---
_id: '2655'
abstract:
- lang: eng
text: Input-dependent left-right asymmetry of NMDA receptor ε2 (NR2B) subunit allocation
was discovered in hippocampal Schaffer collateral (Sch) and commissural fiber
pyramidal cell synapses (Kawakami et al., 2003). To investigate whether this asymmetrical
ε2 allocation is also related to the types of the postsynaptic cells, we compared
postembedding immunogold labeling for ε2 in left and right Sch synapses on pyramidal
cells and interneurons. To facilitate the detection of ε2 density difference,
we used ε1 (NR2A) knock-out (KO) mice, which have a simplified NMDA receptor subunit
composition. The labeling density for ε2 but not ζ1 (NR1) and subtype 2/3 glutamate
receptor (GluR2/3) in Sch-CA1 pyramidal cell synapses was significantly different
between the left and right hippocampus with opposite directions in strata oriens
and radiatum; the left to right ratio of ε2 labeling density was 1:1.50 in stratum
oriens and 1.44:1 in stratum radiatum. No significant difference, however, was
detected in CA1 stratum radiatum between the left and right Sch-GluR4-positive
(mostly parvalbumin-positive) and Sch-GluR4-negative interneuron synapses. Consistent
with the anatomical asymmetry, the amplitude ratio of NMDA EPSCs to non-NMDA EPSCs
in pyramidal cells was approximately two times larger in right than left stratum
radiatum and vice versa in stratum oriens of ε1 KO mice. Moreover, the amplitude
of long-term potentiation in the Sch-CA1 synapses of left stratum radiatum was
significantly larger than that in the right corresponding synapses. These results
indicate that the asymmetry of ε2 distribution is target cell specific, resulting
in the left-right difference in NMDA receptor content and plasticity in Sch-CA1
pyramidal cell synapses in ε1 KO mice.
author:
- first_name: Yue
full_name: Wu, Yue
last_name: Wu
- first_name: Ryosuke
full_name: Kawakami, Ryosuke
last_name: Kawakami
- first_name: Yoshiaki
full_name: Shinohara, Yoshiaki
last_name: Shinohara
- first_name: Masahiro
full_name: Fukaya, Masahiro
last_name: Fukaya
- first_name: Kenji
full_name: Sakimura, Kenji
last_name: Sakimura
- first_name: Masayoshi
full_name: Mishina, Masayoshi
last_name: Mishina
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Isao
full_name: Ito, Isao
last_name: Ito
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Wu Y, Kawakami R, Shinohara Y, et al. Target-cell-specific left-right asymmetry
of NMDA receptor content in Schaffer collateral synapses in ε1/NR2A knock-out
mice. Journal of Neuroscience. 2005;25(40):9213-9226. doi:10.1523/JNEUROSCI.2134-05.2005
apa: Wu, Y., Kawakami, R., Shinohara, Y., Fukaya, M., Sakimura, K., Mishina, M.,
… Shigemoto, R. (2005). Target-cell-specific left-right asymmetry of NMDA receptor
content in Schaffer collateral synapses in ε1/NR2A knock-out mice. Journal
of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.2134-05.2005
chicago: Wu, Yue, Ryosuke Kawakami, Yoshiaki Shinohara, Masahiro Fukaya, Kenji Sakimura,
Masayoshi Mishina, Masahiko Watanabe, Isao Ito, and Ryuichi Shigemoto. “Target-Cell-Specific
Left-Right Asymmetry of NMDA Receptor Content in Schaffer Collateral Synapses
in Ε1/NR2A Knock-out Mice.” Journal of Neuroscience. Society for Neuroscience,
2005. https://doi.org/10.1523/JNEUROSCI.2134-05.2005.
ieee: Y. Wu et al., “Target-cell-specific left-right asymmetry of NMDA receptor
content in Schaffer collateral synapses in ε1/NR2A knock-out mice,” Journal
of Neuroscience, vol. 25, no. 40. Society for Neuroscience, pp. 9213–9226,
2005.
ista: Wu Y, Kawakami R, Shinohara Y, Fukaya M, Sakimura K, Mishina M, Watanabe M,
Ito I, Shigemoto R. 2005. Target-cell-specific left-right asymmetry of NMDA receptor
content in Schaffer collateral synapses in ε1/NR2A knock-out mice. Journal of
Neuroscience. 25(40), 9213–9226.
mla: Wu, Yue, et al. “Target-Cell-Specific Left-Right Asymmetry of NMDA Receptor
Content in Schaffer Collateral Synapses in Ε1/NR2A Knock-out Mice.” Journal
of Neuroscience, vol. 25, no. 40, Society for Neuroscience, 2005, pp. 9213–26,
doi:10.1523/JNEUROSCI.2134-05.2005.
short: Y. Wu, R. Kawakami, Y. Shinohara, M. Fukaya, K. Sakimura, M. Mishina, M.
Watanabe, I. Ito, R. Shigemoto, Journal of Neuroscience 25 (2005) 9213–9226.
date_created: 2018-12-11T11:58:54Z
date_published: 2005-10-05T00:00:00Z
date_updated: 2021-01-12T06:58:51Z
day: '05'
doi: 10.1523/JNEUROSCI.2134-05.2005
extern: 1
intvolume: ' 25'
issue: '40'
month: '10'
page: 9213 - 9226
publication: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '4243'
quality_controlled: 0
status: public
title: Target-cell-specific left-right asymmetry of NMDA receptor content in Schaffer
collateral synapses in ε1/NR2A knock-out mice
type: journal_article
volume: 25
year: '2005'
...
---
_id: '2653'
abstract:
- lang: eng
text: Synaptic vesicle release occurs at a specialized membrane domain known as
the presynaptic active zone (AZ). Several membrane proteins are involved in the
vesicle release processes such as docking, priming, and exocytotic fusion. Cytomatrix
at the active zone (CAZ) proteins are structural components of the AZ and are
highly concentrated in it. Localization of other release-related proteins including
target soluble N-ethylmaleimide-sensitive-factor attachment protein receptor (t-SNARE)
proteins, however, has not been well demonstrated in the AZ. Here, we used sodium
dodecyl sulfate-digested freeze-fracture replica labeling (SDS-FRL) to analyze
quantitatively the distribution of CAZ and t-SNARE proteins in the hippocampal
CA3 area. The AZ in replicated membrane was identified by immunolabeling for CAZ
proteins (CAZ-associated structural protein [CAST] and Bassoon). Clusters of immunogold
particles for these proteins were found on the P-face of presynaptic terminals
of the mossy fiber and associational/commissural (AJC) fiber. Co-labeling with
CAST revealed distribution of the t-SNARE proteins syntaxin and synaptosomal-associated
protein of 25 kDa (SNAP-25) in the AZ as well as in the extrasynaptic membrane
surrounding the AZ (SZ). Quantitative analysis demonstrated that the density of
immunoparticles for CAST in the AZ was more than 100 times higher than in the
SZ, whereas that for syntaxin and SNAP-25 was not significantly different between
the AZ and SZ in both the A/C and mossy fiber terminals. These results support
the involvement of the t-SNARE proteins in exocytotic fusion in the AZ and the
role of CAST in specialization of the membrane domain for the AZ.
author:
- first_name: Akari
full_name: Hagiwara, Akari
last_name: Hagiwara
- first_name: Yugo
full_name: Fukazawa, Yugo
last_name: Fukazawa
- first_name: Maki
full_name: Deguchi-Tawarada, Maki
last_name: Deguchi Tawarada
- first_name: Toshihisa
full_name: Ohtsuka, Toshihisa
last_name: Ohtsuka
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Hagiwara A, Fukazawa Y, Deguchi Tawarada M, Ohtsuka T, Shigemoto R. Differential
distribution of release-related proteins in the hippocampal CA3 area as revealed
by freeze-fracture replica labeling. Journal of Comparative Neurology.
2005;489(2):195-216. doi:10.1002/cne.20633
apa: Hagiwara, A., Fukazawa, Y., Deguchi Tawarada, M., Ohtsuka, T., & Shigemoto,
R. (2005). Differential distribution of release-related proteins in the hippocampal
CA3 area as revealed by freeze-fracture replica labeling. Journal of Comparative
Neurology. Wiley-Blackwell. https://doi.org/10.1002/cne.20633
chicago: Hagiwara, Akari, Yugo Fukazawa, Maki Deguchi Tawarada, Toshihisa Ohtsuka,
and Ryuichi Shigemoto. “Differential Distribution of Release-Related Proteins
in the Hippocampal CA3 Area as Revealed by Freeze-Fracture Replica Labeling.”
Journal of Comparative Neurology. Wiley-Blackwell, 2005. https://doi.org/10.1002/cne.20633.
ieee: A. Hagiwara, Y. Fukazawa, M. Deguchi Tawarada, T. Ohtsuka, and R. Shigemoto,
“Differential distribution of release-related proteins in the hippocampal CA3
area as revealed by freeze-fracture replica labeling,” Journal of Comparative
Neurology, vol. 489, no. 2. Wiley-Blackwell, pp. 195–216, 2005.
ista: Hagiwara A, Fukazawa Y, Deguchi Tawarada M, Ohtsuka T, Shigemoto R. 2005.
Differential distribution of release-related proteins in the hippocampal CA3 area
as revealed by freeze-fracture replica labeling. Journal of Comparative Neurology.
489(2), 195–216.
mla: Hagiwara, Akari, et al. “Differential Distribution of Release-Related Proteins
in the Hippocampal CA3 Area as Revealed by Freeze-Fracture Replica Labeling.”
Journal of Comparative Neurology, vol. 489, no. 2, Wiley-Blackwell, 2005,
pp. 195–216, doi:10.1002/cne.20633.
short: A. Hagiwara, Y. Fukazawa, M. Deguchi Tawarada, T. Ohtsuka, R. Shigemoto,
Journal of Comparative Neurology 489 (2005) 195–216.
date_created: 2018-12-11T11:58:53Z
date_published: 2005-08-22T00:00:00Z
date_updated: 2021-01-12T06:58:50Z
day: '22'
doi: 10.1002/cne.20633
extern: 1
intvolume: ' 489'
issue: '2'
month: '08'
page: 195 - 216
publication: Journal of Comparative Neurology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4244'
quality_controlled: 0
status: public
title: Differential distribution of release-related proteins in the hippocampal CA3
area as revealed by freeze-fracture replica labeling
type: journal_article
volume: 489
year: '2005'
...
---
_id: '2656'
abstract:
- lang: eng
text: Previous studies have shown that neurons in the sacral dorsal commissural
nucleus (SDCN) express neurokinin-1 receptor (NK1R) and can be modulated by the
co-release of GABA and glycine (Gly) from single presynaptic terminal. These results
raise the possibility that GABA/Gly-cocontaining terminals might make synaptic
contacts with NK1R-expressing neurons in the SDCN. In order to provide morphological
evidence for this hypothesis, the triple-immunohistochemical studies were performed
in the SDCN. Triple-immunofluorescence histochemical study showed that some axon
terminals in close association with NK1R-immunopositive (NK1R-ip) neurons in the
SDCN were immunopositive for both glutamic acid decarboxylase (GAD) and glycine
transporter 2 (GlyT2). In electron microscopic dual- and triple-immunohistochemistry
for GAD/GlyT2, GAD/NK1R, GlyT2/NK1R, or GAD/GlyT2/NK1R also revealed dually labeled
(GAD/GlyT2-ip) synaptic terminals upon SDCN neurons, as well as GAD- and/or GlyT2-ip
axon terminals in synaptic contact with NK1R-ip SDCN neurons. These results suggested
that some synaptic terminals upon NK1R-expressing SDCN neurons co-released both
GABA and Gly.
author:
- first_name: Yu
full_name: Feng, Yu-Peng
last_name: Feng
- first_name: Yun
full_name: Li, Yun-Qing
last_name: Li
- first_name: Wen
full_name: Wang, Wen
last_name: Wang
- first_name: Sheng
full_name: Wu, Sheng-Xi
last_name: Wu
- first_name: Tao
full_name: Chen, Tao
last_name: Chen
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Noboru
full_name: Mizuno, Noboru
last_name: Mizuno
citation:
ama: Feng Y, Li Y, Wang W, et al. Morphological evidence for GABA/glycine-cocontaining
terminals in synaptic contact with neurokinin-1 receptor-expressing neurons in
the sacral dorsal commissural nucleus of the rat. Neuroscience Letters.
2005;388(3):144-148. doi:10.1016/j.neulet.2005.06.068
apa: Feng, Y., Li, Y., Wang, W., Wu, S., Chen, T., Shigemoto, R., & Mizuno,
N. (2005). Morphological evidence for GABA/glycine-cocontaining terminals in synaptic
contact with neurokinin-1 receptor-expressing neurons in the sacral dorsal commissural
nucleus of the rat. Neuroscience Letters. Elsevier. https://doi.org/10.1016/j.neulet.2005.06.068
chicago: Feng, Yu, Yun Li, Wen Wang, Sheng Wu, Tao Chen, Ryuichi Shigemoto, and
Noboru Mizuno. “Morphological Evidence for GABA/Glycine-Cocontaining Terminals
in Synaptic Contact with Neurokinin-1 Receptor-Expressing Neurons in the Sacral
Dorsal Commissural Nucleus of the Rat.” Neuroscience Letters. Elsevier,
2005. https://doi.org/10.1016/j.neulet.2005.06.068.
ieee: Y. Feng et al., “Morphological evidence for GABA/glycine-cocontaining
terminals in synaptic contact with neurokinin-1 receptor-expressing neurons in
the sacral dorsal commissural nucleus of the rat,” Neuroscience Letters,
vol. 388, no. 3. Elsevier, pp. 144–148, 2005.
ista: Feng Y, Li Y, Wang W, Wu S, Chen T, Shigemoto R, Mizuno N. 2005. Morphological
evidence for GABA/glycine-cocontaining terminals in synaptic contact with neurokinin-1
receptor-expressing neurons in the sacral dorsal commissural nucleus of the rat.
Neuroscience Letters. 388(3), 144–148.
mla: Feng, Yu, et al. “Morphological Evidence for GABA/Glycine-Cocontaining Terminals
in Synaptic Contact with Neurokinin-1 Receptor-Expressing Neurons in the Sacral
Dorsal Commissural Nucleus of the Rat.” Neuroscience Letters, vol. 388,
no. 3, Elsevier, 2005, pp. 144–48, doi:10.1016/j.neulet.2005.06.068.
short: Y. Feng, Y. Li, W. Wang, S. Wu, T. Chen, R. Shigemoto, N. Mizuno, Neuroscience
Letters 388 (2005) 144–148.
date_created: 2018-12-11T11:58:54Z
date_published: 2005-11-18T00:00:00Z
date_updated: 2021-01-12T06:58:51Z
day: '18'
doi: 10.1016/j.neulet.2005.06.068
extern: 1
intvolume: ' 388'
issue: '3'
month: '11'
page: 144 - 148
publication: Neuroscience Letters
publication_status: published
publisher: Elsevier
publist_id: '4241'
quality_controlled: 0
status: public
title: Morphological evidence for GABA/glycine-cocontaining terminals in synaptic
contact with neurokinin-1 receptor-expressing neurons in the sacral dorsal commissural
nucleus of the rat
type: journal_article
volume: 388
year: '2005'
...
---
_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.
author:
- first_name: David
full_name: Eng, David
last_name: Eng
- first_name: László
full_name: László Erdös
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: 2021-01-12T06:59:25Z
day: '01'
doi: 10.1142/S0129055X0500242X
extern: 1
intvolume: ' 17'
issue: '6'
month: '07'
page: 669 - 743
publication: Reviews in Mathematical Physics
publication_status: published
publisher: World Scientific Publishing
publist_id: '4148'
quality_controlled: 0
status: public
title: The linear Boltzmann equation as the low density limit of a random Schrödinger
equation
type: journal_article
volume: 17
year: '2005'
...
