---
_id: '6153'
abstract:
- lang: eng
text: A current challenge in neuroscience is to bridge the gaps between genes, proteins,
neurons, neural circuits, and behavior in a single animal model. The nematode
Caenorhabditis elegans has unique features that facilitate this synthesis. Its
nervous system includes exactly 302 neurons, and their pattern of synaptic connectivity
is known. With only five olfactory neurons, C. elegans can dynamically respond
to dozens of attractive and repellant odors. Thermosensory neurons enable the
nematode to remember its cultivation temperature and to track narrow isotherms.
Polymodal sensory neurons detect a wide range of nociceptive cues and signal robust
escape responses. Pairing of sensory stimuli leads to long-lived changes in behavior
consistent with associative learning. Worms exhibit social behaviors and complex
ultradian rhythms driven by Ca2+ oscillators with clock-like properties. Genetic
analysis has identified gene products required for nervous system function and
elucidated the molecular and neural bases of behaviors.
article_processing_charge: No
article_type: original
author:
- first_name: Mario
full_name: de Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: de Bono
orcid: 0000-0001-8347-0443
- first_name: Andres
full_name: Villu Maricq, Andres
last_name: Villu Maricq
citation:
ama: de Bono M, Villu Maricq A. Neuronal substrates of complex behaviors in C. elegans.
Annual Review of Neuroscience. 2005;28:451-501. doi:10.1146/annurev.neuro.27.070203.144259
apa: de Bono, M., & Villu Maricq, A. (2005). Neuronal substrates of complex
behaviors in C. elegans. Annual Review of Neuroscience. Annual Reviews.
https://doi.org/10.1146/annurev.neuro.27.070203.144259
chicago: Bono, Mario de, and Andres Villu Maricq. “Neuronal Substrates of Complex
Behaviors in C. Elegans.” Annual Review of Neuroscience. Annual Reviews,
2005. https://doi.org/10.1146/annurev.neuro.27.070203.144259.
ieee: M. de Bono and A. Villu Maricq, “Neuronal substrates of complex behaviors
in C. elegans,” Annual Review of Neuroscience, vol. 28. Annual Reviews,
pp. 451–501, 2005.
ista: de Bono M, Villu Maricq A. 2005. Neuronal substrates of complex behaviors
in C. elegans. Annual Review of Neuroscience. 28, 451–501.
mla: de Bono, Mario, and Andres Villu Maricq. “Neuronal Substrates of Complex Behaviors
in C. Elegans.” Annual Review of Neuroscience, vol. 28, Annual Reviews,
2005, pp. 451–501, doi:10.1146/annurev.neuro.27.070203.144259.
short: M. de Bono, A. Villu Maricq, Annual Review of Neuroscience 28 (2005) 451–501.
date_created: 2019-03-21T09:31:29Z
date_published: 2005-07-21T00:00:00Z
date_updated: 2025-07-01T06:45:21Z
day: '21'
doi: 10.1146/annurev.neuro.27.070203.144259
extern: '1'
external_id:
pmid:
- '16022603'
intvolume: ' 28'
language:
- iso: eng
month: '07'
oa_version: None
page: 451-501
pmid: 1
publication: Annual Review of Neuroscience
publication_identifier:
eissn:
- 1545-4126
issn:
- 0147-006X
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
status: public
title: Neuronal substrates of complex behaviors in C. elegans
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 28
year: '2005'
...
---
_id: '6154'
author:
- first_name: Benny H.H.
full_name: Cheung, Benny H.H.
last_name: Cheung
- first_name: Merav
full_name: Cohen, Merav
last_name: Cohen
- first_name: Candida
full_name: Rogers, Candida
last_name: Rogers
- first_name: Onder
full_name: Albayram, Onder
last_name: Albayram
- first_name: Mario
full_name: de Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: de Bono
orcid: 0000-0001-8347-0443
citation:
ama: Cheung BHH, Cohen M, Rogers C, Albayram O, de Bono M. Experience-dependent
modulation of C. elegans behavior by ambient oxygen. Current Biology. 2005;15(10):905-917.
doi:10.1016/j.cub.2005.04.017
apa: Cheung, B. H. H., Cohen, M., Rogers, C., Albayram, O., & de Bono, M. (2005).
