---
_id: '166'
abstract:
- lang: eng
text: For any number field k, upper bounds are established for the number of k-rational
points of bounded height on non-singular del Pezzo surfaces defined over k, which
are equipped with suitable conic bundle structures over k.
alternative_title:
- Bonner mathematische Schriften
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
- first_name: M
full_name: Swarbick Jones, M
last_name: Swarbick Jones
citation:
ama: Browning TD, Swarbick Jones M. Counting rational points on del Pezzo surfaces
of degree 5. Proceedings of the Bonn session in analytic number theory and
diophantine equations. 2003;360.
apa: Browning, T. D., & Swarbick Jones, M. (2003). Counting rational points
on del Pezzo surfaces of degree 5. Proceedings of the Bonn Session in Analytic
Number Theory and Diophantine Equations. Mathematisches Institut der Universität
Bonn.
chicago: Browning, Timothy D, and M Swarbick Jones. “Counting Rational Points on
Del Pezzo Surfaces of Degree 5.” Proceedings of the Bonn Session in Analytic
Number Theory and Diophantine Equations. Mathematisches Institut der Universität
Bonn, 2003.
ieee: T. D. Browning and M. Swarbick Jones, “Counting rational points on del Pezzo
surfaces of degree 5,” Proceedings of the Bonn session in analytic number theory
and diophantine equations, vol. 360. Mathematisches Institut der Universität
Bonn, 2003.
ista: Browning TD, Swarbick Jones M. 2003. Counting rational points on del Pezzo
surfaces of degree 5. Proceedings of the Bonn session in analytic number theory
and diophantine equations. 360.
mla: Browning, Timothy D., and M. Swarbick Jones. “Counting Rational Points on Del
Pezzo Surfaces of Degree 5.” Proceedings of the Bonn Session in Analytic Number
Theory and Diophantine Equations, vol. 360, Mathematisches Institut der Universität
Bonn, 2003.
short: T.D. Browning, M. Swarbick Jones, Proceedings of the Bonn Session in Analytic
Number Theory and Diophantine Equations 360 (2003).
date_created: 2018-12-11T11:44:58Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T06:52:20Z
day: '01'
extern: '1'
external_id:
arxiv:
- '1311.1665'
intvolume: ' 360'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1311.1665
month: '01'
oa: 1
oa_version: None
publication: Proceedings of the Bonn session in analytic number theory and diophantine
equations
publication_status: published
publisher: Mathematisches Institut der Universität Bonn
publist_id: '7755'
status: public
title: Counting rational points on del Pezzo surfaces of degree 5
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 360
year: '2003'
...
---
_id: '1959'
abstract:
- lang: eng
text: 'The molecular organization of bacterial NADH: ubiquinone oxidoreductase (complex
I or NDH-1) is not established, apart from a rough separation into dehydrogenase,
connecting and membrane domains. In this work, complex I was purified from Escherichia
coli and fragmented by replacing dodecylmaltoside with other detergents. Exchange
into decyl maltoside led to the removal of the hydrophobic subunit NuoL from the
otherwise intact complex. Diheptanoyl phosphocholine led to the loss of NuoL and
NuoM subunits, whereas other subunits remained in the complex. The presence of
N,N-dimethyldodecylamine N-oxide or Triton X-100 led to further disruption of
the membrane domain into fragments containing NuoL/M/N, NuoA/K/N, and NuoH/J subunits.
Among the hydrophilic subunits, NuoCD was most readily dissociated from the complex,
whereas NuoB was partially dissociated from the peripheral arm assembly in N,N-dimethyldodecylamine
N-oxide. A model of subunit arrangement in bacterial complex I based on these
data is proposed. Subunits NuoL and NuoM, which are homologous to antiporters
and are implicated in proton pumping, are located at the distal end of the membrane
arm, spatially separated from the redox centers of the peripheral arm. This is
consistent with proposals that the mechanism of proton pumping by complex I is
likely to involve long range conformational changes.'
acknowledgement: his work was supported by the Medical Research Council.
author:
- first_name: Peter
full_name: Holt, Peter J
last_name: Holt
- first_name: David
full_name: Morgan, David J
last_name: Morgan
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: 'Holt P, Morgan D, Sazanov LA. The location of NuoL and NuoM subunits in the
membrane domain of the Escherichia coli Complex I: implications for the mechanism
of proton pumping. Journal of Biological Chemistry. 2003;278(44):43114-43120.
doi:10.1074/jbc.M308247200'
apa: 'Holt, P., Morgan, D., & Sazanov, L. A. (2003). The location of NuoL and
NuoM subunits in the membrane domain of the Escherichia coli Complex I: implications
for the mechanism of proton pumping. Journal of Biological Chemistry. American
Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/jbc.M308247200'
chicago: 'Holt, Peter, David Morgan, and Leonid A Sazanov. “The Location of NuoL
and NuoM Subunits in the Membrane Domain of the Escherichia Coli Complex I: Implications
for the Mechanism of Proton Pumping.” Journal of Biological Chemistry.
American Society for Biochemistry and Molecular Biology, 2003. https://doi.org/10.1074/jbc.M308247200.'
ieee: 'P. Holt, D. Morgan, and L. A. Sazanov, “The location of NuoL and NuoM subunits
in the membrane domain of the Escherichia coli Complex I: implications for the
mechanism of proton pumping,” Journal of Biological Chemistry, vol. 278,
no. 44. American Society for Biochemistry and Molecular Biology, pp. 43114–43120,
2003.'
ista: 'Holt P, Morgan D, Sazanov LA. 2003. The location of NuoL and NuoM subunits
in the membrane domain of the Escherichia coli Complex I: implications for the
mechanism of proton pumping. Journal of Biological Chemistry. 278(44), 43114–43120.'
mla: 'Holt, Peter, et al. “The Location of NuoL and NuoM Subunits in the Membrane
Domain of the Escherichia Coli Complex I: Implications for the Mechanism of Proton
Pumping.” Journal of Biological Chemistry, vol. 278, no. 44, American Society
for Biochemistry and Molecular Biology, 2003, pp. 43114–20, doi:10.1074/jbc.M308247200.'
short: P. Holt, D. Morgan, L.A. Sazanov, Journal of Biological Chemistry 278 (2003)
43114–43120.
date_created: 2018-12-11T11:54:55Z
date_published: 2003-10-31T00:00:00Z
date_updated: 2021-01-12T06:54:21Z
day: '31'
doi: 10.1074/jbc.M308247200
extern: 1
intvolume: ' 278'
issue: '44'
month: '10'
page: 43114 - 43120
publication: Journal of Biological Chemistry
publication_status: published
publisher: American Society for Biochemistry and Molecular Biology
publist_id: '5124'
quality_controlled: 0
status: public
title: 'The location of NuoL and NuoM subunits in the membrane domain of the Escherichia
coli Complex I: implications for the mechanism of proton pumping'
type: journal_article
volume: 278
year: '2003'
...
---
_id: '1960'
abstract:
- lang: eng
text: NADH-ubiquinone oxidoreductase (complex I or NDH-1) was purified from the
BL21 strain of Escherichia coli using an improved procedure. The complex was effectively
stabilized by addition of divalent cations and lipids, making the preparation
suitable for structural studies. The ubiquinone reductase activity of the enzyme
was fully restored by addition of native E. coli lipids. Two different two-dimensional
crystal forms, with p2 and p3 symmetry, were obtained using lipids containing
native E. coli extracts. Analysis of the crystals showed that they are formed
by fully intact complex I in an L-shaped conformation. Activity assays and single
particle analysis indicated that complex I maintains this structure in detergent
solution and does not adopt a different conformation in the active state. Thus,
we provide the first experimental evidence that complex I from E. coli has an
L-shape in a lipid bilayer and confirm that this is also the case for the active
enzyme in solution. This suggests strongly that bacterial complex I exists in
an L-shaped conformation in vivo. Our results also indicate that native lipids
play an important role in the activation, stabilization and, as a consequence,
crystallization of purified complex I from E. coli.
author:
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Joe
full_name: Carroll, Joe D
last_name: Carroll
- first_name: Peter
full_name: Holt, Peter J
last_name: Holt
- first_name: Laurence
full_name: Toime, Laurence J
last_name: Toime
- first_name: Ian
full_name: Fearnley, Ian M
last_name: Fearnley
citation:
ama: Sazanov LA, Carroll J, Holt P, Toime L, Fearnley I. A role for native lipids
in the stabilization and two dimensional crystallization of the Escherichia coli
NADH ubiquinone oxidoreductase (complex I). Journal of Biological Chemistry.
2003;278(21):19483-19491. doi:10.1074/jbc.M208959200
apa: Sazanov, L. A., Carroll, J., Holt, P., Toime, L., & Fearnley, I. (2003).
A role for native lipids in the stabilization and two dimensional crystallization
of the Escherichia coli NADH ubiquinone oxidoreductase (complex I). Journal
of Biological Chemistry. American Society for Biochemistry and Molecular Biology.
https://doi.org/10.1074/jbc.M208959200
chicago: Sazanov, Leonid A, Joe Carroll, Peter Holt, Laurence Toime, and Ian Fearnley.
“A Role for Native Lipids in the Stabilization and Two Dimensional Crystallization
of the Escherichia Coli NADH Ubiquinone Oxidoreductase (Complex I).” Journal
of Biological Chemistry. American Society for Biochemistry and Molecular Biology,
2003. https://doi.org/10.1074/jbc.M208959200.
ieee: L. A. Sazanov, J. Carroll, P. Holt, L. Toime, and I. Fearnley, “A role for
native lipids in the stabilization and two dimensional crystallization of the
Escherichia coli NADH ubiquinone oxidoreductase (complex I),” Journal of Biological
Chemistry, vol. 278, no. 21. American Society for Biochemistry and Molecular
Biology, pp. 19483–19491, 2003.
ista: Sazanov LA, Carroll J, Holt P, Toime L, Fearnley I. 2003. A role for native
lipids in the stabilization and two dimensional crystallization of the Escherichia
coli NADH ubiquinone oxidoreductase (complex I). Journal of Biological Chemistry.
278(21), 19483–19491.
mla: Sazanov, Leonid A., et al. “A Role for Native Lipids in the Stabilization and
Two Dimensional Crystallization of the Escherichia Coli NADH Ubiquinone Oxidoreductase
(Complex I).” Journal of Biological Chemistry, vol. 278, no. 21, American
Society for Biochemistry and Molecular Biology, 2003, pp. 19483–91, doi:10.1074/jbc.M208959200.
short: L.A. Sazanov, J. Carroll, P. Holt, L. Toime, I. Fearnley, Journal of Biological
Chemistry 278 (2003) 19483–19491.
date_created: 2018-12-11T11:54:55Z
date_published: 2003-05-23T00:00:00Z
date_updated: 2021-01-12T06:54:21Z
day: '23'
doi: 10.1074/jbc.M208959200
extern: 1
intvolume: ' 278'
issue: '21'
month: '05'
page: 19483 - 19491
publication: Journal of Biological Chemistry
publication_status: published
publisher: American Society for Biochemistry and Molecular Biology
publist_id: '5125'
quality_controlled: 0
status: public
title: A role for native lipids in the stabilization and two dimensional crystallization
of the Escherichia coli NADH ubiquinone oxidoreductase (complex I)
type: journal_article
volume: 278
year: '2003'
...
---
_id: '205'
author:
- first_name: Timothy D
full_name: Timothy Browning
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
citation:
ama: Browning TD. Counting rational points on cubic and quartic surfaces. Acta
Arithmetica. 2003;108(3):275-295. doi:10.4064/aa108-3-7
apa: Browning, T. D. (2003). Counting rational points on cubic and quartic surfaces.
Acta Arithmetica. Instytut Matematyczny. https://doi.org/10.4064/aa108-3-7
chicago: Browning, Timothy D. “Counting Rational Points on Cubic and Quartic Surfaces.”
Acta Arithmetica. Instytut Matematyczny, 2003. https://doi.org/10.4064/aa108-3-7.
ieee: T. D. Browning, “Counting rational points on cubic and quartic surfaces,”
Acta Arithmetica, vol. 108, no. 3. Instytut Matematyczny, pp. 275–295,
2003.
ista: Browning TD. 2003. Counting rational points on cubic and quartic surfaces.
Acta Arithmetica. 108(3), 275–295.
mla: Browning, Timothy D. “Counting Rational Points on Cubic and Quartic Surfaces.”
Acta Arithmetica, vol. 108, no. 3, Instytut Matematyczny, 2003, pp. 275–95,
doi:10.4064/aa108-3-7.
short: T.D. Browning, Acta Arithmetica 108 (2003) 275–295.
date_created: 2018-12-11T11:45:12Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T06:54:58Z
day: '01'
doi: 10.4064/aa108-3-7
extern: 1
intvolume: ' 108'
issue: '3'
month: '01'
page: 275 - 295
publication: Acta Arithmetica
publication_status: published
publisher: Instytut Matematyczny
publist_id: '7707'
quality_controlled: 0
status: public
title: Counting rational points on cubic and quartic surfaces
type: journal_article
volume: 108
year: '2003'
...
---
_id: '206'
abstract:
- lang: eng
text: Let T ⊂ ℙ 4 be a non-singular threefold of degree at least four. Then we show
that the number of points in T(ℚ), with height at most B, is o(B 3) or B → ∞.
author:
- first_name: Timothy D
full_name: Timothy Browning
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
citation:
ama: Browning TD. A note on the distribution of rational points on threefolds. Quarterly
Journal of Mathematics. 2003;54(1):33-39. doi:10.1093/qjmath/54.1.33
apa: Browning, T. D. (2003). A note on the distribution of rational points on threefolds.
Quarterly Journal of Mathematics. Unknown. https://doi.org/10.1093/qjmath/54.1.33
chicago: Browning, Timothy D. “A Note on the Distribution of Rational Points on
Threefolds.” Quarterly Journal of Mathematics. Unknown, 2003. https://doi.org/10.1093/qjmath/54.1.33.
ieee: T. D. Browning, “A note on the distribution of rational points on threefolds,”
Quarterly Journal of Mathematics, vol. 54, no. 1. Unknown, pp. 33–39, 2003.
ista: Browning TD. 2003. A note on the distribution of rational points on threefolds.
Quarterly Journal of Mathematics. 54(1), 33–39.
mla: Browning, Timothy D. “A Note on the Distribution of Rational Points on Threefolds.”
Quarterly Journal of Mathematics, vol. 54, no. 1, Unknown, 2003, pp. 33–39,
doi:10.1093/qjmath/54.1.33.
short: T.D. Browning, Quarterly Journal of Mathematics 54 (2003) 33–39.
date_created: 2018-12-11T11:45:12Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T06:55:02Z
day: '01'
doi: 10.1093/qjmath/54.1.33
extern: 1
intvolume: ' 54'
issue: '1'
month: '03'
page: 33 - 39
publication: Quarterly Journal of Mathematics
publication_status: published
publisher: Unknown
publist_id: '7706'
quality_controlled: 0
status: public
title: A note on the distribution of rational points on threefolds
type: journal_article
volume: 54
year: '2003'
...
---
_id: '207'
author:
- first_name: Timothy D
full_name: Browning, Timothy D
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
citation:
ama: Browning TD. Sums of four biquadrates. Mathematical Proceedings of the Cambridge
Philosophical Society. 2003;134(3):385-395. doi:10.1017/S0305004102006382
apa: Browning, T. D. (2003). Sums of four biquadrates. Mathematical Proceedings
of the Cambridge Philosophical Society. Cambridge University Press. https://doi.org/10.1017/S0305004102006382
chicago: Browning, Timothy D. “Sums of Four Biquadrates.” Mathematical Proceedings
of the Cambridge Philosophical Society. Cambridge University Press, 2003.
https://doi.org/10.1017/S0305004102006382.
ieee: T. D. Browning, “Sums of four biquadrates,” Mathematical Proceedings of
the Cambridge Philosophical Society, vol. 134, no. 3. Cambridge University
Press, pp. 385–395, 2003.
ista: Browning TD. 2003. Sums of four biquadrates. Mathematical Proceedings of the
Cambridge Philosophical Society. 134(3), 385–395.
mla: Browning, Timothy D. “Sums of Four Biquadrates.” Mathematical Proceedings
of the Cambridge Philosophical Society, vol. 134, no. 3, Cambridge University
Press, 2003, pp. 385–95, doi:10.1017/S0305004102006382.
short: T.D. Browning, Mathematical Proceedings of the Cambridge Philosophical Society
134 (2003) 385–395.
date_created: 2018-12-11T11:45:12Z
date_published: 2003-05-01T00:00:00Z
date_updated: 2021-01-12T06:55:07Z
day: '01'
doi: 10.1017/S0305004102006382
extern: '1'
intvolume: ' 134'
issue: '3'
language:
- iso: eng
month: '05'
oa_version: None
page: 385 - 395
publication: Mathematical Proceedings of the Cambridge Philosophical Society
publication_status: published
publisher: Cambridge University Press
publist_id: '7704'
quality_controlled: '1'
status: public
title: Sums of four biquadrates
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 134
year: '2003'
...
---
_id: '208'
abstract:
- lang: eng
text: For any ε > 0 and any diagonal quadratic form Q ∈ ℤ[x 1, x 2, x 3, x 4]
with a square-free discriminant of modulus Δ Q ≠ 0, we establish the uniform estimate
≪ε B 3/2+ε + B 2+ε/Δ Q 1/6 for the number of rational points of height at most
B lying in the projective surface Q = 0.
author:
- first_name: Timothy D
full_name: Timothy Browning
id: 35827D50-F248-11E8-B48F-1D18A9856A87
last_name: Browning
orcid: 0000-0002-8314-0177
citation:
ama: Browning TD. Counting rational points on diagonal quadratic surfaces. Quarterly
Journal of Mathematics. 2003;54(1):11-31. doi:10.1093/qjmath/54.1.11
apa: Browning, T. D. (2003). Counting rational points on diagonal quadratic surfaces.
Quarterly Journal of Mathematics. Oxford University Press. https://doi.org/10.1093/qjmath/54.1.11
chicago: Browning, Timothy D. “Counting Rational Points on Diagonal Quadratic Surfaces.”
Quarterly Journal of Mathematics. Oxford University Press, 2003. https://doi.org/10.1093/qjmath/54.1.11.
ieee: T. D. Browning, “Counting rational points on diagonal quadratic surfaces,”
Quarterly Journal of Mathematics, vol. 54, no. 1. Oxford University Press,
pp. 11–31, 2003.
ista: Browning TD. 2003. Counting rational points on diagonal quadratic surfaces.
Quarterly Journal of Mathematics. 54(1), 11–31.
mla: Browning, Timothy D. “Counting Rational Points on Diagonal Quadratic Surfaces.”
Quarterly Journal of Mathematics, vol. 54, no. 1, Oxford University Press,
2003, pp. 11–31, doi:10.1093/qjmath/54.1.11.
short: T.D. Browning, Quarterly Journal of Mathematics 54 (2003) 11–31.
date_created: 2018-12-11T11:45:13Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T06:55:10Z
day: '01'
doi: 10.1093/qjmath/54.1.11
extern: 1
intvolume: ' 54'
issue: '1'
month: '03'
page: 11 - 31
publication: Quarterly Journal of Mathematics
publication_status: published
publisher: Oxford University Press
publist_id: '7705'
quality_controlled: 0
status: public
title: Counting rational points on diagonal quadratic surfaces
type: journal_article
volume: 54
year: '2003'
...
---
_id: '2337'
alternative_title:
- Contemporary Mathematics
author:
- first_name: Élliott
full_name: Lieb, Élliott H
last_name: Lieb
- first_name: Robert
full_name: Robert Seiringer
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: 'Lieb É, Seiringer R. Bose-Einstein condensation of dilute gases in traps .
In: Karpeshina Y, Weikard R, Zeng Y, eds. Vol 327. American Mathematical Society;
2003:239-250. doi:10.1090/conm/327/05818'
apa: Lieb, É., & Seiringer, R. (2003). Bose-Einstein condensation of dilute
gases in traps . In Y. Karpeshina, R. Weikard, & Y. Zeng (Eds.) (Vol. 327,
pp. 239–250). Presented at the Differential Equations and Mathematical Physics,
American Mathematical Society. https://doi.org/10.1090/conm/327/05818
chicago: Lieb, Élliott, and Robert Seiringer. “Bose-Einstein Condensation of Dilute
Gases in Traps .” edited by Yulia Karpeshina, Rudi Weikard, and Yanni Zeng, 327:239–50.
American Mathematical Society, 2003. https://doi.org/10.1090/conm/327/05818.
ieee: É. Lieb and R. Seiringer, “Bose-Einstein condensation of dilute gases in traps
,” presented at the Differential Equations and Mathematical Physics, 2003, vol.
327, pp. 239–250.
ista: Lieb É, Seiringer R. 2003. Bose-Einstein condensation of dilute gases in traps
. Differential Equations and Mathematical Physics, Contemporary Mathematics, vol.
327, 239–250.
mla: Lieb, Élliott, and Robert Seiringer. Bose-Einstein Condensation of Dilute
Gases in Traps . Edited by Yulia Karpeshina et al., vol. 327, American Mathematical
Society, 2003, pp. 239–50, doi:10.1090/conm/327/05818.
short: É. Lieb, R. Seiringer, in:, Y. Karpeshina, R. Weikard, Y. Zeng (Eds.), American
Mathematical Society, 2003, pp. 239–250.
conference:
name: Differential Equations and Mathematical Physics
date_created: 2018-12-11T11:57:04Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T06:56:52Z
day: '01'
doi: 10.1090/conm/327/05818
editor:
- first_name: Yulia
full_name: Karpeshina, Yulia
last_name: Karpeshina
- first_name: Rudi
full_name: Weikard, Rudi
last_name: Weikard
- first_name: Yanni
full_name: Zeng, Yanni
last_name: Zeng
extern: 1
intvolume: ' 327'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/math-ph/0210028
month: '01'
oa: 1
page: 239 - 250
publication_status: published
publisher: American Mathematical Society
publist_id: '4589'
quality_controlled: 0
status: public
title: 'Bose-Einstein condensation of dilute gases in traps '
type: conference
volume: 327
year: '2003'
...
---
_id: '2357'
abstract:
- lang: eng
text: 'The classic Poincaré inequality bounds the L q-norm of a function f in a
bounded domain Ω ⊂ ℝ n in terms of some L p-norm of its gradient in Ω. We generalize
this in two ways: In the first generalization we remove a set Τ from Ω and concentrate
our attention on Λ = Ω \ Τ. This new domain might not even be connected and hence
no Poincaré inequality can generally hold for it, or if it does hold it might
have a very bad constant. This is so even if the volume of Τ is arbitrarily small.
A Poincaré inequality does hold, however, if one makes the additional assumption
that f has a finite L p gradient norm on the whole of Ω, not just on Λ. The important
point is that the Poincaré inequality thus obtained bounds the L q-norm of f in
terms of the L p gradient norm on Λ (not Ω) plus an additional term that goes
to zero as the volume of Τ goes to zero. This error term depends on Τ only through
its volume. Apart from this additive error term, the constant in the inequality
remains that of the ''nice'' domain Ω. In the second generalization we are given
a vector field A and replace ∇ by ∇ + iA(x) (geometrically, a connection on a
U(1) bundle). Unlike the A = 0 case, the infimum of ∥(∇ + iA)f∥ p over all f with
a given ∥f∥ q is in general not zero. This permits an improvement of the inequality
by the addition of a term whose sharp value we derive. We describe some open problems
that arise from these generalizations.'
author:
- first_name: Élliott
full_name: Lieb, Élliott H
last_name: Lieb
- first_name: Robert
full_name: Robert Seiringer
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Jakob
full_name: Yngvason, Jakob
last_name: Yngvason
citation:
ama: Lieb É, Seiringer R, Yngvason J. Poincaré inequalities in punctured domains.
Annals of Mathematics. 2003;158(3):1067-1080. doi:10.4007/annals.2003.158.1067
apa: Lieb, É., Seiringer, R., & Yngvason, J. (2003). Poincaré inequalities in
punctured domains. Annals of Mathematics. Princeton University Press. https://doi.org/10.4007/annals.2003.158.1067
chicago: Lieb, Élliott, Robert Seiringer, and Jakob Yngvason. “Poincaré Inequalities
in Punctured Domains.” Annals of Mathematics. Princeton University Press,
2003. https://doi.org/10.4007/annals.2003.158.1067
.
ieee: É. Lieb, R. Seiringer, and J. Yngvason, “Poincaré inequalities in punctured
domains,” Annals of Mathematics, vol. 158, no. 3. Princeton University
Press, pp. 1067–1080, 2003.
ista: Lieb É, Seiringer R, Yngvason J. 2003. Poincaré inequalities in punctured
domains. Annals of Mathematics. 158(3), 1067–1080.
mla: Lieb, Élliott, et al. “Poincaré Inequalities in Punctured Domains.” Annals
of Mathematics, vol. 158, no. 3, Princeton University Press, 2003, pp. 1067–80,
doi:10.4007/annals.2003.158.1067
.
short: É. Lieb, R. Seiringer, J. Yngvason, Annals of Mathematics 158 (2003) 1067–1080.
date_created: 2018-12-11T11:57:11Z
date_published: 2003-11-01T00:00:00Z
date_updated: 2021-01-12T06:57:00Z
day: '01'
doi: '10.4007/annals.2003.158.1067 '
extern: 1
intvolume: ' 158'
issue: '3'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/math/0205088
month: '11'
oa: 1
page: 1067 - 1080
publication: Annals of Mathematics
publication_status: published
publisher: Princeton University Press
publist_id: '4570'
quality_controlled: 0
status: public
title: Poincaré inequalities in punctured domains
type: journal_article
volume: 158
year: '2003'
...
---
_id: '2354'
abstract:
- lang: eng
text: We investigate the ground state properties of a gas of interacting particles
confined in an external potential in three dimensions and subject to rotation
around an axis of symmetry. We consider the Gross-Pitaevskii (GP) limit of a dilute
gas. Analysing both the absolute and the bosonic ground states of the system,
we show, in particular, their different behaviour for a certain range of parameters.
This parameter range is determined by the question whether the rotational symmetry
in the minimizer of the GP functional is broken or not. For the absolute ground
state, we prove that in the GP limit a modified GP functional depending on density
matrices correctly describes the energy and reduced density matrices, independent
of symmetry breaking. For the bosonic ground state this holds true if and only
if the symmetry is unbroken.
author:
- first_name: Robert
full_name: Robert Seiringer
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: 'Seiringer R. Ground state asymptotics of a dilute, rotating gas. Journal
of Physics A: Mathematical and Theoretical. 2003;36(37):9755-9778. doi:10.1088/0305-4470/36/37/312'
apa: 'Seiringer, R. (2003). Ground state asymptotics of a dilute, rotating gas.
Journal of Physics A: Mathematical and Theoretical. IOP Publishing Ltd.
https://doi.org/10.1088/0305-4470/36/37/312'
chicago: 'Seiringer, Robert. “Ground State Asymptotics of a Dilute, Rotating Gas.”
Journal of Physics A: Mathematical and Theoretical. IOP Publishing Ltd.,
2003. https://doi.org/10.1088/0305-4470/36/37/312.'
ieee: 'R. Seiringer, “Ground state asymptotics of a dilute, rotating gas,” Journal
of Physics A: Mathematical and Theoretical, vol. 36, no. 37. IOP Publishing
Ltd., pp. 9755–9778, 2003.'
ista: 'Seiringer R. 2003. Ground state asymptotics of a dilute, rotating gas. Journal
of Physics A: Mathematical and Theoretical. 36(37), 9755–9778.'
mla: 'Seiringer, Robert. “Ground State Asymptotics of a Dilute, Rotating Gas.” Journal
of Physics A: Mathematical and Theoretical, vol. 36, no. 37, IOP Publishing
Ltd., 2003, pp. 9755–78, doi:10.1088/0305-4470/36/37/312.'
short: 'R. Seiringer, Journal of Physics A: Mathematical and Theoretical 36 (2003)
9755–9778.'
date_created: 2018-12-11T11:57:10Z
date_published: 2003-09-19T00:00:00Z
date_updated: 2021-01-12T06:56:59Z
day: '19'
doi: 10.1088/0305-4470/36/37/312
extern: 1
intvolume: ' 36'
issue: '37'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/math-ph/0306022
month: '09'
oa: 1
page: 9755 - 9778
publication: 'Journal of Physics A: Mathematical and Theoretical'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '4572'
quality_controlled: 0
status: public
title: Ground state asymptotics of a dilute, rotating gas
type: journal_article
volume: 36
year: '2003'
...
---
_id: '2358'
abstract:
- lang: eng
text: A study was conducted on the one-dimensional (1D) bosons in three-dimensional
(3D) traps. A rigorous analysis was carried out on the parameter regions in which
various types of 1D or 3D behavior occurred in the ground state. The four parameter
regions include density, transverse, longitudinal dimensions and scattering length.
author:
- first_name: Élliott
full_name: Lieb, Élliott H
last_name: Lieb
- first_name: Robert
full_name: Robert Seiringer
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
- first_name: Jakob
full_name: Yngvason, Jakob
last_name: Yngvason
citation:
ama: Lieb É, Seiringer R, Yngvason J. One-dimensional Bosons in three-dimensional
traps. Physical Review Letters. 2003;91(15):1504011-1504014. doi:10.1103/PhysRevLett.91.150401
apa: Lieb, É., Seiringer, R., & Yngvason, J. (2003). One-dimensional Bosons
in three-dimensional traps. Physical Review Letters. American Physical
Society. https://doi.org/10.1103/PhysRevLett.91.150401
chicago: Lieb, Élliott, Robert Seiringer, and Jakob Yngvason. “One-Dimensional Bosons
in Three-Dimensional Traps.” Physical Review Letters. American Physical
Society, 2003. https://doi.org/10.1103/PhysRevLett.91.150401.
ieee: É. Lieb, R. Seiringer, and J. Yngvason, “One-dimensional Bosons in three-dimensional
traps,” Physical Review Letters, vol. 91, no. 15. American Physical Society,
pp. 1504011–1504014, 2003.
ista: Lieb É, Seiringer R, Yngvason J. 2003. One-dimensional Bosons in three-dimensional
traps. Physical Review Letters. 91(15), 1504011–1504014.
mla: Lieb, Élliott, et al. “One-Dimensional Bosons in Three-Dimensional Traps.”
Physical Review Letters, vol. 91, no. 15, American Physical Society, 2003,
pp. 1504011–14, doi:10.1103/PhysRevLett.91.150401.
short: É. Lieb, R. Seiringer, J. Yngvason, Physical Review Letters 91 (2003) 1504011–1504014.
date_created: 2018-12-11T11:57:12Z
date_published: 2003-10-10T00:00:00Z
date_updated: 2021-01-12T06:57:00Z
day: '10'
doi: 10.1103/PhysRevLett.91.150401
extern: 1
intvolume: ' 91'
issue: '15'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/cond-mat/0304071
month: '10'
oa: 1
page: 1504011 - 1504014
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '4571'
quality_controlled: 0
status: public
title: One-dimensional Bosons in three-dimensional traps
type: journal_article
volume: 91
year: '2003'
...
---
_id: '2414'
author:
- first_name: Uli
full_name: Uli Wagner
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Wagner U. On k-Sets and Their Applications. 2003. doi:10.3929/ethz-a-004708408
apa: Wagner, U. (2003). On k-Sets and Their Applications. ETH Zurich. https://doi.org/10.3929/ethz-a-004708408
chicago: Wagner, Uli. “On K-Sets and Their Applications.” ETH Zurich, 2003. https://doi.org/10.3929/ethz-a-004708408.
ieee: U. Wagner, “On k-Sets and Their Applications,” ETH Zurich, 2003.
ista: Wagner U. 2003. On k-Sets and Their Applications. ETH Zurich.
mla: Wagner, Uli. On K-Sets and Their Applications. ETH Zurich, 2003, doi:10.3929/ethz-a-004708408.
short: U. Wagner, On K-Sets and Their Applications, ETH Zurich, 2003.
date_created: 2018-12-11T11:57:31Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T06:57:20Z
day: '01'
doi: 10.3929/ethz-a-004708408
extern: 1
month: '01'
publication_status: published
publisher: ETH Zurich
publist_id: '4511'
quality_controlled: 0
status: public
title: On k-Sets and Their Applications
type: dissertation
year: '2003'
...
---
_id: '2424'
abstract:
- lang: eng
text: We introduce the adaptive neighborhood graph as a data structure for modeling
a smooth manifold M embedded in some (potentially very high-dimensional) Euclidean
space ℝd. We assume that M is known to us only through a finite sample P ⊂ M,
as it is often the case in applications. The adaptive neighborhood graph is a
geometric graph on P. Its complexity is at most min{2O(k)(n, n2}, where n = |P|
and k = dim M, as opposed to the n⌈d/2⌉ complexity of the Delaunay triangulation,
which is often used to model manifolds. We show that we can provably correctly
infer the connectivity of M and the dimension of M from the adaptive neighborhood
graph provided a certain standard sampling condition is fulfilled. The running
time of the dimension detection algorithm is d2O(k7 log k) for each connected
component of M. If the dimension is considered constant, this is a constant-time
operation, and the adaptive neighborhood graph is of linear size. Moreover, the
exponential dependence of the constants is only on the intrinsic dimension k,
not on the ambient dimension d. This is of particular interest if the co-dimension
is high, i.e., if k is much smaller than d, as is the case in many applications.
The adaptive neighborhood graph also allows us to approximate the geodesic distances
between the points in P.
author:
- first_name: Joachim
full_name: Giesen, Joachim
last_name: Giesen
- first_name: Uli
full_name: Uli Wagner
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Giesen J, Wagner U. Shape dimension and intrinsic metric from samples of manifolds
with high co-dimension. In: ACM; 2003:329-337. doi:10.1145/777792.777841'
apa: 'Giesen, J., & Wagner, U. (2003). Shape dimension and intrinsic metric
from samples of manifolds with high co-dimension (pp. 329–337). Presented at the
SoCG: Symposium on Computational Geometry, ACM. https://doi.org/10.1145/777792.777841'
chicago: Giesen, Joachim, and Uli Wagner. “Shape Dimension and Intrinsic Metric
from Samples of Manifolds with High Co-Dimension,” 329–37. ACM, 2003. https://doi.org/10.1145/777792.777841.
ieee: 'J. Giesen and U. Wagner, “Shape dimension and intrinsic metric from samples
of manifolds with high co-dimension,” presented at the SoCG: Symposium on Computational
Geometry, 2003, pp. 329–337.'
ista: 'Giesen J, Wagner U. 2003. Shape dimension and intrinsic metric from samples
of manifolds with high co-dimension. SoCG: Symposium on Computational Geometry,
329–337.'
mla: Giesen, Joachim, and Uli Wagner. Shape Dimension and Intrinsic Metric from
Samples of Manifolds with High Co-Dimension. ACM, 2003, pp. 329–37, doi:10.1145/777792.777841.
short: J. Giesen, U. Wagner, in:, ACM, 2003, pp. 329–337.
conference:
name: 'SoCG: Symposium on Computational Geometry'
date_created: 2018-12-11T11:57:35Z
date_published: 2003-06-01T00:00:00Z
date_updated: 2021-01-12T06:57:24Z
day: '01'
doi: 10.1145/777792.777841
extern: 1
month: '06'
page: 329 - 337
publication_status: published
publisher: ACM
publist_id: '4501'
quality_controlled: 0
status: public
title: Shape dimension and intrinsic metric from samples of manifolds with high co-dimension
type: conference
year: '2003'
...
---
_id: '2423'
abstract:
- lang: eng
text: A finite set N ⊃ Rd is a weak ε-net for an n-point set X ⊃ Rd (with respect
to convex sets) if N intersects every convex set K with |K ∩ X| ≥ εn. We give
an alternative, and arguably simpler, proof of the fact, first shown by Chazelle
et al. [7], that every point set X in Rd admits a weak ε-net of cardinality O(ε-d
polylog(1/ε)). Moreover, for a number of special point sets (e.g., for points
on the moment curve), our method gives substantially better bounds. The construction
yields an algorithm to construct such weak ε-nets in time O(n ln(1/ε)). We also
prove, by a different method, a near-linear upper bound for points uniformly distributed
on the (d - 1)-dimensional sphere.
author:
- first_name: Jiří
full_name: Matoušek, Jiří
last_name: Matoušek
- first_name: Uli
full_name: Uli Wagner
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Matoušek J, Wagner U. New constructions of weak epsilon-nets. In: ACM; 2003:129-135.
doi:10.1145/777792.777813'
apa: 'Matoušek, J., & Wagner, U. (2003). New constructions of weak epsilon-nets
(pp. 129–135). Presented at the SoCG: Symposium on Computational Geometry, ACM.
https://doi.org/10.1145/777792.777813'
chicago: Matoušek, Jiří, and Uli Wagner. “New Constructions of Weak Epsilon-Nets,”
129–35. ACM, 2003. https://doi.org/10.1145/777792.777813.
ieee: 'J. Matoušek and U. Wagner, “New constructions of weak epsilon-nets,” presented
at the SoCG: Symposium on Computational Geometry, 2003, pp. 129–135.'
ista: 'Matoušek J, Wagner U. 2003. New constructions of weak epsilon-nets. SoCG:
Symposium on Computational Geometry, 129–135.'
mla: Matoušek, Jiří, and Uli Wagner. New Constructions of Weak Epsilon-Nets.
ACM, 2003, pp. 129–35, doi:10.1145/777792.777813.
short: J. Matoušek, U. Wagner, in:, ACM, 2003, pp. 129–135.
conference:
name: 'SoCG: Symposium on Computational Geometry'
date_created: 2018-12-11T11:57:34Z
date_published: 2003-06-01T00:00:00Z
date_updated: 2021-01-12T06:57:24Z
day: '01'
doi: 10.1145/777792.777813
extern: 1
month: '06'
page: 129 - 135
publication_status: published
publisher: ACM
publist_id: '4502'
quality_controlled: 0
status: public
title: New constructions of weak epsilon-nets
type: conference
year: '2003'
...
---
_id: '2422'
abstract:
- lang: eng
text: We prove a lower bound of 0.3288(4 n) for the rectilinear crossing number
cr̄(Kn) of a complete graph on n vertices, or in other words, for the minimum
number of convex quadrilaterals in any set of n points in general position in
the Euclidean plane. As we see it, the main contribution of this paper is not
so much the concrete numerical improvement over earlier bounds, as the novel method
of proof, which is not based on bounding cr̄(Kn) for some small n.
author:
- first_name: Uli
full_name: Uli Wagner
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Wagner U. On the rectilinear crossing number of complete graphs. In: SIAM;
2003:583-588.'
apa: 'Wagner, U. (2003). On the rectilinear crossing number of complete graphs (pp.
583–588). Presented at the SODA: Symposium on Discrete Algorithms, SIAM.'
chicago: Wagner, Uli. “On the Rectilinear Crossing Number of Complete Graphs,” 583–88.
SIAM, 2003.
ieee: 'U. Wagner, “On the rectilinear crossing number of complete graphs,” presented
at the SODA: Symposium on Discrete Algorithms, 2003, pp. 583–588.'
ista: 'Wagner U. 2003. On the rectilinear crossing number of complete graphs. SODA:
Symposium on Discrete Algorithms, 583–588.'
mla: Wagner, Uli. On the Rectilinear Crossing Number of Complete Graphs.
SIAM, 2003, pp. 583–88.
short: U. Wagner, in:, SIAM, 2003, pp. 583–588.
conference:
name: 'SODA: Symposium on Discrete Algorithms'
date_created: 2018-12-11T11:57:34Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T06:57:24Z
day: '01'
extern: 1
main_file_link:
- open_access: '0'
url: http://dl.acm.org/citation.cfm?id=644206
month: '01'
page: 583 - 588
publication_status: published
publisher: SIAM
publist_id: '4503'
quality_controlled: 0
status: public
title: On the rectilinear crossing number of complete graphs
type: conference
year: '2003'
...