---
_id: '2743'
abstract:
- lang: eng
text: We consider the supersymmetric quantum mechanical system which is obtained
by dimensionally reducing d = 6, N = 1 supersymmetric gauge theory with gauge
group U(1) and a single charged hypermultiplet. Using the deformation method and
ideas introduced by Porrati and Rozenberg [1], we present a detailed proof of
the existence of a normalizable ground state for this system.
author:
- first_name: László
full_name: László Erdös
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: David
full_name: Hasler, David G
last_name: Hasler
- first_name: Jan
full_name: Solovej, Jan P
last_name: Solovej
citation:
ama: 'Erdös L, Hasler D, Solovej J. Existence of the D0-D4 bound state: A detailed
proof. Annales Henri Poincare. 2005;6(2):247-267. doi:10.1007/s00023-005-0205-0'
apa: 'Erdös, L., Hasler, D., & Solovej, J. (2005). Existence of the D0-D4 bound
state: A detailed proof. Annales Henri Poincare. Birkhäuser. https://doi.org/10.1007/s00023-005-0205-0'
chicago: 'Erdös, László, David Hasler, and Jan Solovej. “Existence of the D0-D4
Bound State: A Detailed Proof.” Annales Henri Poincare. Birkhäuser, 2005.
https://doi.org/10.1007/s00023-005-0205-0.'
ieee: 'L. Erdös, D. Hasler, and J. Solovej, “Existence of the D0-D4 bound state:
A detailed proof,” Annales Henri Poincare, vol. 6, no. 2. Birkhäuser, pp.
247–267, 2005.'
ista: 'Erdös L, Hasler D, Solovej J. 2005. Existence of the D0-D4 bound state: A
detailed proof. Annales Henri Poincare. 6(2), 247–267.'
mla: 'Erdös, László, et al. “Existence of the D0-D4 Bound State: A Detailed Proof.”
Annales Henri Poincare, vol. 6, no. 2, Birkhäuser, 2005, pp. 247–67, doi:10.1007/s00023-005-0205-0.'
short: L. Erdös, D. Hasler, J. Solovej, Annales Henri Poincare 6 (2005) 247–267.
date_created: 2018-12-11T11:59:22Z
date_published: 2005-04-01T00:00:00Z
date_updated: 2021-01-12T06:59:24Z
day: '01'
doi: 10.1007/s00023-005-0205-0
extern: 1
intvolume: ' 6'
issue: '2'
month: '04'
page: 247 - 267
publication: Annales Henri Poincare
publication_status: published
publisher: Birkhäuser
publist_id: '4149'
quality_controlled: 0
status: public
title: 'Existence of the D0-D4 bound state: A detailed proof'
type: journal_article
volume: 6
year: '2005'
...
---
_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.
author:
- first_name: Björn
full_name: Björn Hof
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Casimir
full_name: van Doorne, Casimir W
last_name: Van Doorne
- first_name: Jerry
full_name: Westerweel, Jerry
last_name: Westerweel
- first_name: Frans
full_name: Nieuwstadt, Frans T
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: 2021-01-12T06:59:43Z
day: '17'
doi: 10.1103/PhysRevLett.95.214502
extern: 1
intvolume: ' 95'
issue: '21'
month: '11'
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '4101'
quality_controlled: 0
status: public
title: Turbulence regeneration in pipe flow at moderate reynolds numbers
type: journal_article
volume: 95
year: '2005'
...
---
_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.
author:
- first_name: Björn
full_name: Björn Hof
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 P
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: 2021-01-12T06:59:44Z
day: '25'
doi: 10.1017/S0022112005006762
extern: 1
intvolume: ' 545'
month: '12'
page: 193 - 201
publication: Journal of Fluid Mechanics
publication_status: published
publisher: Cambridge University Press
publist_id: '4099'
quality_controlled: 0
status: public
title: Magnetohydrodynamic damping of oscillations in low-Prandtl-number convection
type: journal_article
volume: 545
year: '2005'
...
---
_id: '2789'
abstract:
- lang: eng
text: Transitional pipe flow is investigated in two different experimental set-ups.
In the first the stability threshold and the initial growth of localized perturbations
are studied. Good agreement is found with an earlier investigation of the transition
threshold. The measurement technique applied in the last part of this study allows
the reconstruction of the streamwise vorticity in a turbulent puff.
author:
- first_name: Björn
full_name: Björn Hof
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Hof B. Transition to turbulence in pipe flow. Fluid Mechanics and its Applications.
2005;77:221-231. doi:10.1007/1-4020-4049-0_12
apa: Hof, B. (2005). Transition to turbulence in pipe flow. Fluid Mechanics and
Its Applications. Springer. https://doi.org/10.1007/1-4020-4049-0_12
chicago: Hof, Björn. “Transition to Turbulence in Pipe Flow.” Fluid Mechanics
and Its Applications. Springer, 2005. https://doi.org/10.1007/1-4020-4049-0_12.
ieee: B. Hof, “Transition to turbulence in pipe flow,” Fluid Mechanics and its
Applications, vol. 77. Springer, pp. 221–231, 2005.
ista: Hof B. 2005. Transition to turbulence in pipe flow. Fluid Mechanics and its
Applications. 77, 221–231.
mla: Hof, Björn. “Transition to Turbulence in Pipe Flow.” Fluid Mechanics and
Its Applications, vol. 77, Springer, 2005, pp. 221–31, doi:10.1007/1-4020-4049-0_12.
short: B. Hof, Fluid Mechanics and Its Applications 77 (2005) 221–231.
date_created: 2018-12-11T11:59:36Z
date_published: 2005-09-19T00:00:00Z
date_updated: 2021-01-12T06:59:43Z
day: '19'
doi: 10.1007/1-4020-4049-0_12
extern: 1
intvolume: ' 77'
month: '09'
page: 221 - 231
publication: Fluid Mechanics and its Applications
publication_status: published
publisher: Springer
publist_id: '4100'
quality_controlled: 0
status: public
title: Transition to turbulence in pipe flow
type: journal_article
volume: 77
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.
author:
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Katja
full_name: Jäger, Katja E
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 C
last_name: Wilmoth
- first_name: Jason
full_name: Reed, Jason W
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.
date_created: 2018-12-11T12:00:01Z
date_published: 2005-05-18T00:00:00Z
date_updated: 2021-01-12T07:00:22Z
day: '18'
doi: 10.1038/sj.emboj.7600659
extern: 1
intvolume: ' 24'
issue: '10'
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1142592/
month: '05'
oa: 1
page: 1874 - 1885
publication: EMBO Journal
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3918'
quality_controlled: 0
status: public
title: Developmental specificity of auxin response by pairs of ARF and Aux/IAA transcriptional
regulators
type: journal_article
volume: 24
year: '2005'
...
---
_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).'
author:
- first_name: Jorge
full_name: Carneiro, Jorge
last_name: Carneiro
- first_name: Tiago
full_name: Tiago Paixao
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.
date_created: 2018-12-11T12:00:12Z
date_published: 2005-12-01T00:00:00Z
date_updated: 2021-01-12T07:00:32Z
day: '01'
doi: 10.1016/j.cam.2004.10.025
extern: 1
intvolume: ' 184'
issue: '1'
month: '12'
page: 77 - 100
publication: Journal of Computational and Applied Mathematics
publication_status: published
publisher: Elsevier
publist_id: '3863'
quality_controlled: 0
status: public
title: 'Immunological self tolerance: Lessons from mathematical modeling'
type: journal_article
volume: 184
year: '2005'
...
---
_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.
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: Jirí Friml
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.
date_created: 2018-12-11T12:00:48Z
date_published: 2005-07-01T00:00:00Z
date_updated: 2021-01-12T07:40:24Z
day: '01'
doi: 10.1105/tpc.105.034637
extern: 1
intvolume: ' 17'
issue: '9'
month: '07'
page: 2517 - 2526
publication: Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '3698'
quality_controlled: 0
status: public
title: Maintenance of embryonic auxin distribution for apical basal patterning by
PIN FORMED dependent auxin transport in Arabidopsis
type: journal_article
volume: 17
year: '2005'
...
---
_id: '3000'
abstract:
- lang: eng
text: In plants, cell polarity is an issue more recurring than in other systems,
because plants, due to their adaptive and flexible development, often change cell
polarity postembryonically according to intrinsic cues and demands of the environment.
Recent findings on the directional movement of the plant signalling molecule auxin
provide a unique connection between individual cell polarity and the establishment
of polarity at the tissue, organ, and whole-plant levels. Decisions about the
subcellular polar targeting of PIN auxin transport components determine the direction
of auxin flow between cells and consequently mediate multiple developmental events.
In addition, mutations or chemical interference with PIN-based auxin transport
result in abnormal cell divisions. Thus, the complicated links between cell polarity
establishment, auxin transport, cytoskeleton, and oriented cell divisions now
begin to emerge. Here we review the available literature on the issues of cell
polarity in both plants and animals to extend our understanding on the generation,
maintenance, and transmission of cell polarity in plants.
author:
- first_name: Pankaj
full_name: Dhonukshe, Pankaj
last_name: Dhonukshe
- first_name: Jürgen
full_name: Kleine Vehn, Jürgen
last_name: Kleine Vehn
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: 'Dhonukshe P, Kleine Vehn J, Friml J. Cell polarity, auxin transport and cytoskeleton
mediated division planes: Who comes first? Protoplasma. 2005;226(1-2):67-73.
doi:10.1007/s00709-005-0104-8'
apa: 'Dhonukshe, P., Kleine Vehn, J., & Friml, J. (2005). Cell polarity, auxin
transport and cytoskeleton mediated division planes: Who comes first? Protoplasma.
Springer. https://doi.org/10.1007/s00709-005-0104-8'
chicago: 'Dhonukshe, Pankaj, Jürgen Kleine Vehn, and Jiří Friml. “Cell Polarity,
Auxin Transport and Cytoskeleton Mediated Division Planes: Who Comes First?” Protoplasma.
Springer, 2005. https://doi.org/10.1007/s00709-005-0104-8.'
ieee: 'P. Dhonukshe, J. Kleine Vehn, and J. Friml, “Cell polarity, auxin transport
and cytoskeleton mediated division planes: Who comes first?,” Protoplasma,
vol. 226, no. 1–2. Springer, pp. 67–73, 2005.'
ista: 'Dhonukshe P, Kleine Vehn J, Friml J. 2005. Cell polarity, auxin transport
and cytoskeleton mediated division planes: Who comes first? Protoplasma. 226(1–2),
67–73.'
mla: 'Dhonukshe, Pankaj, et al. “Cell Polarity, Auxin Transport and Cytoskeleton
Mediated Division Planes: Who Comes First?” Protoplasma, vol. 226, no.
1–2, Springer, 2005, pp. 67–73, doi:10.1007/s00709-005-0104-8.'
short: P. Dhonukshe, J. Kleine Vehn, J. Friml, Protoplasma 226 (2005) 67–73.
date_created: 2018-12-11T12:00:47Z
date_published: 2005-10-01T00:00:00Z
date_updated: 2021-01-12T07:40:22Z
day: '01'
doi: 10.1007/s00709-005-0104-8
extern: '1'
intvolume: ' 226'
issue: 1-2
language:
- iso: eng
month: '10'
oa_version: None
page: 67 - 73
publication: Protoplasma
publication_status: published
publisher: Springer
publist_id: '3701'
quality_controlled: '1'
status: public
title: 'Cell polarity, auxin transport and cytoskeleton mediated division planes:
Who comes first?'
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 226
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.'
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-Dieter
last_name: Stierhof
- first_name: Jürgen
full_name: Kleine-Vehn, Jürgen
last_name: Kleine Vehn
- first_name: David
full_name: Morris, David A
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: Jirí Friml
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.
date_created: 2018-12-11T12:00:47Z
date_published: 2005-06-30T00:00:00Z
date_updated: 2021-01-12T07:40:23Z
day: '30'
doi: 10.1038/nature03633
extern: 1
intvolume: ' 435'
issue: '7046'
month: '06'
page: 1251 - 1256
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '3702'
quality_controlled: 0
status: public
title: Auxin inhibits endocytosis and promotes its own efflux from cells
type: journal_article
volume: 435
year: '2005'
...
---
_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.'
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: Eva Benková
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: Jirí Friml
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.
date_created: 2018-12-11T12:00:48Z
date_published: 2005-10-01T00:00:00Z
date_updated: 2021-01-12T07:40:23Z
day: '01'
doi: 10.1242/dev.02027
extern: 1
intvolume: ' 132'
issue: '20'
month: '10'
page: 4521 - 4531
publication: Development
publication_status: published
publisher: Company of Biologists
publist_id: '3700'
quality_controlled: 0
status: public
title: Functional redundancy of PIN proteins is accompanied by auxin-dependent cross-regulation
of PIN expression
type: journal_article
volume: 132
year: '2005'
...
---
_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.
In 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
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: Krzysztof Pietrzak
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: Vol 3621. Springer; 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 (Vol. 3621, pp. 449–466). Presented at the CRYPTO: International
Cryptology Conference, Springer. 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,” 3621:449–66. Springer, 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,” presented at the CRYPTO: International Cryptology Conference,
2005, vol. 3621, pp. 449–466.'
ista: 'Dodis Y, Oliveira R, Pietrzak KZ. 2005. On the generic insecurity of the
full domain hash. CRYPTO: International Cryptology Conference, LNCS, vol. 3621,
449–466.'
mla: Dodis, Yevgeniy, et al. On the Generic Insecurity of the Full Domain Hash.
Vol. 3621, Springer, 2005, pp. 449–66, doi:10.1007/11535218_27.
short: Y. Dodis, R. Oliveira, K.Z. Pietrzak, in:, Springer, 2005, pp. 449–466.
conference:
name: 'CRYPTO: International Cryptology Conference'
date_created: 2018-12-11T12:02:03Z
date_published: 2005-09-12T00:00:00Z
date_updated: 2021-01-12T07:41:50Z
day: '12'
doi: 10.1007/11535218_27
extern: 1
intvolume: ' 3621'
month: '09'
page: 449 - 466
publication_status: published
publisher: Springer
publist_id: '3470'
quality_controlled: 0
status: public
title: On the generic insecurity of the full domain hash
type: conference
volume: 3621
year: '2005'
...
---
_id: '3213'
abstract:
- lang: eng
text: |-
We study the question whether the sequential or parallel composition of two functions, each indistinguishable from a random function by non-adaptive distinguishers is secure against adaptive distinguishers. The sequential composition of F and G is the function G(F()), the parallel composition is F G where ⋆ is some group operation. It has been shown that composition indeed gives adaptive security in the information theoretic setting, but unfortunately the proof does not translate into the more interesting computational case.
In this work we show that in the computational setting composition does not imply adaptive security: If there is a prime order cyclic group where the decisional Diffie-Hellman assumption holds, then there are functions F and G which are indistinguishable by non-adaptive polynomially time-bounded adversaries, but whose parallel composition can be completely broken (i.e. we recover the key) with only three adaptive queries. We give a similar result for sequential composition. Interestingly, we need a standard assumption from the asymmetric (aka. public-key) world to prove a negative result for symmetric (aka. private-key) systems.
acknowledgement: Supported by the Swiss National Science Foundation, project No. 200020-103847/1.
alternative_title:
- LNCS
author:
- first_name: Krzysztof Z
full_name: Krzysztof Pietrzak
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Pietrzak KZ. Composition does not imply adaptive security. In: Vol 3621. Springer;
2005:55-65. doi:10.1007/11535218_4'
apa: 'Pietrzak, K. Z. (2005). Composition does not imply adaptive security (Vol.
3621, pp. 55–65). Presented at the CRYPTO: International Cryptology Conference,
Springer. https://doi.org/10.1007/11535218_4'
chicago: Pietrzak, Krzysztof Z. “Composition Does Not Imply Adaptive Security,”
3621:55–65. Springer, 2005. https://doi.org/10.1007/11535218_4.
ieee: 'K. Z. Pietrzak, “Composition does not imply adaptive security,” presented
at the CRYPTO: International Cryptology Conference, 2005, vol. 3621, pp. 55–65.'
ista: 'Pietrzak KZ. 2005. Composition does not imply adaptive security. CRYPTO:
International Cryptology Conference, LNCS, vol. 3621, 55–65.'
mla: Pietrzak, Krzysztof Z. Composition Does Not Imply Adaptive Security.