Experience-dependent modulation of C. elegans behavior by ambient oxygen. Current
Biology. Elsevier. https://doi.org/10.1016/j.cub.2005.04.017
chicago: Cheung, Benny H.H., Merav Cohen, Candida Rogers, Onder Albayram, and Mario
de Bono. “Experience-Dependent Modulation of C. Elegans Behavior by Ambient Oxygen.”
Current Biology. Elsevier, 2005. https://doi.org/10.1016/j.cub.2005.04.017.
ieee: B. H. H. Cheung, M. Cohen, C. Rogers, O. Albayram, and M. de Bono, “Experience-dependent
modulation of C. elegans behavior by ambient oxygen,” Current Biology,
vol. 15, no. 10. Elsevier, pp. 905–917, 2005.
ista: Cheung BHH, Cohen M, Rogers C, Albayram O, de Bono M. 2005. Experience-dependent
modulation of C. elegans behavior by ambient oxygen. Current Biology. 15(10),
905–917.
mla: Cheung, Benny H. H., et al. “Experience-Dependent Modulation of C. Elegans
Behavior by Ambient Oxygen.” Current Biology, vol. 15, no. 10, Elsevier,
2005, pp. 905–17, doi:10.1016/j.cub.2005.04.017.
short: B.H.H. Cheung, M. Cohen, C. Rogers, O. Albayram, M. de Bono, Current Biology
15 (2005) 905–917.
date_created: 2019-03-21T09:37:48Z
date_published: 2005-05-24T00:00:00Z
date_updated: 2021-01-12T08:06:24Z
day: '24'
doi: 10.1016/j.cub.2005.04.017
extern: '1'
external_id:
pmid:
- '15916947'
intvolume: ' 15'
issue: '10'
language:
- iso: eng
month: '05'
oa_version: None
page: 905-917
pmid: 1
publication: Current Biology
publication_identifier:
issn:
- 0960-9822
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Experience-dependent modulation of C. elegans behavior by ambient oxygen
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 15
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
arxiv: 1
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: '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: '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: '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: '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: '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'
...
---
_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: '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: '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: '3611'
abstract:
- lang: eng
text: 'We present two novel methods to infer mating patterns from genetic data.
They differ from existing statistical methods of parentage inference in that they
apply to populations that deviate from Hardy–Weinberg and linkage equilibrium,
and so are suited for the study of assortative mating in hybrid zones. The core
data set consists of genotypes at several loci for a number of full-sib clutches
of unknown parentage. Our inference is based throughout on estimates of allelic
associations within and across loci, such as heterozygote deficit and pairwise
linkage disequilibrium. In the first method, the most likely parents of a given
clutch are determined from the genotypic distribution of the associated adult
population, given an explicit model of nonrandom mating. This leads to estimates
of the strength of assortment. The second approach is based solely on the offspring
genotypes and relies on the fact that a linear relation exists between associations
among the offspring and those in the population of breeding pairs. We apply both
methods to a sample from the hybrid zone between the fire-bellied toads Bombina
bombina and B. variegata (Anura: Disco glossidae) in Croatia. Consistently, both
approaches provide no evidence for a departure from random mating, despite adequate
statistical power. Instead, B. variegata-like individuals among the adults contributed
disproportionately to the offspring cohort, consistent with their preference for
the type of breeding habitat in which this study was conducted.'
author:
- first_name: Beate
full_name: Nürnberger, Beate
last_name: Nürnberger
- first_name: Nicholas H
full_name: Nicholas Barton
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Loeske
full_name: Kruuk, Loeske E
last_name: Kruuk
- first_name: Timothy
full_name: Vines, Timothy H
last_name: Vines
citation:
ama: 'Nürnberger B, Barton NH, Kruuk L, Vines T. Mating patterns in a Bombina hybrid
zone: Inferences from adult and full sib genotypes. Heredity. 2005;94(2):247-257.
doi:10.1038/sj.hdy.6800607'
apa: 'Nürnberger, B., Barton, N. H., Kruuk, L., & Vines, T. (2005). Mating patterns
in a Bombina hybrid zone: Inferences from adult and full sib genotypes. Heredity.