---
_id: '2623'
abstract:
- lang: eng
text: Patients with Hodgkin's disease can develop paraneoplastic cerebellar ataxia
because of the generation of autoantibodies against mGluR1 (mGluR1-Abs). Yet,
the pathophysiological mechanisms underlying their motor coordination deficits
remain to be elucidated. Here, we show that application of IgG purified from the
patients' serum to cerebellar slices of mice acutely reduces the basal activity
of Purkinje cells, whereas application to the flocculus of mice in vivo evokes
acute disturbances in the performance of their compensatory eye movements. In
addition, the mGluR1-Abs block induction of long-term depression in cultured mouse
Purkinje cells, whereas the cerebellar motor learning behavior of the patients
is affected in that they show impaired adaptation of their saccadic eye movements.
Finally, postmortem analysis of the cerebellum of a paraneoplastic cerebellar
ataxia patient showed that the number of Purkinje cells was significantly reduced
by approximately two thirds compared with three controls. We conclude that autoantibodies
against mGluR1 can cause cerebellar motor coordination deficits caused by a combination
of rapid effects on both acute and plastic responses of Purkinje cells and chronic
degenerative effects.
author:
- first_name: Michiel
full_name: Coesmans, Michiel P
last_name: Coesmans
- first_name: Peter
full_name: Sillevis-Smitt, Peter A
last_name: Sillevis Smitt
- first_name: David
full_name: Linden, David J
last_name: Linden
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Tomoo
full_name: Hirano, Tomoo
last_name: Hirano
- first_name: Yoshinori
full_name: Yamakawa, Yoshinori
last_name: Yamakawa
- first_name: Adriaan
full_name: Van Alphen, Adriaan M
last_name: Van Alphen
- first_name: Chongde
full_name: Luo, Chongde
last_name: Luo
- first_name: Jos
full_name: Van Der Geest, Jos N
last_name: Van Der Geest
- first_name: Johan
full_name: Kros, Johan M
last_name: Kros
- first_name: Carlo
full_name: Gaillard, Carlo A
last_name: Gaillard
- first_name: Maarten
full_name: Frens, Maarten A
last_name: Frens
- first_name: Chris
full_name: De Zeeuw, Chris I
last_name: De Zeeuw
citation:
ama: Coesmans M, Sillevis Smitt P, Linden D, et al. Mechanisms underlying cerebellar
motor deficits due to mGluR1-autoantibodies. Annals of Neurology. 2003;53(3):325-336.
doi:10.1002/ana.10451
apa: Coesmans, M., Sillevis Smitt, P., Linden, D., Shigemoto, R., Hirano, T., Yamakawa,
Y., … De Zeeuw, C. (2003). Mechanisms underlying cerebellar motor deficits due
to mGluR1-autoantibodies. Annals of Neurology. Wiley-Blackwell. https://doi.org/10.1002/ana.10451
chicago: Coesmans, Michiel, Peter Sillevis Smitt, David Linden, Ryuichi Shigemoto,
Tomoo Hirano, Yoshinori Yamakawa, Adriaan Van Alphen, et al. “Mechanisms Underlying
Cerebellar Motor Deficits Due to MGluR1-Autoantibodies.” Annals of Neurology.
Wiley-Blackwell, 2003. https://doi.org/10.1002/ana.10451.
ieee: M. Coesmans et al., “Mechanisms underlying cerebellar motor deficits
due to mGluR1-autoantibodies,” Annals of Neurology, vol. 53, no. 3. Wiley-Blackwell,
pp. 325–336, 2003.
ista: Coesmans M, Sillevis Smitt P, Linden D, Shigemoto R, Hirano T, Yamakawa Y,
Van Alphen A, Luo C, Van Der Geest J, Kros J, Gaillard C, Frens M, De Zeeuw C.
2003. Mechanisms underlying cerebellar motor deficits due to mGluR1-autoantibodies.
Annals of Neurology. 53(3), 325–336.
mla: Coesmans, Michiel, et al. “Mechanisms Underlying Cerebellar Motor Deficits
Due to MGluR1-Autoantibodies.” Annals of Neurology, vol. 53, no. 3, Wiley-Blackwell,
2003, pp. 325–36, doi:10.1002/ana.10451.
short: M. Coesmans, P. Sillevis Smitt, D. Linden, R. Shigemoto, T. Hirano, Y. Yamakawa,
A. Van Alphen, C. Luo, J. Van Der Geest, J. Kros, C. Gaillard, M. Frens, C. De
Zeeuw, Annals of Neurology 53 (2003) 325–336.
date_created: 2018-12-11T11:58:44Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T06:58:39Z
day: '01'
doi: 10.1002/ana.10451
extern: 1
intvolume: ' 53'
issue: '3'
month: '03'
page: 325 - 336
publication: Annals of Neurology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4274'
quality_controlled: 0
status: public
title: Mechanisms underlying cerebellar motor deficits due to mGluR1-autoantibodies
type: journal_article
volume: 53
year: '2003'
...
---
_id: '2625'
abstract:
- lang: eng
text: Metabotropic glutamate receptor 1 (mGluR1) plays a crucial role in synaptic
plasticity and motor learning in the cerebellum. We have studied activity-dependent
changes in mGluR1 function in mouse cultured Purkinje neurons. Depolarizing stimulation
potentiated Ca2+ and current responses to an mGluR1 agonist for several hours
in the cultured Purkinje neurons. It also blocked internalization of mGluR1 and
increased the number of mGluR1s on the cell membrane. We found that depolarization
simultaneously increased transcription of Homer1a in Purkinje neurons. Homer1a
inhibited internalization and increased cell-surface expression of mGluR1 when
coexpressed in human embryonic kidney (HEK)-293 cells. Depolarization-induced
Homer1a expression in Purkinje neurons was blocked by a mitogen-activated protein
kinase (MAPK) inhibitor. Changes in internalization and mGluR1-mediated Ca2+ response
were also blocked by inhibition of MAPK activity, suggesting that localization
and activity of mGluR1 were regulated in the same signalling pathway as Homer1a
expression. It is thus suggested that depolarization of the Purkinje neuron leads
to the increment in mGluR1 responsiveness through MAPK activity and induction
of Homer1a expression, which increases active mGluR1 on the cell surface by blocking
internalization of mGluR1.
author:
- first_name: Itsunari
full_name: Minami, Itsunari
last_name: Minami
- first_name: Mineko
full_name: Kengaku, Mineko
last_name: Kengaku
- first_name: Sillevis
full_name: Smitt, Sillevis P
last_name: Smitt
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Tomoo
full_name: Hirano, Tomoo
last_name: Hirano
citation:
ama: Minami I, Kengaku M, Smitt S, Shigemoto R, Hirano T. Long-term potentiation
of mGluR1 activity by depolarization-induced Homer1a in mouse cerebellar Purkinje
neurons. European Journal of Neuroscience. 2003;17(5):1023-1032. doi:10.1046/j.1460-9568.2003.02499.x
apa: Minami, I., Kengaku, M., Smitt, S., Shigemoto, R., & Hirano, T. (2003).
Long-term potentiation of mGluR1 activity by depolarization-induced Homer1a in
mouse cerebellar Purkinje neurons. European Journal of Neuroscience. Wiley-Blackwell.
https://doi.org/10.1046/j.1460-9568.2003.02499.x
chicago: Minami, Itsunari, Mineko Kengaku, Sillevis Smitt, Ryuichi Shigemoto, and
Tomoo Hirano. “Long-Term Potentiation of MGluR1 Activity by Depolarization-Induced
Homer1a in Mouse Cerebellar Purkinje Neurons.” European Journal of Neuroscience.
Wiley-Blackwell, 2003. https://doi.org/10.1046/j.1460-9568.2003.02499.x.
ieee: I. Minami, M. Kengaku, S. Smitt, R. Shigemoto, and T. Hirano, “Long-term potentiation
of mGluR1 activity by depolarization-induced Homer1a in mouse cerebellar Purkinje
neurons,” European Journal of Neuroscience, vol. 17, no. 5. Wiley-Blackwell,
pp. 1023–1032, 2003.
ista: Minami I, Kengaku M, Smitt S, Shigemoto R, Hirano T. 2003. Long-term potentiation
of mGluR1 activity by depolarization-induced Homer1a in mouse cerebellar Purkinje
neurons. European Journal of Neuroscience. 17(5), 1023–1032.
mla: Minami, Itsunari, et al. “Long-Term Potentiation of MGluR1 Activity by Depolarization-Induced
Homer1a in Mouse Cerebellar Purkinje Neurons.” European Journal of Neuroscience,
vol. 17, no. 5, Wiley-Blackwell, 2003, pp. 1023–32, doi:10.1046/j.1460-9568.2003.02499.x.
short: I. Minami, M. Kengaku, S. Smitt, R. Shigemoto, T. Hirano, European Journal
of Neuroscience 17 (2003) 1023–1032.
date_created: 2018-12-11T11:58:44Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T06:58:39Z
day: '01'
doi: 10.1046/j.1460-9568.2003.02499.x
extern: 1
intvolume: ' 17'
issue: '5'
month: '03'
page: 1023 - 1032
publication: European Journal of Neuroscience
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4273'
quality_controlled: 0
status: public
title: Long-term potentiation of mGluR1 activity by depolarization-induced Homer1a
in mouse cerebellar Purkinje neurons
type: journal_article
volume: 17
year: '2003'
...
---
_id: '2626'
abstract:
- lang: eng
text: The expression pattern of metabotropic glutamate receptor Iα (mGluR1α) was
immunohistochemically investigated in substantia nigra dopaminergic neurons of
the macaque monkey. In normal monkeys, mGluR1α immunoreactivity was weakly observed
in the dorsal tier of the substantia nigra pars compacta (SNc-d) where calbindin-D28k-containing
dopaminergic neurons invulnerable to parkinsonian degeneration are specifically
located. On the other hand, mGluR1α was strongly expressed in the ventral tier
of the substantia nigra pars cornpacta (SNc-v). In monkeys treated with the parkinsonism-inducing
drug, I-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP), mGluR1α expression
was decreased in dopaminergic neurons in the SNc-v that were spared its toxic
action. These results suggest that mGluR1α expression may be involved at least
partly in the vulnerability of dopaminergic neurons to parkinsonian insults.
author:
- first_name: Katsuyuki
full_name: Kaneda, Katsuyuki
last_name: Kaneda
- first_name: Michiko
full_name: Imanishi, Michiko
last_name: Imanishi
- first_name: Atsushi
full_name: Nambu, Atsushi
last_name: Nambu
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Masahiko
full_name: Takada, Masahiko
last_name: Takada
citation:
ama: Kaneda K, Imanishi M, Nambu A, Shigemoto R, Takada M. Differential expression
patterns of mGluR1α in monkey nigral dopamine neurons. Neuroreport. 2003;14(7):947-950.
doi:10.1097/01.wnr.0000074344.81633.e4
apa: Kaneda, K., Imanishi, M., Nambu, A., Shigemoto, R., & Takada, M. (2003).
Differential expression patterns of mGluR1α in monkey nigral dopamine neurons.
Neuroreport. Lippincott, Williams & Wilkins. https://doi.org/10.1097/01.wnr.0000074344.81633.e4
chicago: Kaneda, Katsuyuki, Michiko Imanishi, Atsushi Nambu, Ryuichi Shigemoto,
and Masahiko Takada. “Differential Expression Patterns of MGluR1α in Monkey Nigral
Dopamine Neurons.” Neuroreport. Lippincott, Williams & Wilkins, 2003.
https://doi.org/10.1097/01.wnr.0000074344.81633.e4.
ieee: K. Kaneda, M. Imanishi, A. Nambu, R. Shigemoto, and M. Takada, “Differential
expression patterns of mGluR1α in monkey nigral dopamine neurons,” Neuroreport,
vol. 14, no. 7. Lippincott, Williams & Wilkins, pp. 947–950, 2003.
ista: Kaneda K, Imanishi M, Nambu A, Shigemoto R, Takada M. 2003. Differential expression
patterns of mGluR1α in monkey nigral dopamine neurons. Neuroreport. 14(7), 947–950.
mla: Kaneda, Katsuyuki, et al. “Differential Expression Patterns of MGluR1α in Monkey
Nigral Dopamine Neurons.” Neuroreport, vol. 14, no. 7, Lippincott, Williams
& Wilkins, 2003, pp. 947–50, doi:10.1097/01.wnr.0000074344.81633.e4.
short: K. Kaneda, M. Imanishi, A. Nambu, R. Shigemoto, M. Takada, Neuroreport 14
(2003) 947–950.
date_created: 2018-12-11T11:58:45Z
date_published: 2003-05-01T00:00:00Z
date_updated: 2021-01-12T06:58:40Z
day: '01'
doi: 10.1097/01.wnr.0000074344.81633.e4
extern: 1
intvolume: ' 14'
issue: '7'
month: '05'
page: 947 - 950
publication: Neuroreport
publication_status: published
publisher: Lippincott, Williams & Wilkins
publist_id: '4272'
quality_controlled: 0
status: public
title: Differential expression patterns of mGluR1α in monkey nigral dopamine neurons
type: journal_article
volume: 14
year: '2003'
...
---
_id: '2627'
abstract:
- lang: eng
text: Despite its implications for higher order functions of the brain, little is
currently known about the molecular basis of left-right asymmetry of the brain.
Here we report that synaptic distribution of N-methyl-D-aspartate (NMDA) receptor
GluRε2 (NR2B) subunits in the adult mouse hippocampus is asymmetrical between
the left and right and between the apical and basal dendrites of single neurons.
These asymmetrical allocations of ε2 subunits differentiate the properties of
NMDA receptors and synaptic plasticity between the left and right hippocampus.
These results provide a molecular basis for the structural and functional asymmetry
of the mature brain.
author:
- first_name: Ryosuke
full_name: Kawakami, Ryosuke
last_name: Kawakami
- first_name: Yoshiaki
full_name: Shinohara, Yoshiaki
last_name: Shinohara
- first_name: Yuichiro
full_name: Kato, Yuichiro
last_name: Kato
- first_name: Hiroyuki
full_name: Sugiyama, Hiroyuki
last_name: Sugiyama
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Isao
full_name: Ito, Isao
last_name: Ito
citation:
ama: Kawakami R, Shinohara Y, Kato Y, Sugiyama H, Shigemoto R, Ito I. Asymmetrical
allocation of NMDA receptor ε2 subunits in hippocampal circuitry. Science.
2003;300(5621):990-994. doi:10.1126/science.1082609
apa: Kawakami, R., Shinohara, Y., Kato, Y., Sugiyama, H., Shigemoto, R., & Ito,
I. (2003). Asymmetrical allocation of NMDA receptor ε2 subunits in hippocampal
circuitry. Science. American Association for the Advancement of Science.
https://doi.org/10.1126/science.1082609
chicago: Kawakami, Ryosuke, Yoshiaki Shinohara, Yuichiro Kato, Hiroyuki Sugiyama,
Ryuichi Shigemoto, and Isao Ito. “Asymmetrical Allocation of NMDA Receptor Ε2
Subunits in Hippocampal Circuitry.” Science. American Association for the
Advancement of Science, 2003. https://doi.org/10.1126/science.1082609.
ieee: R. Kawakami, Y. Shinohara, Y. Kato, H. Sugiyama, R. Shigemoto, and I. Ito,
“Asymmetrical allocation of NMDA receptor ε2 subunits in hippocampal circuitry,”
Science, vol. 300, no. 5621. American Association for the Advancement of
Science, pp. 990–994, 2003.
ista: Kawakami R, Shinohara Y, Kato Y, Sugiyama H, Shigemoto R, Ito I. 2003. Asymmetrical
allocation of NMDA receptor ε2 subunits in hippocampal circuitry. Science. 300(5621),
990–994.
mla: Kawakami, Ryosuke, et al. “Asymmetrical Allocation of NMDA Receptor Ε2 Subunits
in Hippocampal Circuitry.” Science, vol. 300, no. 5621, American Association
for the Advancement of Science, 2003, pp. 990–94, doi:10.1126/science.1082609.
short: R. Kawakami, Y. Shinohara, Y. Kato, H. Sugiyama, R. Shigemoto, I. Ito, Science
300 (2003) 990–994.
date_created: 2018-12-11T11:58:45Z
date_published: 2003-05-09T00:00:00Z
date_updated: 2021-01-12T06:58:40Z
day: '09'
doi: 10.1126/science.1082609
extern: 1
intvolume: ' 300'
issue: '5621'
month: '05'
page: 990 - 994
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '4271'
quality_controlled: 0
status: public
title: Asymmetrical allocation of NMDA receptor ε2 subunits in hippocampal circuitry
type: journal_article
volume: 300
year: '2003'
...
---
_id: '2629'
abstract:
- lang: eng
text: The release of neurotransmitters is modulated by presynaptic metabotropic
glutamate receptors (mGluRs), which show a highly selective expression and subcellular
location in glutamatergic terminals in the hippocampus. Using immunocytochemistry,
we investigated whether one of the receptors, mGluR7, whose level of expression
is governed by the postsynaptic target, was present in GABAergic terminals and
whether such terminals targeted particular cells. A total of 165 interneuron dendritic
profiles receiving 466 synapses (82% mGluR7a-positive) were analysed. The presynaptic
active zones of most GAD-(77%) or GABA-positive (94%) synaptic boutons on interneurons
innervated by mGluR7a-enriched glutamatergic terminals (mGluR7a-decorated) were
immunopositive for mGluR7a. GABAergic terminals on pyramidal cells and most other
interneurons in str. oriens were mGluR7a-immunonegative. The mGluR7a-decorated
cells were mostly somatostatin- and mGluR1α-immunopositive neurons in str. oriens
and the alveus. Their GABAergic input mainly originated from VIP-positive terminals,
90% of which expressed high levels of mGluR7a in the presynaptic active zone.
Parvalbumin-positive synaptic terminals were rare on mGluR7a-decorated cells,
but on these neurons 73% of them were mGluR7a-immunopositive. Some type II synapses
innervating interneurons were immunopositive for mGluR7b, as were some type I
synapses. Because not all target cells of VIP-positive neurons are known it has
not been possible to determine whether mGluR7 is expressed in a target-cell-specific
manner in the terminals of single GABAergic cells. The activation of mGluR7 may
decrease GABA release to mGluR7-decorated cells at times of high pyramidal cell
activity, which elevates extracellular glutamate levels. Alternatively, the presynaptic
receptor may be activated by as yet unidentified endogenous ligands released by
the GABAergic terminals or the postsynaptic dendrites.
author:
- first_name: Péter
full_name: Somogyi, Péter
last_name: Somogyi
- first_name: Yannis
full_name: Dalezios, Yannis
last_name: Dalezios
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
- first_name: John
full_name: Roberts, John D
last_name: Roberts
- first_name: Masahiko
full_name: Watanabe, Masahiko
last_name: Watanabe
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Somogyi P, Dalezios Y, Luján R, Roberts J, Watanabe M, Shigemoto R. High level
of mGluR7 in the presynaptic active zones of select populations of GABAergic terminals
innervating interneurons in the rat hippocampus. European Journal of Neuroscience.
2003;17(12):2503-2520. doi:10.1046/j.1460-9568.2003.02697.x
apa: Somogyi, P., Dalezios, Y., Luján, R., Roberts, J., Watanabe, M., & Shigemoto,
R. (2003). High level of mGluR7 in the presynaptic active zones of select populations
of GABAergic terminals innervating interneurons in the rat hippocampus. European
Journal of Neuroscience. Wiley-Blackwell. https://doi.org/10.1046/j.1460-9568.2003.02697.x
chicago: Somogyi, Péter, Yannis Dalezios, Rafael Luján, John Roberts, Masahiko Watanabe,
and Ryuichi Shigemoto. “High Level of MGluR7 in the Presynaptic Active Zones of
Select Populations of GABAergic Terminals Innervating Interneurons in the Rat
Hippocampus.” European Journal of Neuroscience. Wiley-Blackwell, 2003.
https://doi.org/10.1046/j.1460-9568.2003.02697.x.
ieee: P. Somogyi, Y. Dalezios, R. Luján, J. Roberts, M. Watanabe, and R. Shigemoto,
“High level of mGluR7 in the presynaptic active zones of select populations of
GABAergic terminals innervating interneurons in the rat hippocampus,” European
Journal of Neuroscience, vol. 17, no. 12. Wiley-Blackwell, pp. 2503–2520,
2003.
ista: Somogyi P, Dalezios Y, Luján R, Roberts J, Watanabe M, Shigemoto R. 2003.
High level of mGluR7 in the presynaptic active zones of select populations of
GABAergic terminals innervating interneurons in the rat hippocampus. European
Journal of Neuroscience. 17(12), 2503–2520.
mla: Somogyi, Péter, et al. “High Level of MGluR7 in the Presynaptic Active Zones
of Select Populations of GABAergic Terminals Innervating Interneurons in the Rat
Hippocampus.” European Journal of Neuroscience, vol. 17, no. 12, Wiley-Blackwell,
2003, pp. 2503–20, doi:10.1046/j.1460-9568.2003.02697.x.
short: P. Somogyi, Y. Dalezios, R. Luján, J. Roberts, M. Watanabe, R. Shigemoto,
European Journal of Neuroscience 17 (2003) 2503–2520.
date_created: 2018-12-11T11:58:46Z
date_published: 2003-06-01T00:00:00Z
date_updated: 2021-01-12T06:58:41Z
day: '01'
doi: 10.1046/j.1460-9568.2003.02697.x
extern: 1
intvolume: ' 17'
issue: '12'
month: '06'
page: 2503 - 2520
publication: European Journal of Neuroscience
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4269'
quality_controlled: 0
status: public
title: High level of mGluR7 in the presynaptic active zones of select populations
of GABAergic terminals innervating interneurons in the rat hippocampus
type: journal_article
volume: 17
year: '2003'
...
---
_id: '2628'
abstract:
- lang: eng
text: We aimed to estimate the number of AMPA receptors (AMPARs) bound by the quantal
transmitter packet, their single-channel conductance and their density in the
postsynaptic membrane at cerebellar Purkinje cell synapses. The synaptic and extrasynaptic
AMPARs were examined in Purkinje cells in 2- to 4-day-old rats, when they receive
synaptic inputs solely from climbing fibres (CFs). Evoked CF EPSCs and whole-cell
AMPA currents displayed roughly linear current-voltage relationships, consistent
with the presence of GluR2 subunits in synaptic and extrasynaptic AMPARs. The
mean quantal size, estimated from the miniature EPSCs (MEPSCs), was ∼300 pS. Peak-scaled
non-stationary fluctuation analysis of spontaneous EPSCs and MEPSCs gave a weighted-mean
synaptic channel conductance of ∼5 pS (∼7 pS when corrected for filtering). By
applying non-stationary fluctuation analysis to extrasynaptic currents activated
by brief glutamate pulses (5 mM), we also obtained a small single-channel conductance
estimate for extrasynaptic AMPARs (∼11 pS). This approach allowed us to obtain
a maximum open probability (Po,max) value for the extrasynaptic receptors (Po,max
= 0.72). Directly resolved extrasynaptic channel openings in the continued presence
of glutamate exhibited clear multiple-conductance levels. The mean area of the
postsynaptic density (PSD) of these synapses was 0.074 μm2, measured by reconstructing
electron-microscopic (EM) serial sections. Postembedding immunogold labelling
by anti-GluR2/3 antibody revealed that AMPARs are localised in PSDs. From these
data and by simulating error factors, we estimate that at least 66 AMPARs are
bound by a quantal transmitter packet at CF-Purkinje cell synapses, and the receptors
are packed at a minimum density of ∼900 μm-2 in the postsynaptic membrane.
author:
- first_name: Akiko
full_name: Momiyama, Akiko
last_name: Momiyama
- first_name: Rachel
full_name: Silver, Rachel A
last_name: Silver
- first_name: Michael
full_name: Häusser, Michael A
last_name: Häusser
- first_name: Takuya
full_name: Notomi, Takuya
last_name: Notomi
- first_name: Yue
full_name: Wu, Yue
last_name: Wu
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Stuart
full_name: Cull-Candy, Stuart G
last_name: Cull Candy
citation:
ama: Momiyama A, Silver R, Häusser M, et al. The density of AMPA receptors activated
by a transmitter quantum at the climbing fibre - Purkinje cell synapse in immature
rats. Journal of Physiology. 2003;549(1):75-92. doi:10.1113/jphysiol.2002.033472
apa: Momiyama, A., Silver, R., Häusser, M., Notomi, T., Wu, Y., Shigemoto, R., &
Cull Candy, S. (2003). The density of AMPA receptors activated by a transmitter
quantum at the climbing fibre - Purkinje cell synapse in immature rats. Journal
of Physiology. Wiley-Blackwell. https://doi.org/10.1113/jphysiol.2002.033472
chicago: Momiyama, Akiko, Rachel Silver, Michael Häusser, Takuya Notomi, Yue Wu,
Ryuichi Shigemoto, and Stuart Cull Candy. “The Density of AMPA Receptors Activated
by a Transmitter Quantum at the Climbing Fibre - Purkinje Cell Synapse in Immature
Rats.” Journal of Physiology. Wiley-Blackwell, 2003. https://doi.org/10.1113/jphysiol.2002.033472.
ieee: A. Momiyama et al., “The density of AMPA receptors activated by a transmitter
quantum at the climbing fibre - Purkinje cell synapse in immature rats,” Journal
of Physiology, vol. 549, no. 1. Wiley-Blackwell, pp. 75–92, 2003.
ista: Momiyama A, Silver R, Häusser M, Notomi T, Wu Y, Shigemoto R, Cull Candy S.
2003. The density of AMPA receptors activated by a transmitter quantum at the
climbing fibre - Purkinje cell synapse in immature rats. Journal of Physiology.
549(1), 75–92.
mla: Momiyama, Akiko, et al. “The Density of AMPA Receptors Activated by a Transmitter
Quantum at the Climbing Fibre - Purkinje Cell Synapse in Immature Rats.” Journal
of Physiology, vol. 549, no. 1, Wiley-Blackwell, 2003, pp. 75–92, doi:10.1113/jphysiol.2002.033472.
short: A. Momiyama, R. Silver, M. Häusser, T. Notomi, Y. Wu, R. Shigemoto, S. Cull
Candy, Journal of Physiology 549 (2003) 75–92.
date_created: 2018-12-11T11:58:45Z
date_published: 2003-05-15T00:00:00Z
date_updated: 2021-01-12T06:58:40Z
day: '15'
doi: 10.1113/jphysiol.2002.033472
extern: 1
intvolume: ' 549'
issue: '1'
month: '05'
page: 75 - 92
publication: Journal of Physiology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4270'
quality_controlled: 0
status: public
title: The density of AMPA receptors activated by a transmitter quantum at the climbing
fibre - Purkinje cell synapse in immature rats
type: journal_article
volume: 549
year: '2003'
...
---
_id: '2631'
abstract:
- lang: eng
text: Cyclic ADP-ribose (cADP-ribose) is a putative second messenger or modulator.
However, the role of cADP-ribose in the downstream signals of the metabotropic
glutamate receptors (mGluRs) is unclear. Here, we show that glutamate stimulates
ADP-ribosyl cyclase activity in rat or mouse crude membranes of retina via group
III mGluRs or in superior cervical ganglion via group I mGluRs. The retina of
mGluR6-deficient mice showed no increase in the ADP-ribosyl cyclase level in response
to glutamate. GTP enhanced the initial rate of basal and glutamate-stimulated
cyclase activity. GTP-γ-S also stimulated basal activity. To determine whether
the coupling mode of mGluRs to ADP-ribosyl cyclase is a feature common to individual
cloned mGluRs, we expressed each mGluR subtype in NG108-15 neuroblastoma x glioma
hybrid cells. The glutamate-induced stimulation of the cyclase occurs preferentially
in NG108-15 cells over-expressing mGluRs1, 3, 5, and 6. Cells expressing mGluR2
or mGluRs4 and 7 exhibit inhibition or no coupling, respectively. Glutamate-induced
activation or inhibition of the cyclase activity was eliminated after pre-treatment
with cholera or pertussis toxin, respectively. Thus, the subtype-specific coupling
of mGluRs to ADP-ribosyl cyclase via G proteins suggests that some glutamate-evoked
neuronal functions are mediated by cADP-ribose.
author:
- first_name: Haruhiro
full_name: Higashida, Haruhiro
last_name: Higashida
- first_name: Jia
full_name: Zhang, Jia-Sheng
last_name: Zhang
- first_name: Sumiko
full_name: Mochida, Sumiko
last_name: Mochida
- first_name: Xiao
full_name: Chen, Xiao-Liang
last_name: Chen
- first_name: Yeonsook
full_name: Shin, Yeonsook
last_name: Shin
- first_name: Mami
full_name: Noda, Mami
last_name: Noda
- first_name: Kazi
full_name: Hossain, Kazi Z
last_name: Hossain
- first_name: Naoto
full_name: Hoshi, Naoto
last_name: Hoshi
- first_name: Minako
full_name: Hashii, Minako
last_name: Hashii
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Shigetada
full_name: Nakanishi, Shigetada
last_name: Nakanishi
- first_name: Yutaka
full_name: Fukuda, Yutaka
last_name: Fukuda
- first_name: Shigeru
full_name: Yokoyama, Shigeru
last_name: Yokoyama
citation:
ama: Higashida H, Zhang J, Mochida S, et al. Subtype-specific coupling with ADP-ribosyl
cyclase of metabotropic glutamate receptors in retina, cervical superior ganglion
and NG108-15 cells. Journal of Neurochemistry. 2003;85(5):1148-1158. doi:10.1046/j.1471-4159.2003.01751.x
apa: Higashida, H., Zhang, J., Mochida, S., Chen, X., Shin, Y., Noda, M., … Yokoyama,
S. (2003). Subtype-specific coupling with ADP-ribosyl cyclase of metabotropic
glutamate receptors in retina, cervical superior ganglion and NG108-15 cells.
Journal of Neurochemistry. Wiley-Blackwell. https://doi.org/10.1046/j.1471-4159.2003.01751.x
chicago: Higashida, Haruhiro, Jia Zhang, Sumiko Mochida, Xiao Chen, Yeonsook Shin,
Mami Noda, Kazi Hossain, et al. “Subtype-Specific Coupling with ADP-Ribosyl Cyclase
of Metabotropic Glutamate Receptors in Retina, Cervical Superior Ganglion and
NG108-15 Cells.” Journal of Neurochemistry. Wiley-Blackwell, 2003. https://doi.org/10.1046/j.1471-4159.2003.01751.x.
ieee: H. Higashida et al., “Subtype-specific coupling with ADP-ribosyl cyclase
of metabotropic glutamate receptors in retina, cervical superior ganglion and
NG108-15 cells,” Journal of Neurochemistry, vol. 85, no. 5. Wiley-Blackwell,
pp. 1148–1158, 2003.
ista: Higashida H, Zhang J, Mochida S, Chen X, Shin Y, Noda M, Hossain K, Hoshi
N, Hashii M, Shigemoto R, Nakanishi S, Fukuda Y, Yokoyama S. 2003. Subtype-specific
coupling with ADP-ribosyl cyclase of metabotropic glutamate receptors in retina,
cervical superior ganglion and NG108-15 cells. Journal of Neurochemistry. 85(5),
1148–1158.
mla: Higashida, Haruhiro, et al. “Subtype-Specific Coupling with ADP-Ribosyl Cyclase
of Metabotropic Glutamate Receptors in Retina, Cervical Superior Ganglion and
NG108-15 Cells.” Journal of Neurochemistry, vol. 85, no. 5, Wiley-Blackwell,
2003, pp. 1148–58, doi:10.1046/j.1471-4159.2003.01751.x.
short: H. Higashida, J. Zhang, S. Mochida, X. Chen, Y. Shin, M. Noda, K. Hossain,
N. Hoshi, M. Hashii, R. Shigemoto, S. Nakanishi, Y. Fukuda, S. Yokoyama, Journal
of Neurochemistry 85 (2003) 1148–1158.
date_created: 2018-12-11T11:58:46Z
date_published: 2003-06-01T00:00:00Z
date_updated: 2021-01-12T06:58:42Z
day: '01'
doi: 10.1046/j.1471-4159.2003.01751.x
extern: 1
intvolume: ' 85'
issue: '5'
month: '06'
page: 1148 - 1158
publication: Journal of Neurochemistry
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4268'
quality_controlled: 0
status: public
title: Subtype-specific coupling with ADP-ribosyl cyclase of metabotropic glutamate
receptors in retina, cervical superior ganglion and NG108-15 cells
type: journal_article
volume: 85
year: '2003'
...
---
_id: '2633'
abstract:
- lang: eng
text: The modulation of calcium channels by metabotropic glutamate receptors (mGluRs)
is a key event in the fine-tuning of neurotransmitter release. Here we report
that, in cerebrocortical nerve terminals of adult rats, the inhibition of glutamate
release is mediated by mGluR7. In this preparation, the major component of glutamate
release is supported by P/Q-type Ca2+ channels (72.7%). However, mGluR7 selectively
reduced the release component that is associated with N-type Ca2+ channels (29.9%).
Inhibition of P/Q channels by mGluR7 is not masked by the higher efficiency of
these channels in driving glutamate release when compared with N-type channels.
Thus, activation of mGluR7 failed to reduce the release associated with P/Q channels
when the extracellular calcium concentration, ([Ca2+]o), was reduced from 1.3
to 0.5 mM. Through Ca2+ imaging, we show that Ca2+ channels are distributed in
a heterogeneous manner in individual nerve terminals. Indeed, in this preparation,
nerve terminals were observed that contain N-type (31.1%; conotoxin GVIA-sensitive)
or P/Q-type (64.3%; agatoxin IVA-sensitive) channels or that were insensitive
to these two toxins (4.6%). Interestingly, the great majority of the responses
to L-AP4 (95.4%) were observed in nerve terminals containing N-type channels.
This specific co-localization of mGluR7 and N-type Ca2+-channels could explain
the failure of the receptor to inhibit the P/Q channel-associated release component
and also reveal the existence of specific targeting mechanisms to localize the
two proteins in the same nerve terminal subset.
author:
- first_name: Carmelo
full_name: Millán, Carmelo
last_name: Millán
- first_name: Enrique
full_name: Castro, Enrique G
last_name: Castro
- first_name: Magdalena
full_name: Torres, Magdalena
last_name: Torres
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: José
full_name: Sánchez-Prieto, José
last_name: Sánchez Prieto
citation:
ama: Millán C, Castro E, Torres M, Shigemoto R, Sánchez Prieto J. Co-expression
of metabotropic glutamate receptor 7 and N-type Ca2+ channels in single cerebrocortical
nerve terminals of adult rats. Journal of Biological Chemistry. 2003;278(26):23955-23962.
doi:10.1074/jbc.M211471200
apa: Millán, C., Castro, E., Torres, M., Shigemoto, R., & Sánchez Prieto, J.
(2003). Co-expression of metabotropic glutamate receptor 7 and N-type Ca2+ channels
in single cerebrocortical nerve terminals of adult rats. Journal of Biological
Chemistry. American Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/jbc.M211471200
chicago: Millán, Carmelo, Enrique Castro, Magdalena Torres, Ryuichi Shigemoto, and
José Sánchez Prieto. “Co-Expression of Metabotropic Glutamate Receptor 7 and N-Type
Ca2+ Channels in Single Cerebrocortical Nerve Terminals of Adult Rats.” Journal
of Biological Chemistry. American Society for Biochemistry and Molecular Biology,
2003. https://doi.org/10.1074/jbc.M211471200.
ieee: C. Millán, E. Castro, M. Torres, R. Shigemoto, and J. Sánchez Prieto, “Co-expression
of metabotropic glutamate receptor 7 and N-type Ca2+ channels in single cerebrocortical
nerve terminals of adult rats,” Journal of Biological Chemistry, vol. 278,
no. 26. American Society for Biochemistry and Molecular Biology, pp. 23955–23962,
2003.
ista: Millán C, Castro E, Torres M, Shigemoto R, Sánchez Prieto J. 2003. Co-expression
of metabotropic glutamate receptor 7 and N-type Ca2+ channels in single cerebrocortical
nerve terminals of adult rats. Journal of Biological Chemistry. 278(26), 23955–23962.
mla: Millán, Carmelo, et al. “Co-Expression of Metabotropic Glutamate Receptor 7
and N-Type Ca2+ Channels in Single Cerebrocortical Nerve Terminals of Adult Rats.”
Journal of Biological Chemistry, vol. 278, no. 26, American Society for
Biochemistry and Molecular Biology, 2003, pp. 23955–62, doi:10.1074/jbc.M211471200.
short: C. Millán, E. Castro, M. Torres, R. Shigemoto, J. Sánchez Prieto, Journal
of Biological Chemistry 278 (2003) 23955–23962.
date_created: 2018-12-11T11:58:47Z
date_published: 2003-07-27T00:00:00Z
date_updated: 2021-01-12T06:58:42Z
day: '27'
doi: 10.1074/jbc.M211471200
extern: 1
intvolume: ' 278'
issue: '26'
month: '07'
page: 23955 - 23962
publication: Journal of Biological Chemistry
publication_status: published
publisher: American Society for Biochemistry and Molecular Biology
publist_id: '4265'
quality_controlled: 0
status: public
title: Co-expression of metabotropic glutamate receptor 7 and N-type Ca2+ channels
in single cerebrocortical nerve terminals of adult rats
type: journal_article
volume: 278
year: '2003'
...
---
_id: '2632'
abstract:
- lang: eng
text: In many brain regions, hyperpolarization-activated cationic currents (Ih)
are involved in the generation of rhythmic activities, but the role of Ih in olfactory
oscillations remains unclear. Knowledge of the cellular and subcellular distributions
of hyperpolarization-activated and cyclic nucleotide-gated channel (HCN) subunits
is necessary for understanding the role of Ih in olfactory network activities.
Using light microscopic immunocytochemistry, we demonstrate strong HCN1 labelling
of the glomerular layer and moderate staining of granule cell, internal and external
plexiform layers of the rat main olfactory bulb. In the glomerular layer, among
many unlabelled neurons, two distinct subpopulations of juxtaglomerular cells
are labelled. Approximately 10% of the juxtaglomerular cells strongly express
HCN1. These small diameter cells are immunoreactive for GABA and comprise a subpopulation
of periglomerular cells. An additional subset of juxtaglomerular cells (≈ 1%)
expresses low levels of HCN1. They are large in diameter, GABA immunonegative
but immunopositive for vesicular glutamate transporter 2, characterizing them
as external tufted cells. Quantitative immunogold localization revealed that the
somatic plasma membranes of periglomerular cells contain approximately four times
more HCN1 labelling than those of external tufted cells. Unlike in cortical pyramidal
cells, immunogold density for HCN1 does not significantly differ in somatic and
dendritic plasma membranes of external tufted cells, indicating that post-synaptic
potentials arriving at proximal and distal dendrites are modulated by the same
density of I h. Our results demonstrate a cell type-dependent expression of HCN1
in the olfactory bulb and predict a differential contribution of distinct juxtaglomerular
cell types to network oscillations.
author:
- first_name: Noémi
full_name: Holderith, Noémi B
last_name: Holderith
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Zoltán
full_name: Nusser, Zoltán
last_name: Nusser
citation:
ama: Holderith N, Shigemoto R, Nusser Z. Cell type-dependent expression of HCN1
in the main olfactory bulb. European Journal of Neuroscience. 2003;18(2):344-354.
doi:10.1046/j.1460-9568.2003.02756.x
apa: Holderith, N., Shigemoto, R., & Nusser, Z. (2003). Cell type-dependent
expression of HCN1 in the main olfactory bulb. European Journal of Neuroscience.
Wiley-Blackwell. https://doi.org/10.1046/j.1460-9568.2003.02756.x
chicago: Holderith, Noémi, Ryuichi Shigemoto, and Zoltán Nusser. “Cell Type-Dependent
Expression of HCN1 in the Main Olfactory Bulb.” European Journal of Neuroscience.