Vol. 3621, Springer, 2005, pp. 55–65, doi:10.1007/11535218_4.
short: K.Z. Pietrzak, in:, Springer, 2005, pp. 55–65.
conference:
name: 'CRYPTO: International Cryptology Conference'
date_created: 2018-12-11T12:02:03Z
date_published: 2005-09-12T00:00:00Z
date_updated: 2021-01-12T07:41:50Z
day: '12'
doi: 10.1007/11535218_4
extern: 1
intvolume: ' 3621'
month: '09'
page: 55 - 65
publication_status: published
publisher: Springer
publist_id: '3468'
quality_controlled: 0
status: public
title: Composition does not imply adaptive security
type: conference
volume: 3621
year: '2005'
...
---
_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
author:
- first_name: Mihir
full_name: Bellare, Mihir
last_name: Bellare
- first_name: Krzysztof Z
full_name: Krzysztof Pietrzak
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: Vol 3621. Springer; 2005:527-545. doi:10.1007/11535218_32'
apa: 'Bellare, M., Pietrzak, K. Z., & Rogaway, P. (2005). Improved security
analyses for CBC MACs (Vol. 3621, pp. 527–545). Presented at the CRYPTO: International
Cryptology Conference, Springer. https://doi.org/10.1007/11535218_32'
chicago: Bellare, Mihir, Krzysztof Z Pietrzak, and Phillip Rogaway. “Improved Security
Analyses for CBC MACs,” 3621:527–45. Springer, 2005. https://doi.org/10.1007/11535218_32.
ieee: 'M. Bellare, K. Z. Pietrzak, and P. Rogaway, “Improved security analyses for
CBC MACs,” presented at the CRYPTO: International Cryptology Conference, 2005,
vol. 3621, pp. 527–545.'
ista: 'Bellare M, Pietrzak KZ, Rogaway P. 2005. Improved security analyses for CBC
MACs. CRYPTO: International Cryptology Conference, LNCS, vol. 3621, 527–545.'
mla: Bellare, Mihir, et al. Improved Security Analyses for CBC MACs. Vol.
3621, Springer, 2005, pp. 527–45, doi:10.1007/11535218_32.
short: M. Bellare, K.Z. Pietrzak, P. Rogaway, in:, Springer, 2005, pp. 527–545.
conference:
name: 'CRYPTO: International Cryptology Conference'
date_created: 2018-12-11T12:02:02Z
date_published: 2005-09-12T00:00:00Z
date_updated: 2021-01-12T07:41:50Z
day: '12'
doi: 10.1007/11535218_32
extern: 1
intvolume: ' 3621'
month: '09'
page: 527 - 545
publication_status: published
publisher: Springer
publist_id: '3469'
quality_controlled: 0
status: public
title: Improved security analyses for CBC MACs
type: conference
volume: 3621
year: '2005'
...
---
_id: '3426'
abstract:
- lang: eng
text: We discuss the formation of graded morphogen profiles in a cell layer by nonlinear
transport phenomena, important for patterning developing organisms. We focus on
a process termed transcytosis, where morphogen transport results from the binding
of ligands to receptors on the cell surface, incorporation into the cell, and
subsequent externalization. Starting from a microscopic model, we derive effective
transport equations. We show that, in contrast to morphogen transport by extracellular
diffusion, transcytosis leads to robust ligand profiles which are insensitive
to the rate of ligand production.
article_processing_charge: No
author:
- first_name: Mark Tobias
full_name: Bollenbach, Mark Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
- first_name: Karsten
full_name: Kruse, Karsten
last_name: Kruse
- first_name: Periklis
full_name: Pantazis, Periklis
last_name: Pantazis
- first_name: Marcos
full_name: González Gaitán, Marcos
last_name: González Gaitán
- first_name: Frank
full_name: Jülicher, Frank
last_name: Jülicher
citation:
ama: Bollenbach MT, Kruse K, Pantazis P, González Gaitán M, Jülicher F. Robust formation
of morphogen gradients. Physical Review Letters. 2005;94(1). doi:10.1103/PhysRevLett.94.018103
apa: Bollenbach, M. T., Kruse, K., Pantazis, P., González Gaitán, M., & Jülicher,
F. (2005). Robust formation of morphogen gradients. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/PhysRevLett.94.018103
chicago: Bollenbach, Mark Tobias, Karsten Kruse, Periklis Pantazis, Marcos González
Gaitán, and Frank Jülicher. “Robust Formation of Morphogen Gradients.” Physical
Review Letters. American Physical Society, 2005. https://doi.org/10.1103/PhysRevLett.94.018103.
ieee: M. T. Bollenbach, K. Kruse, P. Pantazis, M. González Gaitán, and F. Jülicher,
“Robust formation of morphogen gradients,” Physical Review Letters, vol.
94, no. 1. American Physical Society, 2005.
ista: Bollenbach MT, Kruse K, Pantazis P, González Gaitán M, Jülicher F. 2005. Robust
formation of morphogen gradients. Physical Review Letters. 94(1).
mla: Bollenbach, Mark Tobias, et al. “Robust Formation of Morphogen Gradients.”
Physical Review Letters, vol. 94, no. 1, American Physical Society, 2005,
doi:10.1103/PhysRevLett.94.018103.
short: M.T. Bollenbach, K. Kruse, P. Pantazis, M. González Gaitán, F. Jülicher,
Physical Review Letters 94 (2005).
date_created: 2018-12-11T12:03:16Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:43:23Z
day: '01'
doi: 10.1103/PhysRevLett.94.018103
extern: '1'
external_id:
arxiv:
- q-bio/0412014
intvolume: ' 94'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/q-bio/0412014
month: '01'
oa: 1
oa_version: Preprint
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '2975'
status: public
title: Robust formation of morphogen gradients
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 94
year: '2005'
...
---
_id: '3443'
abstract:
- lang: eng
text: In the hippocampal CA1 area, a relatively homogenous population of pyramidal
cells is accompanied by a diversity of GABAergic interneurons. Previously, we
found that parvalbumin-expressing basket, axo-axonic, bistratified, and oriens-lacunosum
moleculare cells, innervating different domains of pyramidal cells, have distinct
firing patterns during network oscillations in vivo. A second family of interneurons,
expressing cholecystokinin but not parvalbumin, is known to target the same domains
of pyramidal cells as do the parvalbumin cells. To test the temporal activity
of these independent and parallel GABAergic inputs, we recorded the precise spike
timing of identified cholecystokinin interneurons during hippocampal network oscillations
in anesthetized rats and determined their molecular expression profiles and synaptic
targets. The cells were cannabinoid receptor type 1 immunopositive. Contrary to
the stereotyped firing of parvalbumin interneurons, cholecystokinin-expressing
basket and dendrite-innervating cells discharge, on average, with 1.7 ± 2.0 Hz
during high-frequency ripple oscillations in an episode-dependent manner. During
theta oscillations, cholecystokinin- expressing interneurons fire with 8.8 ± 3.3
Hz at a characteristic time on the ascending phase of theta waves (155 ± 81°),
when place cells start firing in freely moving animals. The firing patterns of
some interneurons recorded in drug-free behaving rats were similar to cholecystokinin
cells in anesthetized animals. Our results demonstrate that cholecystokinin- and
parvalbumin-expressing interneurons make different contributions to network oscillations
and play distinct roles in different brain states. We suggest that the specific
spike timing of cholecystokinin interneurons and their sensitivity to endocannabinoids
might contribute to differentiate subgroups of pyramidal cells forming neuronal
assemblies, whereas parvalbumin interneurons contribute to synchronizing the entire
network. Copyright © 2005 Society for Neuroscience.
author:
- first_name: Thomas
full_name: Klausberger,Thomas
last_name: Klausberger
- first_name: Laszlo
full_name: Marton,Laszlo F
last_name: Marton
- first_name: Joseph
full_name: Joseph O'Neill
id: 426376DC-F248-11E8-B48F-1D18A9856A87
last_name: O'Neill
- first_name: Jojanneke
full_name: Huck, Jojanneke H
last_name: Huck
- first_name: Yannis
full_name: Dalezios, Yannis
last_name: Dalezios
- first_name: Pablo
full_name: Fuentealba,Pablo
last_name: Fuentealba
- first_name: Wai
full_name: Suen, Wai Yee
last_name: Suen
- first_name: Edit
full_name: Papp, Edit Cs
last_name: Papp
- first_name: Takeshi
full_name: Kaneko, Takeshi
last_name: Kaneko
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Jozsef L
full_name: Jozsef Csicsvari
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Péter
full_name: Somogyi, Péter
last_name: Somogyi
citation:
ama: Klausberger T, Marton L, O’Neill J, et al. Complementary roles of cholecystokinin-
and parvalbumin-expressing GABAergic neurons in hippocampal network oscillations.
Journal of Neuroscience. 2005;25(42):9782-9793. doi:10.1523/JNEUROSCI.3269-05.2005
apa: Klausberger, T., Marton, L., O’Neill, J., Huck, J., Dalezios, Y., Fuentealba,
P., … Somogyi, P. (2005). Complementary roles of cholecystokinin- and parvalbumin-expressing
GABAergic neurons in hippocampal network oscillations. Journal of Neuroscience.
Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.3269-05.2005
chicago: Klausberger, Thomas, Laszlo Marton, Joseph O’Neill, Jojanneke Huck, Yannis
Dalezios, Pablo Fuentealba, Wai Suen, et al. “Complementary Roles of Cholecystokinin-
and Parvalbumin-Expressing GABAergic Neurons in Hippocampal Network Oscillations.”
Journal of Neuroscience. Society for Neuroscience, 2005. https://doi.org/10.1523/JNEUROSCI.3269-05.2005.
ieee: T. Klausberger et al., “Complementary roles of cholecystokinin- and
parvalbumin-expressing GABAergic neurons in hippocampal network oscillations,”
Journal of Neuroscience, vol. 25, no. 42. Society for Neuroscience, pp.
9782–9793, 2005.
ista: Klausberger T, Marton L, O’Neill J, Huck J, Dalezios Y, Fuentealba P, Suen
W, Papp E, Kaneko T, Watanabe M, Csicsvari JL, Somogyi P. 2005. Complementary
roles of cholecystokinin- and parvalbumin-expressing GABAergic neurons in hippocampal
network oscillations. Journal of Neuroscience. 25(42), 9782–9793.
mla: Klausberger, Thomas, et al. “Complementary Roles of Cholecystokinin- and Parvalbumin-Expressing
GABAergic Neurons in Hippocampal Network Oscillations.” Journal of Neuroscience,
vol. 25, no. 42, Society for Neuroscience, 2005, pp. 9782–93, doi:10.1523/JNEUROSCI.3269-05.2005.
short: T. Klausberger, L. Marton, J. O’Neill, J. Huck, Y. Dalezios, P. Fuentealba,
W. Suen, E. Papp, T. Kaneko, M. Watanabe, J.L. Csicsvari, P. Somogyi, Journal
of Neuroscience 25 (2005) 9782–9793.
date_created: 2018-12-11T12:03:21Z
date_published: 2005-10-19T00:00:00Z
date_updated: 2021-01-12T07:43:30Z
day: '19'
doi: 10.1523/JNEUROSCI.3269-05.2005
extern: 1
intvolume: ' 25'
issue: '42'
month: '10'
page: 9782 - 9793
publication: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '2944'
quality_controlled: 0
status: public
title: Complementary roles of cholecystokinin- and parvalbumin-expressing GABAergic
neurons in hippocampal network oscillations
type: journal_article
volume: 25
year: '2005'
...
---
_id: '3557'
abstract:
- lang: eng
text: A challenging problem in computer-aided geometric design is the decomposition
of a surface into four-sided regions that are then represented by NURBS patches.
There are various approaches published in the literature and implemented as commercially
available software, but all fall short in either automation or quality of the
result. At Raindrop Geomagic, we have recently taken a fresh approach based on
concepts from Morse theory. This by itself is not a new idea, but we have some
novel ingredients that make this work, one being a rational notion of hierarchy
that guides the construction of a simplified decomposition sensitive to only the
major critical points.
author:
- first_name: Herbert
full_name: Herbert Edelsbrunner
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
citation:
ama: 'Edelsbrunner H. Surface tiling with differential topology. In: ACM; 2005:9-11.
doi:http://dx.doi.org/10.2312/SGP/SGP05/009-011'
apa: 'Edelsbrunner, H. (2005). Surface tiling with differential topology (pp. 9–11).
Presented at the SGP: Eurographics Symposium on Geometry processing, ACM. http://dx.doi.org/10.2312/SGP/SGP05/009-011'
chicago: Edelsbrunner, Herbert. “Surface Tiling with Differential Topology,” 9–11.
ACM, 2005. http://dx.doi.org/10.2312/SGP/SGP05/009-011.
ieee: 'H. Edelsbrunner, “Surface tiling with differential topology,” presented at
the SGP: Eurographics Symposium on Geometry processing, 2005, pp. 9–11.'
ista: 'Edelsbrunner H. 2005. Surface tiling with differential topology. SGP: Eurographics
Symposium on Geometry processing, 9–11.'
mla: Edelsbrunner, Herbert. Surface Tiling with Differential Topology. ACM,
2005, pp. 9–11, doi:http://dx.doi.org/10.2312/SGP/SGP05/009-011.
short: H. Edelsbrunner, in:, ACM, 2005, pp. 9–11.
conference:
name: 'SGP: Eurographics Symposium on Geometry processing'
date_created: 2018-12-11T12:03:57Z
date_published: 2005-07-01T00:00:00Z
date_updated: 2021-01-12T07:44:17Z
day: '01'
doi: http://dx.doi.org/10.2312/SGP/SGP05/009-011
extern: 1
main_file_link:
- open_access: '0'
url: http://www.cs.duke.edu/~edels/Papers/2005-P-03-SurfaceTiling.pdf
month: '07'
page: 9 - 11
publication_status: published
publisher: ACM
publist_id: '2828'
quality_controlled: 0
status: public
title: Surface tiling with differential topology
type: conference
year: '2005'
...
---
_id: '3589'
abstract:
- lang: eng
text: During zebrafish gastrulation, the interplay between patterning events and
morphogenesis creates an embryo out of a seemingly unstructured blastula stage
embryo, an embryo with distinct polarities along its anterior–posterior, dorsoventral
and left–right axes at the end of gastrulation.
article_processing_charge: No
author:
- first_name: Mathias
full_name: Köppen, Mathias
last_name: Köppen
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: 'Köppen M, Heisenberg C-PJ. Cleavage and gastrulation in zebrafish embryos.
In: Encyclopedia of Life Sciences. Wiley-Blackwell; 2005. doi:10.1038/npg.els.0001072'
apa: Köppen, M., & Heisenberg, C.-P. J. (2005). Cleavage and gastrulation in
zebrafish embryos. In Encyclopedia of Life Sciences. Wiley-Blackwell. https://doi.org/10.1038/npg.els.0001072
chicago: Köppen, Mathias, and Carl-Philipp J Heisenberg. “Cleavage and Gastrulation
in Zebrafish Embryos.” In Encyclopedia of Life Sciences. Wiley-Blackwell,
2005. https://doi.org/10.1038/npg.els.0001072.
ieee: M. Köppen and C.-P. J. Heisenberg, “Cleavage and gastrulation in zebrafish
embryos,” in Encyclopedia of Life Sciences, Wiley-Blackwell, 2005.
ista: 'Köppen M, Heisenberg C-PJ. 2005.Cleavage and gastrulation in zebrafish embryos.