Nature Publishing Group. https://doi.org/10.1038/sj.hdy.6800607'
chicago: 'Nürnberger, Beate, Nicholas H Barton, Loeske Kruuk, and Timothy Vines.
“Mating Patterns in a Bombina Hybrid Zone: Inferences from Adult and Full Sib
Genotypes.” Heredity. Nature Publishing Group, 2005. https://doi.org/10.1038/sj.hdy.6800607.'
ieee: 'B. Nürnberger, N. H. Barton, L. Kruuk, and T. Vines, “Mating patterns in
a Bombina hybrid zone: Inferences from adult and full sib genotypes,” Heredity,
vol. 94, no. 2. Nature Publishing Group, pp. 247–257, 2005.'
ista: 'Nürnberger B, Barton NH, Kruuk L, Vines T. 2005. Mating patterns in a Bombina
hybrid zone: Inferences from adult and full sib genotypes. Heredity. 94(2), 247–257.'
mla: 'Nürnberger, Beate, et al. “Mating Patterns in a Bombina Hybrid Zone: Inferences
from Adult and Full Sib Genotypes.” Heredity, vol. 94, no. 2, Nature Publishing
Group, 2005, pp. 247–57, doi:10.1038/sj.hdy.6800607.'
short: B. Nürnberger, N.H. Barton, L. Kruuk, T. Vines, Heredity 94 (2005) 247–257.
date_created: 2018-12-11T12:04:14Z
date_published: 2005-02-01T00:00:00Z
date_updated: 2021-01-12T07:44:39Z
day: '01'
doi: 10.1038/sj.hdy.6800607
extern: 1
intvolume: ' 94'
issue: '2'
month: '02'
page: 247 - 257
publication: Heredity
publication_status: published
publisher: Nature Publishing Group
publist_id: '2772'
quality_controlled: 0
status: public
title: 'Mating patterns in a Bombina hybrid zone: Inferences from adult and full sib
genotypes'
type: journal_article
volume: 94
year: '2005'
...
---
_id: '3612'
abstract:
- lang: eng
text: Left-right asymmetry in snails is intriguing because individuals of opposite
chirality are either unable to mate or can only mate with difficulty, so could
be reproductively isolated from each other. We have therefore investigated chiral
evolution in the Japanese land snail genus Euhadra to understand whether changes
in chirality have promoted speciation. In particular, we aimed to understand the
effect of the maternal inheritance of chirality on reproductive isolation and
gene flow. We found that the mitochondrial DNA phylogeny of Euhadra is consistent
with a single, relatively ancient evolution of sinistral species and suggests
either recent “single-gene speciation” or gene flow between chiral morphs that
are unable to mate. To clarify the conditions under which new chiral morphs might
evolve and whether single-gene speciation can occur, we developed a mathematical
model that is relevant to any maternal-effect gene. The model shows that reproductive
character displacement can promote the evolution of new chiral morphs, tending
to counteract the positive frequency-dependent selection that would otherwise
drive the more common chiral morph to fixation. This therefore suggests a general
mechanism as to how chiral variation arises in snails. In populations that contain
both chiral morphs, two different situations are then possible. In the first,
gene flow is substantial between morphs even without interchiral mating, because
of the maternal inheritance of chirality. In the second, reproductive isolation
is possible but unstable, and will also lead to gene flow if intrachiral matings
occasionally produce offspring with the opposite chirality. Together, the results
imply that speciation by chiral reversal is only meaningful in the context of
a complex biogeographical process, and so must usually involve other factors.