Wiley-Blackwell, 2003. https://doi.org/10.1046/j.1460-9568.2003.02756.x.
ieee: N. Holderith, R. Shigemoto, and Z. Nusser, “Cell type-dependent expression
of HCN1 in the main olfactory bulb,” European Journal of Neuroscience,
vol. 18, no. 2. Wiley-Blackwell, pp. 344–354, 2003.
ista: Holderith N, Shigemoto R, Nusser Z. 2003. Cell type-dependent expression of
HCN1 in the main olfactory bulb. European Journal of Neuroscience. 18(2), 344–354.
mla: Holderith, Noémi, et al. “Cell Type-Dependent Expression of HCN1 in the Main
Olfactory Bulb.” European Journal of Neuroscience, vol. 18, no. 2, Wiley-Blackwell,
2003, pp. 344–54, doi:10.1046/j.1460-9568.2003.02756.x.
short: N. Holderith, R. Shigemoto, Z. Nusser, European Journal of Neuroscience 18
(2003) 344–354.
date_created: 2018-12-11T11:58:47Z
date_published: 2003-07-01T00:00:00Z
date_updated: 2021-01-12T06:58:42Z
day: '01'
doi: 10.1046/j.1460-9568.2003.02756.x
extern: 1
intvolume: ' 18'
issue: '2'
month: '07'
page: 344 - 354
publication: European Journal of Neuroscience
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4266'
quality_controlled: 0
status: public
title: Cell type-dependent expression of HCN1 in the main olfactory bulb
type: journal_article
volume: 18
year: '2003'
...
---
_id: '2635'
abstract:
- lang: eng
text: Metabotropic GABAB receptors mediate slow inhibitory effects presynaptically
and postsynaptically. Using preembedding immunohistochemical methods combined
with quantitative analysis of GABAB receptor subunit immunoreactivity, this study
provides a detailed description of the cellular and subcellular localization of
GABAB1a/b and GABA B2 in the rat hippocampus. At the light microscopic level,
an overlapping distribution of GABAB1a/b and GABAB2 was revealed in the dendritic
layers of the hippocampus. In addition, expression of the GABAB1a/b subunit was
found in somata of CA1 pyramidal cells and of a subset of GABAergic interneurons.
At the electron microscopic level, immunoreactivity for both subunits was observed
on presynaptic and, more abundantly, on postsynaptic elements. Presynaptically,
subunits were mainly detected in the extrasynaptic membrane and occasionally over
the presynaptic membrane specialization of putative glutamatergic and, to a lesser
extent, GABAergic axon terminals. Postsynaptically, the majority of GABAB receptor
subunits were localized to the extrasynaptic plasma membrane of spines and dendritic
shafts of principal cells and shafts of interneuron dendrites. Quantitative analysis
revealed enrichment of GABAB1a/b around putative glutamatergic synapses on spines
and an even distribution on dendritic shafts of pyramidal cells contacted by GABAergic
boutons. The association of GABAB receptors with glutamatergic synapses at both
presynaptic and postsynaptic sides indicates their intimate involvement in the
modulation of glutamatergic neurotransmission. The dominant extrasynaptic localization
of GABAB receptor subunits suggests that their activation is dependent on spillover
of GABA requiring simultaneous activity of populations of GABAergic cells as it
occurs during population oscillations or epileptic seizures.
author:
- first_name: Ákos
full_name: Kulik, Ákos
last_name: Kulik
- first_name: Imre
full_name: Vida, Imre
last_name: Vida
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
- first_name: Carola
full_name: Haas, Carola A
last_name: Haas
- first_name: Guillermina
full_name: López-Bendito, Guillermina
last_name: López Bendito
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Michael
full_name: Frotscher, Michael
last_name: Frotscher
citation:
ama: Kulik Á, Vida I, Luján R, et al. Subcellular Localization of Metabotropic GABAB
Receptor Subunits GABAB1a/b and GABAB2 in the Rat Hippocampus. Journal of Neuroscience.
2003;23(35):11026-11035.
apa: Kulik, Á., Vida, I., Luján, R., Haas, C., López Bendito, G., Shigemoto, R.,
& Frotscher, M. (2003). Subcellular Localization of Metabotropic GABAB Receptor
Subunits GABAB1a/b and GABAB2 in the Rat Hippocampus. Journal of Neuroscience.
Society for Neuroscience.
chicago: Kulik, Ákos, Imre Vida, Rafael Luján, Carola Haas, Guillermina López Bendito,
Ryuichi Shigemoto, and Michael Frotscher. “Subcellular Localization of Metabotropic
GABAB Receptor Subunits GABAB1a/b and GABAB2 in the Rat Hippocampus.” Journal
of Neuroscience. Society for Neuroscience, 2003.
ieee: Á. Kulik et al., “Subcellular Localization of Metabotropic GABAB Receptor
Subunits GABAB1a/b and GABAB2 in the Rat Hippocampus,” Journal of Neuroscience,
vol. 23, no. 35. Society for Neuroscience, pp. 11026–11035, 2003.
ista: Kulik Á, Vida I, Luján R, Haas C, López Bendito G, Shigemoto R, Frotscher
M. 2003. Subcellular Localization of Metabotropic GABAB Receptor Subunits GABAB1a/b
and GABAB2 in the Rat Hippocampus. Journal of Neuroscience. 23(35), 11026–11035.
mla: Kulik, Ákos, et al. “Subcellular Localization of Metabotropic GABAB Receptor
Subunits GABAB1a/b and GABAB2 in the Rat Hippocampus.” Journal of Neuroscience,
vol. 23, no. 35, Society for Neuroscience, 2003, pp. 11026–35.
short: Á. Kulik, I. Vida, R. Luján, C. Haas, G. López Bendito, R. Shigemoto, M.
Frotscher, Journal of Neuroscience 23 (2003) 11026–11035.
date_created: 2018-12-11T11:58:47Z
date_published: 2003-12-03T00:00:00Z
date_updated: 2021-01-12T06:58:43Z
day: '03'
extern: 1
intvolume: ' 23'
issue: '35'
month: '12'
page: 11026 - 11035
publication: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '4263'
quality_controlled: 0
status: public
title: Subcellular Localization of Metabotropic GABAB Receptor Subunits GABAB1a/b
and GABAB2 in the Rat Hippocampus
type: journal_article
volume: 23
year: '2003'
...
---
_id: '2634'
abstract:
- lang: eng
text: To better understand the role of neurotransmitter receptors in neuronal differentiation
and maturation a detailed knowledge of their identity, location and function in
the plasma membrane of specific neuronal populations during development is required.
Combining pre-embedding immunocytochemistry with cell tracking in embryonic brain
slice cultures we show that virtually all neurons (∼98%) migrating through the
lower intermediate zone (LIZ) on their way from the medial ganglionic eminence
to the cerebral cortex, express GABA BR1. Blockade of GABABRs with a specific
antagonist, CGP52432, resulted in a concentration-dependent accumulation of these
tangentially migrating neurons in the ventricular/subventricular zones (VZ/SVZ)
of the cortex and fewer cells were observed in the cortical plate/marginal zone
(CP/MZ) and LIZ. Moreover, they had significantly shorter leading processes compared
with similar migrating cells in control slices. Electrophysiological recording
in LIZ and CP cells revealed no direct effect of either CGP52432 or the GABABR
agonist, baclofen, on resting membrane properties suggesting that the effect of
CGP52432 on migration might be mediated through a metabotropic action or the regulation
of release of factors controlling migration. These results suggest that GABABRs
have an important modulatory role in the migration of cortical interneurons.
author:
- first_name: Guillermina
full_name: López-Bendito, Guillermina
last_name: López Bendito
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Paul
full_name: Ganter, Paul
last_name: Ganter
- first_name: Ole
full_name: Paulsen, Ole
last_name: Paulsen
- first_name: Zoltán
full_name: Molnár, Zoltán
last_name: Molnár
citation:
ama: López Bendito G, Luján R, Shigemoto R, Ganter P, Paulsen O, Molnár Z. Blockade
of GABAB receptors alters the tangential migration of cortical neurons. Cerebral
Cortex. 2003;13(9):932-942. doi:10.1093/cercor/13.9.932
apa: López Bendito, G., Luján, R., Shigemoto, R., Ganter, P., Paulsen, O., &
Molnár, Z. (2003). Blockade of GABAB receptors alters the tangential migration
of cortical neurons. Cerebral Cortex. Oxford University Press. https://doi.org/10.1093/cercor/13.9.932
chicago: López Bendito, Guillermina, Rafael Luján, Ryuichi Shigemoto, Paul Ganter,
Ole Paulsen, and Zoltán Molnár. “Blockade of GABAB Receptors Alters the Tangential
Migration of Cortical Neurons.” Cerebral Cortex. Oxford University Press,
2003. https://doi.org/10.1093/cercor/13.9.932.
ieee: G. López Bendito, R. Luján, R. Shigemoto, P. Ganter, O. Paulsen, and Z. Molnár,
“Blockade of GABAB receptors alters the tangential migration of cortical neurons,”
Cerebral Cortex, vol. 13, no. 9. Oxford University Press, pp. 932–942,
2003.
ista: López Bendito G, Luján R, Shigemoto R, Ganter P, Paulsen O, Molnár Z. 2003.
Blockade of GABAB receptors alters the tangential migration of cortical neurons.
Cerebral Cortex. 13(9), 932–942.
mla: López Bendito, Guillermina, et al. “Blockade of GABAB Receptors Alters the
Tangential Migration of Cortical Neurons.” Cerebral Cortex, vol. 13, no.
9, Oxford University Press, 2003, pp. 932–42, doi:10.1093/cercor/13.9.932.
short: G. López Bendito, R. Luján, R. Shigemoto, P. Ganter, O. Paulsen, Z. Molnár,
Cerebral Cortex 13 (2003) 932–942.
date_created: 2018-12-11T11:58:47Z
date_published: 2003-09-01T00:00:00Z
date_updated: 2021-01-12T06:58:43Z
day: '01'
doi: 10.1093/cercor/13.9.932
extern: 1
intvolume: ' 13'
issue: '9'
month: '09'
page: 932 - 942
publication: Cerebral Cortex
publication_status: published
publisher: Oxford University Press
publist_id: '4264'
quality_controlled: 0
status: public
title: Blockade of GABAB receptors alters the tangential migration of cortical neurons
type: journal_article
volume: 13
year: '2003'
...
---
_id: '2630'
abstract:
- lang: eng
text: Taste-metabotropic glutamate receptor 4 (taste-mGluR4) and the heteromers
of T1R1 and T1R3 are candidate receptors involved in the sense of umami (monosodium
glutamate) taste. Although the expression of group III mGluRs (taste-mGluR4) has
been demonstrated in taste tissues, no mention has been made of the expression
of group I mGluRs (mGluR1 and mGluR5) in taste tissues. We examined the expression
of mGluR1 and mGluR5 in rat gustatory tissues by using reverse transcription-polymerase
chain reaction (RT-PCR), in situ hybridization, immunohistochemistry and immunoelectron
microscopy. RT-PCR assay showed that mGluR1α and mGluR1β mRNAs were expressed
in circumvallate papillae, but mGluR5 mRNA was not expressed. The positive signals
of mGluR1 mRNA were detected only in circumvallate taste buds by in situ hybridization
analysis. In cryosections of fungiform, foliate and circumvallate papillae, the
antibody against mGluRla gave intense labeling on the taste hairs in all taste
pores examined. In the developing taste buds, the positive signals of mGluR1α
in taste hairs gradually increased with the increase in number of taste bud cells.
These results show that, in addition to taste-mGluR4 and the heteromer of T1R1
and T1R3, mGluR1α may function as a receptor for glutamate (umami) taste sensation.
author:
- first_name: Takashi
full_name: Toyono, Takashi
last_name: Toyono
- first_name: Yuji
full_name: Seta, Yuji
last_name: Seta
- first_name: Shinji
full_name: Kataoka, Shinji
last_name: Kataoka
- first_name: Shintaro
full_name: Kawano, Shintaro
last_name: Kawano
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Kuniaki
full_name: Toyoshima, Kuniaki
last_name: Toyoshima
citation:
ama: Toyono T, Seta Y, Kataoka S, Kawano S, Shigemoto R, Toyoshima K. Expression
of metabotropic glutamate receptor group I in rat gustatory papillae. Cell
and Tissue Research. 2003;313(1):29-35. doi:10.1007/s00441-003-0740-2
apa: Toyono, T., Seta, Y., Kataoka, S., Kawano, S., Shigemoto, R., & Toyoshima,
K. (2003). Expression of metabotropic glutamate receptor group I in rat gustatory
papillae. Cell and Tissue Research. Springer. https://doi.org/10.1007/s00441-003-0740-2
chicago: Toyono, Takashi, Yuji Seta, Shinji Kataoka, Shintaro Kawano, Ryuichi Shigemoto,
and Kuniaki Toyoshima. “Expression of Metabotropic Glutamate Receptor Group I
in Rat Gustatory Papillae.” Cell and Tissue Research. Springer, 2003. https://doi.org/10.1007/s00441-003-0740-2.
ieee: T. Toyono, Y. Seta, S. Kataoka, S. Kawano, R. Shigemoto, and K. Toyoshima,
“Expression of metabotropic glutamate receptor group I in rat gustatory papillae,”
Cell and Tissue Research, vol. 313, no. 1. Springer, pp. 29–35, 2003.
ista: Toyono T, Seta Y, Kataoka S, Kawano S, Shigemoto R, Toyoshima K. 2003. Expression
of metabotropic glutamate receptor group I in rat gustatory papillae. Cell and
Tissue Research. 313(1), 29–35.
mla: Toyono, Takashi, et al. “Expression of Metabotropic Glutamate Receptor Group
I in Rat Gustatory Papillae.” Cell and Tissue Research, vol. 313, no. 1,
Springer, 2003, pp. 29–35, doi:10.1007/s00441-003-0740-2.
short: T. Toyono, Y. Seta, S. Kataoka, S. Kawano, R. Shigemoto, K. Toyoshima, Cell
and Tissue Research 313 (2003) 29–35.
date_created: 2018-12-11T11:58:46Z
date_published: 2003-07-01T00:00:00Z
date_updated: 2021-01-12T06:58:41Z
day: '01'
doi: 10.1007/s00441-003-0740-2
extern: 1
intvolume: ' 313'
issue: '1'
month: '07'
page: 29 - 35
publication: Cell and Tissue Research
publication_status: published
publisher: Springer
publist_id: '4267'
quality_controlled: 0
status: public
title: Expression of metabotropic glutamate receptor group I in rat gustatory papillae
type: journal_article
volume: 313
year: '2003'
...
---
_id: '2637'
abstract:
- lang: eng
text: While the cholinergic depletion in Alzheimer's disease (AD) has been known
for some time, a definitive involvement of other neurotransmitter systems has
been somewhat more elusive. Our study demonstrates a clear involvement of both
glutamatergic and, to a lesser extent, GABAergic neurons in an early onset transgenic
mouse model of AD-like amyloid pathology. Immunohistochemical staining and subsequent
quantification has revealed a statistically significant increased density of glutamatergic
and GABAergic presynaptic boutons in both the plaque free and plaque adjacent
cortical neuropile areas of transgenic mice as compared to non-transgenic controls.
Furthermore, amyloid plaque size was shown to have a statistically significant
effect on the relative area occupied by dystrophic glutamatergic neurites in the
peri-plaque neuropile. These findings support our hypothesis that the amyloid
pathology progresses in a time and neurotransmitter specific manner, first in
the cholinergic system which appears to be most vulnerable, followed by the glutamatergic
presynaptic boutons and finally the somewhat more resilient GABAergic terminals.
author:
- first_name: Karen
full_name: Bell, Karen F
last_name: Bell
- first_name: G J
full_name: De Kort, G J
last_name: De Kort
- first_name: S
full_name: Steggerda, S
last_name: Steggerda
- first_name: Ryuichi
full_name: Ryuichi Shigemoto
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Alfredo
full_name: Ribeiro-da-Silva, Alfredo
last_name: Ribeiro Da Silva
- first_name: Augusto
full_name: Cuello, Augusto C
last_name: Cuello
citation:
ama: Bell K, De Kort GJ, Steggerda S, Shigemoto R, Ribeiro Da Silva A, Cuello A.
Structural involvement of the glutamatergic presynaptic boutons in a transgenic
mouse model expressing early onset amyloid pathology. Neuroscience Letters.
2003;353(2):143-147. doi:10.1016/j.neulet.2003.09.027
apa: Bell, K., De Kort, G. J., Steggerda, S., Shigemoto, R., Ribeiro Da Silva, A.,
& Cuello, A. (2003). Structural involvement of the glutamatergic presynaptic
boutons in a transgenic mouse model expressing early onset amyloid pathology.
Neuroscience Letters. Elsevier. https://doi.org/10.1016/j.neulet.2003.09.027
chicago: Bell, Karen, G J De Kort, S Steggerda, Ryuichi Shigemoto, Alfredo Ribeiro
Da Silva, and Augusto Cuello. “Structural Involvement of the Glutamatergic Presynaptic
Boutons in a Transgenic Mouse Model Expressing Early Onset Amyloid Pathology.”
Neuroscience Letters. Elsevier, 2003. https://doi.org/10.1016/j.neulet.2003.09.027.
ieee: K. Bell, G. J. De Kort, S. Steggerda, R. Shigemoto, A. Ribeiro Da Silva, and
A. Cuello, “Structural involvement of the glutamatergic presynaptic boutons in
a transgenic mouse model expressing early onset amyloid pathology,” Neuroscience
Letters, vol. 353, no. 2. Elsevier, pp. 143–147, 2003.
ista: Bell K, De Kort GJ, Steggerda S, Shigemoto R, Ribeiro Da Silva A, Cuello A.
2003. Structural involvement of the glutamatergic presynaptic boutons in a transgenic
mouse model expressing early onset amyloid pathology. Neuroscience Letters. 353(2),
143–147.
mla: Bell, Karen, et al. “Structural Involvement of the Glutamatergic Presynaptic
Boutons in a Transgenic Mouse Model Expressing Early Onset Amyloid Pathology.”
Neuroscience Letters, vol. 353, no. 2, Elsevier, 2003, pp. 143–47, doi:10.1016/j.neulet.2003.09.027.
short: K. Bell, G.J. De Kort, S. Steggerda, R. Shigemoto, A. Ribeiro Da Silva, A.
Cuello, Neuroscience Letters 353 (2003) 143–147.
date_created: 2018-12-11T11:58:48Z
date_published: 2003-12-19T00:00:00Z
date_updated: 2021-01-12T06:58:44Z
day: '19'
doi: 10.1016/j.neulet.2003.09.027
extern: 1
intvolume: ' 353'
issue: '2'
month: '12'
page: 143 - 147
publication: Neuroscience Letters
publication_status: published
publisher: Elsevier
publist_id: '4262'
quality_controlled: 0
status: public
title: Structural involvement of the glutamatergic presynaptic boutons in a transgenic
mouse model expressing early onset amyloid pathology
type: journal_article
volume: 353
year: '2003'
...
---
_id: '2784'
abstract:
- lang: eng
text: We report the results of an experimental study of magnetohydrodynamic damping
of sidewall convection in a rectangular enclosure filled with gallium. In particular
we investigate the suppression of convection when a steady magnetic field is applied
separately in each of the three principal directions of the flow. The strongest
damping of the steady flow is found for a vertical magnetic field, which is in
agreement with theory. However, we observe that the application of a field transverse
to the flow provides greater damping than a longitudinal one, which seems to contradict
available theory. We provide a possible resolution of this apparent dichotomy
in terms of the length scale of the experiment.
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 convective flows in
molten gallium. Journal of Fluid Mechanics. 2003;482:163-179. doi:10.1017/S0022112003004014
apa: Hof, B., Juel, A., & Mullin, T. (2003). Magnetohydrodynamic damping of
convective flows in molten gallium. Journal of Fluid Mechanics. Cambridge
University Press. https://doi.org/10.1017/S0022112003004014
chicago: Hof, Björn, Anne Juel, and Tom Mullin. “Magnetohydrodynamic Damping of
Convective Flows in Molten Gallium.” Journal of Fluid Mechanics. Cambridge
University Press, 2003. https://doi.org/10.1017/S0022112003004014.
ieee: B. Hof, A. Juel, and T. Mullin, “Magnetohydrodynamic damping of convective
flows in molten gallium,” Journal of Fluid Mechanics, vol. 482. Cambridge
University Press, pp. 163–179, 2003.
ista: Hof B, Juel A, Mullin T. 2003. Magnetohydrodynamic damping of convective flows
in molten gallium. Journal of Fluid Mechanics. 482, 163–179.
mla: Hof, Björn, et al. “Magnetohydrodynamic Damping of Convective Flows in Molten
Gallium.” Journal of Fluid Mechanics, vol. 482, Cambridge University Press,
2003, pp. 163–79, doi:10.1017/S0022112003004014.
short: B. Hof, A. Juel, T. Mullin, Journal of Fluid Mechanics 482 (2003) 163–179.
date_created: 2018-12-11T11:59:35Z
date_published: 2003-05-13T00:00:00Z
date_updated: 2021-01-12T06:59:42Z
day: '13'
doi: 10.1017/S0022112003004014
extern: 1
intvolume: ' 482'
month: '05'
page: 163 - 179
publication: Journal of Fluid Mechanics
publication_status: published
publisher: Cambridge University Press
publist_id: '4105'
quality_controlled: 0
status: public
title: Magnetohydrodynamic damping of convective flows in molten gallium
type: journal_article
volume: 482
year: '2003'
...
---
_id: '2785'
abstract:
- lang: eng
text: Experimental evidence for the scaling of the finite amplitude of perturbation
theory required to promote transition in Poiseuille flow was found. The exponent
is -1 and was uncovered using considerable care in the design and execution of
the experiment. Interestingly, this exponent was also found in experiments on
transition in boundary layers.
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. Scaling of the turbulence transition threshold in
a pipe. Physical Review Letters. 2003;91(24):244502/1-244502/4. doi:10.1103/PhysRevLett.91.244502
apa: Hof, B., Juel, A., & Mullin, T. (2003). Scaling of the turbulence transition
threshold in a pipe. Physical Review Letters. American Physical Society.
https://doi.org/10.1103/PhysRevLett.91.244502
chicago: Hof, Björn, Anne Juel, and Tom Mullin. “Scaling of the Turbulence Transition
Threshold in a Pipe.” Physical Review Letters. American Physical Society,
2003. https://doi.org/10.1103/PhysRevLett.91.244502.
ieee: B. Hof, A. Juel, and T. Mullin, “Scaling of the turbulence transition threshold
in a pipe,” Physical Review Letters, vol. 91, no. 24. American Physical
Society, p. 244502/1-244502/4, 2003.
ista: Hof B, Juel A, Mullin T. 2003. Scaling of the turbulence transition threshold
in a pipe. Physical Review Letters. 91(24), 244502/1-244502/4.
mla: Hof, Björn, et al. “Scaling of the Turbulence Transition Threshold in a Pipe.”
Physical Review Letters, vol. 91, no. 24, American Physical Society, 2003,
p. 244502/1-244502/4, doi:10.1103/PhysRevLett.91.244502.
short: B. Hof, A. Juel, T. Mullin, Physical Review Letters 91 (2003) 244502/1-244502/4.
date_created: 2018-12-11T11:59:35Z
date_published: 2003-12-12T00:00:00Z
date_updated: 2021-01-12T06:59:42Z
day: '12'
doi: 10.1103/PhysRevLett.91.244502
extern: 1
intvolume: ' 91'
issue: '24'
month: '12'
page: 244502/1 - 244502/4
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '4104'
quality_controlled: 0
status: public
title: Scaling of the turbulence transition threshold in a pipe
type: journal_article
volume: 91
year: '2003'
...
---
_id: '2990'
abstract:
- lang: eng
text: Plant growth is marked by its adaptability to continuous changes in environment.
A regulated, differential distribution of auxin underlies many adaptation processes
including organogenesis, meristem patterning and tropisms. In executing its multiple
roles, auxin displays some characteristics of both a hormone and a morphogen.
Studies on auxin transport, as well as tracing the intracellular movement of its
molecular components, have suggested a possible scenario to explain how growth
plasticity is conferred at the cellular and molecular level. The plant perceives
stimuli and changes the subcellular position of auxin-transport components accordingly.
These changes modulate auxin fluxes, and the newly established auxin distribution
triggers the corresponding developmental response.
author:
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Friml J. Auxin transport - Shaping the plant. Current Opinion in Plant Biology.
2003;6(1):7-12. doi:10.1016/S1369526602000031
apa: Friml, J. (2003). Auxin transport - Shaping the plant. Current Opinion in
Plant Biology. Elsevier. https://doi.org/10.1016/S1369526602000031
chicago: Friml, Jiří. “Auxin Transport - Shaping the Plant.” Current Opinion
in Plant Biology. Elsevier, 2003. https://doi.org/10.1016/S1369526602000031.
ieee: J. Friml, “Auxin transport - Shaping the plant,” Current Opinion in Plant
Biology, vol. 6, no. 1. Elsevier, pp. 7–12, 2003.
ista: Friml J. 2003. Auxin transport - Shaping the plant. Current Opinion in Plant
Biology. 6(1), 7–12.
mla: Friml, Jiří. “Auxin Transport - Shaping the Plant.” Current Opinion in Plant
Biology, vol. 6, no. 1, Elsevier, 2003, pp. 7–12, doi:10.1016/S1369526602000031.
short: J. Friml, Current Opinion in Plant Biology 6 (2003) 7–12.
date_created: 2018-12-11T12:00:43Z
date_published: 2003-02-01T00:00:00Z
date_updated: 2021-01-12T07:40:17Z
day: '01'
doi: 10.1016/S1369526602000031
extern: '1'
intvolume: ' 6'
issue: '1'
language:
- iso: eng
month: '02'
oa_version: None
page: 7 - 12
publication: Current Opinion in Plant Biology
publication_status: published
publisher: Elsevier
publist_id: '3711'
quality_controlled: '1'
status: public
title: Auxin transport - Shaping the plant
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2003'
...
---
_id: '2992'
abstract:
- lang: eng
text: Plants have many polarized cell types, but relatively little is known about
the mechanisms that establish polarity. The orc mutant was identified originally
by defects in root patterning, and positional cloning revealed that the affected
gene encodes STEROL METHYLTRANSFERASE1, which is required for the appropriate
synthesis and composition of major membrane sterols. smt1orc mutants displayed
several conspicuous cell polarity defects. Columella root cap cells revealed perturbed
polar positioning of different organelles, and in the smt1orc root epidermis,
polar initiation of root hairs was more randomized. Polar auxin transport and
expression of the auxin reporter DR5-β-glucuronidase were aberrant in smt1orc.
Patterning defects in smt1orc resembled those observed in mutants of the PIN gene
family of putative auxin efflux transporters. Consistently, the membrane localization
of the PIN1 and PIN3 proteins was disturbed in smt1orc, whereas polar positioning
of the influx carrier AUX1 appeared normal. Our results suggest that balanced
sterol composition is a major requirement for cell polarity and auxin efflux in
Arabidopsis.
author:
- first_name: Viola
full_name: Willemsen, Viola
last_name: Willemsen
- first_name: Jirí
full_name: Jirí Friml
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Markus
full_name: Grebe, Markus
last_name: Grebe
- first_name: Albert
full_name: Van Den Toorn, Albert
last_name: Van Den Toorn
- first_name: Klaus
full_name: Palme, Klaus
last_name: Palme
- first_name: Ben
full_name: Scheres, Ben
last_name: Scheres
citation:
ama: Willemsen V, Friml J, Grebe M, Van Den Toorn A, Palme K, Scheres B. Cell polarity
and PIN protein positioning in Arabidopsis require STEROL METHYLTRANSFERASE1 function.
Plant Cell. 2003;15(3):612-625. doi:10.1105/tpc.008433
apa: Willemsen, V., Friml, J., Grebe, M., Van Den Toorn, A., Palme, K., & Scheres,
B. (2003). Cell polarity and PIN protein positioning in Arabidopsis require STEROL
METHYLTRANSFERASE1 function. Plant Cell. American Society of Plant Biologists.
https://doi.org/10.1105/tpc.008433
chicago: Willemsen, Viola, Jiří Friml, Markus Grebe, Albert Van Den Toorn, Klaus
Palme, and Ben Scheres. “Cell Polarity and PIN Protein Positioning in Arabidopsis
Require STEROL METHYLTRANSFERASE1 Function.” Plant Cell. American Society
of Plant Biologists, 2003. https://doi.org/10.1105/tpc.008433.
ieee: V. Willemsen, J. Friml, M. Grebe, A. Van Den Toorn, K. Palme, and B. Scheres,
“Cell polarity and PIN protein positioning in Arabidopsis require STEROL METHYLTRANSFERASE1
function,” Plant Cell, vol. 15, no. 3. American Society of Plant Biologists,
pp. 612–625, 2003.
ista: Willemsen V, Friml J, Grebe M, Van Den Toorn A, Palme K, Scheres B. 2003.
Cell polarity and PIN protein positioning in Arabidopsis require STEROL METHYLTRANSFERASE1
function. Plant Cell. 15(3), 612–625.
mla: Willemsen, Viola, et al. “Cell Polarity and PIN Protein Positioning in Arabidopsis
Require STEROL METHYLTRANSFERASE1 Function.” Plant Cell, vol. 15, no. 3,
American Society of Plant Biologists, 2003, pp. 612–25, doi:10.1105/tpc.008433.
short: V. Willemsen, J. Friml, M. Grebe, A. Van Den Toorn, K. Palme, B. Scheres,
Plant Cell 15 (2003) 612–625.
date_created: 2018-12-11T12:00:44Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T07:40:18Z
day: '01'
doi: 10.1105/tpc.008433
extern: 1
intvolume: ' 15'
issue: '3'
month: '03'
page: 612 - 625
publication: Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '3710'
quality_controlled: 0
status: public
title: Cell polarity and PIN protein positioning in Arabidopsis require STEROL METHYLTRANSFERASE1
function
type: journal_article
volume: 15
year: '2003'
...
---
_id: '2996'
abstract:
- lang: eng
text: |
Plants, compared to animals, exhibit an amazing adaptability and plasticity in their development. This is largely dependent on the ability of plants to form new organs, such as lateral roots, leaves, and flowers during postembryonic development. Organ primordia develop from founder cell populations into organs by coordinated cell division and differentiation. Here, we show that organ formation in Arabidopsis involves dynamic gradients of the signaling molecule auxin with maxima at the primordia tips. These gradients are mediated by cellular efflux requiring asymmetrically localized PIN proteins, which represent a functionally redundant network for auxin distribution in both aerial and underground organs. PIN1 polar localization undergoes a dynamic rearrangement, which correlates with establishment of auxin gradients and primordium development. Our results suggest that PIN-dependent, local auxin gradients represent a common module for formation of all plant organs, regardless of their mature morphology or developmental origin.
author:
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Marta
full_name: Michniewicz, Marta
last_name: Michniewicz
- first_name: Michael
full_name: Sauer, Michael
last_name: Sauer
- first_name: Thomas
full_name: Teichmann, Thomas
last_name: Teichmann
- first_name: Daniela
full_name: Seifertová, Daniela
last_name: Seifertová
- first_name: Gerd
full_name: Jürgens, Gerd
last_name: Jürgens
- first_name: Jirí
full_name: Jirí Friml
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Benková E, Michniewicz M, Sauer M, et al. Local, efflux-dependent auxin gradients
as a common module for plant organ formation. Cell. 2003;115(5):591-602.
doi:10.1016/S0092-8674(03)00924-3
apa: Benková, E., Michniewicz, M., Sauer, M., Teichmann, T., Seifertová, D., Jürgens,
G., & Friml, J. (2003). Local, efflux-dependent auxin gradients as a common
module for plant organ formation. Cell. Cell Press. https://doi.org/10.1016/S0092-8674(03)00924-3
chicago: Benková, Eva, Marta Michniewicz, Michael Sauer, Thomas Teichmann, Daniela
Seifertová, Gerd Jürgens, and Jiří Friml. “Local, Efflux-Dependent Auxin Gradients
as a Common Module for Plant Organ Formation.” Cell. Cell Press, 2003.
https://doi.org/10.1016/S0092-8674(03)00924-3.
ieee: E. Benková et al., “Local, efflux-dependent auxin gradients as a common
module for plant organ formation,” Cell, vol. 115, no. 5. Cell Press, pp.
591–602, 2003.
ista: Benková E, Michniewicz M, Sauer M, Teichmann T, Seifertová D, Jürgens G, Friml
J. 2003. Local, efflux-dependent auxin gradients as a common module for plant
organ formation. Cell. 115(5), 591–602.
mla: Benková, Eva, et al. “Local, Efflux-Dependent Auxin Gradients as a Common Module
for Plant Organ Formation.” Cell, vol. 115, no. 5, Cell Press, 2003, pp.
591–602, doi:10.1016/S0092-8674(03)00924-3.
short: E. Benková, M. Michniewicz, M. Sauer, T. Teichmann, D. Seifertová, G. Jürgens,
J. Friml, Cell 115 (2003) 591–602.
date_created: 2018-12-11T12:00:46Z
date_published: 2003-11-26T00:00:00Z
date_updated: 2021-01-12T07:40:19Z
day: '26'
doi: 10.1016/S0092-8674(03)00924-3
extern: 1
intvolume: ' 115'
issue: '5'
month: '11'
page: 591 - 602
publication: Cell
publication_status: published
publisher: Cell Press
publist_id: '3706'
quality_controlled: 0
status: public
title: Local, efflux-dependent auxin gradients as a common module for plant organ
formation
type: journal_article
volume: 115
year: '2003'
...
---
_id: '2995'
abstract:
- lang: eng
text: |
Axis formation occurs in plants, as in animals, during early embryogenesis. However, the underlying mechanism is not known. Here we show that the first manifestation of the apical-basal axis in plants, the asymmetric division of the zygote, produces a basal cell that transports and an apical cell that responds to the signalling molecule auxin. This apical-basal auxin activity gradient triggers the specification of apical embryo structures and is actively maintained by a novel component of auxin efflux, PIN7, which is located apically in the basal cell. Later, the developmentally regulated reversal of PIN7 and onset of PIN1 polar localization reorganize the auxin gradient for specification of the basal root pole. An analysis of pin quadruple mutants identifies PIN-dependent transport as an essential part of the mechanism for embryo axis formation. Our results indicate how the establishment of cell polarity, polar auxin efflux and local auxin response result in apical-basal axis formation of the embryo, and thus determine the axiality of the adult plant.
author:
- first_name: Jirí
full_name: Jirí Friml
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Anne
full_name: Vieten, Anne
last_name: Vieten
- first_name: Michael
full_name: Sauer, Michael
last_name: Sauer
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Heinz
full_name: Schwarz, Heinz
last_name: Schwarz
- first_name: Thorsten
full_name: Hamann, Thorsten
last_name: Hamann
- first_name: Remko
full_name: Offringa, Remko
last_name: Offringa
- first_name: Gerd
full_name: Jürgens, Gerd
last_name: Jürgens
citation:
ama: Friml J, Vieten A, Sauer M, et al. Efflux dependent auxin gradients establish
the apical basal axis of Arabidopsis. Nature. 2003;426(6963):147-153. doi:10.1038/nature02085
apa: Friml, J., Vieten, A., Sauer, M., Weijers, D., Schwarz, H., Hamann, T., … Jürgens,
G. (2003). Efflux dependent auxin gradients establish the apical basal axis of
Arabidopsis. Nature. Nature Publishing Group. https://doi.org/10.1038/nature02085
chicago: Friml, Jiří, Anne Vieten, Michael Sauer, Dolf Weijers, Heinz Schwarz, Thorsten
Hamann, Remko Offringa, and Gerd Jürgens. “Efflux Dependent Auxin Gradients Establish
the Apical Basal Axis of Arabidopsis.” Nature. Nature Publishing Group,
2003. https://doi.org/10.1038/nature02085.
ieee: J. Friml et al., “Efflux dependent auxin gradients establish the apical
basal axis of Arabidopsis,” Nature, vol. 426, no. 6963. Nature Publishing
Group, pp. 147–153, 2003.
ista: Friml J, Vieten A, Sauer M, Weijers D, Schwarz H, Hamann T, Offringa R, Jürgens
G. 2003. Efflux dependent auxin gradients establish the apical basal axis of Arabidopsis.
Nature. 426(6963), 147–153.
mla: Friml, Jiří, et al. “Efflux Dependent Auxin Gradients Establish the Apical
Basal Axis of Arabidopsis.” Nature, vol. 426, no. 6963, Nature Publishing
Group, 2003, pp. 147–53, doi:10.1038/nature02085.
short: J. Friml, A. Vieten, M. Sauer, D. Weijers, H. Schwarz, T. Hamann, R. Offringa,
G. Jürgens, Nature 426 (2003) 147–153.
date_created: 2018-12-11T12:00:45Z
date_published: 2003-11-13T00:00:00Z
date_updated: 2021-01-12T07:40:19Z
day: '13'
doi: 10.1038/nature02085
extern: 1
intvolume: ' 426'
issue: '6963'
month: '11'
page: 147 - 153
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '3708'
quality_controlled: 0
status: public
title: Efflux dependent auxin gradients establish the apical basal axis of Arabidopsis
type: journal_article
volume: 426
year: '2003'
...
---
_id: '2994'
abstract:
- lang: eng
text: The regular arrangement of leaves around a plant's stem, called phyllotaxis,
has for centuries attracted the attention of philosophers, mathematicians and
natural scientists; however, to date, studies of phyllotaxis have been largely
theoretical. Leaves and flowers are formed from the shoot apical meristem, triggered
by the plant hormone auxin. Auxin is transported through plant tissues by specific
cellular influx and efflux carrier proteins. Here we show that proteins involved
in auxin transport regulate phyllotaxis. Our data indicate that auxin is transported
upwards into the meristem through the epidermis and the outermost meristem cell
layer. Existing leaf primordia act as sinks, redistributing auxin and creating
its heterogeneous distribution in the meristem. Auxin accumulation occurs only
at certain minimal distances from existing primordia, defining the position of
future primordia. This model for phyllotaxis accounts for its reiterative nature,
as well as its regularity and stability.
author:
- first_name: Didier
full_name: Reinhardt, Didier
last_name: Reinhardt
- first_name: Eva
full_name: Pesce, Eva-Rachele
last_name: Pesce
- first_name: Pia
full_name: Stieger, Pia
last_name: Stieger
- first_name: Therese
full_name: Mandel, Therese
last_name: Mandel
- first_name: Kurt
full_name: Baltensperger, Kurt
last_name: Baltensperger
- first_name: Malcolm
full_name: Bennett, Malcolm
last_name: Bennett
- first_name: Jan
full_name: Traas, Jan
last_name: Traas
- first_name: Jirí
full_name: Jirí Friml
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Cris
full_name: Kuhlemeier, Cris
last_name: Kuhlemeier
citation:
ama: Reinhardt D, Pesce E, Stieger P, et al. Regulation of phyllotaxis by polar
auxin transport. Nature. 2003;426(6964):255-260. doi:10.1038/nature02081
apa: Reinhardt, D., Pesce, E., Stieger, P., Mandel, T., Baltensperger, K., Bennett,
M., … Kuhlemeier, C. (2003). Regulation of phyllotaxis by polar auxin transport.
Nature. Nature Publishing Group. https://doi.org/10.1038/nature02081
chicago: Reinhardt, Didier, Eva Pesce, Pia Stieger, Therese Mandel, Kurt Baltensperger,
Malcolm Bennett, Jan Traas, Jiří Friml, and Cris Kuhlemeier. “Regulation of Phyllotaxis
by Polar Auxin Transport.” Nature. Nature Publishing Group, 2003. https://doi.org/10.1038/nature02081.
ieee: D. Reinhardt et al., “Regulation of phyllotaxis by polar auxin transport,”
Nature, vol. 426, no. 6964. Nature Publishing Group, pp. 255–260, 2003.
ista: Reinhardt D, Pesce E, Stieger P, Mandel T, Baltensperger K, Bennett M, Traas
J, Friml J, Kuhlemeier C. 2003. Regulation of phyllotaxis by polar auxin transport.