In: Encyclopedia of Life Sciences. .'
mla: Köppen, Mathias, and Carl-Philipp J. Heisenberg. “Cleavage and Gastrulation
in Zebrafish Embryos.” Encyclopedia of Life Sciences, Wiley-Blackwell,
2005, doi:10.1038/npg.els.0001072.
short: M. Köppen, C.-P.J. Heisenberg, in:, Encyclopedia of Life Sciences, Wiley-Blackwell,
2005.
date_created: 2018-12-11T12:04:07Z
date_published: 2005-09-23T00:00:00Z
date_updated: 2021-01-12T07:44:30Z
day: '23'
doi: 10.1038/npg.els.0001072
extern: '1'
language:
- iso: eng
month: '09'
oa_version: None
publication: Encyclopedia of Life Sciences
publication_status: published
publisher: Wiley-Blackwell
publist_id: '2794'
status: public
title: Cleavage and gastrulation in zebrafish embryos
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2005'
...
---
_id: '3588'
article_processing_charge: No
author:
- first_name: Irinka
full_name: Castanon Ortega, Irinka
last_name: Castanon Ortega
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: 'Castanon Ortega I, Heisenberg C-PJ. Cell migration during zebrafish gastrulation.
In: Wedlich D, ed. Cell Migration in Development and Disease. Wiley-VCH;
2005:71-105. doi:10.1002/3527604669'
apa: Castanon Ortega, I., & Heisenberg, C.-P. J. (2005). Cell migration during
zebrafish gastrulation. In D. Wedlich (Ed.), Cell Migration in Development
and Disease (pp. 71–105). Wiley-VCH. https://doi.org/10.1002/3527604669
chicago: Castanon Ortega, Irinka, and Carl-Philipp J Heisenberg. “Cell Migration
during Zebrafish Gastrulation.” In Cell Migration in Development and Disease,
edited by Doris Wedlich, 71–105. Wiley-VCH, 2005. https://doi.org/10.1002/3527604669.
ieee: I. Castanon Ortega and C.-P. J. Heisenberg, “Cell migration during zebrafish
gastrulation,” in Cell Migration in Development and Disease, D. Wedlich,
Ed. Wiley-VCH, 2005, pp. 71–105.
ista: 'Castanon Ortega I, Heisenberg C-PJ. 2005.Cell migration during zebrafish
gastrulation. In: Cell Migration in Development and Disease. , 71–105.'
mla: Castanon Ortega, Irinka, and Carl-Philipp J. Heisenberg. “Cell Migration during
Zebrafish Gastrulation.” Cell Migration in Development and Disease, edited
by Doris Wedlich, Wiley-VCH, 2005, pp. 71–105, doi:10.1002/3527604669.
short: I. Castanon Ortega, C.-P.J. Heisenberg, in:, D. Wedlich (Ed.), Cell Migration
in Development and Disease, Wiley-VCH, 2005, pp. 71–105.
date_created: 2018-12-11T12:04:07Z
date_published: 2005-03-14T00:00:00Z
date_updated: 2021-01-12T07:44:29Z
day: '14'
doi: 10.1002/3527604669
editor:
- first_name: Doris
full_name: Wedlich, Doris
last_name: Wedlich
extern: '1'
language:
- iso: eng
month: '03'
oa_version: None
page: 71 - 105
publication: Cell Migration in Development and Disease
publication_status: published
publisher: Wiley-VCH
publist_id: '2795'
status: public
title: Cell migration during zebrafish gastrulation
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2005'
...
---
_id: '3590'
acknowledgement: 'BOOK REVIEWED - Gastrulation: From Cells to Embryo, Edited by Claudio
Stern. Published by Cold Spring Harbor Laboratory Press: 2004. '
article_processing_charge: No
author:
- first_name: Irinka
full_name: Castanon Ortega, Irinka
last_name: Castanon Ortega
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Castanon Ortega I, Heisenberg C-PJ. A stern view of gastrulation. Nature
Cell Biology. 2005;7(1):19-19. doi:10.1038/ncb0105-19
apa: Castanon Ortega, I., & Heisenberg, C.-P. J. (2005). A stern view of gastrulation.
Nature Cell Biology. Nature Publishing Group. https://doi.org/10.1038/ncb0105-19
chicago: Castanon Ortega, Irinka, and Carl-Philipp J Heisenberg. “A Stern View of
Gastrulation.” Nature Cell Biology. Nature Publishing Group, 2005. https://doi.org/10.1038/ncb0105-19.
ieee: I. Castanon Ortega and C.-P. J. Heisenberg, “A stern view of gastrulation,”
Nature Cell Biology, vol. 7, no. 1. Nature Publishing Group, pp. 19–19,
2005.
ista: Castanon Ortega I, Heisenberg C-PJ. 2005. A stern view of gastrulation. Nature
Cell Biology. 7(1), 19–19.
mla: Castanon Ortega, Irinka, and Carl-Philipp J. Heisenberg. “A Stern View of Gastrulation.”
Nature Cell Biology, vol. 7, no. 1, Nature Publishing Group, 2005, pp.
19–19, doi:10.1038/ncb0105-19.
short: I. Castanon Ortega, C.-P.J. Heisenberg, Nature Cell Biology 7 (2005) 19–19.
date_created: 2018-12-11T12:04:07Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2020-10-07T06:26:47Z
day: '01'
doi: 10.1038/ncb0105-19
extern: '1'
intvolume: ' 7'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 19 - 19
publication: Nature Cell Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '2793'
status: public
title: A stern view of gastrulation
type: review
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2005'
...
---
_id: '3689'
abstract:
- lang: eng
text: Digital cameras have become almost ubiquitous and their use for fast and casual
capturing of natural images is unchallenged. For making images of documents, however,
they have not caught up to flatbed scanners yet, mainly because camera images
tend to suffer from distortion due to the perspective and are therefore limited
in their further use for archival or OCR. For images of non-planar paper surfaces
like books, page curl causes additional distortion, which poses an even greater
problem due to its nonlinearity. This paper presents a new algorithm for removing
both perspective and page curl distortion. It requires only a single camera image
as input and relies on a priori layout information instead of additional hardware.
Therefore, it is much more user friendly than most previous approaches, and allows
for flexible ad hoc document capture. Results are presented showing that the algorithm
produces visually pleasing output and increases OCR accuracy, thus having the
potential to become a general purpose preprocessing tool for camera based document
capture.
alternative_title:
- Document Analysis and Recognition
author:
- first_name: Adrian
full_name: Ulges, Adrian
last_name: Ulges
- first_name: Christoph
full_name: Christoph Lampert
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Thomas
full_name: Breuel,Thomas M
last_name: Breuel
citation:
ama: 'Ulges A, Lampert C, Breuel T. Document image dewarping using robust estimation
of curled text lines. In: Vol 2. IEEE; 2005:1001-1005. doi: 10.1109/ICDAR.2005.90'
apa: 'Ulges, A., Lampert, C., & Breuel, T. (2005). Document image dewarping
using robust estimation of curled text lines (Vol. 2, pp. 1001–1005). Presented
at the ICDAR: International Conference on Document Analysis and Recognition, IEEE.
https://doi.org/ 10.1109/ICDAR.2005.90'
chicago: Ulges, Adrian, Christoph Lampert, and Thomas Breuel. “Document Image Dewarping
Using Robust Estimation of Curled Text Lines,” 2:1001–5. IEEE, 2005. https://doi.org/ 10.1109/ICDAR.2005.90.
ieee: 'A. Ulges, C. Lampert, and T. Breuel, “Document image dewarping using robust
estimation of curled text lines,” presented at the ICDAR: International Conference
on Document Analysis and Recognition, 2005, vol. 2, pp. 1001–1005.'
ista: 'Ulges A, Lampert C, Breuel T. 2005. Document image dewarping using robust
estimation of curled text lines. ICDAR: International Conference on Document Analysis
and Recognition, Document Analysis and Recognition, vol. 2, 1001–1005.'
mla: Ulges, Adrian, et al. Document Image Dewarping Using Robust Estimation of
Curled Text Lines. Vol. 2, IEEE, 2005, pp. 1001–05, doi: 10.1109/ICDAR.2005.90.
short: A. Ulges, C. Lampert, T. Breuel, in:, IEEE, 2005, pp. 1001–1005.
conference:
name: 'ICDAR: International Conference on Document Analysis and Recognition'
date_created: 2018-12-11T12:04:38Z
date_published: 2005-09-01T00:00:00Z
date_updated: 2021-01-12T07:48:58Z
day: '01'
doi: ' 10.1109/ICDAR.2005.90'
extern: 1
intvolume: ' 2'
main_file_link:
- open_access: '0'
url: http:/pub.ist.ac.at/~chl/papers/ulges-icdar2004.pdf
month: '09'
page: 1001 - 1005
publication_status: published
publisher: IEEE
publist_id: '2680'
quality_controlled: 0
status: public
title: Document image dewarping using robust estimation of curled text lines
type: conference
volume: 2
year: '2005'
...
---
_id: '3684'
abstract:
- lang: eng
text: |-
Ever since text processors became popular, users have
dreamt of handling documents printed on paper as comfortably
as electronic ones, with full text search typically
appearing very close to the top of the wish list.
This paper presents the design of a prototype system that
takes a step into this direction. The user’s desktop is continuously
monitored and of each detected document a high
resolution snapshot is taken using a digital camera. The
resulting image is processed using specially designed dewarping
and OCR algorithms, making a digital and fully
searchable version of the document available to the user in
real-time. These steps are performed without any user interaction.
This enables the system to run as a background
task without disturbing the user in her work, while at the
same time offering electronic access to all paper documents
that have been present on the desktop during the uptime of
the system.
author:
- first_name: Christoph
full_name: Christoph Lampert
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
- first_name: Tim
full_name: Braun,Tim
last_name: Braun
- first_name: Adrian
full_name: Ulges, Adrian
last_name: Ulges
- first_name: Daniel
full_name: Keysers,Daniel
last_name: Keysers
- first_name: Thomas
full_name: Breuel,Thomas M
last_name: Breuel
citation:
ama: 'Lampert C, Braun T, Ulges A, Keysers D, Breuel T. Oblivious document capture
and real-time retrieval. In: CBDAR; 2005:79-86.'
apa: 'Lampert, C., Braun, T., Ulges, A., Keysers, D., & Breuel, T. (2005). Oblivious
document capture and real-time retrieval (pp. 79–86). Presented at the CBDAR:
Camera Based Document Analysis and Recognition , CBDAR.'
chicago: Lampert, Christoph, Tim Braun, Adrian Ulges, Daniel Keysers, and Thomas
Breuel. “Oblivious Document Capture and Real-Time Retrieval,” 79–86. CBDAR, 2005.
ieee: 'C. Lampert, T. Braun, A. Ulges, D. Keysers, and T. Breuel, “Oblivious document
capture and real-time retrieval,” presented at the CBDAR: Camera Based Document
Analysis and Recognition , 2005, pp. 79–86.'
ista: 'Lampert C, Braun T, Ulges A, Keysers D, Breuel T. 2005. Oblivious document
capture and real-time retrieval. CBDAR: Camera Based Document Analysis and Recognition
, 79–86.'
mla: Lampert, Christoph, et al. Oblivious Document Capture and Real-Time Retrieval.
CBDAR, 2005, pp. 79–86.
short: C. Lampert, T. Braun, A. Ulges, D. Keysers, T. Breuel, in:, CBDAR, 2005,
pp. 79–86.
conference:
name: 'CBDAR: Camera Based Document Analysis and Recognition '
date_created: 2018-12-11T12:04:36Z
date_published: 2005-08-29T00:00:00Z
date_updated: 2021-01-12T07:45:07Z
day: '29'
extern: 1
main_file_link:
- open_access: '0'
url: http://pub.ist.ac.at/~chl/papers/lampert-cbdar2005.pdf
month: '08'
page: 79 - 86
publication_status: published
publisher: CBDAR
publist_id: '2693'
quality_controlled: 0
status: public
title: Oblivious document capture and real-time retrieval
type: conference
year: '2005'
...
---
_id: '3720'
article_processing_charge: No
author:
- first_name: José
full_name: Guzmán, José
id: 30CC5506-F248-11E8-B48F-1D18A9856A87
last_name: Guzmán
- first_name: Zoltan
full_name: Gerevich, Zoltan
last_name: Gerevich
- first_name: Jan
full_name: Hengstler, Jan
last_name: Hengstler
- first_name: Peter
full_name: Illes, Peter
last_name: Illes
- first_name: Werner
full_name: Kleemann, Werner
last_name: Kleemann
citation:
ama: Guzmán J, Gerevich Z, Hengstler J, Illes P, Kleemann W. P2Y1 receptors inhibit
both strength and plasticity of glutamatergic synaptic neurotransmission in the
rat prefrontal cortex. Synapse. 2005;57(4):235-238. doi:10.1002/syn.20177
apa: Guzmán, J., Gerevich, Z., Hengstler, J., Illes, P., & Kleemann, W. (2005).
P2Y1 receptors inhibit both strength and plasticity of glutamatergic synaptic
neurotransmission in the rat prefrontal cortex. Synapse. Wiley. https://doi.org/10.1002/syn.20177
chicago: Guzmán, José, Zoltan Gerevich, Jan Hengstler, Peter Illes, and Werner Kleemann.
“P2Y1 Receptors Inhibit Both Strength and Plasticity of Glutamatergic Synaptic
Neurotransmission in the Rat Prefrontal Cortex.” Synapse. Wiley, 2005.
https://doi.org/10.1002/syn.20177.
ieee: J. Guzmán, Z. Gerevich, J. Hengstler, P. Illes, and W. Kleemann, “P2Y1 receptors
inhibit both strength and plasticity of glutamatergic synaptic neurotransmission
in the rat prefrontal cortex.,” Synapse, vol. 57, no. 4. Wiley, pp. 235–238,
2005.
ista: Guzmán J, Gerevich Z, Hengstler J, Illes P, Kleemann W. 2005. P2Y1 receptors
inhibit both strength and plasticity of glutamatergic synaptic neurotransmission
in the rat prefrontal cortex. Synapse. 57(4), 235–238.
mla: Guzmán, José, et al. “P2Y1 Receptors Inhibit Both Strength and Plasticity of
Glutamatergic Synaptic Neurotransmission in the Rat Prefrontal Cortex.” Synapse,
vol. 57, no. 4, Wiley, 2005, pp. 235–38, doi:10.1002/syn.20177.
short: J. Guzmán, Z. Gerevich, J. Hengstler, P. Illes, W. Kleemann, Synapse 57 (2005)
235–238.
date_created: 2018-12-11T12:04:48Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:51:43Z
day: '01'
doi: 10.1002/syn.20177
extern: '1'
intvolume: ' 57'
issue: '4'
language:
- iso: eng
month: '01'
oa_version: None
page: 235 - 238
publication: Synapse
publication_status: published
publisher: Wiley
publist_id: '2510'
status: public
title: P2Y1 receptors inhibit both strength and plasticity of glutamatergic synaptic
neurotransmission in the rat prefrontal cortex.
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 57
year: '2005'
...
---
_id: '3753'
abstract:
- lang: eng
text: Characterizing the dynamics of specific RNA levels requires real-time RNA
profiling in a single cell. We show that the combination of a synthetic modular
genetic system with fluorescence correlation spectroscopy allows us to directly
measure in real time the activity of any specific promoter in prokaryotes. Using
a simple inducible gene expression system, we found that induced RNA levels within
a single bacterium of Escherichia coli exhibited a pulsating profile in response
to a steady input of inducer. The genetic deletion of an efflux pump system, a
key determinant of antibiotic resistance, altered the pulsating transcriptional
dynamics and caused overexpression of induced RNA. In contrast with population
measurements, real-time RNA profiling permits identifying relationships between
genotypes and transcriptional dynamics that are accessible only at the level of
the single cell.
acknowledgement: '4237'
author:
- first_name: Thuc
full_name: Le,Thuc T.
last_name: Le
- first_name: Sébastien
full_name: Harlepp, Sébastien
last_name: Harlepp
- first_name: Calin C
full_name: Calin Guet
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- first_name: Kimberly
full_name: Dittmar,Kimberly
last_name: Dittmar
- first_name: Thierry
full_name: Emonet,Thierry
last_name: Emonet
- first_name: Tao
full_name: Pan,Tao
last_name: Pan
- first_name: Philippe
full_name: Cluzel,Philippe
last_name: Cluzel
citation:
ama: Le T, Harlepp S, Guet CC, et al. Real-time RNA profiling within a single bacterium.