In order to understand the roles of reproductive character displacement and gene
flow in the chiral evolution of Euhadra, it will be necessary to investigate populations
in which both chiral morphs coexist.
author:
- first_name: Angus
full_name: Davison, Angus
last_name: Davison
- first_name: Satoshi
full_name: Chiba, Satoshi
last_name: Chiba
- first_name: Nicholas H
full_name: Nicholas Barton
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Bernard
full_name: Clarke, Bernard
last_name: Clarke
citation:
ama: Davison A, Chiba S, Barton NH, Clarke B. Speciation and gene flow between snails
of opposing chirality. PLoS Biology. 2005;3(9). doi:10.1371/journal.pbio.0030282
apa: Davison, A., Chiba, S., Barton, N. H., & Clarke, B. (2005). Speciation
and gene flow between snails of opposing chirality. PLoS Biology. Public
Library of Science. https://doi.org/10.1371/journal.pbio.0030282
chicago: Davison, Angus, Satoshi Chiba, Nicholas H Barton, and Bernard Clarke. “Speciation
and Gene Flow between Snails of Opposing Chirality.” PLoS Biology. Public
Library of Science, 2005. https://doi.org/10.1371/journal.pbio.0030282.
ieee: A. Davison, S. Chiba, N. H. Barton, and B. Clarke, “Speciation and gene flow
between snails of opposing chirality,” PLoS Biology, vol. 3, no. 9. Public
Library of Science, 2005.
ista: Davison A, Chiba S, Barton NH, Clarke B. 2005. Speciation and gene flow between
snails of opposing chirality. PLoS Biology. 3(9).
mla: Davison, Angus, et al. “Speciation and Gene Flow between Snails of Opposing
Chirality.” PLoS Biology, vol. 3, no. 9, Public Library of Science, 2005,
doi:10.1371/journal.pbio.0030282.
short: A. Davison, S. Chiba, N.H. Barton, B. Clarke, PLoS Biology 3 (2005).
date_created: 2018-12-11T12:04:14Z
date_published: 2005-08-09T00:00:00Z
date_updated: 2021-01-12T07:44:39Z
day: '09'
doi: 10.1371/journal.pbio.0030282
extern: 1
intvolume: ' 3'
issue: '9'
month: '08'
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '2771'
quality_controlled: 0
status: public
title: Speciation and gene flow between snails of opposing chirality
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: '3613'
abstract:
- lang: eng
text: 'The extent of genetic variation in fitness is a crucial issue in evolutionary
biology and yet remains largely unresolved. In Drosophila melanogaster, we have
devised a method that allows the net effects on fitness of heterozygous wild-type
chromosomes to be measured, by competing them against two different “balancer”
chromosomes. We have applied the method to a large sample of 40 wild-type third
chromosomes and have measured fitnesses of nonlethal chromosomes as well as chromosomes
bearing recessive lethals. The measurements were made in the environment to which
the population was adapted and did not involve inbreeding. The results show an
extraordinary similarity in the behavior of replicates of the same chromosome,
indicating consistent genetic effects on total fitness. Some invading chromosomes
increased rapidly and some slowly, and some rose to appreciable frequency after
several months, but then declined again: in every case, the same pattern was seen
in each replicate. We estimated relative fitnesses, rates of change of fitness,
and relative viabilities, for each chromosome. There were significant fluctuations
around the fitted model, which were also highly replicable. Wild-type chromosomes
varied substantially in their effects on heterozygous fitness, and these effects
vary through time, most likely as a result of genotype × environment interactions.'
author:
- first_name: Michael
full_name: Gardner, Michael P
last_name: Gardner
- first_name: Kevin
full_name: Fowler, Kevin
last_name: Fowler
- first_name: Nicholas H
full_name: Nicholas Barton
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Linda
full_name: Patridge, Linda
last_name: Patridge
citation:
ama: 'Gardner M, Fowler K, Barton NH, Patridge L. Genetic variation for total fitness
in Drosophila melanogaster: Complex yet replicable patterns. Genetics.
2005;169(3):1553-1571. doi:10.1534/genetics.104.032367'
apa: 'Gardner, M., Fowler, K., Barton, N. H., & Patridge, L. (2005). Genetic
variation for total fitness in Drosophila melanogaster: Complex yet replicable
patterns. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.104.032367'
chicago: 'Gardner, Michael, Kevin Fowler, Nicholas H Barton, and Linda Patridge.