Nature. 426(6964), 255–260.
mla: Reinhardt, Didier, et al. “Regulation of Phyllotaxis by Polar Auxin Transport.”
Nature, vol. 426, no. 6964, Nature Publishing Group, 2003, pp. 255–60,
doi:10.1038/nature02081.
short: D. Reinhardt, E. Pesce, P. Stieger, T. Mandel, K. Baltensperger, M. Bennett,
J. Traas, J. Friml, C. Kuhlemeier, Nature 426 (2003) 255–260.
date_created: 2018-12-11T12:00:45Z
date_published: 2003-11-20T00:00:00Z
date_updated: 2021-01-12T07:40:18Z
day: '20'
doi: 10.1038/nature02081
extern: 1
intvolume: ' 426'
issue: '6964'
month: '11'
page: 255 - 260
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '3707'
quality_controlled: 0
status: public
title: Regulation of phyllotaxis by polar auxin transport
type: journal_article
volume: 426
year: '2003'
...
---
_id: '2993'
abstract:
- lang: eng
text: Plant biology is currently experiencing a growing demand for easy and reliable
mRNA and protein localisation techniques. Here, we present novel whole mount in
situ hybridisation and immunolocalisation protocols, suitable to localise mRNAs
and proteins in Arabidopsis seedlings. We demonstrate that these methods can be
used in different organs of Arabidopsis seedlings as well as in other plant species.
In order to achieve better reproducibility and higher throughput, we modified
these protocols for automation to be performed by a liquid handling robot. In
addition, we show that other procedures such as reporter enzyme assays and tissue
clearing can be similarly automated. We present examples of application of our
protocols including mRNA localisation and proteins and epitope tag (co)localisations
which demonstrate that these methods provide reliable and versatile tools for
expression, localisation and anatomical studies in plants.
author:
- first_name: Jirí
full_name: Jirí Friml
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Ulrike
full_name: Mayer, Ulrike
last_name: Mayer
- first_name: Klaus
full_name: Palme, Klaus
last_name: Palme
- first_name: Gerhard
full_name: Muster, Gerhard
last_name: Muster
citation:
ama: Friml J, Benková E, Mayer U, Palme K, Muster G. Automated whole mount localisation
techniques for plant seedlings. Plant Journal. 2003;34(1):115-124. doi:10.1046/j.1365-313X.2003.01705.x
apa: Friml, J., Benková, E., Mayer, U., Palme, K., & Muster, G. (2003). Automated
whole mount localisation techniques for plant seedlings. Plant Journal.
Wiley-Blackwell. https://doi.org/10.1046/j.1365-313X.2003.01705.x
chicago: Friml, Jiří, Eva Benková, Ulrike Mayer, Klaus Palme, and Gerhard Muster.
“Automated Whole Mount Localisation Techniques for Plant Seedlings.” Plant
Journal. Wiley-Blackwell, 2003. https://doi.org/10.1046/j.1365-313X.2003.01705.x.
ieee: J. Friml, E. Benková, U. Mayer, K. Palme, and G. Muster, “Automated whole
mount localisation techniques for plant seedlings,” Plant Journal, vol.
34, no. 1. Wiley-Blackwell, pp. 115–124, 2003.
ista: Friml J, Benková E, Mayer U, Palme K, Muster G. 2003. Automated whole mount
localisation techniques for plant seedlings. Plant Journal. 34(1), 115–124.
mla: Friml, Jiří, et al. “Automated Whole Mount Localisation Techniques for Plant
Seedlings.” Plant Journal, vol. 34, no. 1, Wiley-Blackwell, 2003, pp. 115–24,
doi:10.1046/j.1365-313X.2003.01705.x.
short: J. Friml, E. Benková, U. Mayer, K. Palme, G. Muster, Plant Journal 34 (2003)
115–124.
date_created: 2018-12-11T12:00:44Z
date_published: 2003-04-01T00:00:00Z
date_updated: 2021-01-12T07:40:18Z
day: '01'
doi: 10.1046/j.1365-313X.2003.01705.x
extern: 1
intvolume: ' 34'
issue: '1'
month: '04'
page: 115 - 124
publication: Plant Journal
publication_status: published
publisher: Wiley-Blackwell
publist_id: '3709'
quality_controlled: 0
status: public
title: Automated whole mount localisation techniques for plant seedlings
type: journal_article
volume: 34
year: '2003'
...
---
_id: '3151'
abstract:
- lang: eng
text: Biosynthesis of most peptide hormones and neuropeptides requires proteolytic
excision of the active peptide from inactive proprotein precursors, an activity
carried out by subtilisin-like proprotein convertases (SPCs) in constitutive or
regulated secretory pathways. The Drosophila amontillado (amon) gene encodes a
homolog of the mammalian PC2 protein, an SPC that functions in the regulated secretory
pathway in neuroendocrine tissues. We have identified amon mutants by isolating
ethylmethanesulfonate (EMS)-induced lethal and visible mutations that define two
complementation groups in the amon interval at 97D1 of the third chromosome. DNA
sequencing identified the amon complementation group and the DNA sequence change
for each of the nine amon alleles isolated. amon mutants display partial embryonic
lethality, are defective in larval growth, and arrest during the first to second
instar larval molt. Mutant larvae can be rescued by heat-shock-induced expression
of the amon protein. Rescued larvae arrest at the subsequent larval molt, suggesting
that amon is also required for the second to third instar larval molt. Our data
indicate that the amon proprotein convertase is required during embryogenesis
and larval development in Drosophila and support the hypothesis that AMON acts
to proteolytically process peptide hormones that regulate hatching, larval growth,
and larval ecdysis.
author:
- first_name: Lowell
full_name: Rayburn, Lowell Y
last_name: Rayburn
- first_name: Holly
full_name: Gooding, Holly C
last_name: Gooding
- first_name: Semil
full_name: Choksi, Semil P
last_name: Choksi
- first_name: Dhea
full_name: Maloney, Dhea
last_name: Maloney
- first_name: Ambrose
full_name: Kidd, Ambrose R
last_name: Kidd
- first_name: Daria E
full_name: Daria Siekhaus
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: Michael
full_name: Bender, Michael
last_name: Bender
citation:
ama: Rayburn L, Gooding H, Choksi S, et al. Amontillado, the Drosophila homolog
of the prohormone processing protease PC2, is required during embryogenesis and
early larval development. Genetics. 2003;163(1):227-237.
apa: Rayburn, L., Gooding, H., Choksi, S., Maloney, D., Kidd, A., Siekhaus, D. E.,
& Bender, M. (2003). Amontillado, the Drosophila homolog of the prohormone
processing protease PC2, is required during embryogenesis and early larval development.
Genetics. Genetics Society of America.
chicago: Rayburn, Lowell, Holly Gooding, Semil Choksi, Dhea Maloney, Ambrose Kidd,
Daria E Siekhaus, and Michael Bender. “Amontillado, the Drosophila Homolog of
the Prohormone Processing Protease PC2, Is Required during Embryogenesis and Early
Larval Development.” Genetics. Genetics Society of America, 2003.
ieee: L. Rayburn et al., “Amontillado, the Drosophila homolog of the prohormone
processing protease PC2, is required during embryogenesis and early larval development,”
Genetics, vol. 163, no. 1. Genetics Society of America, pp. 227–237, 2003.
ista: Rayburn L, Gooding H, Choksi S, Maloney D, Kidd A, Siekhaus DE, Bender M.
2003. Amontillado, the Drosophila homolog of the prohormone processing protease
PC2, is required during embryogenesis and early larval development. Genetics.
163(1), 227–237.
mla: Rayburn, Lowell, et al. “Amontillado, the Drosophila Homolog of the Prohormone
Processing Protease PC2, Is Required during Embryogenesis and Early Larval Development.”
Genetics, vol. 163, no. 1, Genetics Society of America, 2003, pp. 227–37.
short: L. Rayburn, H. Gooding, S. Choksi, D. Maloney, A. Kidd, D.E. Siekhaus, M.
Bender, Genetics 163 (2003) 227–237.
date_created: 2018-12-11T12:01:41Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:41:25Z
day: '01'
extern: 1
intvolume: ' 163'
issue: '1'
month: '01'
page: 227 - 237
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '3545'
quality_controlled: 0
status: public
title: Amontillado, the Drosophila homolog of the prohormone processing protease PC2,
is required during embryogenesis and early larval development
type: journal_article
volume: 163
year: '2003'
...
---
_id: '3150'
abstract:
- lang: eng
text: Tripartite G-protein-coupled receptors (GPCRs) represent one of the largest
groups of signal transducers, transmitting signals from hormones, neuropeptides,
odorants, food and light. Ligand-bound receptors catalyse GDP/GTP exchange on
the G-protein α-subunit (Gα), leading to α-GTP separation from the βγ subunits
and pathway activation. Activating mutations in the receptors or G proteins underlie
many human diseases, including some cancers, dwarfism and premature puberty. Regulators
of G-protein signalling (RGS proteins) are known to modulate the level and duration
of ligand-induced signalling by accelerating the intrinsic GTPase activity of
the Gα subunit, and thus reformation of the inactive GDP-bound Gα. Here we find
that even in the absence of receptor, mutation of the RGS family member Sst2 (refs
6-9) permits spontaneous activation of the G-protein-coupled mating pathway in
Saccharomyces cerevisiae at levels normally seen only in the presence of ligand.
Our work demonstrates the occurence of spontaneous tripartite G-protein signalling
in vivo and identifies a requirement for RGS proteins in preventing such receptor-independent
activation.
author:
- first_name: Daria E
full_name: Daria Siekhaus
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: David
full_name: Drubin, David G
last_name: Drubin
citation:
ama: Siekhaus DE, Drubin D. Spontaneous receptor-independent heterotrimeric G-protein
signalling in an RGS mutant. Nature Cell Biology. 2003;5(3):231-235. doi:10.1038/ncb941
apa: Siekhaus, D. E., & Drubin, D. (2003). Spontaneous receptor-independent
heterotrimeric G-protein signalling in an RGS mutant. Nature Cell Biology.
Nature Publishing Group. https://doi.org/10.1038/ncb941
chicago: Siekhaus, Daria E, and David Drubin. “Spontaneous Receptor-Independent
Heterotrimeric G-Protein Signalling in an RGS Mutant.” Nature Cell Biology.
Nature Publishing Group, 2003. https://doi.org/10.1038/ncb941.
ieee: D. E. Siekhaus and D. Drubin, “Spontaneous receptor-independent heterotrimeric
G-protein signalling in an RGS mutant,” Nature Cell Biology, vol. 5, no.
3. Nature Publishing Group, pp. 231–235, 2003.
ista: Siekhaus DE, Drubin D. 2003. Spontaneous receptor-independent heterotrimeric
G-protein signalling in an RGS mutant. Nature Cell Biology. 5(3), 231–235.
mla: Siekhaus, Daria E., and David Drubin. “Spontaneous Receptor-Independent Heterotrimeric
G-Protein Signalling in an RGS Mutant.” Nature Cell Biology, vol. 5, no.
3, Nature Publishing Group, 2003, pp. 231–35, doi:10.1038/ncb941.
short: D.E. Siekhaus, D. Drubin, Nature Cell Biology 5 (2003) 231–235.
date_created: 2018-12-11T12:01:41Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T07:41:24Z
day: '01'
doi: 10.1038/ncb941
extern: 1
intvolume: ' 5'
issue: '3'
month: '03'
page: 231 - 235
publication: Nature Cell Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '3544'
quality_controlled: 0
status: public
title: Spontaneous receptor-independent heterotrimeric G-protein signalling in an
RGS mutant
type: journal_article
volume: 5
year: '2003'
...
---
_id: '3209'
abstract:
- lang: eng
text: We show that the fixed alphabet shortest common supersequence (SCS) and the
fixed alphabet longest common subsequence (LCS) problems parameterized in the
number of strings are W[1]-hard. Unless W[1]=FPT, this rules out the existence
of algorithms with time complexity of O(f(k)nα) for those problems. Here n is
the size of the problem instance, α is constant, k is the number of strings and
f is any function of k. The fixed alphabet version of the LCS problem is of particular
interest considering the importance of sequence comparison (e.g. multiple sequence
alignment) in the fixed length alphabet world of DNA and protein sequences.
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. On the parameterized complexity of the fixed alphabet shortest
common supersequence and longest common subsequence problems. Journal of Computer
and System Sciences. 2003;67(4):757-771. doi:10.1016/S0022-0000(03)00078-3
apa: Pietrzak, K. Z. (2003). On the parameterized complexity of the fixed alphabet
shortest common supersequence and longest common subsequence problems. Journal
of Computer and System Sciences. Elsevier. https://doi.org/10.1016/S0022-0000(03)00078-3
chicago: Pietrzak, Krzysztof Z. “On the Parameterized Complexity of the Fixed Alphabet
Shortest Common Supersequence and Longest Common Subsequence Problems.” Journal
of Computer and System Sciences. Elsevier, 2003. https://doi.org/10.1016/S0022-0000(03)00078-3.
ieee: K. Z. Pietrzak, “On the parameterized complexity of the fixed alphabet shortest
common supersequence and longest common subsequence problems,” Journal of Computer
and System Sciences, vol. 67, no. 4. Elsevier, pp. 757–771, 2003.
ista: Pietrzak KZ. 2003. On the parameterized complexity of the fixed alphabet shortest
common supersequence and longest common subsequence problems. Journal of Computer
and System Sciences. 67(4), 757–771.
mla: Pietrzak, Krzysztof Z. “On the Parameterized Complexity of the Fixed Alphabet
Shortest Common Supersequence and Longest Common Subsequence Problems.” Journal
of Computer and System Sciences, vol. 67, no. 4, Elsevier, 2003, pp. 757–71,
doi:10.1016/S0022-0000(03)00078-3.
short: K.Z. Pietrzak, Journal of Computer and System Sciences 67 (2003) 757–771.
date_created: 2018-12-11T12:02:01Z
date_published: 2003-12-01T00:00:00Z
date_updated: 2021-01-12T07:41:49Z
day: '01'
doi: 10.1016/S0022-0000(03)00078-3
extern: 1
intvolume: ' 67'
issue: '4'
month: '12'
page: 757 - 771
publication: Journal of Computer and System Sciences
publication_status: published
publisher: Elsevier
publist_id: '3472'
quality_controlled: 0
status: public
title: On the parameterized complexity of the fixed alphabet shortest common supersequence
and longest common subsequence problems
type: journal_article
volume: 67
year: '2003'
...
---
_id: '3210'
abstract:
- lang: eng
text: 'Luby and Rackoff showed how to construct a (super-)pseudo-random permutation
{0,1}2n→ {0,1}2n from some number r of pseudo-random functions {0,1}n → {0,1}n.
Their construction, motivated by DES, consists of a cascade of r Feistel permutations.
A Feistel permutation 1for a pseudo-random function f is defined as (L, R) → (R,L
⊕ f (R)), where L and R are the left and right part of the input and ⊕ denotes
bitwise XOR or, in this paper, any other group operation on {0,1}n. The only non-trivial
step of the security proof consists of proving that the cascade of r Feistel permutations
with independent uniform random functions {0,1}n → {0,1}n, denoted Ψ2nr is indistinguishable
from a uniform random permutation {0,1}2n → {0,1}2n by any computationally unbounded
adaptive distinguisher making at most O(2cn) combined chosen plaintext/ciphertext
queries for any c < α, where a is a security parameter. Luby and Rackoff proved
α = 1/2 for r = 4. A natural problem, proposed by Pieprzyk is to improve on α
for larger r. The best known result, α = 3/4 for r = 6, is due to Patarin. In
this paper we prove a = 1 -O(1/r), i.e., the trivial upper bound α = 1 can be
approached. The proof uses some new techniques that can be of independent interest. '
alternative_title:
- LNCS
author:
- first_name: Ueli
full_name: Maurer, Ueli M
last_name: Maurer
- first_name: Krzysztof Z
full_name: Krzysztof Pietrzak
id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
last_name: Pietrzak
orcid: 0000-0002-9139-1654
citation:
ama: 'Maurer U, Pietrzak KZ. The security of many round Luby Rackoff pseudo random
permutations. In: Vol 2656. Springer; 2003:544-561. doi:10.1007/3-540-39200-9_34'
apa: 'Maurer, U., & Pietrzak, K. Z. (2003). The security of many round Luby
Rackoff pseudo random permutations (Vol. 2656, pp. 544–561). Presented at the
EUROCRYPT: Theory and Applications of Cryptographic Techniques, Springer. https://doi.org/10.1007/3-540-39200-9_34'
chicago: Maurer, Ueli, and Krzysztof Z Pietrzak. “The Security of Many Round Luby
Rackoff Pseudo Random Permutations,” 2656:544–61. Springer, 2003. https://doi.org/10.1007/3-540-39200-9_34.
ieee: 'U. Maurer and K. Z. Pietrzak, “The security of many round Luby Rackoff pseudo
random permutations,” presented at the EUROCRYPT: Theory and Applications of Cryptographic
Techniques, 2003, vol. 2656, pp. 544–561.'
ista: 'Maurer U, Pietrzak KZ. 2003. The security of many round Luby Rackoff pseudo
random permutations. EUROCRYPT: Theory and Applications of Cryptographic Techniques,
LNCS, vol. 2656, 544–561.'
mla: Maurer, Ueli, and Krzysztof Z. Pietrzak. The Security of Many Round Luby
Rackoff Pseudo Random Permutations. Vol. 2656, Springer, 2003, pp. 544–61,
doi:10.1007/3-540-39200-9_34.
short: U. Maurer, K.Z. Pietrzak, in:, Springer, 2003, pp. 544–561.
conference:
name: 'EUROCRYPT: Theory and Applications of Cryptographic Techniques'
date_created: 2018-12-11T12:02:02Z
date_published: 2003-06-04T00:00:00Z
date_updated: 2021-01-12T07:41:49Z
day: '04'
doi: 10.1007/3-540-39200-9_34
extern: 1
intvolume: ' 2656'
month: '06'
page: 544 - 561
publication_status: published
publisher: Springer
publist_id: '3473'
quality_controlled: 0
status: public
title: The security of many round Luby Rackoff pseudo random permutations
type: conference
volume: 2656
year: '2003'
...
---
_id: '3425'
alternative_title:
- Nato Science Series II
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: T.
full_name: Strother, T.
last_name: Strother
- first_name: Wolfgang
full_name: Bauer, Wolfgang
last_name: Bauer
citation:
ama: 'Bollenbach MT, Strother T, Bauer W. 3D supernova collapse calculations. In:
Vol 166. Springer; 2003:277-288. doi:10.1007/978-1-4020-2705-5_21'
apa: Bollenbach, M. T., Strother, T., & Bauer, W. (2003). 3D supernova collapse
calculations (Vol. 166, pp. 277–288). Presented at the NATO ASI on Structure and
Dynamics of Elementary Matter, Springer. https://doi.org/10.1007/978-1-4020-2705-5_21
chicago: Bollenbach, Mark Tobias, T. Strother, and Wolfgang Bauer. “3D Supernova
Collapse Calculations,” 166:277–88. Springer, 2003. https://doi.org/10.1007/978-1-4020-2705-5_21.
ieee: M. T. Bollenbach, T. Strother, and W. Bauer, “3D supernova collapse calculations,”
presented at the NATO ASI on Structure and Dynamics of Elementary Matter, 2003,
vol. 166, pp. 277–288.
ista: Bollenbach MT, Strother T, Bauer W. 2003. 3D supernova collapse calculations.
NATO ASI on Structure and Dynamics of Elementary Matter, Nato Science Series II,
vol. 166, 277–288.
mla: Bollenbach, Mark Tobias, et al. 3D Supernova Collapse Calculations.
Vol. 166, Springer, 2003, pp. 277–88, doi:10.1007/978-1-4020-2705-5_21.
short: M.T. Bollenbach, T. Strother, W. Bauer, in:, Springer, 2003, pp. 277–288.
conference:
name: NATO ASI on Structure and Dynamics of Elementary Matter
date_created: 2018-12-11T12:03:16Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:43:23Z
day: '01'
doi: 10.1007/978-1-4020-2705-5_21
extern: '1'
intvolume: ' 166'
language:
- iso: eng
month: '01'
oa_version: None
page: 277 - 288
publication_status: published
publisher: Springer
publist_id: '2976'
status: public
title: 3D supernova collapse calculations
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 166
year: '2003'
...
---
_id: '3458'
author:
- first_name: Peter M
full_name: Peter Jonas
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Klaus
full_name: Unsicker, Klaus
last_name: Unsicker
citation:
ama: 'Jonas PM, Unsicker K. Molekulare und zelluläre Grundlagen des Nervensystems.
In: Schmidt R, ed. Lehrbuch Vorklinik. Vol B. Deutscher Ärzte Verlag; 2003:3-26.'
apa: Jonas, P. M., & Unsicker, K. (2003). Molekulare und zelluläre Grundlagen
des Nervensystems. In R. Schmidt (Ed.), Lehrbuch Vorklinik (Vol. B, pp.
3–26). Deutscher Ärzte Verlag.
chicago: Jonas, Peter M, and Klaus Unsicker. “Molekulare Und Zelluläre Grundlagen
Des Nervensystems.” In Lehrbuch Vorklinik, edited by R. Schmidt, B:3–26.
Deutscher Ärzte Verlag, 2003.
ieee: P. M. Jonas and K. Unsicker, “Molekulare und zelluläre Grundlagen des Nervensystems.,”
in Lehrbuch Vorklinik, vol. B, R. Schmidt, Ed. Deutscher Ärzte Verlag,
2003, pp. 3–26.
ista: 'Jonas PM, Unsicker K. 2003.Molekulare und zelluläre Grundlagen des Nervensystems.
In: Lehrbuch Vorklinik. vol. B, 3–26.'
mla: Jonas, Peter M., and Klaus Unsicker. “Molekulare Und Zelluläre Grundlagen Des
Nervensystems.” Lehrbuch Vorklinik, edited by R. Schmidt, vol. B, Deutscher
Ärzte Verlag, 2003, pp. 3–26.
short: P.M. Jonas, K. Unsicker, in:, R. Schmidt (Ed.), Lehrbuch Vorklinik, Deutscher
Ärzte Verlag, 2003, pp. 3–26.
date_created: 2018-12-11T12:03:26Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:43:35Z
day: '01'
editor:
- first_name: R.
full_name: Schmidt, R. F.
last_name: Schmidt
extern: 1
month: '01'
page: 3 - 26
publication: Lehrbuch Vorklinik
publication_status: published
publisher: Deutscher Ärzte Verlag
publist_id: '2929'
quality_controlled: 0
status: public
title: Molekulare und zelluläre Grundlagen des Nervensystems.
type: book_chapter
volume: B
year: '2003'
...
---
_id: '3536'
abstract:
- lang: eng
text: 'Genetic engineering of the mouse brain allows investigators to address novel
hypotheses in vivo. Because of the paucity of information on the network patterns
of the mouse hippocampus, we investigated the electrical patterns in the behaving
animal using multisite silicon probes and wire tetrodes. Theta (6-9 Hz) and gamma
(40-100 Hz) oscillations were present during exploration and rapid eye movement
sleep. Gamma power and theta power were comodulated and gamma power varied as
a function of the theta cycle. Pyramidal cells and putative interneurons were
phase-locked to theta oscillations. During immobility, consummatory behaviors
and slow-wave sleep, sharp waves were present in cornu ammonis region CA1 of the
hippocampus stratum radiatum associated with 140-200-Hz “ripples” in the pyramidal
cell layer and population burst of CA1 neurons. In the hilus, large-amplitude
“dentate spikes” occurred in association with increased discharge of hilar neurons.
The amplitude of field patterns was larger in the mouse than in the rat, likely
reflecting the higher neuron density in a smaller brain. We suggest that the main
hippocampal network patterns are mediated by similar pathways and mechanisms in
mouse and rat. '
author:
- first_name: György
full_name: Buzsáki, György
last_name: Buzsáki
- first_name: Derek
full_name: Buhl, Derek L
last_name: Buhl
- first_name: Kenneth
full_name: Harris, Kenneth D
last_name: Harris
- first_name: Jozsef L
full_name: Jozsef Csicsvari
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Boldizsár
full_name: Czéh, Boldizsár
last_name: Czéh
- first_name: Alexei
full_name: Morozov, Alexei
last_name: Morozov
citation:
ama: Buzsáki G, Buhl D, Harris K, Csicsvari JL, Czéh B, Morozov A. Hippocampal network
patterns of activity in the mouse. Neuroscience. 2003;116(1):201-211. doi:10.1016/S0306-4522(02)00669-3
apa: Buzsáki, G., Buhl, D., Harris, K., Csicsvari, J. L., Czéh, B., & Morozov,
A. (2003). Hippocampal network patterns of activity in the mouse. Neuroscience.
Elsevier. https://doi.org/10.1016/S0306-4522(02)00669-3
chicago: Buzsáki, György, Derek Buhl, Kenneth Harris, Jozsef L Csicsvari, Boldizsár
Czéh, and Alexei Morozov. “Hippocampal Network Patterns of Activity in the Mouse.”
Neuroscience. Elsevier, 2003. https://doi.org/10.1016/S0306-4522(02)00669-3.
ieee: G. Buzsáki, D. Buhl, K. Harris, J. L. Csicsvari, B. Czéh, and A. Morozov,
“Hippocampal network patterns of activity in the mouse,” Neuroscience,
vol. 116, no. 1. Elsevier, pp. 201–211, 2003.
ista: Buzsáki G, Buhl D, Harris K, Csicsvari JL, Czéh B, Morozov A. 2003. Hippocampal
network patterns of activity in the mouse. Neuroscience. 116(1), 201–211.
mla: Buzsáki, György, et al. “Hippocampal Network Patterns of Activity in the Mouse.”
Neuroscience, vol. 116, no. 1, Elsevier, 2003, pp. 201–11, doi:10.1016/S0306-4522(02)00669-3.
short: G. Buzsáki, D. Buhl, K. Harris, J.L. Csicsvari, B. Czéh, A. Morozov, Neuroscience
116 (2003) 201–211.
date_created: 2018-12-11T12:03:50Z
date_published: 2003-01-15T00:00:00Z
date_updated: 2021-01-12T07:44:09Z
day: '15'
doi: 10.1016/S0306-4522(02)00669-3
extern: 1
intvolume: ' 116'
issue: '1'
month: '01'
page: 201 - 211
publication: Neuroscience
publication_status: published
publisher: Elsevier
publist_id: '2849'
quality_controlled: 0
status: public
title: Hippocampal network patterns of activity in the mouse
type: journal_article
volume: 116
year: '2003'
...
---
_id: '3556'
abstract:
- lang: eng
text: We define the Morse-Smale complex of a Morse function over a 3-manifold as
the overlay of the descending and as- cending manifolds of all critical points.
In the generic case, its 3-dimensional cells are shaped like crystals and are
sepa- rated by quadrangular faces. In this paper, we give a combi- natorial algorithm
for constructing such complexes for piece- wise linear data.
author:
- first_name: Herbert
full_name: Herbert Edelsbrunner
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: John
full_name: Harer, John
last_name: Harer
- first_name: Vijay
full_name: Natarajan, Vijay
last_name: Natarajan
- first_name: Valerio
full_name: Pascucci, Valerio
last_name: Pascucci
citation:
ama: 'Edelsbrunner H, Harer J, Natarajan V, Pascucci V. Morse-Smale complexes for
piecewise linear 3-manifolds. In: ACM; 2003:361-370. doi:10.1145/777792.777846'
apa: 'Edelsbrunner, H., Harer, J., Natarajan, V., & Pascucci, V. (2003). Morse-Smale
complexes for piecewise linear 3-manifolds (pp. 361–370). Presented at the SCG:
Symposium on Computational Geometry, ACM. https://doi.org/10.1145/777792.777846'
chicago: Edelsbrunner, Herbert, John Harer, Vijay Natarajan, and Valerio Pascucci.
“Morse-Smale Complexes for Piecewise Linear 3-Manifolds,” 361–70. ACM, 2003. https://doi.org/10.1145/777792.777846.
ieee: 'H. Edelsbrunner, J. Harer, V. Natarajan, and V. Pascucci, “Morse-Smale complexes
for piecewise linear 3-manifolds,” presented at the SCG: Symposium on Computational
Geometry, 2003, pp. 361–370.'
ista: 'Edelsbrunner H, Harer J, Natarajan V, Pascucci V. 2003. Morse-Smale complexes
for piecewise linear 3-manifolds. SCG: Symposium on Computational Geometry, 361–370.'
mla: Edelsbrunner, Herbert, et al. Morse-Smale Complexes for Piecewise Linear
3-Manifolds. ACM, 2003, pp. 361–70, doi:10.1145/777792.777846.
short: H. Edelsbrunner, J. Harer, V. Natarajan, V. Pascucci, in:, ACM, 2003, pp.
361–370.
conference:
name: 'SCG: Symposium on Computational Geometry'
date_created: 2018-12-11T12:03:57Z
date_published: 2003-06-01T00:00:00Z
date_updated: 2021-01-12T07:44:17Z
day: '01'
doi: 10.1145/777792.777846
extern: 1
main_file_link:
- open_access: '0'
url: http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.14.9592
month: '06'
page: 361 - 370
publication_status: published
publisher: ACM
publist_id: '2829'
quality_controlled: 0
status: public
title: Morse-Smale complexes for piecewise linear 3-manifolds
type: conference
year: '2003'
...
---
_id: '3573'
abstract:
- lang: eng
text: Given a finite point set in R, the surface reconstruction problem asks for
a surface that passes through many but not necessarily all points. We describe
an unambigu- ous definition of such a surface in geometric and topological terms,
and sketch a fast algorithm for constructing it. Our solution overcomes past limitations
to special point distributions and heuristic design decisions.
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 reconstruction by wrapping finite sets in space. In:
Discrete & Computational Geometry. Springer; 2003:379-404. doi:10.1007/978-3-642-55566-4_17'
apa: Edelsbrunner, H. (2003). Surface reconstruction by wrapping finite sets in
space. In Discrete & Computational Geometry (pp. 379–404). Springer.
https://doi.org/10.1007/978-3-642-55566-4_17
chicago: Edelsbrunner, Herbert. “Surface Reconstruction by Wrapping Finite Sets
in Space.” In Discrete & Computational Geometry, 379–404. Springer,
2003. https://doi.org/10.1007/978-3-642-55566-4_17.
ieee: H. Edelsbrunner, “Surface reconstruction by wrapping finite sets in space,”
in Discrete & Computational Geometry, Springer, 2003, pp. 379–404.
ista: 'Edelsbrunner H. 2003.Surface reconstruction by wrapping finite sets in space.
In: Discrete & Computational Geometry. , 379–404.'
mla: Edelsbrunner, Herbert. “Surface Reconstruction by Wrapping Finite Sets in Space.”
Discrete & Computational Geometry, Springer, 2003, pp. 379–404, doi:10.1007/978-3-642-55566-4_17.
short: H. Edelsbrunner, in:, Discrete & Computational Geometry, Springer, 2003,
pp. 379–404.
date_created: 2018-12-11T12:04:02Z
date_published: 2003-06-23T00:00:00Z
date_updated: 2021-01-12T07:44:24Z
day: '23'
doi: 10.1007/978-3-642-55566-4_17
extern: 1
main_file_link:
- open_access: '0'
url: http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.129.3633
month: '06'
page: 379 - 404
publication: Discrete & Computational Geometry
publication_status: published
publisher: Springer
publist_id: '2812'
quality_controlled: 0
status: public
title: Surface reconstruction by wrapping finite sets in space
type: book_chapter
year: '2003'
...
---
_id: '3584'
abstract:
- lang: eng
text: We develop fast algorithms for computing the linking number of a simplicial
complex within a filtration.We give experimental results in applying our work
toward the detection of non-trivial tangling in biomolecules, modeled as alpha
complexes.
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Afra
full_name: Zomorodian, Afra
last_name: Zomorodian
citation:
ama: Edelsbrunner H, Zomorodian A. Computing linking numbers of a filtration. Homology,
Homotopy and Applications. 2003;5(2):19-37.
apa: Edelsbrunner, H., & Zomorodian, A. (2003). Computing linking numbers of
a filtration. Homology, Homotopy and Applications. International Press.
chicago: Edelsbrunner, Herbert, and Afra Zomorodian. “Computing Linking Numbers
of a Filtration.” Homology, Homotopy and Applications. International Press,
2003.
ieee: H. Edelsbrunner and A. Zomorodian, “Computing linking numbers of a filtration,”
Homology, Homotopy and Applications, vol. 5, no. 2. International Press,
pp. 19–37, 2003.
ista: Edelsbrunner H, Zomorodian A. 2003. Computing linking numbers of a filtration.
Homology, Homotopy and Applications. 5(2), 19–37.
mla: Edelsbrunner, Herbert, and Afra Zomorodian. “Computing Linking Numbers of a
Filtration.” Homology, Homotopy and Applications, vol. 5, no. 2, International
Press, 2003, pp. 19–37.
short: H. Edelsbrunner, A. Zomorodian, Homology, Homotopy and Applications 5 (2003)
19–37.
date_created: 2018-12-11T12:04:05Z
date_published: 2003-04-22T00:00:00Z
date_updated: 2021-01-12T07:44:28Z
day: '22'
extern: '1'
intvolume: ' 5'
issue: '2'
language:
- iso: eng
main_file_link:
- url: http://projecteuclid.org/euclid.hha/1088453320
month: '04'
oa_version: None
page: 19 - 37
publication: Homology, Homotopy and Applications
publication_status: published
publisher: International Press
publist_id: '2801'
quality_controlled: '1'
status: public
title: Computing linking numbers of a filtration
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2003'
...
---
_id: '3620'
abstract:
- lang: eng
text: 'Stable hybrid zones in which ecologically divergent taxa give rise to a range
of recombinants are natural laboratories in which the genetic basis of adaptation
and reproductive isolation can be unraveled. One such hybrid zone is formed by
the fire-bellied toads Bombina bombina and B. variegata (Anura: Discoglossidae).
Adaptations to permanent and ephemeral breeding habitats, respectively, have shaped
numerous phenotypic differences between the taxa. All of these are, in principle,
candidates for a genetic dissection via QTL mapping. We present here a linkage
map of 28 codominant and 10 dominant markers in the Bombina genome. In an F2 cross,
markers that were mainly microsatellites, SSCPs or allozymes were mapped to 20
linkage groups. Among the 40 isolated CA microsatellites, we noted a preponderance
of compound and frequently interleaved CA-TA repeats as well as a striking polarity
at the 5′ end of the repeats.'
author:
- first_name: Beate
full_name: Nürnberger, Beate
last_name: Nürnberger
- first_name: Sebastian
full_name: Hofman, Sebastian
last_name: Hofman
- first_name: Bqruni
full_name: Förg-Brey, Bqruni
last_name: Förg Brey
- first_name: Gabriele
full_name: Praetzel, Gabriele
last_name: Praetzel
- first_name: Alan
full_name: Maclean, Alan W
last_name: Maclean
- first_name: Jacek
full_name: Szymura, Jacek M
last_name: Szymura
- first_name: Catherine
full_name: Abbott, Catherine M
last_name: Abbott
- first_name: Nicholas H
full_name: Nicholas Barton
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Nürnberger B, Hofman S, Förg Brey B, et al. A linkage map for the hybridising
toads Bombina bombina and B. variegata (Anura: Discoglossidae). Heredity.
2003;91(2):136-142. doi:10.1038/sj.hdy.6800291'
apa: 'Nürnberger, B., Hofman, S., Förg Brey, B., Praetzel, G., Maclean, A., Szymura,
J., … Barton, N. H. (2003). A linkage map for the hybridising toads Bombina bombina
and B. variegata (Anura: Discoglossidae). Heredity. Nature Publishing Group.
https://doi.org/10.1038/sj.hdy.6800291'
chicago: 'Nürnberger, Beate, Sebastian Hofman, Bqruni Förg Brey, Gabriele Praetzel,
Alan Maclean, Jacek Szymura, Catherine Abbott, and Nicholas H Barton. “A Linkage
Map for the Hybridising Toads Bombina Bombina and B. Variegata (Anura: Discoglossidae).”
Heredity. Nature Publishing Group, 2003. https://doi.org/10.1038/sj.hdy.6800291.'
ieee: 'B. Nürnberger et al., “A linkage map for the hybridising toads Bombina
bombina and B. variegata (Anura: Discoglossidae),” Heredity, vol. 91, no.
2. Nature Publishing Group, pp. 136–142, 2003.'
ista: 'Nürnberger B, Hofman S, Förg Brey B, Praetzel G, Maclean A, Szymura J, Abbott
C, Barton NH. 2003. A linkage map for the hybridising toads Bombina bombina and
B. variegata (Anura: Discoglossidae). Heredity. 91(2), 136–142.'
mla: 'Nürnberger, Beate, et al. “A Linkage Map for the Hybridising Toads Bombina
Bombina and B. Variegata (Anura: Discoglossidae).” Heredity, vol. 91, no.
2, Nature Publishing Group, 2003, pp. 136–42, doi:10.1038/sj.hdy.6800291.'
short: B. Nürnberger, S. Hofman, B. Förg Brey, G. Praetzel, A. Maclean, J. Szymura,
C. Abbott, N.H. Barton, Heredity 91 (2003) 136–142.
date_created: 2018-12-11T12:04:17Z
date_published: 2003-08-01T00:00:00Z
date_updated: 2021-01-12T07:44:43Z
day: '01'
doi: 10.1038/sj.hdy.6800291
extern: 1
intvolume: ' 91'
issue: '2'
month: '08'
page: 136 - 142
publication: Heredity
publication_status: published
publisher: Nature Publishing Group
publist_id: '2763'
quality_controlled: 0
status: public
title: 'A linkage map for the hybridising toads Bombina bombina and B. variegata (Anura:
Discoglossidae)'
type: journal_article
volume: 91
year: '2003'
...
---
_id: '3619'
abstract:
- lang: eng
text: What is the chance that some part of a stretch of genome will survive? In
a population of constant size, and with no selection, the probability of survival
of some part of a stretch of map length y<1 approaches View the MathML source
for View the MathML source. Thus, the whole genome is certain to be lost, but
the rate of loss is extremely slow. This solution extends to give the whole distribution
of surviving block sizes as a function of time. We show that the expected number
of blocks at time t is 1+yt and give expressions for the moments of the number
of blocks and the total amount of genome that survives for a given time. The solution
is based on a branching process and assumes complete interference between crossovers,
so that each descendant carries only a single block of ancestral material. We
consider cases where most individuals carry multiple blocks, either because there
are multiple crossovers in a long genetic map, or because enough time has passed
that most individuals in the population are related to each other. For species
such as ours, which have a long genetic map, the genome of any individual which
leaves descendants (∼80% of the population for a Poisson offspring number with
mean two) is likely to persist for an extremely long time, in the form of a few
short blocks of genome.
author:
- first_name: Stuart
full_name: Baird, Stuart J
last_name: Baird
- first_name: Nicholas H
full_name: Nicholas Barton
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Alison
full_name: Etheridge, Alison M
last_name: Etheridge
citation:
ama: Baird S, Barton NH, Etheridge A. The distribution of surviving blocks of an
ancestral genome. Theoretical Population Biology. 2003;64(4):451-471. doi:10.1016/S0040-5809(03)00098-4
apa: Baird, S., Barton, N. H., & Etheridge, A. (2003). The distribution of surviving
blocks of an ancestral genome. Theoretical Population Biology. Academic
Press. https://doi.org/10.1016/S0040-5809(03)00098-4
chicago: Baird, Stuart, Nicholas H Barton, and Alison Etheridge. “The Distribution
of Surviving Blocks of an Ancestral Genome.” Theoretical Population Biology.
Academic Press, 2003. https://doi.org/10.1016/S0040-5809(03)00098-4.
ieee: S. Baird, N. H. Barton, and A. Etheridge, “The distribution of surviving blocks
of an ancestral genome,” Theoretical Population Biology, vol. 64, no. 4.