PNAS. 2005;102(26):9160-9164. doi:10.1073/pnas.0503311102
apa: Le, T., Harlepp, S., Guet, C. C., Dittmar, K., Emonet, T., Pan, T., & Cluzel,
P. (2005). Real-time RNA profiling within a single bacterium. PNAS. National
Academy of Sciences. https://doi.org/10.1073/pnas.0503311102
chicago: Le, Thuc, Sébastien Harlepp, Calin C Guet, Kimberly Dittmar, Thierry Emonet,
Tao Pan, and Philippe Cluzel. “Real-Time RNA Profiling within a Single Bacterium.”
PNAS. National Academy of Sciences, 2005. https://doi.org/10.1073/pnas.0503311102.
ieee: T. Le et al., “Real-time RNA profiling within a single bacterium,”
PNAS, vol. 102, no. 26. National Academy of Sciences, pp. 9160–9164, 2005.
ista: Le T, Harlepp S, Guet CC, Dittmar K, Emonet T, Pan T, Cluzel P. 2005. Real-time
RNA profiling within a single bacterium. PNAS. 102(26), 9160–9164.
mla: Le, Thuc, et al. “Real-Time RNA Profiling within a Single Bacterium.” PNAS,
vol. 102, no. 26, National Academy of Sciences, 2005, pp. 9160–64, doi:10.1073/pnas.0503311102.
short: T. Le, S. Harlepp, C.C. Guet, K. Dittmar, T. Emonet, T. Pan, P. Cluzel, PNAS
102 (2005) 9160–9164.
date_created: 2018-12-11T12:04:59Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:51:57Z
day: '01'
doi: 10.1073/pnas.0503311102
extern: 1
intvolume: ' 102'
issue: '26'
month: '01'
page: 9160 - 9164
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '2476'
quality_controlled: 0
status: public
title: Real-time RNA profiling within a single bacterium
type: journal_article
volume: 102
year: '2005'
...
---
_id: '3763'
abstract:
- lang: eng
text: The generation of realistic motion satisfying user-defined requirements is
one of the most important goals of computer animation. Our aim in this paper is
the synthesis of realistic, controllable motion for lightweight natural objects
in a gaseous medium. We formulate this problem as a large-scale spacetime optimization
with user controls and fluid motion equations as constraints. We have devised
novel and effective methods to make this large optimization tractable. Initial
trajectories are generated with data-driven synthesis based on stylistic motion
planning. Smoothed particle hydrodynamics (SPH) is used during optimization to
produce fluid simulations at a reasonable computational cost, while interesting
vortex-based fluid motion is generated by recording the presence of vortices in
the initial trajectories and maintaining them through optimization. Object rotations
are refined as a postprocess to enhance the visual quality of the results. We
demonstrate our techniques on a number of animations involving single or multiple
objects.
article_processing_charge: No
author:
- first_name: Lin
full_name: Shi, Lin
last_name: Shi
- first_name: Yizhou
full_name: Yu, Yizhou
last_name: Yu
- first_name: Christopher J
full_name: Wojtan, Christopher J
id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
last_name: Wojtan
orcid: 0000-0001-6646-5546
- first_name: Stephen
full_name: Chenney, Stephen
last_name: Chenney
citation:
ama: Shi L, Yu Y, Wojtan C, Chenney S. Controllable motion synthesis in a gaseous
medium. The Visual Computer. 2005;21(7):474-487. doi:10.1007/s00371-005-0296-0
apa: Shi, L., Yu, Y., Wojtan, C., & Chenney, S. (2005). Controllable motion
synthesis in a gaseous medium. The Visual Computer. Springer. https://doi.org/10.1007/s00371-005-0296-0
chicago: Shi, Lin, Yizhou Yu, Chris Wojtan, and Stephen Chenney. “Controllable Motion
Synthesis in a Gaseous Medium.” The Visual Computer. Springer, 2005. https://doi.org/10.1007/s00371-005-0296-0.
ieee: L. Shi, Y. Yu, C. Wojtan, and S. Chenney, “Controllable motion synthesis in
a gaseous medium,” The Visual Computer, vol. 21, no. 7. Springer, pp. 474–487,
2005.
ista: Shi L, Yu Y, Wojtan C, Chenney S. 2005. Controllable motion synthesis in a
gaseous medium. The Visual Computer. 21(7), 474–487.
mla: Shi, Lin, et al. “Controllable Motion Synthesis in a Gaseous Medium.” The
Visual Computer, vol. 21, no. 7, Springer, 2005, pp. 474–87, doi:10.1007/s00371-005-0296-0.
short: L. Shi, Y. Yu, C. Wojtan, S. Chenney, The Visual Computer 21 (2005) 474–487.
date_created: 2018-12-11T12:05:02Z
date_published: 2005-08-01T00:00:00Z
date_updated: 2023-02-23T11:41:36Z
day: '01'
doi: 10.1007/s00371-005-0296-0
extern: '1'
intvolume: ' 21'
issue: '7'
language:
- iso: eng
month: '08'
oa_version: None
page: 474 - 487
publication: The Visual Computer
publication_status: published
publisher: Springer
publist_id: '2465'
status: public
title: Controllable motion synthesis in a gaseous medium
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 21
year: '2005'
...
---
_id: '3812'
abstract:
- lang: eng
text: Hippocampal GABAergic interneurons show diverse molecular and morphological
properties. The functional significance of this diversity for information processing
is poorly understood. Here we show that cholecystokinin (CCK)-expressing interneurons
in rat dentate gyrus release GABA in a highly asynchronous manner, in contrast
to parvalbumin (PV) interneurons. With a gamma-frequency burst of ten action potentials,
the ratio of asynchronous to synchronous release is 3:1 in CCK interneurons but
is 1:5 in parvalbumin interneurons. N-type channels trigger synchronous and asynchronous
release in CCK interneuron synapses, whereas P/Q-type Ca(2+) channels mediate
release at PV interneuron synapses. Effects of Ca(2+) chelators suggest that both
a long-lasting presynaptic Ca(2+) transient and a large distance between Ca(2+)
source and sensor of exocytosis contribute to the higher ratio of asynchronous
to synchronous release in CCK interneuron synapses. Asynchronous release occurs
at physiological temperature and with behaviorally relevant stimulation patterns,
thus generating long-lasting inhibition in the brain.
author:
- first_name: Stefan
full_name: Hefft, Stefan
last_name: Hefft
- first_name: Peter M
full_name: Peter Jonas
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Hefft S, Jonas PM. Asynchronous GABA release generates long-lasting inhibition
at a hippocampal interneuron-principal neuron synapse (Review). Nature Neuroscience.
2005;8(10):1319-1328. doi:10.1038/nn1542
apa: Hefft, S., & Jonas, P. M. (2005). Asynchronous GABA release generates long-lasting
inhibition at a hippocampal interneuron-principal neuron synapse (Review). Nature
Neuroscience. Nature Publishing Group. https://doi.org/10.1038/nn1542
chicago: Hefft, Stefan, and Peter M Jonas. “Asynchronous GABA Release Generates
Long-Lasting Inhibition at a Hippocampal Interneuron-Principal Neuron Synapse
(Review).” Nature Neuroscience. Nature Publishing Group, 2005. https://doi.org/10.1038/nn1542.
ieee: S. Hefft and P. M. Jonas, “Asynchronous GABA release generates long-lasting
inhibition at a hippocampal interneuron-principal neuron synapse (Review),” Nature
Neuroscience, vol. 8, no. 10. Nature Publishing Group, pp. 1319–28, 2005.
ista: Hefft S, Jonas PM. 2005. Asynchronous GABA release generates long-lasting
inhibition at a hippocampal interneuron-principal neuron synapse (Review). Nature
Neuroscience. 8(10), 1319–28.
mla: Hefft, Stefan, and Peter M. Jonas. “Asynchronous GABA Release Generates Long-Lasting
Inhibition at a Hippocampal Interneuron-Principal Neuron Synapse (Review).” Nature
Neuroscience, vol. 8, no. 10, Nature Publishing Group, 2005, pp. 1319–28,
doi:10.1038/nn1542.
short: S. Hefft, P.M. Jonas, Nature Neuroscience 8 (2005) 1319–28.
date_created: 2018-12-11T12:05:18Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2019-04-26T07:22:35Z
day: '01'
doi: 10.1038/nn1542
extern: 1
intvolume: ' 8'
issue: '10'
month: '01'
page: 1319 - 28
publication: Nature Neuroscience
publication_status: published
publisher: Nature Publishing Group
publist_id: '2399'
quality_controlled: 0
status: public
title: Asynchronous GABA release generates long-lasting inhibition at a hippocampal
interneuron-principal neuron synapse (Review)
type: review
volume: 8
year: '2005'
...
---
_id: '3896'
abstract:
- lang: eng
text: Temporal Logic Model Checking is one of the most potent tools for the verification
of finite state systems. Computation Tree Logic (CTL) has gained popularity because
unlike most other logics, CTL model checking of a single transition system can
be achieved in polynomial time. However, in most real-life problems, specially
in distributed and parallel systems, the system consist of a set of concurrent
processes and the verification problem translates to model check the composition
of the component processes. Since explicit composition leads to state explosion,
verifying the system without actually composing the components is attractive,
even for possibly restrictive class of systems. We show that the problem of compositional
CTL model checking is PSPACE complete for the class of systems composed of components
that are tree-like transition structure and do not interact among themselves.
For the simplest forms of existential and universal CTL formulas model checking
turns out to be NP complete and coNP complete, respectively. The results hold
for both synchronous and asynchronous composition.
acknowledgement: Pallab Dasgupta and P.P.Chakrabarti thank the Dept. of Science &
Tech., Govt. of India, for partial support of this work
alternative_title:
- LNCS
author:
- first_name: Krishnendu
full_name: Krishnendu Chatterjee
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Pallab
full_name: Dasgupta, Pallab
last_name: Dasgupta
- first_name: Partha
full_name: Chakrabarti, Partha P
last_name: Chakrabarti
citation:
ama: 'Chatterjee K, Dasgupta P, Chakrabarti P. Complexity of compositional model
checking of computation tree logic on simple structures. In: Vol 3326. Springer;
2005:89-102. doi:10.1007/978-3-540-30536-1_13'
apa: 'Chatterjee, K., Dasgupta, P., & Chakrabarti, P. (2005). Complexity of
compositional model checking of computation tree logic on simple structures (Vol.
3326, pp. 89–102). Presented at the IWDC: International Workshop on Distributed
Computing , Springer. https://doi.org/10.1007/978-3-540-30536-1_13'
chicago: Chatterjee, Krishnendu, Pallab Dasgupta, and Partha Chakrabarti. “Complexity
of Compositional Model Checking of Computation Tree Logic on Simple Structures,”
3326:89–102. Springer, 2005. https://doi.org/10.1007/978-3-540-30536-1_13.
ieee: 'K. Chatterjee, P. Dasgupta, and P. Chakrabarti, “Complexity of compositional
model checking of computation tree logic on simple structures,” presented at the
IWDC: International Workshop on Distributed Computing , 2005, vol. 3326, pp. 89–102.'
ista: 'Chatterjee K, Dasgupta P, Chakrabarti P. 2005. Complexity of compositional
model checking of computation tree logic on simple structures. IWDC: International
Workshop on Distributed Computing , LNCS, vol. 3326, 89–102.'
mla: Chatterjee, Krishnendu, et al. Complexity of Compositional Model Checking
of Computation Tree Logic on Simple Structures. Vol. 3326, Springer, 2005,
pp. 89–102, doi:10.1007/978-3-540-30536-1_13.
short: K. Chatterjee, P. Dasgupta, P. Chakrabarti, in:, Springer, 2005, pp. 89–102.
conference:
name: 'IWDC: International Workshop on Distributed Computing '
date_created: 2018-12-11T12:05:45Z
date_published: 2005-02-14T00:00:00Z
date_updated: 2021-01-12T07:53:02Z
day: '14'
doi: 10.1007/978-3-540-30536-1_13
extern: 1
intvolume: ' 3326'
month: '02'
page: 89 - 102
publication_status: published
publisher: Springer
publist_id: '2261'
quality_controlled: 0
status: public
title: Complexity of compositional model checking of computation tree logic on simple
structures
type: conference
volume: 3326
year: '2005'
...
---
_id: '3893'
abstract:
- lang: eng
text: 'We study infinite stochastic games played by two-players on a finite graph
with goals specified by sets of infinite traces. The games are concurrent (each
player simultaneously and independently chooses an action at each round), stochastic
(the next state is determined by a probability distribution depending on the current
state and the chosen actions), infinite (the game continues for an infinite number
of rounds), nonzero-sum (the players'' goals are not necessarily conflicting),
and undiscounted. We show that if each player has an W-regular objective expressed
as a paxity objective, then there exists an epsilon-Nash equilibrium, for every
epsilon > 0. However, exact Nash equilibria need not exist. We study the complexity
of finding values (payoff profile) of an epsilon-Nash equilibrium. We show that
the values of an epsilon-Nash equilibrium in nonzero-sum concurrent parity games
can be computed by solving the following two simpler problems: computing the values
of zero-sum (the goals of the players axe strictly conflicting) concurrent parity
games and computing epsilon-Nash equilibrium values of nonzero-sum concurrent
games with reachability objectives. As a consequence we establish that values
of an epsilon-Nash equilibrium can be computed in TFNP (total functional NP),
and hence in EXPTIME.'
alternative_title:
- 'LNCS '
author:
- first_name: Krishnendu
full_name: Krishnendu Chatterjee
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
citation:
ama: 'Chatterjee K. Two-player nonzero-sum ω-regular games. In: Vol 3653. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik; 2005:413-427. doi:10.1007/11539452_32'
apa: 'Chatterjee, K. (2005). Two-player nonzero-sum ω-regular games (Vol. 3653,
pp. 413–427). Presented at the CONCUR: Concurrency Theory, Schloss Dagstuhl -
Leibniz-Zentrum für Informatik. https://doi.org/10.1007/11539452_32'
chicago: Chatterjee, Krishnendu. “Two-Player Nonzero-Sum ω-Regular Games,” 3653:413–27.
Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2005. https://doi.org/10.1007/11539452_32.
ieee: 'K. Chatterjee, “Two-player nonzero-sum ω-regular games,” presented at the
CONCUR: Concurrency Theory, 2005, vol. 3653, pp. 413–427.'
ista: 'Chatterjee K. 2005. Two-player nonzero-sum ω-regular games. CONCUR: Concurrency
Theory, LNCS , vol. 3653, 413–427.'
mla: Chatterjee, Krishnendu. Two-Player Nonzero-Sum ω-Regular Games. Vol.
3653, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2005, pp. 413–27, doi:10.1007/11539452_32.
short: K. Chatterjee, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2005,
pp. 413–427.
conference:
name: 'CONCUR: Concurrency Theory'
date_created: 2018-12-11T12:05:44Z
date_published: 2005-09-05T00:00:00Z
date_updated: 2021-01-12T07:53:00Z
day: '05'
doi: 10.1007/11539452_32
extern: 1
intvolume: ' 3653'
month: '09'
page: 413 - 427
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '2267'
quality_controlled: 0
status: public
title: Two-player nonzero-sum ω-regular games
type: conference
volume: 3653
year: '2005'
...
