reynolds numbers. Physical Review Letters. 2005;95(21).
doi:10.1103/PhysRevLett.95.214502
apa: Hof, B., Van Doorne, C., Westerweel, J., & Nieuwstadt, F. (2005). Turbulence
regeneration in pipe flow at moderate reynolds numbers. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/PhysRevLett.95.214502
chicago: Hof, Björn, Casimir Van Doorne, Jerry Westerweel, and Frans Nieuwstadt.
“Turbulence Regeneration in Pipe Flow at Moderate Reynolds Numbers.” Physical
Review Letters. American Physical Society, 2005. https://doi.org/10.1103/PhysRevLett.95.214502.
ieee: B. Hof, C. Van Doorne, J. Westerweel, and F. Nieuwstadt, “Turbulence regeneration
in pipe flow at moderate reynolds numbers,” Physical Review Letters, vol.
95, no. 21. American Physical Society, 2005.
ista: Hof B, Van Doorne C, Westerweel J, Nieuwstadt F. 2005. Turbulence regeneration
in pipe flow at moderate reynolds numbers. Physical Review Letters. 95(21).
mla: Hof, Björn, et al. “Turbulence Regeneration in Pipe Flow at Moderate Reynolds
Numbers.” Physical Review Letters, vol. 95, no. 21, American Physical Society,
2005, doi:10.1103/PhysRevLett.95.214502.
short: B. Hof, C. Van Doorne, J. Westerweel, F. Nieuwstadt, Physical Review Letters
95 (2005).
date_created: 2018-12-11T11:59:36Z
date_published: 2005-11-17T00:00:00Z
date_updated: 2026-07-29T11:15:02Z
day: '17'
doi: 10.1103/PhysRevLett.95.214502
extern: '1'
external_id:
pmid:
- '16384146 '
fulldoi: https://doi.org/10.1103/PhysRevLett.95.214502
intvolume: ' 95'
issue: '21'
language:
- iso: eng
month: '11'
oa_version: None
pmid: 1
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
publist_id: '4101'
status: public
title: Turbulence regeneration in pipe flow at moderate reynolds numbers
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 95
year: '2005'
...
---
OA_type: closed access
_id: '2744'
abstract:
- lang: eng
text: We study the long time evolution of a quantum particle interacting with a
random potential in the Boltzmann-Grad low density limit. We prove that the phase
space density of the quantum evolution defined through the Husimi function converges
weakly to a linear Boltzmann equation. The Boltzmann collision kernel is given
by the full quantum scattering cross-section of the obstacle potential.
article_processing_charge: No
article_type: original
author:
- first_name: David
full_name: Eng, David
last_name: Eng
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
citation:
ama: Eng D, Erdös L. The linear Boltzmann equation as the low density limit of a
random Schrödinger equation. Reviews in Mathematical Physics. 2005;17(6):669-743.
doi:10.1142/S0129055X0500242X
apa: Eng, D., & Erdös, L. (2005). The linear Boltzmann equation as the low density
limit of a random Schrödinger equation. Reviews in Mathematical Physics.
World Scientific Publishing. https://doi.org/10.1142/S0129055X0500242X
chicago: Eng, David, and László Erdös. “The Linear Boltzmann Equation as the Low
Density Limit of a Random Schrödinger Equation.” Reviews in Mathematical Physics.
World Scientific Publishing, 2005. https://doi.org/10.1142/S0129055X0500242X.
ieee: D. Eng and L. Erdös, “The linear Boltzmann equation as the low density limit
of a random Schrödinger equation,” Reviews in Mathematical Physics, vol.
17, no. 6. World Scientific Publishing, pp. 669–743, 2005.
ista: Eng D, Erdös L. 2005. The linear Boltzmann equation as the low density limit
of a random Schrödinger equation. Reviews in Mathematical Physics. 17(6), 669–743.
mla: Eng, David, and László Erdös. “The Linear Boltzmann Equation as the Low Density
Limit of a Random Schrödinger Equation.” Reviews in Mathematical Physics,
vol. 17, no. 6, World Scientific Publishing, 2005, pp. 669–743, doi:10.1142/S0129055X0500242X.
short: D. Eng, L. Erdös, Reviews in Mathematical Physics 17 (2005) 669–743.
date_created: 2018-12-11T11:59:22Z
date_published: 2005-07-01T00:00:00Z
date_updated: 2026-07-29T11:19:15Z
day: '01'
doi: 10.1142/S0129055X0500242X
extern: '1'
fulldoi: https://doi.org/10.1142/S0129055X0500242X
intvolume: ' 17'
issue: '6'
language:
- iso: eng
month: '07'
oa_version: None
page: 669 - 743
publication: Reviews in Mathematical Physics
publication_identifier:
eissn:
- 1793-6659
issn:
- 0129-055X
publication_status: published
publisher: World Scientific Publishing
publist_id: '4148'
status: public
title: The linear Boltzmann equation as the low density limit of a random Schrödinger
equation
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 17
year: '2005'
...