Academic Press, pp. 451–471, 2003.
ista: Baird S, Barton NH, Etheridge A. 2003. The distribution of surviving blocks
of an ancestral genome. Theoretical Population Biology. 64(4), 451–471.
mla: Baird, Stuart, et al. “The Distribution of Surviving Blocks of an Ancestral
Genome.” Theoretical Population Biology, vol. 64, no. 4, Academic Press,
2003, pp. 451–71, doi:10.1016/S0040-5809(03)00098-4.
short: S. Baird, N.H. Barton, A. Etheridge, Theoretical Population Biology 64 (2003)
451–471.
date_created: 2018-12-11T12:04:17Z
date_published: 2003-12-01T00:00:00Z
date_updated: 2021-01-12T07:44:42Z
day: '01'
doi: 10.1016/S0040-5809(03)00098-4
extern: 1
intvolume: ' 64'
issue: '4'
month: '12'
page: 451 - 471
publication: Theoretical Population Biology
publication_status: published
publisher: Academic Press
publist_id: '2764'
quality_controlled: 0
status: public
title: The distribution of surviving blocks of an ancestral genome
type: journal_article
volume: 64
year: '2003'
...
---
_id: '3618'
abstract:
- lang: eng
text: There are several analyses in evolutionary ecology which assume that a family
of offspring has come from only two parents. Here, we present a simple test for
detecting when a batch involves two or more subfamilies. It is based on the fact
that the mixing of families generates associations amongst unlinked marker loci.
We also present simulations illustrating the power of our method for varying numbers
of loci, alleles per locus and genotyped individuals.
author:
- first_name: Timothy
full_name: Vines, Timothy H
last_name: Vines
- first_name: Nicholas H
full_name: Nicholas Barton
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Vines T, Barton NH. A new approach to detecting mixed families. Molecular
Ecology. 2003;12(7):1999-2002. doi:10.1046/j.1365-294X.2003.01867.x
apa: Vines, T., & Barton, N. H. (2003). A new approach to detecting mixed families.
Molecular Ecology. Wiley-Blackwell. https://doi.org/10.1046/j.1365-294X.2003.01867.x
chicago: Vines, Timothy, and Nicholas H Barton. “A New Approach to Detecting Mixed
Families.” Molecular Ecology. Wiley-Blackwell, 2003. https://doi.org/10.1046/j.1365-294X.2003.01867.x.
ieee: T. Vines and N. H. Barton, “A new approach to detecting mixed families,” Molecular
Ecology, vol. 12, no. 7. Wiley-Blackwell, pp. 1999–2002, 2003.
ista: Vines T, Barton NH. 2003. A new approach to detecting mixed families. Molecular
Ecology. 12(7), 1999–2002.
mla: Vines, Timothy, and Nicholas H. Barton. “A New Approach to Detecting Mixed
Families.” Molecular Ecology, vol. 12, no. 7, Wiley-Blackwell, 2003, pp.
1999–2002, doi:10.1046/j.1365-294X.2003.01867.x.
short: T. Vines, N.H. Barton, Molecular Ecology 12 (2003) 1999–2002.
date_created: 2018-12-11T12:04:16Z
date_published: 2003-07-01T00:00:00Z
date_updated: 2021-01-12T07:44:42Z
day: '01'
doi: 10.1046/j.1365-294X.2003.01867.x
extern: 1
intvolume: ' 12'
issue: '7'
month: '07'
page: 1999 - 2002
publication: Molecular Ecology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '2765'
quality_controlled: 0
status: public
title: A new approach to detecting mixed families
type: journal_article
volume: 12
year: '2003'
...
---
_id: '3752'
abstract:
- lang: eng
text: We use the lac operon in Escherichia coli as a prototype system to illustrate
the current state, applicability, and limitations of modeling the dynamics of
cellular networks. We integrate three different levels of description (molecular,
cellular, and that of cell population) into a single model, which seems to capture
many experimental aspects of the system.
author:
- first_name: Jose
full_name: Vilar,Jose M
last_name: Vilar
- first_name: Calin C
full_name: Calin Guet
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- first_name: Stanislas
full_name: Leibler, Stanislas
last_name: Leibler
citation:
ama: 'Vilar J, Guet CC, Leibler S. Modeling network dynamics: the lac operon, a
case study. Journal of Cell Biology. 2003;161(3):471-476. doi:10.1083/jcb.200301125'
apa: 'Vilar, J., Guet, C. C., & Leibler, S. (2003). Modeling network dynamics:
the lac operon, a case study. Journal of Cell Biology. Rockefeller University
Press. https://doi.org/10.1083/jcb.200301125'
chicago: 'Vilar, Jose, Calin C Guet, and Stanislas Leibler. “Modeling Network Dynamics:
The Lac Operon, a Case Study.” Journal of Cell Biology. Rockefeller University
Press, 2003. https://doi.org/10.1083/jcb.200301125.'
ieee: 'J. Vilar, C. C. Guet, and S. Leibler, “Modeling network dynamics: the lac
operon, a case study,” Journal of Cell Biology, vol. 161, no. 3. Rockefeller
University Press, pp. 471–476, 2003.'
ista: 'Vilar J, Guet CC, Leibler S. 2003. Modeling network dynamics: the lac operon,
a case study. Journal of Cell Biology. 161(3), 471–476.'
mla: 'Vilar, Jose, et al. “Modeling Network Dynamics: The Lac Operon, a Case Study.”
Journal of Cell Biology, vol. 161, no. 3, Rockefeller University Press,
2003, pp. 471–76, doi:10.1083/jcb.200301125.'
short: J. Vilar, C.C. Guet, S. Leibler, Journal of Cell Biology 161 (2003) 471–476.
date_created: 2018-12-11T12:04:58Z
date_published: 2003-01-12T00:00:00Z
date_updated: 2021-01-12T07:51:57Z
day: '12'
doi: 10.1083/jcb.200301125
extern: 1
intvolume: ' 161'
issue: '3'
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2172934/?tool=pubmed
month: '01'
oa: 1
page: 471 - 476
publication: Journal of Cell Biology
publication_status: published
publisher: Rockefeller University Press
publist_id: '2475'
quality_controlled: 0
status: public
title: 'Modeling network dynamics: the lac operon, a case study'
type: journal_article
volume: 161
year: '2003'
...
---
_id: '3797'
article_processing_charge: No
author:
- first_name: Wolfgang
full_name: Bauer, Wolfgang
last_name: Bauer
- first_name: Marco
full_name: Kleine Berkenbusch, Marco
last_name: Kleine Berkenbusch
- first_name: Mark Tobias
full_name: Bollenbach, Mark Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
citation:
ama: 'Bauer W, Kleine Berkenbusch M, Bollenbach MT. Breaking atomic nuclei into
little pieces: evidence for a phase transition. Revista Mexicana De Fisica.
2003;49(4):1-6.'
apa: 'Bauer, W., Kleine Berkenbusch, M., & Bollenbach, M. T. (2003). Breaking
atomic nuclei into little pieces: evidence for a phase transition. Revista
Mexicana De Fisica. Sociedad Mexicana de Física.'
chicago: 'Bauer, Wolfgang, Marco Kleine Berkenbusch, and Mark Tobias Bollenbach.
“Breaking Atomic Nuclei into Little Pieces: Evidence for a Phase Transition.”
Revista Mexicana De Fisica. Sociedad Mexicana de Física, 2003.'
ieee: 'W. Bauer, M. Kleine Berkenbusch, and M. T. Bollenbach, “Breaking atomic nuclei
into little pieces: evidence for a phase transition,” Revista Mexicana De Fisica,
vol. 49, no. 4. Sociedad Mexicana de Física, pp. 1–6, 2003.'
ista: 'Bauer W, Kleine Berkenbusch M, Bollenbach MT. 2003. Breaking atomic nuclei
into little pieces: evidence for a phase transition. Revista Mexicana De Fisica.
49(4), 1–6.'
mla: 'Bauer, Wolfgang, et al. “Breaking Atomic Nuclei into Little Pieces: Evidence
for a Phase Transition.” Revista Mexicana De Fisica, vol. 49, no. 4, Sociedad
Mexicana de Física, 2003, pp. 1–6.'
short: W. Bauer, M. Kleine Berkenbusch, M.T. Bollenbach, Revista Mexicana De Fisica
49 (2003) 1–6.
date_created: 2018-12-11T12:05:13Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:52:16Z
day: '01'
extern: '1'
intvolume: ' 49'
issue: '4'
language:
- iso: eng
month: '01'
oa_version: None
page: 1 - 6
publication: Revista Mexicana De Fisica
publication_status: published
publisher: Sociedad Mexicana de Física
publist_id: '2413'
status: public
title: 'Breaking atomic nuclei into little pieces: evidence for a phase transition'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 49
year: '2003'
...
---
_id: '3897'
abstract:
- lang: eng
text: Many verification, planning, and control problems can be modeled as games
played on state-transition graphs by one or two players whose conflicting goals
are to form a path in the graph. The focus here is on simple stochastic parity
games, that is, two-player games with turn-based probabilistic transitions and
omega-regular objectives formalized as parity (Rabin chain) winning conditions.
An efficient translation from simple stochastic parity games to nonstochastic
parity games is given. As many algorithms are known for solving the latter, the
translation yields efficient algorithms for computing the states of a simple stochastic
parity game from which a player can win with probability 1. An important special
case of simple stochastic parity games are the Markov decision processes with
Buchi objectives. For this special case a first provably subquadratic algorithm
is given for computing the states from which the single player has a strategy
to achieve a Buchi objective with probability 1. For game graphs with m edges
the algorithm works in time O(mrootm). Interestingly, a similar technique sheds
light on the question of the computational complexity of solving simple Buchi
games and yields the first provably subquadratic algorithm, with a running time
of O(n(2)/log n) for game graphs with n vertices and O(n) edges.
acknowledgement: This research was supported in part by the DARPA grant F33615-C-98-3614,
the ONR grant N00014-02-1-0671, the NSF grants CCR-9988172 and CCR-0225610, and
the Polish KBN grant 7-T11C-027-20.
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: Marcin
full_name: Jurdziński, Marcin
last_name: Jurdziński
- first_name: Thomas A
full_name: Thomas Henzinger
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
citation:
ama: 'Chatterjee K, Jurdziński M, Henzinger TA. Simple stochastic parity games.
In: Vol 2803. Springer; 2003:100-113. doi:10.1007/978-3-540-45220-1_11'
apa: 'Chatterjee, K., Jurdziński, M., & Henzinger, T. A. (2003). Simple stochastic
parity games (Vol. 2803, pp. 100–113). Presented at the CSL: Computer Science
Logic, Springer. https://doi.org/10.1007/978-3-540-45220-1_11'
chicago: Chatterjee, Krishnendu, Marcin Jurdziński, and Thomas A Henzinger. “Simple
Stochastic Parity Games,” 2803:100–113. Springer, 2003. https://doi.org/10.1007/978-3-540-45220-1_11.
ieee: 'K. Chatterjee, M. Jurdziński, and T. A. Henzinger, “Simple stochastic parity
games,” presented at the CSL: Computer Science Logic, 2003, vol. 2803, pp. 100–113.'
ista: 'Chatterjee K, Jurdziński M, Henzinger TA. 2003. Simple stochastic parity
games. CSL: Computer Science Logic, LNCS, vol. 2803, 100–113.'
mla: Chatterjee, Krishnendu, et al. Simple Stochastic Parity Games. Vol.
2803, Springer, 2003, pp. 100–13, doi:10.1007/978-3-540-45220-1_11.
short: K. Chatterjee, M. Jurdziński, T.A. Henzinger, in:, Springer, 2003, pp. 100–113.
conference:
name: 'CSL: Computer Science Logic'
date_created: 2018-12-11T12:05:46Z
date_published: 2003-08-18T00:00:00Z
date_updated: 2021-01-12T07:53:02Z
day: '18'
doi: 10.1007/978-3-540-45220-1_11
extern: 1
intvolume: ' 2803'
month: '08'
page: 100 - 113
publication_status: published
publisher: Springer
publist_id: '2259'
quality_controlled: 0
status: public
title: Simple stochastic parity games
type: conference
volume: 2803
year: '2003'
...
---
_id: '3898'
abstract:
- lang: eng
text: We study the problem of determining stack boundedness and the exact maximum
stack size for three classes of interrupt-driven programs. Interrupt-driven programs
axe used in many real-time applications that require responsive interrupt handling.
In order to ensure responsiveness, programmers often enable interrupt processing
in the body of lower-priority interrupt handlers. In such programs a programming
error can allow interrupt handlers to be interrupted in cyclic fashion to lead
to an unbounded stack, causing the system to crash. For a restricted class of
interrupt-driven programs, we show that there is a polynomial-time procedure to
check stack boundedness, while determining the exact maximum stack size is PSPACE-complete.
For a larger class of programs, the two problems are both PSPACE-complete, and
for the largest class of programs we consider, the two problems are PSPACE-hard
and can be solved in exponential time.
acknowledgement: Jens Palsberg, Di Ma, and Tian Zhao were supported by the NSF ITR
award 0112628. Thomas A. Henzinger, Krishnendu Chatterjee, and Rupak Majumdar were
supported by the AFOSR grant F49620-00-1-0327, the DARPA grants F33615-C-98-3614
and F33615-00-C-1693, the MARCO grant 98-DT-660, and the NSF grants CCR-0208875
and CCR-0085949.
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: Di
full_name: Ma, Di
last_name: Ma
- first_name: Ritankar
full_name: Majumdar, Ritankar S
last_name: Majumdar
- first_name: Tian
full_name: Zhao, Tian
last_name: Zhao
- first_name: Thomas A
full_name: Thomas Henzinger
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Jens
full_name: Palsberg, Jens
last_name: Palsberg
citation:
ama: 'Chatterjee K, Ma D, Majumdar R, Zhao T, Henzinger TA, Palsberg J. Stack size
analysis for interrupt-driven programs. In: Vol 2694. Springer; 2003:109-126.
doi:10.1007/3-540-44898-5_7'
apa: 'Chatterjee, K., Ma, D., Majumdar, R., Zhao, T., Henzinger, T. A., & Palsberg,
J. (2003). Stack size analysis for interrupt-driven programs (Vol. 2694, pp. 109–126).
Presented at the SAS: Static Analysis Symposium, Springer. https://doi.org/10.1007/3-540-44898-5_7'
chicago: Chatterjee, Krishnendu, Di Ma, Ritankar Majumdar, Tian Zhao, Thomas A Henzinger,
and Jens Palsberg. “Stack Size Analysis for Interrupt-Driven Programs,” 2694:109–26.
Springer, 2003. https://doi.org/10.1007/3-540-44898-5_7.
ieee: 'K. Chatterjee, D. Ma, R. Majumdar, T. Zhao, T. A. Henzinger, and J. Palsberg,
“Stack size analysis for interrupt-driven programs,” presented at the SAS: Static
Analysis Symposium, 2003, vol. 2694, pp. 109–126.'
ista: 'Chatterjee K, Ma D, Majumdar R, Zhao T, Henzinger TA, Palsberg J. 2003. Stack
size analysis for interrupt-driven programs. SAS: Static Analysis Symposium, LNCS,
vol. 2694, 109–126.'
mla: Chatterjee, Krishnendu, et al. Stack Size Analysis for Interrupt-Driven
Programs. Vol. 2694, Springer, 2003, pp. 109–26, doi:10.1007/3-540-44898-5_7.
short: K. Chatterjee, D. Ma, R. Majumdar, T. Zhao, T.A. Henzinger, J. Palsberg,
in:, Springer, 2003, pp. 109–126.
conference:
name: 'SAS: Static Analysis Symposium'
date_created: 2018-12-11T12:05:46Z
date_published: 2003-05-28T00:00:00Z
date_updated: 2021-01-12T07:53:02Z
day: '28'
doi: 10.1007/3-540-44898-5_7
extern: 1
intvolume: ' 2694'
month: '05'
page: 109 - 126
publication_status: published
publisher: Springer
publist_id: '2260'
quality_controlled: 0
status: public
title: Stack size analysis for interrupt-driven programs
type: conference
volume: 2694
year: '2003'
...
---
_id: '3993'
abstract:
- lang: eng
text: We present algorithms for constructing a hierarchy of increasingly coarse
Morse-Smale complexes that decompose a piecewise linear 2-manifold. While these
complexes are defined only in the smooth category, we extend the construction
to the piecewise linearcategory by ensuring structural integrity and simulating
differentiability. We then simplify Morse-Smale complexes by canceling pairs of
critical points in order of increasing persistence.
acknowledgement: Partially supported by ARO under Grant DAAG55-98-1-0177, NSF under
Grants CCR-97-12088, EIA-9972879 and CCR-00-86013.
author:
- first_name: Herbert
full_name: Herbert Edelsbrunner
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: John
full_name: Harer, John
last_name: Harer
- first_name: Afra
full_name: Zomorodian, Afra
last_name: Zomorodian
citation:
ama: Edelsbrunner H, Harer J, Zomorodian A. Hierarchical Morse-Smale complexes for
piecewise linear 2-manifolds. Discrete & Computational Geometry. 2003;30(1):87-107.
doi:10.1007/s00454-003-2926-5
apa: Edelsbrunner, H., Harer, J., & Zomorodian, A. (2003). Hierarchical Morse-Smale
complexes for piecewise linear 2-manifolds. Discrete & Computational Geometry.
Springer. https://doi.org/10.1007/s00454-003-2926-5
chicago: Edelsbrunner, Herbert, John Harer, and Afra Zomorodian. “Hierarchical Morse-Smale
Complexes for Piecewise Linear 2-Manifolds.” Discrete & Computational Geometry.
Springer, 2003. https://doi.org/10.1007/s00454-003-2926-5.
ieee: H. Edelsbrunner, J. Harer, and A. Zomorodian, “Hierarchical Morse-Smale complexes
for piecewise linear 2-manifolds,” Discrete & Computational Geometry,
vol. 30, no. 1. Springer, pp. 87–107, 2003.
ista: Edelsbrunner H, Harer J, Zomorodian A. 2003. Hierarchical Morse-Smale complexes
for piecewise linear 2-manifolds. Discrete & Computational Geometry. 30(1),
87–107.
mla: Edelsbrunner, Herbert, et al. “Hierarchical Morse-Smale Complexes for Piecewise
Linear 2-Manifolds.” Discrete & Computational Geometry, vol. 30, no.
1, Springer, 2003, pp. 87–107, doi:10.1007/s00454-003-2926-5.
short: H. Edelsbrunner, J. Harer, A. Zomorodian, Discrete & Computational Geometry
30 (2003) 87–107.
date_created: 2018-12-11T12:06:19Z
date_published: 2003-07-01T00:00:00Z
date_updated: 2021-01-12T07:53:43Z
day: '01'
doi: 10.1007/s00454-003-2926-5
extern: 1
intvolume: ' 30'
issue: '1'
month: '07'
page: 87 - 107
publication: Discrete & Computational Geometry
publication_status: published
publisher: Springer
publist_id: '2134'
quality_controlled: 0
status: public
title: Hierarchical Morse-Smale complexes for piecewise linear 2-manifolds
type: journal_article
volume: 30
year: '2003'
...
---
_id: '3994'
abstract:
- lang: eng
text: The body defined by a finite collection of disks is a subset of the plane
bounded by a tangent continuous curve, which we call the skin. We give analytic
formulas for the area, the perimeter, the area derivative, and the perimeter derivative
of the body. Given the filtrations of the Delaunay triangulation and the Voronoi
diagram of the disks, all formulas can be evaluated in time proportional to the
number of disks.
acknowledgement: NSF under grant DMS-98-73945, ARO under grant DAAG55-98-1-0177 and
by NSF under grants CCR- 97-12088, EIA-9972879, and CCR-00-86013.
author:
- first_name: Ho
full_name: Cheng, Ho-Lun
last_name: Cheng
- first_name: Herbert
full_name: Herbert Edelsbrunner
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
citation:
ama: 'Cheng H, Edelsbrunner H. Area, perimeter and derivatives of a skin curve.
Computational Geometry: Theory and Applications. 2003;26(2):173-192. doi:10.1016/S0925-7721(02)00124-4'
apa: 'Cheng, H., & Edelsbrunner, H. (2003). Area, perimeter and derivatives
of a skin curve. Computational Geometry: Theory and Applications. Elsevier.
https://doi.org/10.1016/S0925-7721(02)00124-4'
chicago: 'Cheng, Ho, and Herbert Edelsbrunner. “Area, Perimeter and Derivatives
of a Skin Curve.” Computational Geometry: Theory and Applications. Elsevier,
2003. https://doi.org/10.1016/S0925-7721(02)00124-4.'
ieee: 'H. Cheng and H. Edelsbrunner, “Area, perimeter and derivatives of a skin
curve,” Computational Geometry: Theory and Applications, vol. 26, no. 2.
Elsevier, pp. 173–192, 2003.'
ista: 'Cheng H, Edelsbrunner H. 2003. Area, perimeter and derivatives of a skin
curve. Computational Geometry: Theory and Applications. 26(2), 173–192.'
mla: 'Cheng, Ho, and Herbert Edelsbrunner. “Area, Perimeter and Derivatives of a
Skin Curve.” Computational Geometry: Theory and Applications, vol. 26,
no. 2, Elsevier, 2003, pp. 173–92, doi:10.1016/S0925-7721(02)00124-4.'
short: 'H. Cheng, H. Edelsbrunner, Computational Geometry: Theory and Applications
26 (2003) 173–192.'
date_created: 2018-12-11T12:06:20Z
date_published: 2003-10-01T00:00:00Z
date_updated: 2021-01-12T07:53:43Z
day: '01'
doi: 10.1016/S0925-7721(02)00124-4
extern: 1
intvolume: ' 26'
issue: '2'
month: '10'
page: 173 - 192
publication: 'Computational Geometry: Theory and Applications'
publication_status: published
publisher: Elsevier
publist_id: '2135'
quality_controlled: 0
status: public
title: Area, perimeter and derivatives of a skin curve
type: journal_article
volume: 26
year: '2003'
...
---
_id: '3139'
abstract:
- lang: eng
text: Significant advances have been made during the past few years in our understanding
of how the spinal monosynaptic reflex develops. Transcription factors in the Neurogenin,
Runt, ETS, and LIM families control sequential steps of the specification of various
subtypes of dorsal root ganglia sensory neurons. The initiation of muscle spindle
differentiation requires neuregulin 1, derived from Ia afferent sensory neurons,
and signaling through ErbB receptors in intrafusal muscle fibers. Several retrograde
signals from the periphery are important for the establishment of late connectivity
in the reflex circuit. Finally, neurotrophin 3 released from muscle spindles regulates
the strength of sensory-motor connections within the spinal cord postnatally.
author:
- first_name: Hsiao
full_name: Chen, Hsiao Huei
last_name: Chen
- first_name: Simon
full_name: Simon Hippenmeyer
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Silvia
full_name: Arber, Silvia
last_name: Arber
- first_name: Eric
full_name: Frank, Eric
last_name: Frank
citation:
ama: Chen H, Hippenmeyer S, Arber S, Frank E. Development of the monosynaptic stretch
reflex circuit. Current Opinion in Neurobiology. 2003;13(1):96-102. doi:10.1016/S0959-4388(03)00006-0
apa: Chen, H., Hippenmeyer, S., Arber, S., & Frank, E. (2003). Development of
the monosynaptic stretch reflex circuit. Current Opinion in Neurobiology.
Elsevier. https://doi.org/10.1016/S0959-4388(03)00006-0
chicago: Chen, Hsiao, Simon Hippenmeyer, Silvia Arber, and Eric Frank. “Development
of the Monosynaptic Stretch Reflex Circuit.” Current Opinion in Neurobiology.
Elsevier, 2003. https://doi.org/10.1016/S0959-4388(03)00006-0.
ieee: H. Chen, S. Hippenmeyer, S. Arber, and E. Frank, “Development of the monosynaptic
stretch reflex circuit,” Current Opinion in Neurobiology, vol. 13, no.
1. Elsevier, pp. 96–102, 2003.
ista: Chen H, Hippenmeyer S, Arber S, Frank E. 2003. Development of the monosynaptic
stretch reflex circuit. Current Opinion in Neurobiology. 13(1), 96–102.
mla: Chen, Hsiao, et al. “Development of the Monosynaptic Stretch Reflex Circuit.”
Current Opinion in Neurobiology, vol. 13, no. 1, Elsevier, 2003, pp. 96–102,
doi:10.1016/S0959-4388(03)00006-0.
short: H. Chen, S. Hippenmeyer, S. Arber, E. Frank, Current Opinion in Neurobiology
13 (2003) 96–102.
date_created: 2018-12-11T12:01:37Z
date_published: 2003-02-01T00:00:00Z
date_updated: 2019-04-26T07:22:24Z
day: '01'
doi: 10.1016/S0959-4388(03)00006-0
extern: 1
intvolume: ' 13'
issue: '1'
month: '02'
page: 96 - 102
publication: Current Opinion in Neurobiology
publication_status: published
publisher: Elsevier
publist_id: '3557'
quality_controlled: 0
status: public
title: Development of the monosynaptic stretch reflex circuit
type: review
volume: 13
year: '2003'
...
---
_id: '3171'
abstract:
- lang: eng
text: 'Reconstructing a 3-D scene from more than one camera is a classical problem
in computer vision. One of the major sources of difficulty is the fact that not
all scene elements are visible from all cameras. In the last few years, two promising
approaches have been developed 11,12 that formulate the scene reconstruction problem
in terms of energy minimization, and minimize the energy using graph cuts. These
energy minimization approaches treat the input images symmetrically, handle visibility
constraints correctly, and allow spatial smoothness to be enforced. However, these
algorithm propose different problem formulations, and handle a limited class of
smoothness terms. One algorithm 11 uses a problem formulation that is restricted
to two-camera stereo, and imposes smoothness between a pair of cameras. The other
algorithm 12 can handle an arbitrary number of cameras, but imposes smoothness
only with respect to a single camera. In this paper we give a more general energy
minimization formulation for the problem, which allows a larger class of spatial
smoothness constraints. We show that our formulation includes both of the previous
approaches as special cases, as well as permitting new energy functions. Experimental
results on real data with ground truth are also included. '
alternative_title:
- LNCS
author:
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Ramin
full_name: Zabih, Ramin
last_name: Zabih
- first_name: Steven
full_name: Gortler, Steven
last_name: Gortler
citation:
ama: 'Kolmogorov V, Zabih R, Gortler S. Generalized multi camera scene reconstruction
using graph cuts. In: Vol 2683. Springer; 2003:501-516. doi:10.1007/978-3-540-45063-4_32'
apa: 'Kolmogorov, V., Zabih, R., & Gortler, S. (2003). Generalized multi camera
scene reconstruction using graph cuts (Vol. 2683, pp. 501–516). Presented at the
EMMCVPR: Energy Minimization Methods in Computer Vision and Pattern Recognition,
Springer. https://doi.org/10.1007/978-3-540-45063-4_32'
chicago: Kolmogorov, Vladimir, Ramin Zabih, and Steven Gortler. “Generalized Multi
Camera Scene Reconstruction Using Graph Cuts,” 2683:501–16. Springer, 2003. https://doi.org/10.1007/978-3-540-45063-4_32.
ieee: 'V. Kolmogorov, R. Zabih, and S. Gortler, “Generalized multi camera scene
reconstruction using graph cuts,” presented at the EMMCVPR: Energy Minimization
Methods in Computer Vision and Pattern Recognition, 2003, vol. 2683, pp. 501–516.'
ista: 'Kolmogorov V, Zabih R, Gortler S. 2003. Generalized multi camera scene reconstruction
using graph cuts. EMMCVPR: Energy Minimization Methods in Computer Vision and
Pattern Recognition, LNCS, vol. 2683, 501–516.'
mla: Kolmogorov, Vladimir, et al. Generalized Multi Camera Scene Reconstruction
Using Graph Cuts. Vol. 2683, Springer, 2003, pp. 501–16, doi:10.1007/978-3-540-45063-4_32.
short: V. Kolmogorov, R. Zabih, S. Gortler, in:, Springer, 2003, pp. 501–516.
conference:
name: 'EMMCVPR: Energy Minimization Methods in Computer Vision and Pattern Recognition'
date_created: 2018-12-11T12:01:48Z
date_published: 2003-06-26T00:00:00Z
date_updated: 2021-01-12T07:41:34Z
day: '26'
doi: 10.1007/978-3-540-45063-4_32
extern: 1
intvolume: ' 2683'
month: '06'
page: 501 - 516
publication_status: published
publisher: Springer
publist_id: '3512'
quality_controlled: 0
status: public
title: Generalized multi camera scene reconstruction using graph cuts
type: conference
volume: 2683
year: '2003'
...
---
_id: '3174'
abstract:
- lang: eng
text: We address visual correspondence problems without assuming that scene points
have similar intensities in different views. This situation is common, usually
due to non-lambertian scenes or to differences between cameras. We use maximization
of mutual information, a powerful technique for registering images that requires
no a priori model of the relationship between scene intensities in different views.
However, it has proven difficult to use mutual information to compute dense visual
correspondence. Comparing fixed-size windows via mutual information suffers from
the well-known problems of fixed windows, namely poor performance at discontinuities
and in low-texture regions. In this paper, we show how to compute visual correspondence
using mutual information without suffering from these problems. Using 'a simple
approximation, mutual information can be incorporated into the standard energy
minimization framework used in early vision. The energy can then be efficiently
minimized using graph cuts, which preserve discontinuities and handle low-texture
regions. The resulting algorithm combines the accurate disparity maps that come
from graph cuts with the tolerance for intensity changes that comes from mutual
information.
author:
- first_name: Junhwan
full_name: Kim, Junhwan
last_name: Kim
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Ramin
full_name: Zabih, Ramin
last_name: Zabih
citation:
ama: 'Kim J, Kolmogorov V, Zabih R. Visual correspondence using energy minimization
and mutual information. In: Vol 2. IEEE; 2003:1033-1040. doi:10.1109/ICCV.2003.1238463'
apa: 'Kim, J., Kolmogorov, V., & Zabih, R. (2003). Visual correspondence using
energy minimization and mutual information (Vol. 2, pp. 1033–1040). Presented
at the ICCV: International Conference on Computer Vision, IEEE. https://doi.org/10.1109/ICCV.2003.1238463'
chicago: Kim, Junhwan, Vladimir Kolmogorov, and Ramin Zabih. “Visual Correspondence
Using Energy Minimization and Mutual Information,” 2:1033–40. IEEE, 2003. https://doi.org/10.1109/ICCV.2003.1238463.
ieee: 'J. Kim, V. Kolmogorov, and R. Zabih, “Visual correspondence using energy
minimization and mutual information,” presented at the ICCV: International Conference
on Computer Vision, 2003, vol. 2, pp. 1033–1040.'
ista: 'Kim J, Kolmogorov V, Zabih R. 2003. Visual correspondence using energy minimization
and mutual information. ICCV: International Conference on Computer Vision vol.
2, 1033–1040.'
mla: Kim, Junhwan, et al. Visual Correspondence Using Energy Minimization and
Mutual Information. Vol. 2, IEEE, 2003, pp. 1033–40, doi:10.1109/ICCV.2003.1238463.
short: J. Kim, V. Kolmogorov, R. Zabih, in:, IEEE, 2003, pp. 1033–1040.
conference:
name: 'ICCV: International Conference on Computer Vision'
date_created: 2018-12-11T12:01:49Z
date_published: 2003-09-30T00:00:00Z
date_updated: 2021-01-12T07:41:35Z
day: '30'
doi: 10.1109/ICCV.2003.1238463
extern: 1
intvolume: ' 2'
month: '09'
page: 1033 - 1040
publication_status: published
publisher: IEEE
publist_id: '3510'
quality_controlled: 0
status: public
title: Visual correspondence using energy minimization and mutual information
type: conference
volume: 2
year: '2003'
...
---
_id: '3170'
abstract:
- lang: eng
text: Geodesic active contours and graph cuts are two standard image segmentation
techniques. We introduce a new segmentation method combining some of their benefits.
Our main intuition is that any cut on a graph embedded in some continuous space
can be interpreted as a contour (in 2D) or a surface (in 3D). We show how to build
a grid graph and set its edge weights so that the cost of cuts is arbitrarily
close to the length (area) of the corresponding contours (surfaces) for any anisotropic
Riemannian metric. There are two interesting consequences of this technical result.
First, graph cut algorithms can be used to find globally minimum geodesic contours
(minimal surfaces in 3D) under arbitrary Riemannian metric for a given set of
boundary conditions. Second, we show how to minimize metrication artifacts in
existing graph-cut based methods in vision. Theoretically speaking, our work provides
an interesting link between several branches of mathematics -differential geometry,
integral geometry, and combinatorial optimization. The main technical problem
is solved using Cauchy-Crofton formula from integral geometry.
author:
- first_name: Yuri
full_name: Boykov, Yuri
last_name: Boykov
- first_name: Vladimir
full_name: Vladimir Kolmogorov
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
citation:
ama: 'Boykov Y, Kolmogorov V. Computing geodesics and minimal surfaces via graph
cuts. In: Vol 1. IEEE; 2003:26-33. doi:10.1109/ICCV.2003.1238310'
apa: 'Boykov, Y., & Kolmogorov, V. (2003). Computing geodesics and minimal surfaces
via graph cuts (Vol. 1, pp. 26–33). Presented at the ICCV: International Conference
on Computer Vision, IEEE. https://doi.org/10.1109/ICCV.2003.1238310'
chicago: Boykov, Yuri, and Vladimir Kolmogorov. “Computing Geodesics and Minimal
Surfaces via Graph Cuts,” 1:26–33. IEEE, 2003. https://doi.org/10.1109/ICCV.2003.1238310.
ieee: 'Y. Boykov and V. Kolmogorov, “Computing geodesics and minimal surfaces via
graph cuts,” presented at the ICCV: International Conference on Computer Vision,
2003, vol. 1, pp. 26–33.'
ista: 'Boykov Y, Kolmogorov V. 2003. Computing geodesics and minimal surfaces via
graph cuts. ICCV: International Conference on Computer Vision vol. 1, 26–33.'
mla: Boykov, Yuri, and Vladimir Kolmogorov. Computing Geodesics and Minimal Surfaces
via Graph Cuts. Vol. 1, IEEE, 2003, pp. 26–33, doi:10.1109/ICCV.2003.1238310.
short: Y. Boykov, V. Kolmogorov, in:, IEEE, 2003, pp. 26–33.
conference:
name: 'ICCV: International Conference on Computer Vision'
date_created: 2018-12-11T12:01:48Z
date_published: 2003-09-30T00:00:00Z
date_updated: 2021-01-12T07:41:33Z
day: '30'
doi: 10.1109/ICCV.2003.1238310
extern: 1
intvolume: ' 1'
month: '09'
page: 26 - 33
publication_status: published
publisher: IEEE
publist_id: '3511'
quality_controlled: 0
status: public
title: Computing geodesics and minimal surfaces via graph cuts
type: conference
volume: 1
year: '2003'
...
---
_id: '3526'
abstract:
- lang: eng
text: Neurons can produce action potentials with high temporal precision(1). A fundamental
issue is whether, and how, this capability is used in information processing.
According to the `cell assembly' hypothesis, transient synchrony of anatomically
distributed groups of neurons underlies processing of both external sensory input
and internal cognitive mechanisms(2-4). Accordingly, neuron populations should
be arranged into groups whose synchrony exceeds that predicted by common modulation
by sensory input. Here we find that the spike times of hippocampal pyramidal cells
can be predicted more accurately by using the spike times of simultaneously recorded
neurons in addition to the animals location in space. This improvement remained
when the spatial prediction was refined with a spatially dependent theta phase
modulation(5-8). The time window in which spike times are best predicted from
simultaneous peer activity is 10-30 ms, suggesting that cell assemblies are synchronized
at this timescale. Because this temporal window matches the membrane time constant
of pyramidal neurons(9), the period of the hippocampal gamma oscillation(10) and
the time window for synaptic plasticity(11), we propose that cooperative activity
at this timescale is optimal for information transmission and storage in cortical
circuits.
author:
- first_name: Kenneth
full_name: Harris, Kenneth D
last_name: Harris
- first_name: Jozsef L
full_name: Jozsef Csicsvari
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Hajima
full_name: Hirase, Hajima
last_name: Hirase
- first_name: George
full_name: Dragoi, George
last_name: Dragoi
- first_name: György
full_name: Buzsáki, György
last_name: Buzsáki
citation:
ama: Harris K, Csicsvari JL, Hirase H, Dragoi G, Buzsáki G. Organization of cell
assemblies in the hippocampus. Nature. 2003;424(6948):552-556. doi:0.1038/nature01834
apa: Harris, K., Csicsvari, J. L., Hirase, H., Dragoi, G., & Buzsáki, G. (2003).
Organization of cell assemblies in the hippocampus. Nature. Nature Publishing
Group. https://doi.org/0.1038/nature01834
chicago: Harris, Kenneth, Jozsef L Csicsvari, Hajima Hirase, George Dragoi, and
György Buzsáki. “Organization of Cell Assemblies in the Hippocampus.” Nature.
Nature Publishing Group, 2003. https://doi.org/0.1038/nature01834.
ieee: K. Harris, J. L. Csicsvari, H. Hirase, G. Dragoi, and G. Buzsáki, “Organization
of cell assemblies in the hippocampus,” Nature, vol. 424, no. 6948. Nature
Publishing Group, pp. 552–556, 2003.
ista: Harris K, Csicsvari JL, Hirase H, Dragoi G, Buzsáki G. 2003. Organization
of cell assemblies in the hippocampus. Nature. 424(6948), 552–556.
mla: Harris, Kenneth, et al. “Organization of Cell Assemblies in the Hippocampus.”
Nature, vol. 424, no. 6948, Nature Publishing Group, 2003, pp. 552–56,
doi:0.1038/nature01834.
short: K. Harris, J.L. Csicsvari, H. Hirase, G. Dragoi, G. Buzsáki, Nature 424 (2003)
552–556.
date_created: 2018-12-11T12:03:47Z
date_published: 2003-07-31T00:00:00Z
date_updated: 2021-01-12T07:44:04Z
day: '31'
doi: 0.1038/nature01834
extern: 1
intvolume: ' 424'
issue: '6948'
month: '07'
page: 552 - 556
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '2859'
quality_controlled: 0
status: public
title: Organization of cell assemblies in the hippocampus
type: journal_article
volume: 424
year: '2003'
...
---
_id: '3529'
abstract:
- lang: eng
text: Parallel recording of neuronal activity in the behaving animal is a prerequisite
for our understanding of neuronal representation and storage of information. Here
we describe the development of micro-machined silicon microelectrode arrays for
unit and local field recordings. The two-dimensional probes with 96 or 64 recording
sites provided high-density recording of unit and field activity with minimal
tissue displacement or damage. The on-chip active circuit eliminated movement
and other artifacts and greatly reduced the weight of the headgear. The precise
geometry of the recording tips allowed for the estimation of the spatial location
of the recorded neurons and for high-resolution estimation of extracellular current
source density. Action potentials could be simultaneously recorded from the soma
and dendrites of the same neurons. Silicon technology is a promising approach
for high-density, high-resolution sampling of neuronal activity in both basic
research and prosthetic devices.
author:
- first_name: Jozsef L
full_name: Jozsef Csicsvari
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Darrell
full_name: Henze, Darrell A
last_name: Henze
- first_name: Brian
full_name: Jamieson, Brian G
last_name: Jamieson
- first_name: Kenneth
full_name: Harris, Kenneth D
last_name: Harris
- first_name: Anton
full_name: Sirota, Anton M
last_name: Sirota
- first_name: Peter
full_name: Bartho, Peter
last_name: Bartho
- first_name: Kensall
full_name: Wise, Kensall D
last_name: Wise
- first_name: György
full_name: Buzsáki, György
last_name: Buzsáki
citation:
ama: Csicsvari JL, Henze D, Jamieson B, et al. Massively parallel recording of unit
and local field potentials with silicon-based electrodes. Journal of Neurophysiology.