---
_id: '3916'
abstract:
- lang: eng
text: Divergent reproductive interests of males and females often cause sexual conflict
[1] and [2]. Males of many species manipulate females by transferring seminal
fluids that boost female short-term fecundity while decreasing their life expectancy
and future reproductivity [3] and [4]. The life history of ants, however, is expected
to reduce sexual conflict; whereas most insect females show repeated phases of
mating and reproduction, antqueens mate only during a short period early in life
and undergo a lifelong commitment to their mates by storing sperm [5]. Furthermore,
sexual offspring can only be reared after a sterile worker force has been built
up [5]. Therefore, the males should also profit from a long female lifespan. In
the antCardiocondyla obscurior, mating indeed has a positive effect on the lifetime
reproductive success of queens. Queens that mated to either one fertile or one
sterilized male lived considerably longer and started laying eggs earlier than
virgin queens. Only queens that received viable sperm from fertile males showed
increased fecundity. The lack of a trade-off between fecundity and longevity is
unexpected, given evolutionary theories of aging [6]. Our data instead reveal
the existence of sexual cooperation in ants.
author:
- first_name: Alexandra
full_name: Schrempf, Alexandra
last_name: Schrempf
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: 'Schrempf A, Heinze J, Cremer S. Sexual cooperation: mating increases longevity
in ant queens. Current Biology. 2005;15(3):267-270. doi:10.1016/j.cub.2005.01.036'
apa: 'Schrempf, A., Heinze, J., & Cremer, S. (2005). Sexual cooperation: mating
increases longevity in ant queens. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2005.01.036'
chicago: 'Schrempf, Alexandra, Jürgen Heinze, and Sylvia Cremer. “Sexual Cooperation:
Mating Increases Longevity in Ant Queens.” Current Biology. Cell Press,
2005. https://doi.org/10.1016/j.cub.2005.01.036.'
ieee: 'A. Schrempf, J. Heinze, and S. Cremer, “Sexual cooperation: mating increases
longevity in ant queens,” Current Biology, vol. 15, no. 3. Cell Press,
pp. 267–270, 2005.'
ista: 'Schrempf A, Heinze J, Cremer S. 2005. Sexual cooperation: mating increases
longevity in ant queens. Current Biology. 15(3), 267–270.'
mla: 'Schrempf, Alexandra, et al. “Sexual Cooperation: Mating Increases Longevity
in Ant Queens.” Current Biology, vol. 15, no. 3, Cell Press, 2005, pp.
267–70, doi:10.1016/j.cub.2005.01.036.'
short: A. Schrempf, J. Heinze, S. Cremer, Current Biology 15 (2005) 267–270.
date_created: 2018-12-11T12:05:52Z
date_published: 2005-02-08T00:00:00Z
date_updated: 2021-01-12T07:53:10Z
day: '08'
doi: 10.1016/j.cub.2005.01.036
extern: '1'
intvolume: ' 15'
issue: '3'
language:
- iso: eng
month: '02'
oa_version: None
page: 267 - 270
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '2238'
status: public
title: 'Sexual cooperation: mating increases longevity in ant queens'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2005'
...
---
_id: '3915'
abstract:
- lang: eng
text: "In the ant Cardiocondyla obscurior, wingless males compete with nestmate
males for access to female mating\r\npartners, leading to local mate competition
(LMC). Queen number varies between colonies, resulting in\r\nvariation in the
strength of LMC. Cremer & Heinze (2002, Proceedings of the Royal Society of
London, Series B,\r\n269, 417–422) showed that colonies responded to increasing
queen number by producing a less femalebiased\r\nsex ratio, as predicted by LMC
theory. However, the proximate mechanisms responsible for this\r\nvariation in
the sex ratio could not be determined because the study was restricted to adult
sex ratios.With\r\nLMC, the primary sex ratio (proportion of haploid eggs laid
by the queen) is expected to be female biased,\r\nwhich lowers the conflict between
queens and workers over sex allocation. We compared the primary sex\r\nratios
laid by queens in monogynous and in polygynous experimental colonies of C. obscurior.
The\r\nproportion of haploid eggs laid by queens was significantly lower in single-queen
than in multiple-queen\r\ncolonies. Furthermore, queens rapidly adjusted their
primary sex ratios to changes in colony queen\r\nnumber. This is the first report
of an adaptive adjustment of the primary sex ratio in response to LMC by\r\nant
queens."
author:
- first_name: Ludivine
full_name: De Menten, Ludivine
last_name: De Menten
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
- first_name: Serge
full_name: Aron, Serge
last_name: Aron
citation:
ama: De Menten L, Cremer S, Heinze J, Aron S. Primary sex ratio adjustment by ant
queens in response to local mate competition. Animal Behaviour. 2005;69(5):1031-1035.
doi:10.1016/j.anbehav.2004.09.005
apa: De Menten, L., Cremer, S., Heinze, J., & Aron, S. (2005). Primary sex ratio
adjustment by ant queens in response to local mate competition. Animal Behaviour.
Elsevier. https://doi.org/10.1016/j.anbehav.2004.09.005
chicago: De Menten, Ludivine, Sylvia Cremer, Jürgen Heinze, and Serge Aron. “Primary
Sex Ratio Adjustment by Ant Queens in Response to Local Mate Competition.” Animal
Behaviour. Elsevier, 2005. https://doi.org/10.1016/j.anbehav.2004.09.005.
ieee: L. De Menten, S. Cremer, J. Heinze, and S. Aron, “Primary sex ratio adjustment
by ant queens in response to local mate competition,” Animal Behaviour,
vol. 69, no. 5. Elsevier, pp. 1031–1035, 2005.
ista: De Menten L, Cremer S, Heinze J, Aron S. 2005. Primary sex ratio adjustment
by ant queens in response to local mate competition. Animal Behaviour. 69(5),
1031–1035.
mla: De Menten, Ludivine, et al. “Primary Sex Ratio Adjustment by Ant Queens in
Response to Local Mate Competition.” Animal Behaviour, vol. 69, no. 5,
Elsevier, 2005, pp. 1031–35, doi:10.1016/j.anbehav.2004.09.005.
short: L. De Menten, S. Cremer, J. Heinze, S. Aron, Animal Behaviour 69 (2005) 1031–1035.
date_created: 2018-12-11T12:05:52Z
date_published: 2005-05-01T00:00:00Z
date_updated: 2021-01-12T07:53:10Z
day: '01'
doi: 10.1016/j.anbehav.2004.09.005
extern: '1'
intvolume: ' 69'
issue: '5'
language:
- iso: eng
month: '05'
oa_version: None
page: 1031 - 1035
publication: Animal Behaviour
publication_status: published
publisher: Elsevier
publist_id: '2237'
status: public
title: Primary sex ratio adjustment by ant queens in response to local mate competition
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 69
year: '2005'
...
---
_id: '4167'
abstract:
- lang: eng
text: In this study, we elucidate the roles of the winged-helix transcription factor
Foxa2 in ventral CNS development in zebrafish. Through cloning of monorail (mol),
which we find encodes the transcription factor Foxa2, and phenotypic analysis
of mol(-/-) embryos, we show that floorplate is induced in the absence of Foxa2
function but fails to further differentiate. In mol(-/-) mutants, expression of
Foxa and Hh family genes is not maintained in floorplate cells and lateral expansion
of the floorplate fails to occur. Our results suggest that this is due to defects
both in the regulation of Hh activity in medial floorplate cells as well as cell-autonomous
requirements for Foxa2 in the prospective laterally positioned floorplate cells
themselves. Foxa2 is also required for induction and/or patterning of several
distinct cell types in the ventral CNS. Serotonergic neurones of the raphe nucleus
and the trochlear motor nucleus are absent in mol(-/-) embryos, and oculomotor
and facial motoneurones ectopically occupy ventral CNS midline positions in the
midbrain and hindbrain. There is also a severe reduction of prospective oligodendrocytes
in the midbrain and hindbrain. Finally, in the absence of Foxa2, at least two
likely Hh pathway target genes are ectopically expressed in more dorsal regions
of the midbrain and hindbrain ventricular neuroepithelium, raising the possibility
that Foxa2 activity may normally be required to limit the range of action of secreted
Hh proteins.
article_processing_charge: No
author:
- first_name: Will
full_name: Norton, Will
last_name: Norton
- first_name: Maryam
full_name: Mangoli, Maryam
last_name: Mangoli
- first_name: Zsolt
full_name: Lele, Zsolt
last_name: Lele
- first_name: Hans
full_name: Pogoda, Hans
last_name: Pogoda
- first_name: Brianne
full_name: Diamond, Brianne
last_name: Diamond
- first_name: Sara
full_name: Mercurio, Sara
last_name: Mercurio
- first_name: Claire
full_name: Russell, Claire
last_name: Russell
- first_name: Hiroki
full_name: Teraoka, Hiroki
last_name: Teraoka
- first_name: Heather
full_name: Stickney, Heather
last_name: Stickney
- first_name: Gerd
full_name: Rauch, Gerd
last_name: Rauch
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
- first_name: Corinne
full_name: Houart, Corinne
last_name: Houart
- first_name: Thomas
full_name: Schilling, Thomas
last_name: Schilling
- first_name: Hans
full_name: Frohnhoefer, Hans
last_name: Frohnhoefer
- first_name: Sepand
full_name: Rastegar, Sepand
last_name: Rastegar
- first_name: Carl
full_name: Neumann, Carl
last_name: Neumann
- first_name: R Mark
full_name: Gardiner, R Mark
last_name: Gardiner
- first_name: Uwe
full_name: Strähle, Uwe
last_name: Strähle
- first_name: Robert
full_name: Geisler, Robert
last_name: Geisler
- first_name: Michelle
full_name: Rees, Michelle
last_name: Rees
- first_name: William
full_name: Talbot, William
last_name: Talbot
- first_name: Stephen
full_name: Wilson, Stephen
last_name: Wilson
citation:
ama: Norton W, Mangoli M, Lele Z, et al. Monorail/Foxa2 regulates floorplate differentiation
and specification of oligodendrocytes, serotonergic raphe neurones and cranial
motoneurones. Development. 2005;132(4):645-658. doi:10.1242/dev.01611
apa: Norton, W., Mangoli, M., Lele, Z., Pogoda, H., Diamond, B., Mercurio, S., …
Wilson, S. (2005). Monorail/Foxa2 regulates floorplate differentiation and specification
of oligodendrocytes, serotonergic raphe neurones and cranial motoneurones. Development.
Company of Biologists. https://doi.org/10.1242/dev.01611
chicago: Norton, Will, Maryam Mangoli, Zsolt Lele, Hans Pogoda, Brianne Diamond,
Sara Mercurio, Claire Russell, et al. “Monorail/Foxa2 Regulates Floorplate Differentiation
and Specification of Oligodendrocytes, Serotonergic Raphe Neurones and Cranial
Motoneurones.” Development. Company of Biologists, 2005. https://doi.org/10.1242/dev.01611.
ieee: W. Norton et al., “Monorail/Foxa2 regulates floorplate differentiation
and specification of oligodendrocytes, serotonergic raphe neurones and cranial
motoneurones,” Development, vol. 132, no. 4. Company of Biologists, pp.
645–658, 2005.
ista: Norton W, Mangoli M, Lele Z, Pogoda H, Diamond B, Mercurio S, Russell C, Teraoka
H, Stickney H, Rauch G, Heisenberg C-PJ, Houart C, Schilling T, Frohnhoefer H,
Rastegar S, Neumann C, Gardiner RM, Strähle U, Geisler R, Rees M, Talbot W, Wilson
S. 2005. Monorail/Foxa2 regulates floorplate differentiation and specification
of oligodendrocytes, serotonergic raphe neurones and cranial motoneurones. Development.
132(4), 645–658.
mla: Norton, Will, et al. “Monorail/Foxa2 Regulates Floorplate Differentiation and
Specification of Oligodendrocytes, Serotonergic Raphe Neurones and Cranial Motoneurones.”
Development, vol. 132, no. 4, Company of Biologists, 2005, pp. 645–58,
doi:10.1242/dev.01611.
short: W. Norton, M. Mangoli, Z. Lele, H. Pogoda, B. Diamond, S. Mercurio, C. Russell,
H. Teraoka, H. Stickney, G. Rauch, C.-P.J. Heisenberg, C. Houart, T. Schilling,
H. Frohnhoefer, S. Rastegar, C. Neumann, R.M. Gardiner, U. Strähle, R. Geisler,
M. Rees, W. Talbot, S. Wilson, Development 132 (2005) 645–658.
date_created: 2018-12-11T12:07:21Z
date_published: 2005-02-15T00:00:00Z
date_updated: 2021-01-12T07:55:00Z
day: '15'
doi: 10.1242/dev.01611
extern: '1'
intvolume: ' 132'
issue: '4'
language:
- iso: eng
month: '02'
oa_version: None
page: 645 - 658
publication: Development
publication_status: published
publisher: Company of Biologists
publist_id: '1952'
status: public
title: Monorail/Foxa2 regulates floorplate differentiation and specification of oligodendrocytes,
serotonergic raphe neurones and cranial motoneurones
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 132
year: '2005'
...
---
_id: '4183'
abstract:
- lang: eng
text: The spreading of an epithelial cell sheet over a substrate is a common process
during embryogenesis. Typical examples include epiboly during zebrafish gastrulation
and Drosophila dorsal closure. We provide evidence that in both cases, actin-based
contraction of the leading edge of the epithelium is of critical importance.
acknowledgement: Poster Abstract
article_processing_charge: No
author:
- first_name: Mathias
full_name: Köppen, Mathias
last_name: Köppen
- first_name: Beatriz
full_name: Fernández, Beatriz
last_name: Fernández
- first_name: Lara
full_name: Carvalho, Lara
last_name: Carvalho
- first_name: António
full_name: Jacinto, António
last_name: Jacinto
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Köppen M, Fernández B, Carvalho L, Jacinto A, Heisenberg C-PJ. Misshapen mediates
actin-based cell contraction during zebrafish epiboly and Drosophila dorsal closure.
Mechanisms of Development. 2005;122(Supplement 1):S112-S113. doi:10.1016/j.mod.2005.06.010
apa: Köppen, M., Fernández, B., Carvalho, L., Jacinto, A., & Heisenberg, C.-P.
J. (2005). Misshapen mediates actin-based cell contraction during zebrafish epiboly
and Drosophila dorsal closure. Mechanisms of Development. Elsevier. https://doi.org/10.1016/j.mod.2005.06.010
chicago: Köppen, Mathias, Beatriz Fernández, Lara Carvalho, António Jacinto, and
Carl-Philipp J Heisenberg. “Misshapen Mediates Actin-Based Cell Contraction during
Zebrafish Epiboly and Drosophila Dorsal Closure.” Mechanisms of Development.
Elsevier, 2005. https://doi.org/10.1016/j.mod.2005.06.010.
ieee: M. Köppen, B. Fernández, L. Carvalho, A. Jacinto, and C.-P. J. Heisenberg,
“Misshapen mediates actin-based cell contraction during zebrafish epiboly and
Drosophila dorsal closure,” Mechanisms of Development, vol. 122, no. Supplement
1. Elsevier, pp. S112–S113, 2005.
ista: Köppen M, Fernández B, Carvalho L, Jacinto A, Heisenberg C-PJ. 2005. Misshapen
mediates actin-based cell contraction during zebrafish epiboly and Drosophila
dorsal closure. Mechanisms of Development. 122(Supplement 1), S112–S113.
mla: Köppen, Mathias, et al. “Misshapen Mediates Actin-Based Cell Contraction during
Zebrafish Epiboly and Drosophila Dorsal Closure.” Mechanisms of Development,
vol. 122, no. Supplement 1, Elsevier, 2005, pp. S112–13, doi:10.1016/j.mod.2005.06.010.
short: M. Köppen, B. Fernández, L. Carvalho, A. Jacinto, C.-P.J. Heisenberg, Mechanisms
of Development 122 (2005) S112–S113.
date_created: 2018-12-11T12:07:27Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:07Z
day: '01'
doi: 10.1016/j.mod.2005.06.010
extern: '1'
intvolume: ' 122'
issue: Supplement 1
language:
- iso: eng
month: '01'
oa_version: None
page: S112 - S113
publication: Mechanisms of Development
publication_status: published
publisher: Elsevier
publist_id: '1936'
status: public
title: Misshapen mediates actin-based cell contraction during zebrafish epiboly and
Drosophila dorsal closure
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 122
year: '2005'
...