“Genetic Variation for Total Fitness in Drosophila Melanogaster: Complex yet Replicable
Patterns.” Genetics. Genetics Society of America, 2005. https://doi.org/10.1534/genetics.104.032367.'
ieee: 'M. Gardner, K. Fowler, N. H. Barton, and L. Patridge, “Genetic variation
for total fitness in Drosophila melanogaster: Complex yet replicable patterns,”
Genetics, vol. 169, no. 3. Genetics Society of America, pp. 1553–1571,
2005.'
ista: 'Gardner M, Fowler K, Barton NH, Patridge L. 2005. Genetic variation for total
fitness in Drosophila melanogaster: Complex yet replicable patterns. Genetics.
169(3), 1553–1571.'
mla: 'Gardner, Michael, et al. “Genetic Variation for Total Fitness in Drosophila
Melanogaster: Complex yet Replicable Patterns.” Genetics, vol. 169, no.
3, Genetics Society of America, 2005, pp. 1553–71, doi:10.1534/genetics.104.032367.'
short: M. Gardner, K. Fowler, N.H. Barton, L. Patridge, Genetics 169 (2005) 1553–1571.
date_created: 2018-12-11T12:04:15Z
date_published: 2005-03-01T00:00:00Z
date_updated: 2021-01-12T07:44:40Z
day: '01'
doi: 10.1534/genetics.104.032367
extern: 1
intvolume: ' 169'
issue: '3'
month: '03'
page: 1553 - 1571
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '2770'
quality_controlled: 0
status: public
title: 'Genetic variation for total fitness in Drosophila melanogaster: Complex yet
replicable patterns'
type: journal_article
volume: 169
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: '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: '3691'
abstract:
- lang: eng
text: In strictly pseudoconvex domains with smooth boundary, we prove a commutator
relationship between admissible integral operators, as introduced by Lieb and
Range, and smooth vector fields which are tangential at boundary points. This
makes it possible to gain estimates for admissible operators in function spaces
which involve tangential derivatives. Examples are given under with circumstances
these can be transformed into genuine Sobolev- and C k-estimates.
author:
- first_name: Christoph
full_name: Christoph Lampert
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: Lampert C. Boundary regularity of admissible operators. Publicacions Matemàtiques.
2005;49(1):179-195. doi:10.5565/PUBLMAT_49105_08
apa: Lampert, C. (2005). Boundary regularity of admissible operators. Publicacions
Matemàtiques. Universitat Autònoma de Barcelona, Departament de Matemàtique.
https://doi.org/10.5565/PUBLMAT_49105_08
chicago: Lampert, Christoph. “Boundary Regularity of Admissible Operators.” Publicacions
Matemàtiques. Universitat Autònoma de Barcelona, Departament de Matemàtique,
2005. https://doi.org/10.5565/PUBLMAT_49105_08.
ieee: C. Lampert, “Boundary regularity of admissible operators,” Publicacions
Matemàtiques, vol. 49, no. 1. Universitat Autònoma de Barcelona, Departament
de Matemàtique, pp. 179–195, 2005.
ista: Lampert C. 2005. Boundary regularity of admissible operators. Publicacions
Matemàtiques. 49(1), 179–195.
mla: Lampert, Christoph. “Boundary Regularity of Admissible Operators.” Publicacions
Matemàtiques, vol. 49, no. 1, Universitat Autònoma de Barcelona, Departament
de Matemàtique, 2005, pp. 179–95, doi:10.5565/PUBLMAT_49105_08.
short: C. Lampert, Publicacions Matemàtiques 49 (2005) 179–195.