2003;90(2):1314-1323. doi:10.1152/jn.00116.2003
apa: Csicsvari, J. L., Henze, D., Jamieson, B., Harris, K., Sirota, A., Bartho,
P., … Buzsáki, G. (2003). Massively parallel recording of unit and local field
potentials with silicon-based electrodes. Journal of Neurophysiology. American
Physiological Society. https://doi.org/10.1152/jn.00116.2003
chicago: Csicsvari, Jozsef L, Darrell Henze, Brian Jamieson, Kenneth Harris, Anton
Sirota, Peter Bartho, Kensall Wise, and György Buzsáki. “Massively Parallel Recording
of Unit and Local Field Potentials with Silicon-Based Electrodes.” Journal
of Neurophysiology. American Physiological Society, 2003. https://doi.org/10.1152/jn.00116.2003.
ieee: J. L. Csicsvari et al., “Massively parallel recording of unit and local
field potentials with silicon-based electrodes,” Journal of Neurophysiology,
vol. 90, no. 2. American Physiological Society, pp. 1314–1323, 2003.
ista: Csicsvari JL, Henze D, Jamieson B, Harris K, Sirota A, Bartho P, Wise K, Buzsáki
G. 2003. Massively parallel recording of unit and local field potentials with
silicon-based electrodes. Journal of Neurophysiology. 90(2), 1314–1323.
mla: Csicsvari, Jozsef L., et al. “Massively Parallel Recording of Unit and Local
Field Potentials with Silicon-Based Electrodes.” Journal of Neurophysiology,
vol. 90, no. 2, American Physiological Society, 2003, pp. 1314–23, doi:10.1152/jn.00116.2003.
short: J.L. Csicsvari, D. Henze, B. Jamieson, K. Harris, A. Sirota, P. Bartho, K.
Wise, G. Buzsáki, Journal of Neurophysiology 90 (2003) 1314–1323.
date_created: 2018-12-11T12:03:48Z
date_published: 2003-08-01T00:00:00Z
date_updated: 2021-01-12T07:44:05Z
day: '01'
doi: 10.1152/jn.00116.2003
extern: 1
intvolume: ' 90'
issue: '2'
month: '08'
page: 1314 - 1323
publication: Journal of Neurophysiology
publication_status: published
publisher: American Physiological Society
publist_id: '2856'
quality_controlled: 0
status: public
title: Massively parallel recording of unit and local field potentials with silicon-based
electrodes
type: journal_article
volume: 90
year: '2003'
...
---
_id: '3528'
abstract:
- lang: eng
text: Gamma frequency oscillations (30-100 Hz) have been suggested to underlie various
cognitive and motor functions. Here, we examine the generation of gamma oscillation
currents in the hippocampus, using two-dimensional, 96-site silicon probes. Two
gamma generators were identified, one in the dentate gyrus and another in the
CA3-CA1 regions. The coupling strength between the two oscillators varied during
both theta and nontheta states. Both pyramidal cells and interneurons were phase-locked
to gamma waves. Anatomical connectivity, rather than physical distance, determined
the coupling strength of the oscillating neurons. CA3 pyramidal neurons discharged
CA3 and CA1 interneurons at latencies indicative of monosynaptic connections.
Intrahippocampal gamma oscillation emerges in the CA3 recurrent system, which
entrains the CA1 region via its interneurons.
author:
- first_name: Jozsef L
full_name: Jozsef Csicsvari
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Brian
full_name: Jamieson, Brian G
last_name: Jamieson
- first_name: Kensall
full_name: Wise, Kensall D
last_name: Wise
- first_name: György
full_name: Buzsáki, György
last_name: Buzsáki
citation:
ama: Csicsvari JL, Jamieson B, Wise K, Buzsáki G. Mechanisms of gamma oscillations
in the hippocampus of the behaving rat. Neuron. 2003;37(2):311-322. doi:10.1016/S0896-6273(02)01169-8
apa: Csicsvari, J. L., Jamieson, B., Wise, K., & Buzsáki, G. (2003). Mechanisms
of gamma oscillations in the hippocampus of the behaving rat. Neuron. Elsevier.
https://doi.org/10.1016/S0896-6273(02)01169-8
chicago: Csicsvari, Jozsef L, Brian Jamieson, Kensall Wise, and György Buzsáki.
“Mechanisms of Gamma Oscillations in the Hippocampus of the Behaving Rat.” Neuron.
Elsevier, 2003. https://doi.org/10.1016/S0896-6273(02)01169-8.
ieee: J. L. Csicsvari, B. Jamieson, K. Wise, and G. Buzsáki, “Mechanisms of gamma
oscillations in the hippocampus of the behaving rat,” Neuron, vol. 37,
no. 2. Elsevier, pp. 311–322, 2003.
ista: Csicsvari JL, Jamieson B, Wise K, Buzsáki G. 2003. Mechanisms of gamma oscillations
in the hippocampus of the behaving rat. Neuron. 37(2), 311–322.
mla: Csicsvari, Jozsef L., et al. “Mechanisms of Gamma Oscillations in the Hippocampus
of the Behaving Rat.” Neuron, vol. 37, no. 2, Elsevier, 2003, pp. 311–22,
doi:10.1016/S0896-6273(02)01169-8.
short: J.L. Csicsvari, B. Jamieson, K. Wise, G. Buzsáki, Neuron 37 (2003) 311–322.
date_created: 2018-12-11T12:03:48Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:44:05Z
day: '01'
doi: 10.1016/S0896-6273(02)01169-8
extern: 1
intvolume: ' 37'
issue: '2'
month: '01'
page: 311 - 322
publication: Neuron
publication_status: published
publisher: Elsevier
publist_id: '2857'
quality_controlled: 0
status: public
title: Mechanisms of gamma oscillations in the hippocampus of the behaving rat
type: journal_article
volume: 37
year: '2003'
...
---
_id: '3543'
abstract:
- lang: eng
text: Both neocortical and hippocampal networks organize the firing patterns of
their neurons by prominent oscillations during sleep, but the functional role
of these rhythms is not well understood. Here, we show a robust correlation of
neuronal discharges between the somatosensory cortex and hippocampus on both slow
and fine time scales in the mouse and rat. Neuronal bursts in deep cortical layers,
associated with sleep spindles and delta waves/slow rhythm, effectively triggered
hippocampal discharges related to fast (ripple) oscillations. We hypothesize that
oscillation-mediated temporal links coordinate specific information transfer between
neocortical and hippocampal cell assemblies. Such a neocortical-hippocampal interplay
may be important for memory consolidation.
author:
- first_name: Anton
full_name: Sirota, Anton M
last_name: Sirota
- first_name: Jozsef L
full_name: Jozsef Csicsvari
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Derek
full_name: Buhl, Derek L
last_name: Buhl
- first_name: György
full_name: Buzsáki, György
last_name: Buzsáki
citation:
ama: Sirota A, Csicsvari JL, Buhl D, Buzsáki G. Communication between neocortex
and hippocampus during sleep in rodents. PNAS. 2003;100(4):2065-2069. doi:10.1073/pnas.0437938100
apa: Sirota, A., Csicsvari, J. L., Buhl, D., & Buzsáki, G. (2003). Communication
between neocortex and hippocampus during sleep in rodents. PNAS. National
Academy of Sciences. https://doi.org/10.1073/pnas.0437938100
chicago: Sirota, Anton, Jozsef L Csicsvari, Derek Buhl, and György Buzsáki. “Communication
between Neocortex and Hippocampus during Sleep in Rodents.” PNAS. National
Academy of Sciences, 2003. https://doi.org/10.1073/pnas.0437938100.
ieee: A. Sirota, J. L. Csicsvari, D. Buhl, and G. Buzsáki, “Communication between
neocortex and hippocampus during sleep in rodents,” PNAS, vol. 100, no.
4. National Academy of Sciences, pp. 2065–2069, 2003.
ista: Sirota A, Csicsvari JL, Buhl D, Buzsáki G. 2003. Communication between neocortex
and hippocampus during sleep in rodents. PNAS. 100(4), 2065–2069.
mla: Sirota, Anton, et al. “Communication between Neocortex and Hippocampus during
Sleep in Rodents.” PNAS, vol. 100, no. 4, National Academy of Sciences,
2003, pp. 2065–69, doi:10.1073/pnas.0437938100.
short: A. Sirota, J.L. Csicsvari, D. Buhl, G. Buzsáki, PNAS 100 (2003) 2065–2069.
date_created: 2018-12-11T12:03:53Z
date_published: 2003-02-18T00:00:00Z
date_updated: 2021-01-12T07:44:12Z
day: '18'
doi: 10.1073/pnas.0437938100
extern: 1
intvolume: ' 100'
issue: '4'
month: '02'
page: 2065 - 2069
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '2841'
quality_controlled: 0
status: public
title: Communication between neocortex and hippocampus during sleep in rodents
type: journal_article
volume: 100
year: '2003'
...
---
_id: '3593'
abstract:
- lang: eng
text: Temporal logics such as Computation Tree Logic (CTL) and Linear Temporal Logic
(LTL) have become popular for specifying temporal properties over a wide variety
of planning and verification problems. In this paper we work towards building
a generalized framework for automated reasoning based on temporal logics. We present
a powerful extension of CTL with first-order quantification over the set of reachable
states for reasoning about extremal properties of weighted labeled transition
systems in general. The proposed logic, which we call Weighted Quantified Computation
Tree Logic (WQCTL), captures the essential elements common to the domain of planning
and verification problems and can thereby be used as an effective specification
language in both domains. We show that in spite of the rich, expressive power
of the logic, we are able to evaluate WQCTL formulas in time polynomial in the
size of the state space times the length of the formula. Wepresent experimental
results on the WQCTL verifier.
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. A branching time temporal framework
for quantitative reasoning. Journal of Automated Reasoning. 2003;30(2):205-232.
doi:10.1023/A:1023217515688
apa: Chatterjee, K., Dasgupta, P., & Chakrabarti, P. (2003). A branching time
temporal framework for quantitative reasoning. Journal of Automated Reasoning.
Springer. https://doi.org/10.1023/A:1023217515688
chicago: Chatterjee, Krishnendu, Pallab Dasgupta, and Partha Chakrabarti. “A Branching
Time Temporal Framework for Quantitative Reasoning.” Journal of Automated Reasoning.
Springer, 2003. https://doi.org/10.1023/A:1023217515688.
ieee: K. Chatterjee, P. Dasgupta, and P. Chakrabarti, “A branching time temporal
framework for quantitative reasoning,” Journal of Automated Reasoning,
vol. 30, no. 2. Springer, pp. 205–232, 2003.
ista: Chatterjee K, Dasgupta P, Chakrabarti P. 2003. A branching time temporal framework
for quantitative reasoning. Journal of Automated Reasoning. 30(2), 205–232.
mla: Chatterjee, Krishnendu, et al. “A Branching Time Temporal Framework for Quantitative
Reasoning.” Journal of Automated Reasoning, vol. 30, no. 2, Springer, 2003,
pp. 205–32, doi:10.1023/A:1023217515688.
short: K. Chatterjee, P. Dasgupta, P. Chakrabarti, Journal of Automated Reasoning
30 (2003) 205–232.
date_created: 2018-12-11T12:04:08Z
date_published: 2003-02-01T00:00:00Z
date_updated: 2021-01-12T07:44:31Z
day: '01'
doi: 10.1023/A:1023217515688
extern: 1
intvolume: ' 30'
issue: '2'
month: '02'
page: 205 - 232
publication: Journal of Automated Reasoning
publication_status: published
publisher: Springer
publist_id: '2790'
quality_controlled: 0
status: public
title: A branching time temporal framework for quantitative reasoning
type: journal_article
volume: 30
year: '2003'
...
---
_id: '3678'
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. The Neumann operator in strictly pseudoconvex domains with weighted
Bergman metric . Bonner Mathematische Schriften. 2003;356:1-165.
apa: Lampert, C. (2003). The Neumann operator in strictly pseudoconvex domains
with weighted Bergman metric . Bonner Mathematische Schriften. Universität
Bonn, Fachbibliothek Mathematik.
chicago: Lampert, Christoph. “The Neumann Operator in Strictly Pseudoconvex Domains
with Weighted Bergman Metric .” Bonner Mathematische Schriften. Universität
Bonn, Fachbibliothek Mathematik, 2003.
ieee: C. Lampert, “The Neumann operator in strictly pseudoconvex domains with weighted
Bergman metric ,” Universität Bonn, Fachbibliothek Mathematik, 2003.
ista: Lampert C. 2003. The Neumann operator in strictly pseudoconvex domains with
weighted Bergman metric . Universität Bonn, Fachbibliothek Mathematik.
mla: Lampert, Christoph. “The Neumann Operator in Strictly Pseudoconvex Domains
with Weighted Bergman Metric .” Bonner Mathematische Schriften, vol. 356,
Universität Bonn, Fachbibliothek Mathematik, 2003, pp. 1–165.
short: C. Lampert, The Neumann Operator in Strictly Pseudoconvex Domains with Weighted
Bergman Metric , Universität Bonn, Fachbibliothek Mathematik, 2003.
date_created: 2018-12-11T12:04:34Z
date_published: 2003-03-31T00:00:00Z
date_updated: 2021-01-12T07:45:05Z
day: '31'
extern: 1
intvolume: ' 356'
main_file_link:
- open_access: '0'
url: http://pub.ist.ac.at/~chl/papers/lampert-phd2003.pdf
month: '03'
page: 1 - 165
publication: Bonner Mathematische Schriften
publication_status: published
publisher: Universität Bonn, Fachbibliothek Mathematik
publist_id: '2704'
quality_controlled: 0
status: public
title: 'The Neumann operator in strictly pseudoconvex domains with weighted Bergman
metric '
type: dissertation
volume: 356
year: '2003'
...
---
_id: '3725'
abstract:
- lang: eng
text: The combination of high-resolution atomic force microscopy (AFM) imaging and
single-molecule force-spectroscopy was employed to unfold single bacteriorhodopsins
(BR) from native purple membrane patches at various physiologically relevant temperatures.
The unfolding spectra reveal detailed insight into the stability of individual
structural elements of BR against mechanical unfolding. Intermittent states in
the unfolding process are associated with the stepwise unfolding of alpha-helices,
whereas other states are associated with the unfolding of polypeptide loops connecting
the alpha-helices. It was found that the unfolding forces of the secondary structures
considerably decreased upon increasing the temperature from 8 to 52°C. Associated
with this effect, the probability of individual unfolding pathways of BR was significantly
influenced by the temperature. At lower temperatures, transmembrane alpha-helices
and extracellular polypeptide loops exhibited sufficient stability to individually
establish potential barriers against unfolding, whereas they predominantly unfolded
collectively at elevated temperatures. This suggests that increasing the temperature
decreases the mechanical stability of secondary structural elements and changes
molecular interactions between secondary structures, thereby forcing them to act
as grouped structures.
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: Max
full_name: Kessler, Max
last_name: Kessler
- first_name: Dieter
full_name: Oesterhelt, Dieter
last_name: Oesterhelt
- first_name: Hermann
full_name: Gaub, Hermann
last_name: Gaub
- first_name: Daniel
full_name: Mueller, Daniel J
last_name: Mueller
citation:
ama: Janovjak HL, Kessler M, Oesterhelt D, Gaub H, Mueller D. Unfolding pathways
of native bacteriorhodopsin depend on temperature. EMBO Journal. 2003;22(19):5220-5229.
doi:10.1093/emboj/cdg509
apa: Janovjak, H. L., Kessler, M., Oesterhelt, D., Gaub, H., & Mueller, D. (2003).
Unfolding pathways of native bacteriorhodopsin depend on temperature. EMBO
Journal. Wiley-Blackwell. https://doi.org/10.1093/emboj/cdg509
chicago: Janovjak, Harald L, Max Kessler, Dieter Oesterhelt, Hermann Gaub, and Daniel
Mueller. “Unfolding Pathways of Native Bacteriorhodopsin Depend on Temperature.”
EMBO Journal. Wiley-Blackwell, 2003. https://doi.org/10.1093/emboj/cdg509.
ieee: H. L. Janovjak, M. Kessler, D. Oesterhelt, H. Gaub, and D. Mueller, “Unfolding
pathways of native bacteriorhodopsin depend on temperature,” EMBO Journal,
vol. 22, no. 19. Wiley-Blackwell, pp. 5220–5229, 2003.
ista: Janovjak HL, Kessler M, Oesterhelt D, Gaub H, Mueller D. 2003. Unfolding pathways
of native bacteriorhodopsin depend on temperature. EMBO Journal. 22(19), 5220–5229.
mla: Janovjak, Harald L., et al. “Unfolding Pathways of Native Bacteriorhodopsin
Depend on Temperature.” EMBO Journal, vol. 22, no. 19, Wiley-Blackwell,
2003, pp. 5220–29, doi:10.1093/emboj/cdg509.
short: H.L. Janovjak, M. Kessler, D. Oesterhelt, H. Gaub, D. Mueller, EMBO Journal
22 (2003) 5220–5229.
date_created: 2018-12-11T12:04:50Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:51:45Z
day: '01'
doi: 10.1093/emboj/cdg509
extern: 1
intvolume: ' 22'
issue: '19'
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC204492/
month: '01'
oa: 1
page: 5220 - 5229
publication: EMBO Journal
publication_status: published
publisher: Wiley-Blackwell
publist_id: '2506'
quality_controlled: 0
status: public
title: Unfolding pathways of native bacteriorhodopsin depend on temperature
type: journal_article
volume: 22
year: '2003'
...
---
_id: '3804'
abstract:
- lang: eng
text: Kv3 channels are thought to be essential for the fast-spiking (FS) phenotype
in GABAergic interneurons, but how these channels confer the ability to generate
action potentials (APs) at high frequency is unknown. To address this question,
we developed a fast dynamic-clamp system (approximately 50 kHz) that allowed us
to add a Kv3 model conductance to CA1 oriens alveus (OA) interneurons in hippocampal
slices. Selective pharmacological block of Kv3 channels by 0.3 mm 4-aminopyridine
or 1 mm tetraethylammonium ions led to a marked broadening of APs during trains
of short stimuli and a reduction in AP frequency during 1 sec stimuli. The addition
of artificial Kv3 conductance restored the original AP pattern. Subtraction of
Kv3 conductance by dynamic clamp mimicked the effects of the blockers. Application
of artificial Kv3 conductance also led to FS in OA interneurons after complete
K+ channel block and even induced FS in hippocampal pyramidal neurons in the absence
of blockers. Adding artificial Kv3 conductance with altered deactivation kinetics
revealed a nonmonotonic relationship between mean AP frequency and deactivation
rate, with a maximum slightly above the original value. Insertion of artificial
Kv3 conductance with either lowered activation threshold or inactivation also
led to a reduction in the mean AP frequency. However, the mechanisms were distinct.
Shifting the activation threshold induced adaptation, whereas adding inactivation
caused frequency-dependent AP broadening. In conclusion, Kv3 channels are necessary
for the FS phenotype of OA interneurons, and several of their gating properties
appear to be optimized for high-frequency repetitive activity.
author:
- first_name: Cheng
full_name: Lien, Cheng-Chang
last_name: Lien
- first_name: Peter M
full_name: Peter Jonas
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Lien C, Jonas PM. Kv3 potassium conductance is necessary and kinetically optimized
for high-frequency action potential generation in hippocampal interneurons. Journal
of Neuroscience. 2003;23(6):2058-2068.
apa: Lien, C., & Jonas, P. M. (2003). Kv3 potassium conductance is necessary
and kinetically optimized for high-frequency action potential generation in hippocampal
interneurons. Journal of Neuroscience. Society for Neuroscience.
chicago: Lien, Cheng, and Peter M Jonas. “Kv3 Potassium Conductance Is Necessary
and Kinetically Optimized for High-Frequency Action Potential Generation in Hippocampal
Interneurons.” Journal of Neuroscience. Society for Neuroscience, 2003.
ieee: C. Lien and P. M. Jonas, “Kv3 potassium conductance is necessary and kinetically
optimized for high-frequency action potential generation in hippocampal interneurons,”
Journal of Neuroscience, vol. 23, no. 6. Society for Neuroscience, pp.
2058–68, 2003.
ista: Lien C, Jonas PM. 2003. Kv3 potassium conductance is necessary and kinetically
optimized for high-frequency action potential generation in hippocampal interneurons.
Journal of Neuroscience. 23(6), 2058–68.
mla: Lien, Cheng, and Peter M. Jonas. “Kv3 Potassium Conductance Is Necessary and
Kinetically Optimized for High-Frequency Action Potential Generation in Hippocampal
Interneurons.” Journal of Neuroscience, vol. 23, no. 6, Society for Neuroscience,
2003, pp. 2058–68.
short: C. Lien, P.M. Jonas, Journal of Neuroscience 23 (2003) 2058–68.
date_created: 2018-12-11T12:05:16Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:52:19Z
day: '01'
extern: 1
intvolume: ' 23'
issue: '6'
month: '01'
page: 2058 - 68
publication: Journal of Neuroscience
publication_status: published
publisher: Society for Neuroscience
publist_id: '2406'
quality_controlled: 0
status: public
title: Kv3 potassium conductance is necessary and kinetically optimized for high-frequency
action potential generation in hippocampal interneurons
type: journal_article
volume: 23
year: '2003'
...
---
_id: '3806'
abstract:
- lang: eng
text: To probe exocytosis at a cortical glutamatergic synapse, we made capacitance
measurements in whole-cell recorded hippocampal mossy fiber terminals. Evaluation
of different methods by using a morphology-based equivalent electrical model revealed
that quantitative capacitance measurements are possible in this presynaptic structure.
Voltage pulses leading to presynaptic Ca2+ inflow evoked large capacitance signals
that showed saturation with increasing pulse duration. The mean peak capacitance
increase was 100 fF, corresponding to a pool of approximately 1,400 releasable
vesicles. Thus hippocampal mossy fiber synapses have a vesicular "maxipool."
Large pool size and rapid vesicle recycling may underlie the uniquely large extent
of activity-dependent plasticity in this synapse.
author:
- first_name: Stefan
full_name: Hallermann, Stefan
last_name: Hallermann
- first_name: Christian
full_name: Pawlu, Christian
last_name: Pawlu
- first_name: Peter M
full_name: Peter Jonas
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Manfred
full_name: Heckmann, Manfred
last_name: Heckmann
citation:
ama: Hallermann S, Pawlu C, Jonas PM, Heckmann M. A large pool of releasable vesicles
in a cortical glutamatergic synapse. PNAS. 2003;100(15):8975-8980. doi:10.1073/pnas.1432836100
apa: Hallermann, S., Pawlu, C., Jonas, P. M., & Heckmann, M. (2003). A large
pool of releasable vesicles in a cortical glutamatergic synapse. PNAS.
National Academy of Sciences. https://doi.org/10.1073/pnas.1432836100
chicago: Hallermann, Stefan, Christian Pawlu, Peter M Jonas, and Manfred Heckmann.
“A Large Pool of Releasable Vesicles in a Cortical Glutamatergic Synapse.” PNAS.
National Academy of Sciences, 2003. https://doi.org/10.1073/pnas.1432836100.
ieee: S. Hallermann, C. Pawlu, P. M. Jonas, and M. Heckmann, “A large pool of releasable
vesicles in a cortical glutamatergic synapse,” PNAS, vol. 100, no. 15.
National Academy of Sciences, pp. 8975–80, 2003.
ista: Hallermann S, Pawlu C, Jonas PM, Heckmann M. 2003. A large pool of releasable
vesicles in a cortical glutamatergic synapse. PNAS. 100(15), 8975–80.
mla: Hallermann, Stefan, et al. “A Large Pool of Releasable Vesicles in a Cortical
Glutamatergic Synapse.” PNAS, vol. 100, no. 15, National Academy of Sciences,
2003, pp. 8975–80, doi:10.1073/pnas.1432836100.
short: S. Hallermann, C. Pawlu, P.M. Jonas, M. Heckmann, PNAS 100 (2003) 8975–80.
date_created: 2018-12-11T12:05:16Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:52:20Z
day: '01'
doi: 10.1073/pnas.1432836100
extern: 1
intvolume: ' 100'
issue: '15'
month: '01'
page: 8975 - 80
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '2405'
quality_controlled: 0
status: public
title: A large pool of releasable vesicles in a cortical glutamatergic synapse
type: journal_article
volume: 100
year: '2003'
...
---
_id: '3921'
abstract:
- lang: eng
text: 'Unlike most social insects, many Cardiocondyla ant species have two male
morphs: wingless (ergatoid) males, who remain in the natal nest, and winged males
who disperse but, strangely, before leaving may also mate within the nest. Whereas
ergatoid males are highly intolerant of each other and fight among themselves,
they tend to tolerate their winged counterparts. This is despite the fact that
these winged males, like ergatoid males, represent mating competition. Why should
ergatoid males tolerate their winged rivals? We developed a mathematical model
to address this question. Our model focuses on a number of factors likely toinfluence
whether ergatoid males are tolerant of winged males: ergatoid male–winged male
relatedness, number of virgin queens, number of winged males, and the number of
ejaculates a winged male has (winged males are sperm limited, whereas ergatoid
males have lifelong spermatogenesis). Surprisingly, we found that increasing the
number of virgin queens favors a kill strategy, whereas an increase in the other
factors favors a let-live strategy; these predictions appear true for C. obscurior
and for a number of other Cardiocondyla species. Two further aspects, unequal
insemination success and multiple mating in queens, were also incorporated into
the model and predictions made about their effects on toleration of winged males.
The model is applicable more generally in species that have dimorphic males, such
as some other ants, bees, and fig wasps.'
author:
- first_name: Carl
full_name: Anderson, Carl
last_name: Anderson
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
citation:
ama: 'Anderson C, Cremer S, Heinze J. Live and let die: Why fighter males of the
ant Cardiocondyla kill each other but tolerate their winged rivals. Behavioral
Ecology. 2003;14(1):54-62. doi:10.1093/beheco/14.1.54'
apa: 'Anderson, C., Cremer, S., & Heinze, J. (2003). Live and let die: Why fighter
males of the ant Cardiocondyla kill each other but tolerate their winged rivals.
Behavioral Ecology. Oxford University Press. https://doi.org/10.1093/beheco/14.1.54'
chicago: 'Anderson, Carl, Sylvia Cremer, and Jürgen Heinze. “Live and Let Die: Why
Fighter Males of the Ant Cardiocondyla Kill Each Other but Tolerate Their Winged
Rivals.” Behavioral Ecology. Oxford University Press, 2003. https://doi.org/10.1093/beheco/14.1.54.'
ieee: 'C. Anderson, S. Cremer, and J. Heinze, “Live and let die: Why fighter males
of the ant Cardiocondyla kill each other but tolerate their winged rivals,” Behavioral
Ecology, vol. 14, no. 1. Oxford University Press, pp. 54–62, 2003.'
ista: 'Anderson C, Cremer S, Heinze J. 2003. Live and let die: Why fighter males
of the ant Cardiocondyla kill each other but tolerate their winged rivals. Behavioral
Ecology. 14(1), 54–62.'
mla: 'Anderson, Carl, et al. “Live and Let Die: Why Fighter Males of the Ant Cardiocondyla
Kill Each Other but Tolerate Their Winged Rivals.” Behavioral Ecology,
vol. 14, no. 1, Oxford University Press, 2003, pp. 54–62, doi:10.1093/beheco/14.1.54.'
short: C. Anderson, S. Cremer, J. Heinze, Behavioral Ecology 14 (2003) 54–62.
date_created: 2018-12-11T12:05:54Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:53:13Z
day: '01'
doi: 10.1093/beheco/14.1.54
extern: '1'
intvolume: ' 14'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 54 - 62
publication: Behavioral Ecology
publication_status: published
publisher: Oxford University Press
publist_id: '2233'
status: public
title: 'Live and let die: Why fighter males of the ant Cardiocondyla kill each other
but tolerate their winged rivals'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2003'
...
---
_id: '3922'
abstract:
- lang: eng
text: Dispersal is advantageous, but, at the same time, it implies high costs and
risks. Due to these counteracting selection pressures, many species evolved dispersal
polymorphisms, which, in ants, are typically restricted to the female sex (queens).
Male polymorphism is presently only known from a few genera, such as Cardiocondyla,
in which winged dispersing males coexist with wingless fighter males that mate
exclusively inside their maternal nests. We studied the developmental mechanisms
underlying these alternative male morphs and found that, first, male dimorphism
is not genetically determined, but is induced by environmental conditions (decreasing
temperature and density). Second, male morph is not yet fixed at the egg stage,
but it differentiates during larval development. This flexible developmental pattern
of male morphs allows Cardiocondyla ant colonies to react quickly to changes in
their environment. Under good conditions, they invest exclusively in philopatric
wingless males. But, when environmental conditions turn bad, colonies start to
produce winged dispersal males, even though these males require a many times higher
investment by the colony than their much smaller wingless counterparts. Cardiocondyla
ants share this potential of optimal resource allocation with other colonial animals
and some seed dimorphic plants.
author:
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
citation:
ama: 'Cremer S, Heinze J. Stress grows wings: Environmental induction of winged
dispersal males in Cardiocondyla ants. Current Biology. 2003;13(3):219-223.
doi:10.1016/S0960-9822(03)00012-5'
apa: 'Cremer, S., & Heinze, J. (2003). Stress grows wings: Environmental induction
of winged dispersal males in Cardiocondyla ants. Current Biology. Cell
Press. https://doi.org/10.1016/S0960-9822(03)00012-5'
chicago: 'Cremer, Sylvia, and Jürgen Heinze. “Stress Grows Wings: Environmental
Induction of Winged Dispersal Males in Cardiocondyla Ants.” Current Biology.
Cell Press, 2003. https://doi.org/10.1016/S0960-9822(03)00012-5.'
ieee: 'S. Cremer and J. Heinze, “Stress grows wings: Environmental induction of
winged dispersal males in Cardiocondyla ants,” Current Biology, vol. 13,
no. 3. Cell Press, pp. 219–223, 2003.'
ista: 'Cremer S, Heinze J. 2003. Stress grows wings: Environmental induction of
winged dispersal males in Cardiocondyla ants. Current Biology. 13(3), 219–223.'
mla: 'Cremer, Sylvia, and Jürgen Heinze. “Stress Grows Wings: Environmental Induction
of Winged Dispersal Males in Cardiocondyla Ants.” Current Biology, vol.
13, no. 3, Cell Press, 2003, pp. 219–23, doi:10.1016/S0960-9822(03)00012-5.'
short: S. Cremer, J. Heinze, Current Biology 13 (2003) 219–223.
date_created: 2018-12-11T12:05:54Z
date_published: 2003-02-04T00:00:00Z
date_updated: 2021-01-12T07:53:13Z
day: '04'
doi: 10.1016/S0960-9822(03)00012-5
extern: '1'
intvolume: ' 13'
issue: '3'
language:
- iso: eng
month: '02'
oa_version: None
page: 219 - 223
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '2234'
status: public
title: 'Stress grows wings: Environmental induction of winged dispersal males in Cardiocondyla
ants'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2003'
...
---
_id: '3917'
abstract:
- lang: eng
text: Male dimorphism is not genetically determined, but is induced by environmental
conditions particularly decreasing temperature and density.
author:
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
citation:
ama: 'Cremer S, Heinze J. Zwischen Hochzeitsflug und Brudermord: reproduktive Taktiken
bei Ameisenmännchen. Blick in die Wissenschaft. 2003;12(15):32-36.'
apa: 'Cremer, S., & Heinze, J. (2003). Zwischen Hochzeitsflug und Brudermord:
reproduktive Taktiken bei Ameisenmännchen. Blick in Die Wissenschaft. Schnell
und Steiner.'
chicago: 'Cremer, Sylvia, and Jürgen Heinze. “Zwischen Hochzeitsflug Und Brudermord:
Reproduktive Taktiken Bei Ameisenmännchen.” Blick in Die Wissenschaft.
Schnell und Steiner, 2003.'
ieee: 'S. Cremer and J. Heinze, “Zwischen Hochzeitsflug und Brudermord: reproduktive
Taktiken bei Ameisenmännchen,” Blick in die Wissenschaft, vol. 12, no.
15. Schnell und Steiner, pp. 32–36, 2003.'
ista: 'Cremer S, Heinze J. 2003. Zwischen Hochzeitsflug und Brudermord: reproduktive
Taktiken bei Ameisenmännchen. Blick in die Wissenschaft. 12(15), 32–36.'
mla: 'Cremer, Sylvia, and Jürgen Heinze. “Zwischen Hochzeitsflug Und Brudermord:
Reproduktive Taktiken Bei Ameisenmännchen.” Blick in Die Wissenschaft,
vol. 12, no. 15, Schnell und Steiner, 2003, pp. 32–36.'
short: S. Cremer, J. Heinze, Blick in Die Wissenschaft 12 (2003) 32–36.
date_created: 2018-12-11T12:05:53Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T07:53:11Z
day: '01'
extern: '1'
intvolume: ' 12'
issue: '15'
language:
- iso: eng
month: '01'
oa_version: None
page: 32 - 36
publication: Blick in die Wissenschaft
publication_status: published
publisher: Schnell und Steiner
publist_id: '2235'
status: public
title: 'Zwischen Hochzeitsflug und Brudermord: reproduktive Taktiken bei Ameisenmännchen'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2003'
...
---
_id: '4416'
abstract:
- lang: eng
text: "Methods for the formal specification and verification of systems are indispensible
for the development of complex yet correct systems. In formal verification, the
designer describes the system in a modeling language with a well-defined semantics,
and this system description is analyzed against a set of correctness requirements.
Model checking is an algorithmic technique to check that a system description
indeed satisfies correctness requirements given as logical specifications. While
successful in hardware verification, the potential for model checking for software
and embedded systems has not yet been realized. This is because traditional model
checking focuses on systems modeled as finite state-transition graphs. While a
natural model for hardware (especially synchronous hardware), state-transition
graphs often do not capture software and embedded systems at an appropriate level
of granularity. This dissertation considers two orthogonal extensions to finite
state-transition graphs making model checking techniques applicable to both a
wider class of systems and a wider class of properties.\r\n\r\nThe first direction
is an extension to infinite-state structures finitely represented using constraints
and operations on constraints. Infinite state arises when we wish to model variables
with unbounded range (e.g., integers), or data structures, or real time. We provide
a uniform framework of symbolic region algebras to study model checking of infinite-state
systems. We also provide sufficient language-independent termination conditions
for symbolic model checking algorithms on infinite state systems.\r\n\r\nThe second
direction supplements verification with game theoretic reasoning. Games are natural
models for interactions between components. We study game theoretic behavior with
winning conditions given by temporal logic objectives both in the deterministic
and in the probabilistic context. For deterministic games, we provide an extremal
model characterization of fixpoint algorithms that link solutions of verification
problems to solutions for games. For probabilistic games we study fixpoint characterization
of winning probabilities for games with omega-regular winning objectives, and
construct (epsilon-)optimal winning strategies."
article_processing_charge: No
author:
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
citation:
ama: Majumdar R. Symbolic algorithms for verification and control. 2003:1-201.
apa: Majumdar, R. (2003). Symbolic algorithms for verification and control.
University of California, Berkeley.
chicago: Majumdar, Ritankar. “Symbolic Algorithms for Verification and Control.”
University of California, Berkeley, 2003.
ieee: R. Majumdar, “Symbolic algorithms for verification and control,” University
of California, Berkeley, 2003.
ista: Majumdar R. 2003. Symbolic algorithms for verification and control. University
of California, Berkeley.
mla: Majumdar, Ritankar. Symbolic Algorithms for Verification and Control.
University of California, Berkeley, 2003, pp. 1–201.
short: R. Majumdar, Symbolic Algorithms for Verification and Control, University
of California, Berkeley, 2003.
date_created: 2018-12-11T12:08:44Z
date_published: 2003-12-01T00:00:00Z
date_updated: 2021-01-12T07:56:49Z
day: '01'
extern: '1'
language:
- iso: eng
month: '12'
oa_version: None
page: 1 - 201
publication_status: published
publisher: University of California, Berkeley
publist_id: '313'
status: public
supervisor:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
title: Symbolic algorithms for verification and control
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2003'
...
---
_id: '4425'
abstract:
- lang: eng
text: "Giotto provides a time-triggered programmer’s model for the implementation
of embedded control systems with hard real-time constraints. Giotto’s precise
semantics and predictabil- ity make it suitable for safety-critical applications.\r\nGiotto
is based around the idea that time-triggered task invocation together with time-triggered
mode switching can form a useful programming model for real-time systems. To substantiate
this claim, we describe the use of Giotto to refactor the software of a small,
autonomous helicopter. The ease with which Giotto expresses the existing software
provides evidence that Giotto is an appropriate programming language for control
systems.\r\nSince Giotto is a real-time programming language, ensuring that Giotto
programs meet their deadlines is crucial. To study precedence-constrained Giotto
scheduling, we first examine single-mode, single-processor scheduling. We extend
to an infinite, periodic setting the classical problem of meeting deadlines for
a set of tasks with release times, deadlines, precedence constraints, and preemption.
We then develop an algorithm for scheduling Giotto programs on a single processor
by representing Giotto programs as instances of the extended scheduling problem.\r\nNext,
we study multi-mode, single-processor Giotto scheduling. This problem is different
from classical scheduling problems, since in our precedence-constrained approach,
the deadlines of tasks may vary depending on the mode switching behavior of the
program. We present conditional scheduling models which capture this varying-deadline
behavior. We develop polynomial-time algorithms for some conditional scheduling
models, and prove oth- ers to be computationally hard. We show how to represent
multi-mode Giotto programs as instances of the model, resulting in an algorithm
for scheduling multi-mode Giotto programs on a single processor.\r\nFinally, we
show that the problem of scheduling Giotto programs for multiple net- worked processors
is strongly NP-hard."
article_processing_charge: No
author:
- first_name: Benjamin
full_name: Horowitz, Benjamin
last_name: Horowitz
citation:
ama: 'Horowitz B. Giotto: A time-triggered language for embedded programming. 2003:1-237.'
apa: 'Horowitz, B. (2003). Giotto: A time-triggered language for embedded programming.
University of California, Berkeley.'
chicago: 'Horowitz, Benjamin. “Giotto: A Time-Triggered Language for Embedded Programming.”
University of California, Berkeley, 2003.'
ieee: 'B. Horowitz, “Giotto: A time-triggered language for embedded programming,”
University of California, Berkeley, 2003.'
ista: 'Horowitz B. 2003. Giotto: A time-triggered language for embedded programming.
University of California, Berkeley.'
mla: 'Horowitz, Benjamin. Giotto: A Time-Triggered Language for Embedded Programming.
University of California, Berkeley, 2003, pp. 1–237.'
short: 'B. Horowitz, Giotto: A Time-Triggered Language for Embedded Programming,
University of California, Berkeley, 2003.'
date_created: 2018-12-11T12:08:47Z
date_published: 2003-10-01T00:00:00Z
date_updated: 2021-01-12T07:56:53Z
day: '01'
extern: '1'
language:
- iso: eng
month: '10'
oa_version: None
page: 1 - 237
publication_status: published
publisher: University of California, Berkeley
publist_id: '305'
status: public
supervisor:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000-0002-2985-7724
title: 'Giotto: A time-triggered language for embedded programming'
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2003'
...
---
_id: '576'
abstract:
- lang: eng
text: 'We study the free expansion of a pancake-shaped Bose-condensed gas, which
is initially trapped under harmonic confinement and containing a vortex at its
centre. In the case of a radial expansion holding the axial confinement fixed
we consider various models for the interactions, depending on the thickness of
the condensate relative to the value of the scattering length. We are thus able
to evaluate different scattering regimes ranging from quasi-three-dimensional
(Q3D) to strictly two-dimensional (2D). We find that as the system goes from Q3D
to 2D the expansion rate of the condensate increases whereas that of the vortex
core decreases. In the Q3D scattering regime we also examine a fully free expansion
in 3D and find oscillatory behaviour for the vortex core radius: an initial fast
expansion of the vortex core is followed by a slowing down. Such a nonuniform
expansion rate of the vortex core implies that the timing of its observation should
be chosen appropriately.'
author:
- first_name: Onur
full_name: Onur Hosten
id: 4C02D85E-F248-11E8-B48F-1D18A9856A87
last_name: Hosten
orcid: 0000-0002-2031-204X
- first_name: Patrizia
full_name: Vignolo, Patrizia
last_name: Vignolo
- first_name: Anna
full_name: Minguzzi, Anna
last_name: Minguzzi
- first_name: Bilal
full_name: Tanatar, Bilal
last_name: Tanatar
- first_name: Mario
full_name: Tosi, Mario P
last_name: Tosi
citation:
ama: 'Hosten O, Vignolo P, Minguzzi A, Tanatar B, Tosi M. Free expansion of two-dimensional
condensates with a vortex. Journal of Physics B: Atomic, Molecular and Optical
Physics. 2003;36(12):2455-2463. doi:10.1088/0953-4075/36/12/306'
apa: 'Hosten, O., Vignolo, P., Minguzzi, A., Tanatar, B., & Tosi, M. (2003).