---
_id: '4367'
alternative_title:
- LNCS 3672
author:
- first_name: Andreas
full_name: Podelski,Andreas
last_name: Podelski
- first_name: Thomas
full_name: Thomas Wies
id: 447BFB88-F248-11E8-B48F-1D18A9856A87
last_name: Wies
citation:
ama: 'Podelski A, Wies T. Boolean Heaps. In: Springer; 2005:267-282. doi:1550'
apa: 'Podelski, A., & Wies, T. (2005). Boolean Heaps (pp. 267–282). Presented
at the SAS: Static Analysis Symposium, Springer. https://doi.org/1550'
chicago: Podelski, Andreas, and Thomas Wies. “Boolean Heaps,” 267–82. Springer,
2005. https://doi.org/1550.
ieee: 'A. Podelski and T. Wies, “Boolean Heaps,” presented at the SAS: Static Analysis
Symposium, 2005, pp. 267–282.'
ista: 'Podelski A, Wies T. 2005. Boolean Heaps. SAS: Static Analysis Symposium,
LNCS 3672, , 267–282.'
mla: Podelski, Andreas, and Thomas Wies. Boolean Heaps. Springer, 2005, pp.
267–82, doi:1550.
short: A. Podelski, T. Wies, in:, Springer, 2005, pp. 267–282.
conference:
name: 'SAS: Static Analysis Symposium'
date_created: 2018-12-11T12:08:29Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:56:27Z
day: '01'
doi: '1550'
extern: 1
month: '01'
page: 267 - 282
publication_status: published
publisher: Springer
publist_id: '1092'
quality_controlled: 0
status: public
title: Boolean Heaps
type: conference
year: '2005'
...
---
_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.
author:
- first_name: Simon
full_name: Simon Hippenmeyer
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 R
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.
date_created: 2018-12-11T12:01:38Z
date_published: 2005-05-01T00:00:00Z
date_updated: 2021-01-12T07:41:21Z
day: '01'
doi: 10.1371/journal.pbio.0030159
extern: 1
intvolume: ' 3'
issue: '5'
license: https://creativecommons.org/licenses/by/4.0/
month: '05'
page: 0878 - 0890
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '3552'
quality_controlled: 0
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
volume: 3
year: '2005'
...
---
_id: '3141'
abstract:
- lang: eng
text: The two actin-related subunits of the Arp2/3 complex, Arp2 and Arp3, are proposed
to form a pseudo actin dimer that nucleates actin polymerization. However, in
the crystal structure of the inactive complex, they are too far apart to form
such a nucleus. Here, we show using EM that yeast and bovine Arp2/3 complexes
exist in a distribution among open, intermediate and closed conformations. The
crystal structure docks well into the open conformation. The activator WASp binds
at the cleft between Arp2 and Arp3, and all WASp-bound complexes are closed. The
inhibitor coronin binds near the p35 subunit, and all coronin-bound complexes
are open. Activating and loss-of-function mutations in the p35 subunit skew conformational
distribution in opposite directions, closed and open, respectively. We conclude
that WASp stabilizes p35-dependent closure of the complex, holding Arp2 and Arp3
closer together to nucleate an actin filament.
author:
- first_name: Avital
full_name: Rodal, Avital A
last_name: Rodal
- first_name: Olga
full_name: Sokolova, Olga
last_name: Sokolova
- first_name: Deborah
full_name: Robins, Deborah B
last_name: Robins
- first_name: Karen
full_name: Daugherty, Karen M
last_name: Daugherty
- first_name: Simon
full_name: Simon Hippenmeyer
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Howard
full_name: Riezman, Howard
last_name: Riezman
- first_name: Nikolaus
full_name: Grigorieff, Nikolaus
last_name: Grigorieff
- first_name: Bruce
full_name: Goode, Bruce L
last_name: Goode
citation:
ama: Rodal A, Sokolova O, Robins D, et al. Conformational changes in the Arp2 3
complex leading to actin nucleation. Nature Structural and Molecular Biology.
2005;12(1):26-31. doi:10.1038/nsmb870
apa: Rodal, A., Sokolova, O., Robins, D., Daugherty, K., Hippenmeyer, S., Riezman,
H., … Goode, B. (2005). Conformational changes in the Arp2 3 complex leading to
actin nucleation. Nature Structural and Molecular Biology. Nature Publishing
Group. https://doi.org/10.1038/nsmb870
chicago: Rodal, Avital, Olga Sokolova, Deborah Robins, Karen Daugherty, Simon Hippenmeyer,
Howard Riezman, Nikolaus Grigorieff, and Bruce Goode. “Conformational Changes
in the Arp2 3 Complex Leading to Actin Nucleation.” Nature Structural and Molecular
Biology. Nature Publishing Group, 2005. https://doi.org/10.1038/nsmb870.
ieee: A. Rodal et al., “Conformational changes in the Arp2 3 complex leading
to actin nucleation,” Nature Structural and Molecular Biology, vol. 12,
no. 1. Nature Publishing Group, pp. 26–31, 2005.
ista: Rodal A, Sokolova O, Robins D, Daugherty K, Hippenmeyer S, Riezman H, Grigorieff
N, Goode B. 2005. Conformational changes in the Arp2 3 complex leading to actin
nucleation. Nature Structural and Molecular Biology. 12(1), 26–31.
mla: Rodal, Avital, et al. “Conformational Changes in the Arp2 3 Complex Leading
to Actin Nucleation.” Nature Structural and Molecular Biology, vol. 12,
no. 1, Nature Publishing Group, 2005, pp. 26–31, doi:10.1038/nsmb870.
short: A. Rodal, O. Sokolova, D. Robins, K. Daugherty, S. Hippenmeyer, H. Riezman,
N. Grigorieff, B. Goode, Nature Structural and Molecular Biology 12 (2005) 26–31.
date_created: 2018-12-11T12:01:38Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:41:21Z
day: '01'
doi: 10.1038/nsmb870
extern: 1
intvolume: ' 12'
issue: '1'
month: '01'
page: 26 - 31
publication: Nature Structural and Molecular Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '3554'
quality_controlled: 0
status: public
title: Conformational changes in the Arp2 3 complex leading to actin nucleation
type: journal_article
volume: 12
year: '2005'
...
---
_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.
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: Vladimir Kolmogorov
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: Vol 1. IEEE;
2005:589-596. doi:10.1109/CVPR.2005.130'
apa: 'Rother, C., Kumar, S., Kolmogorov, V., & Blake, A. (2005). Digital tapestry
(Vol. 1, pp. 589–596). Presented at the CVPR: Computer Vision and Pattern Recognition,
IEEE. https://doi.org/10.1109/CVPR.2005.130'
chicago: Rother, Carsten, Sanjiv Kumar, Vladimir Kolmogorov, and Andrew Blake. “Digital
Tapestry,” 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,” presented
at the CVPR: Computer Vision and Pattern Recognition, 2005, vol. 1, pp. 589–596.'
ista: 'Rother C, Kumar S, Kolmogorov V, Blake A. 2005. Digital tapestry. CVPR: Computer
Vision and Pattern Recognition vol. 1, 589–596.'
mla: Rother, Carsten, et al. Digital Tapestry. Vol. 1, IEEE, 2005, pp. 589–96,
doi:10.1109/CVPR.2005.130.
short: C. Rother, S. Kumar, V. Kolmogorov, A. Blake, in:, IEEE, 2005, pp. 589–596.
conference:
name: 'CVPR: Computer Vision and Pattern Recognition'
date_created: 2018-12-11T12:01:50Z
date_published: 2005-07-25T00:00:00Z
date_updated: 2021-01-12T07:41:35Z
day: '25'
doi: 10.1109/CVPR.2005.130
extern: 1
intvolume: ' 1'
main_file_link:
- open_access: '0'
url: http://research.microsoft.com/en-us/um/people/ablake/papers/ablake/rother_cvpr05.pdf
month: '07'
page: 589 - 596
publication_status: published
publisher: IEEE
publist_id: '3503'
quality_controlled: 0
status: public
title: Digital tapestry
type: conference
volume: 1
year: '2005'
...
---
_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.
author:
- first_name: Vladimir
full_name: Vladimir Kolmogorov
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: 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 (pp. 1186–1186). Presented at
the CVPR: Computer Vision and Pattern Recognition, 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,” 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,” presented at the CVPR: Computer Vision
and Pattern Recognition, 2005, pp. 1186–1186.'
ista: 'Kolmogorov V, Criminisi A, Blake A, Cross G, Rother C. 2005. Bi-layer segmentation
of binocular stereo video. CVPR: Computer Vision and Pattern Recognition, 1186–1186.'
mla: Kolmogorov, Vladimir, et al. Bi-Layer Segmentation of Binocular Stereo Video.
IEEE, 2005, pp. 1186–1186, doi:10.1109/CVPR.2005.90.
short: V. Kolmogorov, A. Criminisi, A. Blake, G. Cross, C. Rother, in:, IEEE, 2005,
pp. 1186–1186.
conference:
name: 'CVPR: Computer Vision and Pattern Recognition'
date_created: 2018-12-11T12:01:50Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:41:35Z
day: '01'
doi: 10.1109/CVPR.2005.90
extern: 1
month: '01'
page: 1186 - 1186
publication_status: published
publisher: IEEE
publist_id: '3504'
quality_controlled: 0
status: public
title: Bi-layer segmentation of binocular stereo video
type: conference
year: '2005'
...
---
_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.
author:
- first_name: Vladimir
full_name: Vladimir Kolmogorov
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: 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 (Vol. 2, pp. 407–414). Presented
at the CVPR: Computer Vision and Pattern Recognition, 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,” 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,” presented at the CVPR: Computer Vision
and Pattern Recognition, 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. CVPR: Computer Vision and Pattern Recognition vol.
2, 407–414.'
mla: Kolmogorov, Vladimir, et al. Bi-Layer Segmentation of Binocular Stereo Video.
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:, IEEE, 2005,
pp. 407–414.
conference:
name: 'CVPR: Computer Vision and Pattern Recognition'
date_created: 2018-12-11T12:01:52Z
date_published: 2005-07-25T00:00:00Z
date_updated: 2021-01-12T07:41:38Z
day: '25'
doi: 10.1109/CVPR.2005.91
extern: 1
intvolume: ' 2'
main_file_link:
- open_access: '0'
url: http://research.microsoft.com/pubs/67281/criminisi_cvpr2005.pdf
month: '07'
page: 407 - 414
publication_status: published
publisher: IEEE
publist_id: '3502'
quality_controlled: 0
status: public
title: Bi-layer segmentation of binocular stereo video
type: conference
volume: 2
year: '2005'
...
---
_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.
author:
- 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
citation:
ama: 'Kolmogorov V, Boykov Y. What metrics can be approximated by geo cuts or global
optimization of length area and flux. In: 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 (Vol. 1, pp. 564–571).
Presented at the ICCV: International Conference on Computer Vision, 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,” 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,” presented at the ICCV: International
Conference on Computer Vision, 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. 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. Vol. 1, IEEE,
2005, pp. 564–71, doi:10.1109/ICCV.2005.252.
short: V. Kolmogorov, Y. Boykov, in:, IEEE, 2005, pp. 564–571.
conference:
name: 'ICCV: International Conference on Computer Vision'
date_created: 2018-12-11T12:01:52Z
date_published: 2005-12-05T00:00:00Z
date_updated: 2021-01-12T07:41:38Z
day: '05'
doi: 10.1109/ICCV.2005.252
extern: 1
intvolume: ' 1'
month: '12'
page: 564 - 571
publication_status: published
publisher: IEEE
publist_id: '3501'
quality_controlled: 0
status: public
title: What metrics can be approximated by geo cuts or global optimization of length
area and flux
type: conference
volume: 1
year: '2005'
...
---
_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.
author:
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Martin
full_name: Wainwright, Martin J
last_name: Wainwright
citation:
ama: 'Kolmogorov V, Wainwright M. On the optimality of tree reweighted max product
message passing. In: AUAI Press; 2005:316-323.'
apa: 'Kolmogorov, V., & Wainwright, M. (2005). On the optimality of tree reweighted
max product message passing (pp. 316–323). Presented at the UAI: Uncertainty in
Artificial Intelligence, AUAI Press.'
chicago: Kolmogorov, Vladimir, and Martin Wainwright. “On the Optimality of Tree
Reweighted Max Product Message Passing,” 316–23. AUAI Press, 2005.
ieee: 'V. Kolmogorov and M. Wainwright, “On the optimality of tree reweighted max
product message passing,” presented at the UAI: Uncertainty in Artificial Intelligence,
2005, pp. 316–323.'
ista: 'Kolmogorov V, Wainwright M. 2005. On the optimality of tree reweighted max
product message passing. UAI: Uncertainty in Artificial Intelligence, 316–323.'
mla: Kolmogorov, Vladimir, and Martin Wainwright. On the Optimality of Tree Reweighted
Max Product Message Passing. AUAI Press, 2005, pp. 316–23.
short: V. Kolmogorov, M. Wainwright, in:, AUAI Press, 2005, pp. 316–323.
conference:
name: 'UAI: Uncertainty in Artificial Intelligence'
date_created: 2018-12-11T12:01:51Z
date_published: 2005-07-01T00:00:00Z
date_updated: 2021-01-12T07:41:38Z
day: '01'
extern: 1
main_file_link:
- open_access: '0'
url: http://research.microsoft.com/pubs/67405/trw_opt_uai05.pdf
month: '07'
page: 316 - 323
publication_status: published
publisher: AUAI Press
publist_id: '3500'
quality_controlled: 0
status: public
title: On the optimality of tree reweighted max product message passing
type: conference
year: '2005'
...
---
_id: '3417'
abstract:
- lang: eng
text: Recently, direct measurements of forces stabilizing single proteins or individual
receptor–ligand bonds became possible with ultra-sensitive force probe methods
like the atomic force microscope (AFM). In force spectroscopy experiments using
AFM, a single molecule or receptor–ligand pair is tethered between the tip of
a micromachined cantilever and a supporting surface. While the molecule is stretched,
forces are measured by the deflection of the cantilever and plotted against extension,
yielding a force spectrum characteristic for each biomolecular system. In order
to obtain statistically relevant results, several hundred to thousand single-molecule
experiments have to be performed, each resulting in a unique force spectrum. We
developed software and algorithms to analyse large numbers of force spectra. Our
algorithms include the fitting polymer extension models to force peaks as well
as the automatic alignment of spectra. The aligned spectra allowed recognition
of patterns of peaks across different spectra. We demonstrate the capabilities
of our software by analysing force spectra that were recorded by unfolding single
transmembrane proteins such as bacteriorhodopsin and NhaA. Different unfolding
pathways were detected by classifying peak patterns. Deviant spectra, e.g. those
with no attachment or erratic peaks, can be easily identified. The software is
based on the programming language C++, the GNU Scientific Library (GSL), the software
WaveMetrics IGOR Pro and available open-source at http://bioinformatics.org/fskit/.
author:
- first_name: Michael
full_name: Kuhn, Michael
last_name: Kuhn
- first_name: Harald L
full_name: Harald Janovjak
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
- first_name: Maurice
full_name: Hubain, Maurice
last_name: Hubain
- first_name: Daniel
full_name: Mueller, Daniel J
last_name: Mueller
citation:
ama: Kuhn M, Janovjak HL, Hubain M, Mueller D. Automated alignment and pattern recognition
of single-molecule force spectroscopy data. Journal of Microscopy. 2005;218(2):125-132.
doi:10.1111/j.1365-2818.2005.01478.x
apa: Kuhn, M., Janovjak, H. L., Hubain, M., & Mueller, D. (2005). Automated
alignment and pattern recognition of single-molecule force spectroscopy data.
Journal of Microscopy. Wiley-Blackwell. https://doi.org/10.1111/j.1365-2818.2005.01478.x
chicago: Kuhn, Michael, Harald L Janovjak, Maurice Hubain, and Daniel Mueller. “Automated
Alignment and Pattern Recognition of Single-Molecule Force Spectroscopy Data.”