date_created: 2018-12-11T12:04:38Z
date_published: 2005-01-01T00:00:00Z
date_updated: 2021-01-12T07:48:59Z
day: '01'
doi: 10.5565/PUBLMAT_49105_08
extern: 1
intvolume: ' 49'
issue: '1'
month: '01'
page: 179 - 195
publication: Publicacions Matemàtiques
publication_status: published
publisher: Universitat Autònoma de Barcelona, Departament de Matemàtique
publist_id: '2673'
quality_controlled: 0
status: public
title: Boundary regularity of admissible operators
type: journal_article
volume: 49
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: '3721'
abstract:
- lang: eng
text: Recent advances in atomic force microscopy allowed globular and membrane proteins
to be mechanically unfolded on a single-molecule level. Presented is an extension
to the existing force spectroscopy experiments. While unfolding single bacteriorhodopsins
from native purple membranes, small oscillation amplitudes (6–9nm) were supplied
to the vertical displacement of the cantilever at a frequency of 3kHz. The phase
and amplitude response of the cantilever-protein system was converted to reveal
the elastic (conservative) and viscous (dissipative) contributions to the unfolding
process. The elastic response (stiffness) of the extended parts of the protein
were in the range of a few tens pN/nm and could be well described by the derivative
of the wormlike chain model. Discrete events in the viscous response coincided
with the unfolding of single secondary structure elements and were in the range
of 1μNs/m. In addition, these force modulation spectroscopy experiments revealed
novel mechanical unfolding intermediates of bacteriorhodopsin. We found that kinks
result in a loss of unfolding cooperativity in transmembrane helices. Reconstructing
force-distance spectra by the integration of amplitude-distance spectra verified
their position, offering a novel approach to detect intermediates during the forced
unfolding 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: Daniel
full_name: Mueller, Daniel J
last_name: Mueller
- first_name: Andrew
full_name: Humphris, Andrew D
last_name: Humphris
citation:
ama: Janovjak HL, Mueller D, Humphris A. Molecular force modulation spectroscopy
revealing the dynamic response of single bacteriorhodopsins. Biophysical Journal.
2005;88(2):1423-1431. doi:10.1529/biophysj.104.052746
apa: Janovjak, H. L., Mueller, D., & Humphris, A. (2005). Molecular force modulation
spectroscopy revealing the dynamic response of single bacteriorhodopsins. Biophysical
Journal. Biophysical Society. https://doi.org/10.1529/biophysj.104.052746
chicago: Janovjak, Harald L, Daniel Mueller, and Andrew Humphris. “Molecular Force
Modulation Spectroscopy Revealing the Dynamic Response of Single Bacteriorhodopsins.”
Biophysical Journal. Biophysical Society, 2005. https://doi.org/10.1529/biophysj.104.052746.
ieee: H. L. Janovjak, D. Mueller, and A. Humphris, “Molecular force modulation spectroscopy
revealing the dynamic response of single bacteriorhodopsins,” Biophysical Journal,
vol. 88, no. 2. Biophysical Society, pp. 1423–1431, 2005.
ista: Janovjak HL, Mueller D, Humphris A. 2005. Molecular force modulation spectroscopy
revealing the dynamic response of single bacteriorhodopsins. Biophysical Journal.
88(2), 1423–1431.
mla: Janovjak, Harald L., et al. “Molecular Force Modulation Spectroscopy Revealing
the Dynamic Response of Single Bacteriorhodopsins.” Biophysical Journal,
vol. 88, no. 2, Biophysical Society, 2005, pp. 1423–31, doi:10.1529/biophysj.104.052746.
short: H.L. Janovjak, D. Mueller, A. Humphris, Biophysical Journal 88 (2005) 1423–1431.
date_created: 2018-12-11T12:04:48Z
date_published: 2005-02-01T00:00:00Z
date_updated: 2021-01-12T07:51:43Z
day: '01'
doi: 10.1529/biophysj.104.052746
extern: 1
intvolume: ' 88'
issue: '2'
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1305144/
month: '02'
oa: 1
page: 1423 - 1431
publication: Biophysical Journal
publication_status: published
publisher: Biophysical Society
publist_id: '2509'
quality_controlled: 0
status: public
title: Molecular force modulation spectroscopy revealing the dynamic response of single
bacteriorhodopsins
type: journal_article
volume: 88
year: '2005'
...