Free expansion of two-dimensional condensates with a vortex. Journal of Physics
B: Atomic, Molecular and Optical Physics. IOP Publishing Ltd. https://doi.org/10.1088/0953-4075/36/12/306'
chicago: 'Hosten, Onur, Patrizia Vignolo, Anna Minguzzi, Bilal Tanatar, and Mario
Tosi. “Free Expansion of Two-Dimensional Condensates with a Vortex.” Journal
of Physics B: Atomic, Molecular and Optical Physics. IOP Publishing Ltd.,
2003. https://doi.org/10.1088/0953-4075/36/12/306.'
ieee: 'O. Hosten, P. Vignolo, A. Minguzzi, B. Tanatar, and M. Tosi, “Free expansion
of two-dimensional condensates with a vortex,” Journal of Physics B: Atomic,
Molecular and Optical Physics, vol. 36, no. 12. IOP Publishing Ltd., pp. 2455–2463,
2003.'
ista: 'Hosten O, Vignolo P, Minguzzi A, Tanatar B, Tosi M. 2003. Free expansion
of two-dimensional condensates with a vortex. Journal of Physics B: Atomic, Molecular
and Optical Physics. 36(12), 2455–2463.'
mla: 'Hosten, Onur, et al. “Free Expansion of Two-Dimensional Condensates with a
Vortex.” Journal of Physics B: Atomic, Molecular and Optical Physics, vol.
36, no. 12, IOP Publishing Ltd., 2003, pp. 2455–63, doi:10.1088/0953-4075/36/12/306.'
short: 'O. Hosten, P. Vignolo, A. Minguzzi, B. Tanatar, M. Tosi, Journal of Physics
B: Atomic, Molecular and Optical Physics 36 (2003) 2455–2463.'
date_created: 2018-12-11T11:47:16Z
date_published: 2003-06-28T00:00:00Z
date_updated: 2021-01-12T08:03:20Z
day: '28'
doi: 10.1088/0953-4075/36/12/306
extern: 1
intvolume: ' 36'
issue: '12'
month: '06'
page: 2455 - 2463
publication: 'Journal of Physics B: Atomic, Molecular and Optical Physics'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '7239'
quality_controlled: 0
status: public
title: Free expansion of two-dimensional condensates with a vortex
type: journal_article
volume: 36
year: '2003'
...
---
_id: '6156'
abstract:
- lang: eng
text: 'Social and solitary feeding in natural Caenorhabditis elegans isolates are
associated with two alleles of the orphan G-protein-coupled receptor (GPCR) NPR-1:
social feeders contain NPR-1 215F, whereas solitary feeders contain NPR-1 215V.
Here we identify FMRFamide-related neuropeptides (FaRPs) encoded by the flp-18
and flp-21 genes as NPR-1 ligands and show that these peptides can differentially
activate the NPR-1 215F and NPR-1 215V receptors. Multicopy overexpression of
flp-21 transformed wild social animals into solitary feeders. Conversely, a flp-21
deletion partially phenocopied the npr-1(null) phenotype, which is consistent
with NPR-1 activation by FLP-21 in vivo but also implicates other ligands for
NPR-1. Phylogenetic studies indicate that the dominant npr-1 215V allele likely
arose from an ancestral npr-1 215F gene in C. elegans. Our data suggest a model
in which solitary feeding evolved in an ancestral social strain of C. elegans
by a gain-of-function mutation that modified the response of NPR-1 to FLP-18 and
FLP-21 ligands.'
author:
- first_name: Candida
full_name: Rogers, Candida
last_name: Rogers
- first_name: Vincenzina
full_name: Reale, Vincenzina
last_name: Reale
- first_name: Kyuhyung
full_name: Kim, Kyuhyung
last_name: Kim
- first_name: Heather
full_name: Chatwin, Heather
last_name: Chatwin
- first_name: Chris
full_name: Li, Chris
last_name: Li
- first_name: Peter
full_name: Evans, Peter
last_name: Evans
- 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: Rogers C, Reale V, Kim K, et al. Inhibition of Caenorhabditis elegans social
feeding by FMRFamide-related peptide activation of NPR-1. Nature Neuroscience.
2003;6(11):1178-1185. doi:10.1038/nn1140
apa: Rogers, C., Reale, V., Kim, K., Chatwin, H., Li, C., Evans, P., & de Bono,
M. (2003). Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related
peptide activation of NPR-1. Nature Neuroscience. Springer Nature. https://doi.org/10.1038/nn1140
chicago: Rogers, Candida, Vincenzina Reale, Kyuhyung Kim, Heather Chatwin, Chris
Li, Peter Evans, and Mario de Bono. “Inhibition of Caenorhabditis Elegans Social
Feeding by FMRFamide-Related Peptide Activation of NPR-1.” Nature Neuroscience.
Springer Nature, 2003. https://doi.org/10.1038/nn1140.
ieee: C. Rogers et al., “Inhibition of Caenorhabditis elegans social feeding
by FMRFamide-related peptide activation of NPR-1,” Nature Neuroscience,
vol. 6, no. 11. Springer Nature, pp. 1178–1185, 2003.
ista: Rogers C, Reale V, Kim K, Chatwin H, Li C, Evans P, de Bono M. 2003. Inhibition
of Caenorhabditis elegans social feeding by FMRFamide-related peptide activation
of NPR-1. Nature Neuroscience. 6(11), 1178–1185.
mla: Rogers, Candida, et al. “Inhibition of Caenorhabditis Elegans Social Feeding
by FMRFamide-Related Peptide Activation of NPR-1.” Nature Neuroscience,
vol. 6, no. 11, Springer Nature, 2003, pp. 1178–85, doi:10.1038/nn1140.
short: C. Rogers, V. Reale, K. Kim, H. Chatwin, C. Li, P. Evans, M. de Bono, Nature
Neuroscience 6 (2003) 1178–1185.
date_created: 2019-03-21T09:47:53Z
date_published: 2003-10-12T00:00:00Z
date_updated: 2021-01-12T08:06:25Z
day: '12'
doi: 10.1038/nn1140
extern: '1'
external_id:
pmid:
- '14555955'
intvolume: ' 6'
issue: '11'
language:
- iso: eng
month: '10'
oa_version: None
page: 1178-1185
pmid: 1
publication: Nature Neuroscience
publication_identifier:
issn:
- 1097-6256
- 1546-1726
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Inhibition of Caenorhabditis elegans social feeding by FMRFamide-related peptide
activation of NPR-1
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2003'
...
---
_id: '6157'
abstract:
- lang: eng
text: In many animal species individuals aggregate to live in groups. A range of
experimental approaches in different animals, including studies of social feeding
in nematodes, maternal behavior in rats and sheep, and pair-bonding in voles,
are providing insights into the neural bases for these behaviors. These studies
are delineating multiple neural circuits and gene networks in the brain that interact
in ways that are as yet poorly understood to coordinate social behavior.
author:
- 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: de Bono M. Molecular approaches to aggregation behavior and social attachment.
Journal of Neurobiology. 2003;54(1):78-92. doi:10.1002/neu.10162
apa: de Bono, M. (2003). Molecular approaches to aggregation behavior and social
attachment. Journal of Neurobiology. Wiley. https://doi.org/10.1002/neu.10162
chicago: Bono, Mario de. “Molecular Approaches to Aggregation Behavior and Social
Attachment.” Journal of Neurobiology. Wiley, 2003. https://doi.org/10.1002/neu.10162.
ieee: M. de Bono, “Molecular approaches to aggregation behavior and social attachment,”
Journal of Neurobiology, vol. 54, no. 1. Wiley, pp. 78–92, 2003.
ista: de Bono M. 2003. Molecular approaches to aggregation behavior and social attachment.
Journal of Neurobiology. 54(1), 78–92.
mla: de Bono, Mario. “Molecular Approaches to Aggregation Behavior and Social Attachment.”
Journal of Neurobiology, vol. 54, no. 1, Wiley, 2003, pp. 78–92, doi:10.1002/neu.10162.
short: M. de Bono, Journal of Neurobiology 54 (2003) 78–92.
date_created: 2019-03-21T09:52:31Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T08:06:26Z
day: '01'
doi: 10.1002/neu.10162
extern: '1'
external_id:
pmid:
- '12486699'
intvolume: ' 54'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 78-92
pmid: 1
publication: Journal of Neurobiology
publication_identifier:
issn:
- 0022-3034
- 1097-4695
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Molecular approaches to aggregation behavior and social attachment
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2003'
...
---
_id: '847'
abstract:
- lang: eng
text: The accumulation of genome-wide information on single nucleotide polymorphisms
in humans provides an unprecedented opportunity to detect the evolutionary forces
responsible for heterogeneity of the level of genetic variability across loci.
Previous studies have shown that history of recombination events has produced
long haplotype blocks in the human genome, which contribute to this heterogeneity.
Other factors, however, such as natural selection or the heterogeneity of mutation
rates across loci, may also lead to heterogeneity of genetic variability. We compared
synonymous and non-synonymous variability within human genes with their divergence
from murine orthologs. We separately analyzed the non-synonymous variants predicted
to damage protein structure or function and the variants predicted to be functionally
benign. The predictions were based on comparative sequence analysis and, in some
cases, on the analysis of protein structure. A strong correlation between non-synonymous,
benign variability and non-synonymous human-mouse divergence suggests that selection
played an important role in shaping the pattern of variability in coding regions
of human genes. However, the lack of correlation between deleterious variability
and evolutionary divergence shows that a substantial proportion of the observed
non-synonymous single-nucleotide polymorphisms reduces fitness and never reaches
fixation. Evolutionary and medical implications of the impact of selection on
human polymorphisms are discussed.
acknowledgement: We are grateful to Alexey Kondrashov and Alison Wellman for the careful
reading of the manuscript and providing us with their valuable comments.
author:
- first_name: Shamil
full_name: Sunyaev, Shamil R
last_name: Sunyaev
- first_name: Fyodor
full_name: Fyodor Kondrashov
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
- first_name: Peer
full_name: Bork, Peer
last_name: Bork
- first_name: Vasily
full_name: Ramensky, Vasily
last_name: Ramensky
citation:
ama: Sunyaev S, Kondrashov F, Bork P, Ramensky V. Impact of selection, mutation
rate and genetic drift on human genetic variation. Human Molecular Genetics.
2003;12(24):3325-3330. doi:10.1093/hmg/ddg359
apa: Sunyaev, S., Kondrashov, F., Bork, P., & Ramensky, V. (2003). Impact of
selection, mutation rate and genetic drift on human genetic variation. Human
Molecular Genetics. Oxford University Press. https://doi.org/10.1093/hmg/ddg359
chicago: Sunyaev, Shamil, Fyodor Kondrashov, Peer Bork, and Vasily Ramensky. “Impact
of Selection, Mutation Rate and Genetic Drift on Human Genetic Variation.” Human
Molecular Genetics. Oxford University Press, 2003. https://doi.org/10.1093/hmg/ddg359.
ieee: S. Sunyaev, F. Kondrashov, P. Bork, and V. Ramensky, “Impact of selection,
mutation rate and genetic drift on human genetic variation,” Human Molecular
Genetics, vol. 12, no. 24. Oxford University Press, pp. 3325–3330, 2003.
ista: Sunyaev S, Kondrashov F, Bork P, Ramensky V. 2003. Impact of selection, mutation
rate and genetic drift on human genetic variation. Human Molecular Genetics. 12(24),
3325–3330.
mla: Sunyaev, Shamil, et al. “Impact of Selection, Mutation Rate and Genetic Drift
on Human Genetic Variation.” Human Molecular Genetics, vol. 12, no. 24,
Oxford University Press, 2003, pp. 3325–30, doi:10.1093/hmg/ddg359.
short: S. Sunyaev, F. Kondrashov, P. Bork, V. Ramensky, Human Molecular Genetics
12 (2003) 3325–3330.
date_created: 2018-12-11T11:48:49Z
date_published: 2003-12-15T00:00:00Z
date_updated: 2021-01-12T08:19:29Z
day: '15'
doi: 10.1093/hmg/ddg359
extern: 1
intvolume: ' 12'
issue: '24'
month: '12'
page: 3325 - 3330
publication: Human Molecular Genetics
publication_status: published
publisher: Oxford University Press
publist_id: '6803'
quality_controlled: 0
status: public
title: Impact of selection, mutation rate and genetic drift on human genetic variation
type: journal_article
volume: 12
year: '2003'
...
---
_id: '876'
abstract:
- lang: eng
text: Alternative splicing is thought to be a major source of functional diversity
in animal proteins. We analyzed the evolutionary conservation of proteins encoded
by alternatively spliced genes and predicted the ancestral state for 73 cases
of alternative splicing (25 insertions and 48 deletions). The amino acid sequences
of most of the inserts in proteins produced by alternative splicing are as conserved
as the surrounding sequences. Thus, alternative splicing often creates novel isoforms
by the insertion of new, functional protein sequences that probably originated
from noncoding sequences of introns.
acknowledgement: We thank Peer Bork, Mikhail Gelfand, Alexey Kondrashov, David Lipman
and Shamil Sunyaev for critical reading of the manuscript and useful suggestions
and the Koonin group members for helpful discussions.
author:
- first_name: Fyodor
full_name: Fyodor Kondrashov
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
- first_name: Eugene
full_name: Koonin, Eugene V
last_name: Koonin
citation:
ama: 'Kondrashov F, Koonin E. Evolution of alternative splicing: Deletions, insertions
and origin of functional parts of proteins from intron sequences. Trends in
Genetics. 2003;19(3):115-119. doi:10.1016/S0168-9525(02)00029-X'
apa: 'Kondrashov, F., & Koonin, E. (2003). Evolution of alternative splicing:
Deletions, insertions and origin of functional parts of proteins from intron sequences.
Trends in Genetics. Elsevier. https://doi.org/10.1016/S0168-9525(02)00029-X'
chicago: 'Kondrashov, Fyodor, and Eugene Koonin. “Evolution of Alternative Splicing:
Deletions, Insertions and Origin of Functional Parts of Proteins from Intron Sequences.”
Trends in Genetics. Elsevier, 2003. https://doi.org/10.1016/S0168-9525(02)00029-X.'
ieee: 'F. Kondrashov and E. Koonin, “Evolution of alternative splicing: Deletions,
insertions and origin of functional parts of proteins from intron sequences,”
Trends in Genetics, vol. 19, no. 3. Elsevier, pp. 115–119, 2003.'
ista: 'Kondrashov F, Koonin E. 2003. Evolution of alternative splicing: Deletions,
insertions and origin of functional parts of proteins from intron sequences. Trends
in Genetics. 19(3), 115–119.'
mla: 'Kondrashov, Fyodor, and Eugene Koonin. “Evolution of Alternative Splicing:
Deletions, Insertions and Origin of Functional Parts of Proteins from Intron Sequences.”
Trends in Genetics, vol. 19, no. 3, Elsevier, 2003, pp. 115–19, doi:10.1016/S0168-9525(02)00029-X.'
short: F. Kondrashov, E. Koonin, Trends in Genetics 19 (2003) 115–119.
date_created: 2018-12-11T11:48:58Z
date_published: 2003-01-01T00:00:00Z
date_updated: 2021-01-12T08:20:58Z
day: '01'
doi: 10.1016/S0168-9525(02)00029-X
extern: 1
intvolume: ' 19'
issue: '3'
month: '01'
page: 115 - 119
publication: Trends in Genetics
publication_status: published
publisher: Elsevier
publist_id: '6776'
quality_controlled: 0
status: public
title: 'Evolution of alternative splicing: Deletions, insertions and origin of functional
parts of proteins from intron sequences'
type: journal_article
volume: 19
year: '2003'
...
---
_id: '9495'
abstract:
- lang: eng
text: RNA interference is a conserved process in which double-stranded RNA is processed
into 21–25 nucleotide siRNAs that trigger posttranscriptional gene silencing.
In addition, plants display a phenomenon termed RNA-directed DNA methylation (RdDM)
in which DNA with sequence identity to silenced RNA is de novo methylated at its
cytosine residues. This methylation is not only at canonical CpG sites but also
at cytosines in CpNpG and asymmetric sequence contexts. In this report, we study
the role of the DRM and CMT3 DNA methyltransferase genes in the initiation and
maintenance of RdDM. Neither drm nor cmt3 mutants affected the maintenance of
preestablished RNA-directed CpG methylation. However, drm mutants showed a nearly
complete loss of asymmetric methylation and a partial loss of CpNpG methylation.
The remaining asymmetric and CpNpG methylation was dependent on the activity of
CMT3, showing that DRM and CMT3 act redundantly to maintain non-CpG methylation.
These DNA methyltransferases appear to act downstream of siRNAs, since drm1 drm2
cmt3 triple mutants show a lack of non-CpG methylation but elevated levels of
siRNAs. Finally, we demonstrate that DRM activity is required for the initial
establishment of RdDM in all sequence contexts including CpG, CpNpG, and asymmetric
sites.
article_processing_charge: No
article_type: original
author:
- first_name: Xiaofeng
full_name: Cao, Xiaofeng
last_name: Cao
- first_name: Werner
full_name: Aufsatz, Werner
last_name: Aufsatz
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: M.Florian
full_name: Mette, M.Florian
last_name: Mette
- first_name: Michael S.
full_name: Huang, Michael S.
last_name: Huang
- first_name: Marjori
full_name: Matzke, Marjori
last_name: Matzke
- first_name: Steven E.
full_name: Jacobsen, Steven E.
last_name: Jacobsen
citation:
ama: Cao X, Aufsatz W, Zilberman D, et al. Role of the DRM and CMT3 methyltransferases
in RNA-directed DNA methylation. Current Biology. 2003;13(24):2212-2217.
doi:10.1016/j.cub.2003.11.052
apa: Cao, X., Aufsatz, W., Zilberman, D., Mette, M. F., Huang, M. S., Matzke, M.,
& Jacobsen, S. E. (2003). Role of the DRM and CMT3 methyltransferases in RNA-directed
DNA methylation. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2003.11.052
chicago: Cao, Xiaofeng, Werner Aufsatz, Daniel Zilberman, M.Florian Mette, Michael
S. Huang, Marjori Matzke, and Steven E. Jacobsen. “Role of the DRM and CMT3 Methyltransferases
in RNA-Directed DNA Methylation.” Current Biology. Elsevier, 2003. https://doi.org/10.1016/j.cub.2003.11.052.
ieee: X. Cao et al., “Role of the DRM and CMT3 methyltransferases in RNA-directed
DNA methylation,” Current Biology, vol. 13, no. 24. Elsevier, pp. 2212–2217,
2003.
ista: Cao X, Aufsatz W, Zilberman D, Mette MF, Huang MS, Matzke M, Jacobsen SE.
2003. Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation.
Current Biology. 13(24), 2212–2217.
mla: Cao, Xiaofeng, et al. “Role of the DRM and CMT3 Methyltransferases in RNA-Directed
DNA Methylation.” Current Biology, vol. 13, no. 24, Elsevier, 2003, pp.
2212–17, doi:10.1016/j.cub.2003.11.052.
short: X. Cao, W. Aufsatz, D. Zilberman, M.F. Mette, M.S. Huang, M. Matzke, S.E.
Jacobsen, Current Biology 13 (2003) 2212–2217.
date_created: 2021-06-07T10:43:02Z
date_published: 2003-12-16T00:00:00Z
date_updated: 2021-12-14T08:41:38Z
day: '16'
department:
- _id: DaZi
doi: 10.1016/j.cub.2003.11.052
extern: '1'
external_id:
pmid:
- '14680640'
intvolume: ' 13'
issue: '24'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cub.2003.11.052
month: '12'
oa: 1
oa_version: Published Version
page: 2212-2217
pmid: 1
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 13
year: '2003'
...
---
_id: '8519'
article_processing_charge: No
article_type: original
author:
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
citation:
ama: Kaloshin V. The existential Hilbert 16-th problem and an estimate for cyclicity
of elementary polycycles. Inventiones mathematicae. 2003;151(3):451-512.
doi:10.1007/s00222-002-0244-9
apa: Kaloshin, V. (2003). The existential Hilbert 16-th problem and an estimate
for cyclicity of elementary polycycles. Inventiones Mathematicae. Springer
Nature. https://doi.org/10.1007/s00222-002-0244-9
chicago: Kaloshin, Vadim. “The Existential Hilbert 16-Th Problem and an Estimate
for Cyclicity of Elementary Polycycles.” Inventiones Mathematicae. Springer
Nature, 2003. https://doi.org/10.1007/s00222-002-0244-9.
ieee: V. Kaloshin, “The existential Hilbert 16-th problem and an estimate for cyclicity
of elementary polycycles,” Inventiones mathematicae, vol. 151, no. 3. Springer
Nature, pp. 451–512, 2003.
ista: Kaloshin V. 2003. The existential Hilbert 16-th problem and an estimate for
cyclicity of elementary polycycles. Inventiones mathematicae. 151(3), 451–512.
mla: Kaloshin, Vadim. “The Existential Hilbert 16-Th Problem and an Estimate for
Cyclicity of Elementary Polycycles.” Inventiones Mathematicae, vol. 151,
no. 3, Springer Nature, 2003, pp. 451–512, doi:10.1007/s00222-002-0244-9.
short: V. Kaloshin, Inventiones Mathematicae 151 (2003) 451–512.
date_created: 2020-09-18T10:49:26Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2021-01-12T08:19:50Z
day: '01'
doi: 10.1007/s00222-002-0244-9
extern: '1'
intvolume: ' 151'
issue: '3'
keyword:
- General Mathematics
language:
- iso: eng
month: '03'
oa_version: None
page: 451-512
publication: Inventiones mathematicae
publication_identifier:
issn:
- 0020-9910
- 1432-1297
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: The existential Hilbert 16-th problem and an estimate for cyclicity of elementary
polycycles
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 151
year: '2003'
...
---
_id: '9455'
abstract:
- lang: eng
text: Proteins of the ARGONAUTE family are important in diverse posttranscriptional
RNA-mediated gene-silencing systems as well as in transcriptional gene silencing
in Drosophila and fission yeast and in programmed DNA elimination in Tetrahymena.
We cloned ARGONAUTE4 (AGO4) from a screen for mutants that suppress silencing
of the Arabidopsis SUPERMAN(SUP) gene. The ago4-1 mutant reactivated silentSUP
alleles and decreased CpNpG and asymmetric DNA methylation as well as histone
H3 lysine-9 methylation. In addition,ago4-1 blocked histone and DNA methylation
and the accumulation of 25-nucleotide small interfering RNAs (siRNAs) that correspond
to the retroelement AtSN1. These results suggest that AGO4 and long siRNAs direct
chromatin modifications, including histone methylation and non-CpG DNA methylation.
article_processing_charge: No
article_type: original
author:
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: ' Xiaofeng'
full_name: Cao, Xiaofeng
last_name: Cao
- first_name: Steven E.
full_name: Jacobsen, Steven E.
last_name: Jacobsen
citation:
ama: Zilberman D, Cao Xiaofeng, Jacobsen SE. ARGONAUTE4 control of locus-specific
siRNA accumulation and DNA and histone methylation. Science. 2003;299(5607):716-719.
doi:10.1126/science.1079695
apa: Zilberman, D., Cao, Xiaofeng, & Jacobsen, S. E. (2003). ARGONAUTE4 control
of locus-specific siRNA accumulation and DNA and histone methylation. Science.
American Association for the Advancement of Science. https://doi.org/10.1126/science.1079695
chicago: Zilberman, Daniel, Xiaofeng Cao, and Steven E. Jacobsen. “ARGONAUTE4 Control
of Locus-Specific SiRNA Accumulation and DNA and Histone Methylation.” Science.
American Association for the Advancement of Science, 2003. https://doi.org/10.1126/science.1079695.
ieee: D. Zilberman, Xiaofeng Cao, and S. E. Jacobsen, “ARGONAUTE4 control of locus-specific
siRNA accumulation and DNA and histone methylation,” Science, vol. 299,
no. 5607. American Association for the Advancement of Science, pp. 716–719, 2003.
ista: Zilberman D, Cao Xiaofeng, Jacobsen SE. 2003. ARGONAUTE4 control of locus-specific
siRNA accumulation and DNA and histone methylation. Science. 299(5607), 716–719.
mla: Zilberman, Daniel, et al. “ARGONAUTE4 Control of Locus-Specific SiRNA Accumulation
and DNA and Histone Methylation.” Science, vol. 299, no. 5607, American
Association for the Advancement of Science, 2003, pp. 716–19, doi:10.1126/science.1079695.
short: D. Zilberman, Xiaofeng Cao, S.E. Jacobsen, Science 299 (2003) 716–719.
date_created: 2021-06-04T11:26:26Z
date_published: 2003-01-31T00:00:00Z
date_updated: 2021-12-14T08:43:30Z
day: '31'
department:
- _id: DaZi
doi: 10.1126/science.1079695
extern: '1'
external_id:
pmid:
- '12522258'
intvolume: ' 299'
issue: '5607'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '01'
oa_version: None
page: 716-719
pmid: 1
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone
methylation
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 299
year: '2003'
...
---
_id: '4628'
abstract:
- lang: eng
text: 'Discounting the future means that the value, today, of a unit payoffis 1
if the payoffo ccurs today, a if it occurs tomorrow, a 2 if it occurs the day
after tomorrow, and so on, for some real-valued discount factor 0 < a <
1. Discounting (or inflation) is a key paradigm in economics and has been studied
in Markov decision processes as well as game theory. We submit that discounting
also has a natural place in systems engineering: for nonterminating systems, a
potential bug in the far-away future is less troubling than a potential bug today.
We therefore develop a systems theory with discounting. Our theory includes several
basic elements: discounted versions of system properties that correspond to the
ω-regular properties, fixpoint-based algorithms for checking discounted properties,
and a quantitative notion of bisimilarity for capturing the difference between
two states with respect to discounted properties. We present the theory in a general
form that applies to probabilistic systems as well as multicomponent systems (games),
but it readily specializes to classical transition systems. We show that discounting,
besides its natural practical appeal, has also several mathematical benefits.
First, the resulting theory is robust, in that small perturbations of a system
can cause only small changes in the properties of the system. Second, the theory
is computational, in that the values of discounted properties, as well as the
discounted bisimilarity distance between states, can be computed to any desired
degree of precision.'
acknowledgement: This research was supported in part by the NSF CAREER award CCR-0132780,
the DARPA grant F33615-C-98-3614, the NSF grants CCR-9988172, CCR-0234690 and CCR-0225610,
and the ONR grant N00014-02-1-0671.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Luca
full_name: De Alfaro, Luca
last_name: De Alfaro
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
citation:
ama: 'De Alfaro L, Henzinger TA, Majumdar R. Discounting the future in systems theory.
In: Proceedings of the 30th International Colloquium on Automata, Languages
and Programming. Vol 2719. Springer; 2003:1022-1037. doi:10.1007/3-540-45061-0_79'
apa: 'De Alfaro, L., Henzinger, T. A., & Majumdar, R. (2003). Discounting the
future in systems theory. In Proceedings of the 30th International Colloquium
on Automata, Languages and Programming (Vol. 2719, pp. 1022–1037). Eindhoven,
The Netherlands: Springer. https://doi.org/10.1007/3-540-45061-0_79'
chicago: De Alfaro, Luca, Thomas A Henzinger, and Ritankar Majumdar. “Discounting
the Future in Systems Theory.” In Proceedings of the 30th International Colloquium
on Automata, Languages and Programming, 2719:1022–37. Springer, 2003. https://doi.org/10.1007/3-540-45061-0_79.
ieee: L. De Alfaro, T. A. Henzinger, and R. Majumdar, “Discounting the future in
systems theory,” in Proceedings of the 30th International Colloquium on Automata,
Languages and Programming, Eindhoven, The Netherlands, 2003, vol. 2719, pp.
1022–1037.
ista: 'De Alfaro L, Henzinger TA, Majumdar R. 2003. Discounting the future in systems
theory. Proceedings of the 30th International Colloquium on Automata, Languages
and Programming. ICALP: Automata, Languages and Programming, LNCS, vol. 2719,
1022–1037.'
mla: De Alfaro, Luca, et al. “Discounting the Future in Systems Theory.” Proceedings
of the 30th International Colloquium on Automata, Languages and Programming,
vol. 2719, Springer, 2003, pp. 1022–37, doi:10.1007/3-540-45061-0_79.
short: L. De Alfaro, T.A. Henzinger, R. Majumdar, in:, Proceedings of the 30th International
Colloquium on Automata, Languages and Programming, Springer, 2003, pp. 1022–1037.
conference:
end_date: 2003-07-04
location: Eindhoven, The Netherlands
name: 'ICALP: Automata, Languages and Programming'
start_date: 2003-06-30
date_created: 2018-12-11T12:09:50Z
date_published: 2003-06-25T00:00:00Z
date_updated: 2023-07-26T13:07:31Z
day: '25'
doi: 10.1007/3-540-45061-0_79
extern: '1'
intvolume: ' 2719'
language:
- iso: eng
month: '06'
oa_version: None
page: 1022 - 1037
publication: Proceedings of the 30th International Colloquium on Automata, Languages
and Programming
publication_identifier:
isbn:
- '9783540404934'
publication_status: published
publisher: Springer
publist_id: '77'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Discounting the future in systems theory
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2719
year: '2003'
...
---
_id: '13436'
abstract:
- lang: eng
text: Cross-metathesis reactions of α,β-unsaturated sulfones and sulfoxides in the
presence of molybdenum and ruthenium pre-catalysts were tested. A selective metahesis
reaction was achieved between functionalized terminal olefins and vinyl sulfones
by using the ‘second generation’ ruthenium catalysts 1c–h while the highly active
Schrock catalyst 1b was found to be functional group incompatible with vinyl sulfones.
The cross-metathesis products were isolated in good yields with an excellent (E)-selectivity.
Both the molybdenum and ruthenium-based complexes were, however, incompatible
with α,β- and β,γ-unsaturated sulfoxides.
article_processing_charge: No
article_type: original
author:
- first_name: Anna
full_name: Michrowska, Anna
last_name: Michrowska
- first_name: Michał
full_name: Bieniek, Michał
last_name: Bieniek
- first_name: Mikhail
full_name: Kim, Mikhail
last_name: Kim
- first_name: Rafal
full_name: Klajn, Rafal
id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b
last_name: Klajn
- first_name: Karol
full_name: Grela, Karol
last_name: Grela
citation:
ama: Michrowska A, Bieniek M, Kim M, Klajn R, Grela K. Cross-metathesis reaction
of vinyl sulfones and sulfoxides. Tetrahedron. 2003;59(25):4525-4531. doi:10.1016/s0040-4020(03)00682-3
apa: Michrowska, A., Bieniek, M., Kim, M., Klajn, R., & Grela, K. (2003). Cross-metathesis
reaction of vinyl sulfones and sulfoxides. Tetrahedron. Elsevier. https://doi.org/10.1016/s0040-4020(03)00682-3
chicago: Michrowska, Anna, Michał Bieniek, Mikhail Kim, Rafal Klajn, and Karol Grela.
“Cross-Metathesis Reaction of Vinyl Sulfones and Sulfoxides.” Tetrahedron.
Elsevier, 2003. https://doi.org/10.1016/s0040-4020(03)00682-3.
ieee: A. Michrowska, M. Bieniek, M. Kim, R. Klajn, and K. Grela, “Cross-metathesis
reaction of vinyl sulfones and sulfoxides,” Tetrahedron, vol. 59, no. 25.
Elsevier, pp. 4525–4531, 2003.
ista: Michrowska A, Bieniek M, Kim M, Klajn R, Grela K. 2003. Cross-metathesis reaction
of vinyl sulfones and sulfoxides. Tetrahedron. 59(25), 4525–4531.
mla: Michrowska, Anna, et al. “Cross-Metathesis Reaction of Vinyl Sulfones and Sulfoxides.”
Tetrahedron, vol. 59, no. 25, Elsevier, 2003, pp. 4525–31, doi:10.1016/s0040-4020(03)00682-3.
short: A. Michrowska, M. Bieniek, M. Kim, R. Klajn, K. Grela, Tetrahedron 59 (2003)
4525–4531.
date_created: 2023-08-01T10:39:34Z
date_published: 2003-06-16T00:00:00Z
date_updated: 2023-08-08T12:44:17Z
day: '16'
doi: 10.1016/s0040-4020(03)00682-3
extern: '1'
intvolume: ' 59'
issue: '25'
keyword:
- Organic Chemistry
- Drug Discovery
- Biochemistry
language:
- iso: eng
month: '06'
oa_version: None
page: 4525-4531
publication: Tetrahedron
publication_identifier:
eissn:
- 1464-5416
issn:
- 0040-4020
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cross-metathesis reaction of vinyl sulfones and sulfoxides
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 59
year: '2003'
...
---
_id: '4561'
abstract:
- lang: eng
text: 'We present a formalism for specifying component interfaces that expose component
requirements on limited resources. The formalism permits an algorithmic check
if two or more components, when put together, exceed the available resources.
Moreover, the formalism can be used to compute the quantity of resources necessary
for satisfying the requirements of a collection of components. The formalism can
be instantiated in several ways. For example, several components may draw power
from the same source. Then, the formalism supports compatibility checks such as:
can two components, when put together, achieve their tasks without ever exceeding
the available amount of peak power? or, can they achieve their tasks by using
no more than the initially available amount of energy (i.e., power accumulated
over time)? The corresponding quantitative questions that our algorithms answer
are the following: what is the amount of peak power needed for two components
to be put together? what is the corresponding amount of initial energy? To solve
these questions, we model interfaces with resource requirements as games with
quantitative objectives. The games are played on state spaces where each state
is labeled by a number (representing, e.g., power consumption), and a play produces
an infinite path of labels. The objective may be, for example, to minimize the
largest label that occurs during a play. We illustrate our approach by modeling
compatibility questions for the components of robot control software, and of wireless
sensor networks.'
acknowledgement: This research was supported in part by the DARPA grant F33615-00-C-1693,
the MARCO grant 98-DT-660, the ONR grant N00014-02-1-0671, and the NSF grants CCR-0085949,
CCR-0132780, CCR-0234690, and CCR-9988172.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Arindam
full_name: Chakrabarti, Arindam
last_name: Chakrabarti
- first_name: Luca
full_name: De Alfaro, Luca
last_name: De Alfaro
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Mariëlle
full_name: Stoelinga, Mariëlle
last_name: Stoelinga
citation:
ama: 'Chakrabarti A, De Alfaro L, Henzinger TA, Stoelinga M. Resource interfaces.
In: Third International Conference on Embedded Software. Vol 2855. ACM;
2003:117-133. doi:10.1007/978-3-540-45212-6_9'
apa: 'Chakrabarti, A., De Alfaro, L., Henzinger, T. A., & Stoelinga, M. (2003).
Resource interfaces. In Third International Conference on Embedded Software
(Vol. 2855, pp. 117–133). Philadelphia, PA, USA: ACM. https://doi.org/10.1007/978-3-540-45212-6_9'
chicago: Chakrabarti, Arindam, Luca De Alfaro, Thomas A Henzinger, and Mariëlle
Stoelinga. “Resource Interfaces.” In Third International Conference on Embedded
Software, 2855:117–33. ACM, 2003. https://doi.org/10.1007/978-3-540-45212-6_9.
ieee: A. Chakrabarti, L. De Alfaro, T. A. Henzinger, and M. Stoelinga, “Resource
interfaces,” in Third International Conference on Embedded Software, Philadelphia,
PA, USA, 2003, vol. 2855, pp. 117–133.
ista: 'Chakrabarti A, De Alfaro L, Henzinger TA, Stoelinga M. 2003. Resource interfaces.
Third International Conference on Embedded Software. EMSOFT: Embedded Software
, LNCS, vol. 2855, 117–133.'
mla: Chakrabarti, Arindam, et al. “Resource Interfaces.” Third International
Conference on Embedded Software, vol. 2855, ACM, 2003, pp. 117–33, doi:10.1007/978-3-540-45212-6_9.
short: A. Chakrabarti, L. De Alfaro, T.A. Henzinger, M. Stoelinga, in:, Third International
Conference on Embedded Software, ACM, 2003, pp. 117–133.
conference:
end_date: 2003-10-15
location: Philadelphia, PA, USA
name: 'EMSOFT: Embedded Software '
start_date: 2003-10-13
date_created: 2018-12-11T12:09:29Z
date_published: 2003-09-29T00:00:00Z
date_updated: 2024-01-08T10:48:11Z
day: '29'
doi: 10.1007/978-3-540-45212-6_9
extern: '1'
intvolume: ' 2855'
language:
- iso: eng
month: '09'
oa_version: None
page: 117 - 133
publication: Third International Conference on Embedded Software
publication_identifier:
isbn:
- '9783540202233'
publication_status: published
publisher: ACM
publist_id: '148'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Resource interfaces
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2855
year: '2003'
...
---
_id: '4630'
abstract:
- lang: eng
text: We consider concurrent two-person games played in real time, in which the
players decide both which action to play, and when to play it. Such timed games
differ from untimed games in two essential ways. First, players can take each
other by surprise, because actions are played with delays that cannot be anticipated
by the opponent. Second, a player should not be able to win the game by preventing
time from diverging. We present a model of timed games that preserves the element
of surprise and accounts for time divergence in a way that treats both players
symmetrically and applies to all ω-regular winning conditions. We prove that the
ability to take each other by surprise adds extra power to the players. For the
case that the games are specified in the style of timed automata, we provide symbolic
algorithms for their solution with respect to all ω-regular winning conditions.
We also show that for these timed games, memory strategies are more powerful than
memoryless strategies already in the case of reachability objectives.
acknowledgement: Supported in part by the AFOSR MURI grant F49620-00-1-0327, the DARPA
grant F33615-C-98-3614, the MARCO grant 98-DT-660, -the ONR grant N00014-02-1-0671,
the NSF grants CCR-9988172, CCR-0225610, and CCR-0234690, the NSF CAREER award CCR-0132780,
and the MIUR grant MEFISTO.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Luca
full_name: De Alfaro, Luca
last_name: De Alfaro
- first_name: Marco
full_name: Faella, Marco
last_name: Faella
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
- first_name: Mariëlle
full_name: Stoelinga, Mariëlle
last_name: Stoelinga
citation:
ama: 'De Alfaro L, Faella M, Henzinger TA, Majumdar R, Stoelinga M. The element
of surprise in timed games. In: Proceedings of the 14th International Conference
on Concurrency Theory. Vol 2761. Schloss Dagstuhl - Leibniz-Zentrum für Informatik;
2003:144-158. doi:10.1007/978-3-540-45187-7_9'
apa: 'De Alfaro, L., Faella, M., Henzinger, T. A., Majumdar, R., & Stoelinga,
M. (2003). The element of surprise in timed games. In Proceedings of the 14th
International Conference on Concurrency Theory (Vol. 2761, pp. 144–158). Marseille,
France: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.1007/978-3-540-45187-7_9'
chicago: De Alfaro, Luca, Marco Faella, Thomas A Henzinger, Ritankar Majumdar, and
Mariëlle Stoelinga. “The Element of Surprise in Timed Games.” In Proceedings
of the 14th International Conference on Concurrency Theory, 2761:144–58. Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2003. https://doi.org/10.1007/978-3-540-45187-7_9.
ieee: L. De Alfaro, M. Faella, T. A. Henzinger, R. Majumdar, and M. Stoelinga, “The
element of surprise in timed games,” in Proceedings of the 14th International
Conference on Concurrency Theory, Marseille, France, 2003, vol. 2761, pp.