Journal of Microscopy. Wiley-Blackwell, 2005. https://doi.org/10.1111/j.1365-2818.2005.01478.x.
ieee: M. Kuhn, H. L. Janovjak, M. Hubain, and D. Mueller, “Automated alignment and
pattern recognition of single-molecule force spectroscopy data,” Journal of
Microscopy, vol. 218, no. 2. Wiley-Blackwell, pp. 125–132, 2005.
ista: Kuhn M, Janovjak HL, Hubain M, Mueller D. 2005. Automated alignment and pattern
recognition of single-molecule force spectroscopy data. Journal of Microscopy.
218(2), 125–132.
mla: Kuhn, Michael, et al. “Automated Alignment and Pattern Recognition of Single-Molecule
Force Spectroscopy Data.” Journal of Microscopy, vol. 218, no. 2, Wiley-Blackwell,
2005, pp. 125–32, doi:10.1111/j.1365-2818.2005.01478.x.
short: M. Kuhn, H.L. Janovjak, M. Hubain, D. Mueller, Journal of Microscopy 218
(2005) 125–132.
date_created: 2018-12-11T12:03:13Z
date_published: 2005-05-01T00:00:00Z
date_updated: 2021-01-12T07:43:20Z
day: '01'
doi: 10.1111/j.1365-2818.2005.01478.x
extern: 1
intvolume: ' 218'
issue: '2'
month: '05'
page: 125 - 132
publication: Journal of Microscopy
publication_status: published
publisher: Wiley-Blackwell
publist_id: '2984'
quality_controlled: 0
status: public
title: Automated alignment and pattern recognition of single-molecule force spectroscopy
data
type: journal_article
volume: 218
year: '2005'
...
---
_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.
author:
- first_name: Harald L
full_name: Harald Janovjak
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
- first_name: Tanuj
full_name: Sapra, Tanuj K
last_name: Sapra
- first_name: Daniel
full_name: Mueller, Daniel J
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.
date_created: 2018-12-11T12:03:13Z
date_published: 2005-05-01T00:00:00Z
date_updated: 2021-01-12T07:43:19Z
day: '01'
doi: 10.1529/biophysj.105.059774
extern: 1
intvolume: ' 88'
issue: '5'
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1305525/
month: '05'
oa: 1
page: 37 - 39
publication: Biophysical Journal
publication_status: published
publisher: Biophysical Society
publist_id: '2985'
quality_controlled: 0
status: public
title: Complex stability of single proteins explored by forced unfolding experiments
type: journal_article
volume: 88
year: '2005'
...
---
_id: '3418'
abstract:
- lang: eng
text: Atomic force microscopy (AFM) allows the critical forces that unfold single
proteins and rupture individual receptor–ligand bonds to be measured. To derive
the shape of the energy landscape, the dynamic strength of the system is probed
at different force loading rates. This is usually achieved by varying the pulling
speed between a few nm/s and a few mgrm/s, although for a more complete investigation
of the kinetic properties higher speeds are desirable. Above 10 mgrm/s, the hydrodynamic
drag force acting on the AFM cantilever reaches the same order of magnitude as
the molecular forces. This has limited the maximum pulling speed in AFM single-molecule
force spectroscopy experiments. Here, we present an approach for considering these
hydrodynamic effects, thereby allowing a correct evaluation of AFM force measurements
recorded over an extended range of pulling speeds (and thus loading rates). To
support and illustrate our theoretical considerations, we experimentally evaluated
the mechanical unfolding of a multi-domain protein recorded at 30 mgrm/s pulling
speed.
author:
- first_name: Harald L
full_name: Harald Janovjak
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
- first_name: Jens
full_name: Struckmeier, Jens
last_name: Struckmeier
- first_name: Daniel
full_name: Mueller, Daniel J
last_name: Mueller
citation:
ama: Janovjak HL, Struckmeier J, Mueller D. Hydrodynamic effects in fast AFM single
molecule force measurements. European Biophysics Journal. 2005;34(1):91-96.
doi:10.1007/s00249-004-0430-3
apa: Janovjak, H. L., Struckmeier, J., & Mueller, D. (2005). Hydrodynamic effects
in fast AFM single molecule force measurements. European Biophysics Journal.
Springer. https://doi.org/10.1007/s00249-004-0430-3
chicago: Janovjak, Harald L, Jens Struckmeier, and Daniel Mueller. “Hydrodynamic
Effects in Fast AFM Single Molecule Force Measurements.” European Biophysics
Journal. Springer, 2005. https://doi.org/10.1007/s00249-004-0430-3.
ieee: H. L. Janovjak, J. Struckmeier, and D. Mueller, “Hydrodynamic effects in fast
AFM single molecule force measurements,” European Biophysics Journal, vol.
34, no. 1. Springer, pp. 91–96, 2005.
ista: Janovjak HL, Struckmeier J, Mueller D. 2005. Hydrodynamic effects in fast
AFM single molecule force measurements. European Biophysics Journal. 34(1), 91–96.
mla: Janovjak, Harald L., et al. “Hydrodynamic Effects in Fast AFM Single Molecule
Force Measurements.” European Biophysics Journal, vol. 34, no. 1, Springer,
2005, pp. 91–96, doi:10.1007/s00249-004-0430-3.
short: H.L. Janovjak, J. Struckmeier, D. Mueller, European Biophysics Journal 34
(2005) 91–96.
date_created: 2018-12-11T12:03:14Z
date_published: 2005-02-01T00:00:00Z
date_updated: 2021-01-12T07:43:20Z
day: '01'
doi: 10.1007/s00249-004-0430-3
extern: 1
intvolume: ' 34'
issue: '1'
month: '02'
page: 91 - 96
publication: European Biophysics Journal
publication_status: published
publisher: Springer
publist_id: '2983'
quality_controlled: 0
status: public
title: Hydrodynamic effects in fast AFM single molecule force measurements
type: journal_article
volume: 34
year: '2005'
...
---
_id: '3433'
author:
- first_name: Jonathan P
full_name: Jonathan Bollback
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: 'Bollback JP. Posterior mapping and posterior predictive distributions. In:
Nielsen R, ed. Statistical Methods in Molecular Evolution. Springer; 2005:439-462.
doi:10.1007/0-387-27733-1'
apa: Bollback, J. P. (2005). Posterior mapping and posterior predictive distributions.
In R. Nielsen (Ed.), Statistical methods in Molecular Evolution (pp. 439–462).
Springer. https://doi.org/10.1007/0-387-27733-1
chicago: Bollback, Jonathan P. “Posterior Mapping and Posterior Predictive Distributions.”
In Statistical Methods in Molecular Evolution, edited by Rasmus Nielsen,
439–62. Springer, 2005. https://doi.org/10.1007/0-387-27733-1.
ieee: J. P. Bollback, “Posterior mapping and posterior predictive distributions,”
in Statistical methods in Molecular Evolution, R. Nielsen, Ed. Springer,
2005, pp. 439–462.
ista: 'Bollback JP. 2005.Posterior mapping and posterior predictive distributions.
In: Statistical methods in Molecular Evolution. , 439–462.'
mla: Bollback, Jonathan P. “Posterior Mapping and Posterior Predictive Distributions.”
Statistical Methods in Molecular Evolution, edited by Rasmus Nielsen, Springer,
2005, pp. 439–62, doi:10.1007/0-387-27733-1.
short: J.P. Bollback, in:, R. Nielsen (Ed.), Statistical Methods in Molecular Evolution,
Springer, 2005, pp. 439–462.
date_created: 2018-12-11T12:03:18Z
date_published: 2005-04-21T00:00:00Z
date_updated: 2021-01-12T07:43:26Z
day: '21'
doi: 10.1007/0-387-27733-1
editor:
- first_name: Rasmus
full_name: Nielsen, Rasmus
last_name: Nielsen
extern: 1
month: '04'
page: 439 - 462
publication: Statistical methods in Molecular Evolution
publication_status: published
publisher: Springer
publist_id: '2967'
quality_controlled: 0
status: public
title: Posterior mapping and posterior predictive distributions
type: book_chapter
year: '2005'
...
---
_id: '3509'
abstract:
- lang: eng
text: Methods, apparatus and computer program products can generate light weight
but highly realistic and accurate colored models of three-dimensional colored
objects. The colored model may be generated from a second plurality of points
that define a coarse digital representation of the surface and at least one texture
map containing information derived from a first plurality of colored points that
define a fine digital representation of the surface. This derivation is achieved
by mapping points within the texture map to the fine digital representation of
the three-dimensional surface. Colored scan data may be used to construct the
fine digital representation as a triangulated surface (i.e., triangulation) using
a wrapping operation.
applicant:
- Raindrop Geomagic, Inc.
article_processing_charge: No
author:
- first_name: Steven
full_name: Williams, Steven
last_name: Williams
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Ping
full_name: Fu, Ping
last_name: Fu
citation:
ama: Williams S, Edelsbrunner H, Fu P. Methods, apparatus and computer program products
for modeling three-dimensional colored objects. 2005.
apa: Williams, S., Edelsbrunner, H., & Fu, P. (2005). Methods, apparatus and
computer program products for modeling three-dimensional colored objects.
chicago: Williams, Steven, Herbert Edelsbrunner, and Ping Fu. “Methods, Apparatus
and Computer Program Products for Modeling Three-Dimensional Colored Objects,”
2005.
ieee: S. Williams, H. Edelsbrunner, and P. Fu, “Methods, apparatus and computer
program products for modeling three-dimensional colored objects.” 2005.
ista: Williams S, Edelsbrunner H, Fu P. 2005. Methods, apparatus and computer program
products for modeling three-dimensional colored objects.
mla: Williams, Steven, et al. Methods, Apparatus and Computer Program Products
for Modeling Three-Dimensional Colored Objects. 2005.
short: S. Williams, H. Edelsbrunner, P. Fu, (2005).
date_created: 2018-12-11T12:03:42Z
date_published: 2005-02-08T00:00:00Z
date_updated: 2022-01-05T13:59:09Z
day: '08'
extern: '1'
ipc: G06T17/20 ; G06T15/04
ipn: US6853373B2
main_file_link:
- open_access: '1'
url: https://patents.google.com/patent/US6853373B2/
month: '02'
oa: 1
oa_version: Published Version
publication_date: 2005-02-08
publist_id: '2878'
status: public
title: Methods, apparatus and computer program products for modeling three-dimensional
colored objects
type: patent
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2005'
...
---
_id: '3558'
abstract:
- lang: eng
text: The tandem algorithm combines the marching cube algorithm for surface extraction
and the edge contraction algorithm for surface simplification in lock-step to
avoid the costly intermediate step of storing the entire extracted surface triangulation.
Beyond this basic strategy, we introduce refinements to prevent artifacts in the
resulting triangulation, first, by carefully monitoring the amount of simplification
during the process and, second, by driving the simplification toward a compromise
between shape approximation and mesh quality. We have implemented the algorithm
and used extensive computational experiments to document the effects of various
design options and to further fine-tune the algorithm.
acknowledgement: 'Partially supported the generated triangulations. Two questions
arise: “how do by NSF grant CCR-00-86013 (BioGeometry).'
author:
- first_name: Dominique
full_name: Attali, Dominique
last_name: Attali
- first_name: David
full_name: Cohen-Steiner, David
last_name: Cohen Steiner
- first_name: Herbert
full_name: Herbert Edelsbrunner
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
citation:
ama: 'Attali D, Cohen Steiner D, Edelsbrunner H. Extraction and simplification of
iso-surfaces in tandem. In: ACM; 2005:139-148.'
apa: 'Attali, D., Cohen Steiner, D., & Edelsbrunner, H. (2005). Extraction and
simplification of iso-surfaces in tandem (pp. 139–148). Presented at the SGP:
Eurographics Symposium on Geometry processing, ACM.'
chicago: Attali, Dominique, David Cohen Steiner, and Herbert Edelsbrunner. “Extraction
and Simplification of Iso-Surfaces in Tandem,” 139–48. ACM, 2005.
ieee: 'D. Attali, D. Cohen Steiner, and H. Edelsbrunner, “Extraction and simplification
of iso-surfaces in tandem,” presented at the SGP: Eurographics Symposium on Geometry
processing, 2005, pp. 139–148.'
ista: 'Attali D, Cohen Steiner D, Edelsbrunner H. 2005. Extraction and simplification
of iso-surfaces in tandem. SGP: Eurographics Symposium on Geometry processing,
139–148.'
mla: Attali, Dominique, et al. Extraction and Simplification of Iso-Surfaces
in Tandem. ACM, 2005, pp. 139–48.
short: D. Attali, D. Cohen Steiner, H. Edelsbrunner, in:, ACM, 2005, pp. 139–148.
conference:
name: 'SGP: Eurographics Symposium on Geometry processing'
date_created: 2018-12-11T12:03:57Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:44:18Z
day: '01'
extern: 1
main_file_link:
- open_access: '0'
url: http://dl.acm.org/citation.cfm?id=1281943
month: '01'
page: 139 - 148
publication_status: published
publisher: ACM
publist_id: '2827'
quality_controlled: 0
status: public
title: Extraction and simplification of iso-surfaces in tandem
type: conference
year: '2005'
...
---
_id: '3576'
abstract:
- lang: eng
text: |-
ears of research in biology have established that all cellular functions are deeply connected to the shape and dynamics of their molec- ular actors. As a response, structural molecular biology has emerged as a new line of experimental research focused on revealing the structure of biomolecules. The analysis of these structures has led to the development of computational biology, whose aim is to predict from molecular simulation properties inaccessible to experimental probes.
Here we focus on the representation of biomolecules used in these sim- ulations, and in particular on the hard sphere models. We review how the geometry of the union of such spheres is used to model their interactions with their environment, and how it has been included in simulations of molecular dynamics.
In parallel, we review our own developments in mathematics and com- puter science on understanding the geometry of unions of balls, and their applications in molecular simulation.
alternative_title:
- Mathematical Sciences Research Institute Publications
author:
- first_name: Herbert
full_name: Herbert Edelsbrunner
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Patrice
full_name: Koehl, Patrice
last_name: Koehl
citation:
ama: 'Edelsbrunner H, Koehl P. The geometry of biomolecular solvation. In: Combinatorial
and Computational Geometry. Vol 52. Cambridge University Press; 2005:243-275.'
apa: Edelsbrunner, H., & Koehl, P. (2005). The geometry of biomolecular solvation.
In Combinatorial and Computational Geometry (Vol. 52, pp. 243–275). Cambridge
University Press.
chicago: Edelsbrunner, Herbert, and Patrice Koehl. “The Geometry of Biomolecular
Solvation.” In Combinatorial and Computational Geometry, 52:243–75. Cambridge
University Press, 2005.
ieee: H. Edelsbrunner and P. Koehl, “The geometry of biomolecular solvation,” in
Combinatorial and Computational Geometry, vol. 52, Cambridge University
Press, 2005, pp. 243–275.
ista: 'Edelsbrunner H, Koehl P. 2005.The geometry of biomolecular solvation. In:
Combinatorial and Computational Geometry. Mathematical Sciences Research Institute
Publications, vol. 52, 243–275.'
mla: Edelsbrunner, Herbert, and Patrice Koehl. “The Geometry of Biomolecular Solvation.”
Combinatorial and Computational Geometry, vol. 52, Cambridge University
Press, 2005, pp. 243–75.
short: H. Edelsbrunner, P. Koehl, in:, Combinatorial and Computational Geometry,
Cambridge University Press, 2005, pp. 243–275.
date_created: 2018-12-11T12:04:03Z
date_published: 2005-08-08T00:00:00Z
date_updated: 2021-01-12T07:44:25Z
day: '08'
extern: 1
intvolume: ' 52'
main_file_link:
- open_access: '0'
url: http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.117.3732
month: '08'
page: 243 - 275
publication: Combinatorial and Computational Geometry
publication_status: published
publisher: Cambridge University Press
publist_id: '2809'
quality_controlled: 0
status: public
title: The geometry of biomolecular solvation
type: book_chapter
volume: 52
year: '2005'
...