144–158.
ista: 'De Alfaro L, Faella M, Henzinger TA, Majumdar R, Stoelinga M. 2003. The element
of surprise in timed games. Proceedings of the 14th International Conference on
Concurrency Theory. CONCUR: Concurrency Theory, LNCS, vol. 2761, 144–158.'
mla: De Alfaro, Luca, et al. “The Element of Surprise in Timed Games.” Proceedings
of the 14th International Conference on Concurrency Theory, vol. 2761, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2003, pp. 144–58, doi:10.1007/978-3-540-45187-7_9.
short: L. De Alfaro, M. Faella, T.A. Henzinger, R. Majumdar, M. Stoelinga, in:,
Proceedings of the 14th International Conference on Concurrency Theory, Schloss
Dagstuhl - Leibniz-Zentrum für Informatik, 2003, pp. 144–158.
conference:
end_date: 2003-09-05
location: Marseille, France
name: 'CONCUR: Concurrency Theory'
start_date: 2003-09-03
date_created: 2018-12-11T12:09:51Z
date_published: 2003-08-21T00:00:00Z
date_updated: 2024-01-08T10:05:30Z
day: '21'
doi: 10.1007/978-3-540-45187-7_9
extern: '1'
intvolume: ' 2761'
language:
- iso: eng
month: '08'
oa_version: None
page: 144 - 158
publication: Proceedings of the 14th International Conference on Concurrency Theory
publication_identifier:
isbn:
- '9783540407539'
publication_status: published
publisher: Schloss Dagstuhl - Leibniz-Zentrum für Informatik
publist_id: '78'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The element of surprise in timed games
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2761
year: '2003'
...
---
_id: '4468'
abstract:
- lang: eng
text: Giotto is a high-level programming language for time-triggered control applications.
The authors begin with a conceptual overview of its methodology, discuss the Giotto
helicopter project, and summarize available Giotto implementations.
acknowledgement: We thank Niklaus Wirth and Walter Schaufelberger for their advice
and support of the reengineering effort of the ETH Zurich helicopter control system
using Giotto. This research was supported in part by DARPA SEC grant F33615-C-98–3614,
MARCO GSRC grant 98-DT-660, and AFOSR MURI grant F49620–00-1–0327. A preliminary
version of this article appeared as [1].
article_processing_charge: No
article_type: original
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Christoph
full_name: Kirsch, Christoph
last_name: Kirsch
- first_name: Marco
full_name: Sanvido, Marco
last_name: Sanvido
- first_name: Wolfgang
full_name: Pree, Wolfgang
last_name: Pree
citation:
ama: Henzinger TA, Kirsch C, Sanvido M, Pree W. From control models to real-time
code using Giotto. IEEE Control Systems Magazine. 2003;23(1):50-64. doi:10.1109/MCS.2003.1172829
apa: Henzinger, T. A., Kirsch, C., Sanvido, M., & Pree, W. (2003). From control
models to real-time code using Giotto. IEEE Control Systems Magazine. IEEE.
https://doi.org/10.1109/MCS.2003.1172829
chicago: Henzinger, Thomas A, Christoph Kirsch, Marco Sanvido, and Wolfgang Pree.
“From Control Models to Real-Time Code Using Giotto.” IEEE Control Systems
Magazine. IEEE, 2003. https://doi.org/10.1109/MCS.2003.1172829.
ieee: T. A. Henzinger, C. Kirsch, M. Sanvido, and W. Pree, “From control models
to real-time code using Giotto,” IEEE Control Systems Magazine, vol. 23,
no. 1. IEEE, pp. 50–64, 2003.
ista: Henzinger TA, Kirsch C, Sanvido M, Pree W. 2003. From control models to real-time
code using Giotto. IEEE Control Systems Magazine. 23(1), 50–64.
mla: Henzinger, Thomas A., et al. “From Control Models to Real-Time Code Using Giotto.”
IEEE Control Systems Magazine, vol. 23, no. 1, IEEE, 2003, pp. 50–64, doi:10.1109/MCS.2003.1172829.
short: T.A. Henzinger, C. Kirsch, M. Sanvido, W. Pree, IEEE Control Systems Magazine
23 (2003) 50–64.
date_created: 2018-12-11T12:09:00Z
date_published: 2003-01-29T00:00:00Z
date_updated: 2024-01-08T10:54:53Z
day: '29'
doi: 10.1109/MCS.2003.1172829
extern: '1'
intvolume: ' 23'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 50 - 64
publication: IEEE Control Systems Magazine
publication_identifier:
issn:
- '1066-033X '
publication_status: published
publisher: IEEE
publist_id: '260'
quality_controlled: '1'
scopus_import: '1'
status: public
title: From control models to real-time code using Giotto
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 23
year: '2003'
...
---
_id: '4465'
abstract:
- lang: eng
text: Giotto is a principled, tool-supported design methodology for implementing
embedded control systems on platforms of possibly distributed sensors, actuators,
CPUs, and networks. Giotto is based on the principle that time-triggered task
invocations plus time-triggered mode switches can form the abstract essence of
programming real-time control systems. Giotto consists of a programming language
with a formal semantics, and a retargetable compiler and runtime library. Giotto
supports the automation of control system design by strictly separating platform-independent
functionality and timing concerns from platform-dependent scheduling and communication
issues. The time-triggered predictability of Giotto makes it particularly suitable
for safety-critical applications with hard real-time constraints. We illustrate
the platform independence and time-triggered execution of Giotto by coordinating
a heterogeneous flock of Intel x86 robots and Lego Mindstorms robots.
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Benjamin
full_name: Horowitz, Benjamin
last_name: Horowitz
- first_name: Christoph
full_name: Kirsch, Christoph
last_name: Kirsch
citation:
ama: 'Henzinger TA, Horowitz B, Kirsch C. Embedded control systems development with
Giotto. In: Software-Enabled Control: Information Technology for Dynamical
Systems. Wiley-Blackwell; 2003:123-146. doi:10.1002/047172288X.ch8'
apa: 'Henzinger, T. A., Horowitz, B., & Kirsch, C. (2003). Embedded control
systems development with Giotto. In Software-Enabled Control: Information Technology
for Dynamical Systems (pp. 123–146). Wiley-Blackwell. https://doi.org/10.1002/047172288X.ch8'
chicago: 'Henzinger, Thomas A, Benjamin Horowitz, and Christoph Kirsch. “Embedded
Control Systems Development with Giotto.” In Software-Enabled Control: Information
Technology for Dynamical Systems, 123–46. Wiley-Blackwell, 2003. https://doi.org/10.1002/047172288X.ch8.'
ieee: 'T. A. Henzinger, B. Horowitz, and C. Kirsch, “Embedded control systems development
with Giotto,” in Software-Enabled Control: Information Technology for Dynamical
Systems, Wiley-Blackwell, 2003, pp. 123–146.'
ista: 'Henzinger TA, Horowitz B, Kirsch C. 2003.Embedded control systems development
with Giotto. In: Software-Enabled Control: Information Technology for Dynamical
Systems. , 123–146.'
mla: 'Henzinger, Thomas A., et al. “Embedded Control Systems Development with Giotto.”
Software-Enabled Control: Information Technology for Dynamical Systems,
Wiley-Blackwell, 2003, pp. 123–46, doi:10.1002/047172288X.ch8.'
short: 'T.A. Henzinger, B. Horowitz, C. Kirsch, in:, Software-Enabled Control: Information
Technology for Dynamical Systems, Wiley-Blackwell, 2003, pp. 123–146.'
date_created: 2018-12-11T12:08:59Z
date_published: 2003-05-20T00:00:00Z
date_updated: 2024-01-08T12:24:01Z
day: '20'
doi: 10.1002/047172288X.ch8
extern: '1'
language:
- iso: eng
month: '05'
oa_version: None
page: 123 - 146
publication: 'Software-Enabled Control: Information Technology for Dynamical Systems'
publication_identifier:
isbn:
- '9780471234364 '
publication_status: published
publisher: Wiley-Blackwell
publist_id: '262'
quality_controlled: '1'
status: public
title: Embedded control systems development with Giotto
type: book_chapter
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
year: '2003'
...
---
_id: '4466'
abstract:
- lang: eng
text: One source of complexity in the μ-calculus is its ability to specify an unbounded
number of switches between universal (AX) and existential (EX) branching modes.
We therefore study the problems of satisfiability, validity, model checking, and
implication for the universal and existential fragments of the μ-calculus, in
which only one branching mode is allowed. The universal fragment is rich enough
to express most specifications of interest, and therefore improved algorithms
are of practical importance. We show that while the satisfiability and validity
problems become indeed simpler for the existential and universal fragments, this
is, unfortunately, not the case for model checking and implication. We also show
the corresponding results for the alternationfree fragment of the μ-calculus,
where no alternations between least and greatest fixed points are allowed. Our
results imply that efforts to find a polynomial-time model-checking algorithm
for the μ-calculus can be replaced by efforts to find such an algorithm for the
universal or existential fragment.
acknowledgement: This work was supported in part by NSF grant CCR-9988172, the AFOSR
MURI grant F49620-00-1-0327, and a Microsoft Research Fellowship.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
citation:
ama: 'Henzinger TA, Kupferman O, Majumdar R. On the universal and existential fragments
of the mu-calculus. In: Proceedings of the 9th International Conference on
Tools and Algorithms for the Construction and Analysis of Systems . Vol 2619.
Springer; 2003:49-64. doi:10.1007/3-540-36577-X_5'
apa: 'Henzinger, T. A., Kupferman, O., & Majumdar, R. (2003). On the universal
and existential fragments of the mu-calculus. In Proceedings of the 9th International
Conference on Tools and Algorithms for the Construction and Analysis of Systems
(Vol. 2619, pp. 49–64). Warsaw, Poland: Springer. https://doi.org/10.1007/3-540-36577-X_5'
chicago: Henzinger, Thomas A, Orna Kupferman, and Ritankar Majumdar. “On the Universal
and Existential Fragments of the Mu-Calculus.” In Proceedings of the 9th International
Conference on Tools and Algorithms for the Construction and Analysis of Systems
, 2619:49–64. Springer, 2003. https://doi.org/10.1007/3-540-36577-X_5.
ieee: T. A. Henzinger, O. Kupferman, and R. Majumdar, “On the universal and existential
fragments of the mu-calculus,” in Proceedings of the 9th International Conference
on Tools and Algorithms for the Construction and Analysis of Systems , Warsaw,
Poland, 2003, vol. 2619, pp. 49–64.
ista: 'Henzinger TA, Kupferman O, Majumdar R. 2003. On the universal and existential
fragments of the mu-calculus. Proceedings of the 9th International Conference
on Tools and Algorithms for the Construction and Analysis of Systems . TACAS:
Tools and Algorithms for the Construction and Analysis of Systems, LNCS, vol.
2619, 49–64.'
mla: Henzinger, Thomas A., et al. “On the Universal and Existential Fragments of
the Mu-Calculus.” Proceedings of the 9th International Conference on Tools
and Algorithms for the Construction and Analysis of Systems , vol. 2619, Springer,
2003, pp. 49–64, doi:10.1007/3-540-36577-X_5.
short: T.A. Henzinger, O. Kupferman, R. Majumdar, in:, Proceedings of the 9th International
Conference on Tools and Algorithms for the Construction and Analysis of Systems
, Springer, 2003, pp. 49–64.
conference:
end_date: 2003-04-11
location: Warsaw, Poland
name: 'TACAS: Tools and Algorithms for the Construction and Analysis of Systems'
start_date: 2003-04-07
date_created: 2018-12-11T12:08:59Z
date_published: 2003-03-14T00:00:00Z
date_updated: 2024-01-08T13:17:35Z
day: '14'
doi: 10.1007/3-540-36577-X_5
extern: '1'
intvolume: ' 2619'
language:
- iso: eng
month: '03'
oa_version: None
page: 49 - 64
publication: 'Proceedings of the 9th International Conference on Tools and Algorithms
for the Construction and Analysis of Systems '
publication_identifier:
isbn:
- '9783540008989'
publication_status: published
publisher: Springer
publist_id: '263'
quality_controlled: '1'
status: public
title: On the universal and existential fragments of the mu-calculus
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2619
year: '2003'
...
---
_id: '4467'
abstract:
- lang: eng
text: 'BLAST (the Berkeley Lazy Abstraction Software verification Tool) is a verification
system for checking safety properties of C programs using automatic property-driven
construction and model checking of software abstractions. Blast implements an
abstract-model check-refine loop to check for reachability of a specified label
in the program. The abstract model is built on the fly using predicate abstraction.
This model is then checked for reachability. If there is no (abstract) path to
the specified error label, Blast reports that the system is safe and produces
a succinct proof. Otherwise, it checks if the path is feasible using symbolic
execution of the program. If the path is feasible, Blast outputs the path as an
error trace, otherwise, it uses the infeasibility of the path to refine the abstract
model. Blast short-circuits the loop from abstraction to verification to refinement,
integrating the three steps tightly through “lazy abstraction” [5]. This integration
can offer significant advantages in performance by avoiding the repetition of
work from one iteration of the loop to the next. '
acknowledgement: This work was supported in part by the NSF grants CCR-0085949 and
CCR-9988172, the DARPA PCES grant F33615-00-C-1693, the MARCO GSRC grant 98-DT-660,
and a Microsoft Research Fellowship.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Ranjit
full_name: Jhala, Ranjit
last_name: Jhala
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
- first_name: Grégoire
full_name: Sutre, Grégoire
last_name: Sutre
citation:
ama: 'Henzinger TA, Jhala R, Majumdar R, Sutre G. Software verification with BLAST.
In: Proceedings of the 10th International SPIN Workshop . Vol 2648. Springer;
2003:235-239. doi:10.1007/3-540-44829-2_17'
apa: 'Henzinger, T. A., Jhala, R., Majumdar, R., & Sutre, G. (2003). Software
verification with BLAST. In Proceedings of the 10th International SPIN Workshop
(Vol. 2648, pp. 235–239). Portland, OR, USA: Springer. https://doi.org/10.1007/3-540-44829-2_17'
chicago: Henzinger, Thomas A, Ranjit Jhala, Ritankar Majumdar, and Grégoire Sutre.
“Software Verification with BLAST.” In Proceedings of the 10th International
SPIN Workshop , 2648:235–39. Springer, 2003. https://doi.org/10.1007/3-540-44829-2_17.
ieee: T. A. Henzinger, R. Jhala, R. Majumdar, and G. Sutre, “Software verification
with BLAST,” in Proceedings of the 10th International SPIN Workshop , Portland,
OR, USA, 2003, vol. 2648, pp. 235–239.
ista: 'Henzinger TA, Jhala R, Majumdar R, Sutre G. 2003. Software verification with
BLAST. Proceedings of the 10th International SPIN Workshop . SPIN: Model Checking
Software, LNCS, vol. 2648, 235–239.'
mla: Henzinger, Thomas A., et al. “Software Verification with BLAST.” Proceedings
of the 10th International SPIN Workshop , vol. 2648, Springer, 2003, pp. 235–39,
doi:10.1007/3-540-44829-2_17.
short: T.A. Henzinger, R. Jhala, R. Majumdar, G. Sutre, in:, Proceedings of the
10th International SPIN Workshop , Springer, 2003, pp. 235–239.
conference:
end_date: 2003-05-10
location: Portland, OR, USA
name: 'SPIN: Model Checking Software'
start_date: 2003-05-09
date_created: 2018-12-11T12:09:00Z
date_published: 2003-04-28T00:00:00Z
date_updated: 2024-01-08T14:05:29Z
day: '28'
doi: 10.1007/3-540-44829-2_17
extern: '1'
intvolume: ' 2648'
language:
- iso: eng
month: '04'
oa_version: None
page: 235 - 239
publication: 'Proceedings of the 10th International SPIN Workshop '
publication_identifier:
isbn:
- '9783540401179'
publication_status: published
publisher: Springer
publist_id: '264'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Software verification with BLAST
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2648
year: '2003'
...
---
_id: '4463'
abstract:
- lang: eng
text: We present an algorithm called TAR (“Thread-modular Abstraction Refinement”)
for model checking safety properties of concurrent software. The TAR algorithm
uses thread-modular assume-guarantee reasoning to overcome the exponential complexity
in the control state of multithreaded programs. Thread modularity means that TAR
explores the state space of one thread at a time, making assumptions about how
the environment can interfere. The TAR algorithm uses counterexample-guided predicate-abstraction
refinement to overcome the usually infinite complexity in the data state of C
programs. A successive approximation scheme automatically infers the necessary
precision on data variables as well as suitable environment assumptions. The scheme
is novel in that transition relations are approximated from above, while at the
same time environment assumptions are approximated from below. In our software
verification tool BLAST we have implemented a fully automatic race checker for
multithreaded C programs which is based on the TAR algorithm. This tool has verified
a wide variety of commonly used locking idioms, including locking schemes that
are not amenable to existing dynamic and static race checkers such as ERASER or
WARLOCK.
acknowledgement: This work was supported in part by the NSF grants CCR-0085949 and
CCR-0234690, the DARPA grant F33615-00-C-1693, and the MARCO grant 98-DT-660.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Ranjit
full_name: Jhala, Ranjit
last_name: Jhala
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
- first_name: Shaz
full_name: Qadeer, Shaz
last_name: Qadeer
citation:
ama: 'Henzinger TA, Jhala R, Majumdar R, Qadeer S. Thread-modular abstraction refinement.
In: Proceedings of the 15th International Conference on Computer Aided Verification.
Vol 2725. Springer; 2003:262-274. doi:10.1007/978-3-540-45069-6_27'
apa: 'Henzinger, T. A., Jhala, R., Majumdar, R., & Qadeer, S. (2003). Thread-modular
abstraction refinement. In Proceedings of the 15th International Conference
on Computer Aided Verification (Vol. 2725, pp. 262–274). Boulder, CO, USA:
Springer. https://doi.org/10.1007/978-3-540-45069-6_27'
chicago: Henzinger, Thomas A, Ranjit Jhala, Ritankar Majumdar, and Shaz Qadeer.
“Thread-Modular Abstraction Refinement.” In Proceedings of the 15th International
Conference on Computer Aided Verification, 2725:262–74. Springer, 2003. https://doi.org/10.1007/978-3-540-45069-6_27.
ieee: T. A. Henzinger, R. Jhala, R. Majumdar, and S. Qadeer, “Thread-modular abstraction
refinement,” in Proceedings of the 15th International Conference on Computer
Aided Verification, Boulder, CO, USA, 2003, vol. 2725, pp. 262–274.
ista: 'Henzinger TA, Jhala R, Majumdar R, Qadeer S. 2003. Thread-modular abstraction
refinement. Proceedings of the 15th International Conference on Computer Aided
Verification. CAV: Computer Aided Verification, LNCS, vol. 2725, 262–274.'
mla: Henzinger, Thomas A., et al. “Thread-Modular Abstraction Refinement.” Proceedings
of the 15th International Conference on Computer Aided Verification, vol.
2725, Springer, 2003, pp. 262–74, doi:10.1007/978-3-540-45069-6_27.
short: T.A. Henzinger, R. Jhala, R. Majumdar, S. Qadeer, in:, Proceedings of the
15th International Conference on Computer Aided Verification, Springer, 2003,
pp. 262–274.
conference:
end_date: 2003-07-12
location: Boulder, CO, USA
name: 'CAV: Computer Aided Verification'
start_date: 2003-07-08
date_created: 2018-12-11T12:08:59Z
date_published: 2003-06-27T00:00:00Z
date_updated: 2024-01-10T11:05:53Z
day: '27'
doi: 10.1007/978-3-540-45069-6_27
extern: '1'
intvolume: ' 2725'
language:
- iso: eng
month: '06'
oa_version: None
page: 262 - 274
publication: Proceedings of the 15th International Conference on Computer Aided Verification
publication_identifier:
isbn:
- '9783540405245'
publication_status: published
publisher: Springer
publist_id: '266'
quality_controlled: '1'
status: public
title: Thread-modular abstraction refinement
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2725
year: '2003'
...
---
_id: '4462'
abstract:
- lang: eng
text: 'A major hurdle in the algorithmic verification and control of systems is
the need to find suitable abstract models, which omit enough details to overcome
the state-explosion problem, but retain enough details to exhibit satisfaction
or controllability with respect to the specification. The paradigm of counterexample-guided
abstraction refinement suggests a fully automatic way of finding suitable abstract
models: one starts with a coarse abstraction, attempts to verify or control the
abstract model, and if this attempt fails and the abstract counterexample does
not correspond to a concrete counterexample, then one uses the spurious counterexample
to guide the refinement of the abstract model. We present a counterexample-guided
refinement algorithm for solving ω-regular control objectives. The main difficulty
is that in control, unlike in verification, counterexamples are strategies in
a game between system and controller. In the case that the controller has no choices,
our scheme subsumes known counterexample-guided refinement algorithms for the
verification of ω-regular specifications. Our algorithm is useful in all situations
where ω-regular games need to be solved, such as supervisory control, sequential
and program synthesis, and modular verification. The algorithm is fully symbolic,
and therefore applicable also to infinite-state systems.'
acknowledgement: This research was supported in part by the DARPA SEC grant F33615-C-98-3614,
the ONR grant N00014-02-1-0671, and the NSF grants CCR-9988172, CCR-0085949, and
CCR-0225610.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Ranjit
full_name: Jhala, Ranjit
last_name: Jhala
- first_name: Ritankar
full_name: Majumdar, Ritankar
last_name: Majumdar
citation:
ama: 'Henzinger TA, Jhala R, Majumdar R. Counterexample-guided control. In: Proceedings
of the 30th International Colloquium on Automata, Languages and Programming.
Vol 2719. Springer; 2003:886-902. doi:10.1007/3-540-45061-0_69'
apa: 'Henzinger, T. A., Jhala, R., & Majumdar, R. (2003). Counterexample-guided
control. In Proceedings of the 30th International Colloquium on Automata, Languages
and Programming (Vol. 2719, pp. 886–902). Eindhoven, The Netherlands: Springer.
https://doi.org/10.1007/3-540-45061-0_69'
chicago: Henzinger, Thomas A, Ranjit Jhala, and Ritankar Majumdar. “Counterexample-Guided
Control.” In Proceedings of the 30th International Colloquium on Automata,
Languages and Programming, 2719:886–902. Springer, 2003. https://doi.org/10.1007/3-540-45061-0_69.
ieee: T. A. Henzinger, R. Jhala, and R. Majumdar, “Counterexample-guided control,”
in Proceedings of the 30th International Colloquium on Automata, Languages
and Programming, Eindhoven, The Netherlands, 2003, vol. 2719, pp. 886–902.
ista: 'Henzinger TA, Jhala R, Majumdar R. 2003. Counterexample-guided control. Proceedings
of the 30th International Colloquium on Automata, Languages and Programming. ICALP:
Automata, Languages and Programming, LNCS, vol. 2719, 886–902.'
mla: Henzinger, Thomas A., et al. “Counterexample-Guided Control.” Proceedings
of the 30th International Colloquium on Automata, Languages and Programming,
vol. 2719, Springer, 2003, pp. 886–902, doi:10.1007/3-540-45061-0_69.
short: T.A. Henzinger, R. Jhala, R. Majumdar, in:, Proceedings of the 30th International
Colloquium on Automata, Languages and Programming, Springer, 2003, pp. 886–902.
conference:
end_date: 2003-07-04
location: Eindhoven, The Netherlands
name: 'ICALP: Automata, Languages and Programming'
start_date: 2003-06-30
date_created: 2018-12-11T12:08:58Z
date_published: 2003-06-25T00:00:00Z
date_updated: 2024-01-10T11:19:41Z
day: '25'
doi: 10.1007/3-540-45061-0_69
extern: '1'
intvolume: ' 2719'
language:
- iso: eng
month: '06'
oa_version: None
page: 886 - 902
publication: Proceedings of the 30th International Colloquium on Automata, Languages
and Programming
publication_identifier:
isbn:
- '9783540404934'
publication_status: published
publisher: Springer
publist_id: '265'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Counterexample-guided control
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2719
year: '2003'
...
---
_id: '4464'
abstract:
- lang: eng
text: We introduce the paradigm of schedule-carrying code (SCC). A hard real-time
program can be executed on a given platform only if there exists a feasible schedule
for the real-time tasks of the program. Traditionally, a scheduler determines
the existence of a feasible schedule according to some scheduling strategy. With
SCC, a compiler proves the existence of a feasible schedule by generating executable
code that is attached to the program and represents its schedule. An SCC executable
is a real-time program that carries its schedule as code, which is produced once
and can be revalidated and executed with each use. We evaluate SCC both in theory
and practice. In theory, we give two scenarios, of nonpreemptive and distributed
scheduling for Giotto programs, where the generation of a feasible schedule is
hard, while the validation of scheduling instructions that are attached to the
programs is easy. In practice, we implement SCC and show that explicit scheduling
instructions can reduce the scheduling overhead up to 35% and can provide an efficient,
flexible, and verifiable means for compiling Giotto programs on complex architectures,
such as the TTA.
acknowledgement: This work was supported by the AFOSR MURI grant F49620-00-1-0327,
the California MICRO grant 01-037, the DARPA grant F33615-C-98-3614, the MARCO grant
98-DT-660, and the NSF grants CCR-0208875, CCR-0085949, and CCR-0225610.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Christoph
full_name: Kirsch, Christoph
last_name: Kirsch
- first_name: Slobodan
full_name: Matic, Slobodan
last_name: Matic
citation:
ama: 'Henzinger TA, Kirsch C, Matic S. Schedule-carrying code. In: Proceedings
of the 3rd International Conference on Embedded Software. Vol 2855. ACM; 2003:241-256.
doi:10.1007/978-3-540-45212-6_16'
apa: 'Henzinger, T. A., Kirsch, C., & Matic, S. (2003). Schedule-carrying code.
In Proceedings of the 3rd International Conference on Embedded Software
(Vol. 2855, pp. 241–256). Philadelphia, PA, USA: ACM. https://doi.org/10.1007/978-3-540-45212-6_16'
chicago: Henzinger, Thomas A, Christoph Kirsch, and Slobodan Matic. “Schedule-Carrying
Code.” In Proceedings of the 3rd International Conference on Embedded Software,
2855:241–56. ACM, 2003. https://doi.org/10.1007/978-3-540-45212-6_16.
ieee: T. A. Henzinger, C. Kirsch, and S. Matic, “Schedule-carrying code,” in Proceedings
of the 3rd International Conference on Embedded Software, Philadelphia, PA,
USA, 2003, vol. 2855, pp. 241–256.
ista: 'Henzinger TA, Kirsch C, Matic S. 2003. Schedule-carrying code. Proceedings
of the 3rd International Conference on Embedded Software. EMSOFT: Embedded Software
, LNCS, vol. 2855, 241–256.'
mla: Henzinger, Thomas A., et al. “Schedule-Carrying Code.” Proceedings of the
3rd International Conference on Embedded Software, vol. 2855, ACM, 2003, pp.
241–56, doi:10.1007/978-3-540-45212-6_16.
short: T.A. Henzinger, C. Kirsch, S. Matic, in:, Proceedings of the 3rd International
Conference on Embedded Software, ACM, 2003, pp. 241–256.
conference:
end_date: 2003-10-15
location: Philadelphia, PA, USA
name: 'EMSOFT: Embedded Software '
start_date: 2003-10-13
date_created: 2018-12-11T12:08:59Z
date_published: 2003-09-29T00:00:00Z
date_updated: 2024-01-10T11:33:57Z
day: '29'
doi: 10.1007/978-3-540-45212-6_16
extern: '1'
intvolume: ' 2855'
language:
- iso: eng
month: '09'
oa_version: None
page: 241 - 256
publication: Proceedings of the 3rd International Conference on Embedded Software
publication_identifier:
isbn:
- '9783540202233'
publication_status: published
publisher: ACM
publist_id: '267'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Schedule-carrying code
type: conference
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 2855
year: '2003'
...
---
_id: '4460'
abstract:
- lang: eng
text: "Symbolic model checking, which enables the automatic verification of large
systems, proceeds by calculating expressions that represent state sets. Traditionally,
symbolic model-checking tools are based on back- ward state traversal; their basic
operation is the function pre, which, given a set of states, returns the set of
all predecessor states. This is because specifiers usually employ formalisms with
future-time modalities, which are naturally evaluated by iterating applications
of pre. It has been shown experimentally that symbolic model checking can perform
significantly better if it is based, instead, on forward state traversal; in this
case, the basic operation is the function post, which, given a set of states,
returns the set of all successor states. This is because forward state traversal
can ensure that only parts of the state space that are reachable from an initial
state and relevant for the satisfaction or violation of the specification are
explored; that is, errors can be detected as soon as possible.\r\nIn this paper,
we investigate which specifications can be checked by symbolic forward state traversal.
We formulate the problems of symbolic backward and forward model checking by means
of two μ-calculi. The pre-μ calculus is based on the pre operation, and the post-μ
calculus is based on the post operation. These two μ-calculi induce query logics,
which augment fixpoint expressions with a boolean emptiness query. Using query
logics, we are able to relate and compare the symbolic backward and forward approaches.
In particular, we prove that all ω-regular (linear-time) specifications can be
expressed as post-μ queries, and therefore checked using symbolic forward state
traversal. On the other hand, we show that there are simple branching-time specifications
that cannot be checked in this way."
acknowledgement: This research was supported in part by the SRC contract 99-TJ-683.003
and the NSF grant CCR-9988172.
article_processing_charge: No
article_type: original
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Orna
full_name: Kupferman, Orna
last_name: Kupferman
- first_name: Shaz
full_name: Qadeer, Shaz
last_name: Qadeer
citation:
ama: Henzinger TA, Kupferman O, Qadeer S. From pre-historic to post-modern symbolic
model checking. Formal Methods in System Design. 2003;23(3):303-327. doi:10.1023/A:1026228213080
apa: Henzinger, T. A., Kupferman, O., & Qadeer, S. (2003). From pre-historic
to post-modern symbolic model checking. Formal Methods in System Design.
Springer. https://doi.org/10.1023/A:1026228213080
chicago: Henzinger, Thomas A, Orna Kupferman, and Shaz Qadeer. “From Pre-Historic
to Post-Modern Symbolic Model Checking.” Formal Methods in System Design.
Springer, 2003. https://doi.org/10.1023/A:1026228213080.
ieee: T. A. Henzinger, O. Kupferman, and S. Qadeer, “From pre-historic to post-modern
symbolic model checking,” Formal Methods in System Design, vol. 23, no.
3. Springer, pp. 303–327, 2003.
ista: Henzinger TA, Kupferman O, Qadeer S. 2003. From pre-historic to post-modern
symbolic model checking. Formal Methods in System Design. 23(3), 303–327.
mla: Henzinger, Thomas A., et al. “From Pre-Historic to Post-Modern Symbolic Model
Checking.” Formal Methods in System Design, vol. 23, no. 3, Springer, 2003,
pp. 303–27, doi:10.1023/A:1026228213080.
short: T.A. Henzinger, O. Kupferman, S. Qadeer, Formal Methods in System Design
23 (2003) 303–327.
date_created: 2018-12-11T12:08:58Z
date_published: 2003-06-20T00:00:00Z
date_updated: 2024-01-10T11:50:31Z
day: '20'
doi: 10.1023/A:1026228213080
extern: '1'
intvolume: ' 23'
issue: '3'
language:
- iso: eng
month: '06'
oa_version: None
page: 303 - 327
publication: Formal Methods in System Design
publication_identifier:
issn:
- 0925-9856
publication_status: published
publisher: Springer
publist_id: '268'
quality_controlled: '1'
scopus_import: '1'
status: public
title: From pre-historic to post-modern symbolic model checking
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 23
year: '2003'
...
---
_id: '4469'
abstract:
- lang: eng
text: Giotto provides an abstract programmer's model for the implementation of embedded
control systems with hard real-time constraints. A typical control application
consists of periodic software tasks together with a mode-switching logic for enabling
and disabling tasks. Giotto specifies time-triggered sensor readings, task invocations,
actuator updates, and mode switches independent of any implementation platform.
Giotto can be annotated with platform constraints such as task-to-host mappings,
and task and communication schedules. The annotations are directives for the Giotto
compiler, but they do not alter the functionality and timing of a Giotto program.
By separating the platform-independent from the platform-dependent concerns, Giotto
enables a great deal of flexibility in choosing control platforms as well as a
great deal of automation in the validation and synthesis of control software.
The time-triggered nature of Giotto achieves timing predictability, which makes
Giotto particularly suitable for safety-critical applications.
acknowledgement: The authors would like to thank R. Majumdar for implementing a prototype
Giotto compiler for Lego Mindstorms robots. They would like to thank D. Derevyanko
and W. Williams for building the Intel x86 robots; and E. Lee and X. Liu for help
with implementing Giotto as a “model of computation” in Ptolemy II [26]. Finally,
they would also like to thank M. Sanvido for his suggestions on the design of the
Giotto drivers; and P. Griffiths for implementing the functionality code of the
electronic throttle controller.
article_processing_charge: No
article_type: original
author:
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Benjamin
full_name: Horowitz, Benjamin
last_name: Horowitz
- first_name: Christoph
full_name: Kirsch, Christoph
last_name: Kirsch
citation:
ama: 'Henzinger TA, Horowitz B, Kirsch C. Giotto: A time-triggered language for
embedded programming. Proceedings of the IEEE. 2003;91(1):84-99. doi:10.1109/JPROC.2002.805825'
apa: 'Henzinger, T. A., Horowitz, B., & Kirsch, C. (2003). Giotto: A time-triggered
language for embedded programming. Proceedings of the IEEE. IEEE. https://doi.org/10.1109/JPROC.2002.805825'
chicago: 'Henzinger, Thomas A, Benjamin Horowitz, and Christoph Kirsch. “Giotto:
A Time-Triggered Language for Embedded Programming.” Proceedings of the IEEE.
IEEE, 2003. https://doi.org/10.1109/JPROC.2002.805825.'
ieee: 'T. A. Henzinger, B. Horowitz, and C. Kirsch, “Giotto: A time-triggered language
for embedded programming,” Proceedings of the IEEE, vol. 91, no. 1. IEEE,
pp. 84–99, 2003.'
ista: 'Henzinger TA, Horowitz B, Kirsch C. 2003. Giotto: A time-triggered language
for embedded programming. Proceedings of the IEEE. 91(1), 84–99.'
mla: 'Henzinger, Thomas A., et al. “Giotto: A Time-Triggered Language for Embedded
Programming.” Proceedings of the IEEE, vol. 91, no. 1, IEEE, 2003, pp.
84–99, doi:10.1109/JPROC.2002.805825.'
short: T.A. Henzinger, B. Horowitz, C. Kirsch, Proceedings of the IEEE 91 (2003)
84–99.
date_created: 2018-12-11T12:09:00Z
date_published: 2003-01-29T00:00:00Z
date_updated: 2024-01-10T11:55:18Z
day: '29'
doi: 10.1109/JPROC.2002.805825
extern: '1'
intvolume: ' 91'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 84 - 99
publication: Proceedings of the IEEE
publication_identifier:
issn:
- '0018-9219 '
publication_status: published
publisher: IEEE
publist_id: '261'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Giotto: A time-triggered language for embedded programming'
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 91
year: '2003'
...
---
_id: '4338'
abstract:
- lang: eng
text: 'Mosaic hybrid zones arise when ecologically differentiated taxa hybridize
across a network of habitat patches. Frequent interbreeding across a small-scale
patchwork can erode species differences that might have been preserved in a clinal
hybrid zone. In particular, the rapid breakdown of neutral divergence sets an
upper limit to the time for which differences at marker loci can persist. We present
here a case study of a mosaic hybrid zone between the fire-bellied toads Bombina
bombina and B. variegata (Anura: Discoglossidae) near Apahida in Romania. In our
20 × 20 km study area, we detected no evidence of a clinal transition but found
a strong association between aquatic habitat and mean allele frequencies at four
molecular markers. In particular, pure populations of B. bombina in ponds appear
to cause massive introgression into the surrounding B. variegata gene pool found
in temporary aquatic sites. Nevertheless, the genetic structure of these hybrid
populations was remarkably similar to those of a previously studied transect near
Pescenica (Croatia), which had both clinal and mosaic features: estimates of heterozygote
deficit and linkage disequilibrium in each country are similar. In Apahida, the
observed strong linkage disequilibria should stem from an imperfect habitat preference
that guides most (but not all) adults into the habitats to which they are adapted.
In the absence of a clinal structure, the inferred migration rate between habitats
implies that associations between selected loci and neutral markers should break
down rapidly. Although plausible selection strengths can maintain differentiation
at those loci adapting the toads to either permanent or temporary breeding sites,
the divergence at neutral markers must be transient. The hybrid zone may be approaching
a state in which the gene pools are homogenized at all but the selected loci,
not dissimilar from an early stage of sympatric divergence.'
acknowledgement: "We thank G. Mara and T. Galbena for enthusiastic field\r\nassistance,
A. Hofmann and R. Sieglstetter for access to their\r\nunpublished data, B. Fo¨rg-Brey
and G. Praetzel for help in\r\nthe lab. Helpful comments on a previous version of
the man-\r\nuscript were provided by R. Ennos, J. Szymura, F. Balloux,\r\nJ. Bridle,
L. Kruuk, F. Bonhomme, M. Arnold, and two anon-\r\nymous reviewers. We also thank
A. Pinggera for providing\r\nthe cover illustration. This work was supported by
Natural\r\nEnvironment Research Council studentships to THV and TRS\r\nand Deutsche
Forschungsgemeinschaft grant Nu 51/2-1 to BN."
article_processing_charge: No
article_type: original
author:
- first_name: Timothy
full_name: Vines, Timothy
last_name: Vines
- first_name: S C
full_name: Kohler, S C
last_name: Kohler
- first_name: M
full_name: Thiel, M
last_name: Thiel
- first_name: Ioan
full_name: Ghira, Ioan
last_name: Ghira
- first_name: T R
full_name: Sands, T R
last_name: Sands
- first_name: Catriona
full_name: Maccallum, Catriona
last_name: Maccallum
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Beate
full_name: Nürnberger, Beate
last_name: Nürnberger
citation:
ama: Vines T, Kohler SC, Thiel M, et al. On the maintenance of reproductive isolation
in a mosaic hybrid zone between the toads Bombina bombina and B. variegata. Evolution.
2003;57(8):1876-1888. doi:10.1111/j.0014-3820.2003.tb00595.x
apa: Vines, T., Kohler, S. C., Thiel, M., Ghira, I., Sands, T. R., Maccallum, C.,
… Nürnberger, B. (2003). On the maintenance of reproductive isolation in a mosaic
hybrid zone between the toads Bombina bombina and B. variegata. Evolution.
Wiley-Blackwell. https://doi.org/10.1111/j.0014-3820.2003.tb00595.x
chicago: Vines, Timothy, S C Kohler, M Thiel, Ioan Ghira, T R Sands, Catriona Maccallum,
Nicholas H Barton, and Beate Nürnberger. “On the Maintenance of Reproductive Isolation
in a Mosaic Hybrid Zone between the Toads Bombina Bombina and B. Variegata.” Evolution.
Wiley-Blackwell, 2003. https://doi.org/10.1111/j.0014-3820.2003.tb00595.x.
ieee: T. Vines et al., “On the maintenance of reproductive isolation in a
mosaic hybrid zone between the toads Bombina bombina and B. variegata,” Evolution,
vol. 57, no. 8. Wiley-Blackwell, pp. 1876–1888, 2003.
ista: Vines T, Kohler SC, Thiel M, Ghira I, Sands TR, Maccallum C, Barton NH, Nürnberger
B. 2003. On the maintenance of reproductive isolation in a mosaic hybrid zone
between the toads Bombina bombina and B. variegata. Evolution. 57(8), 1876–1888.
mla: Vines, Timothy, et al. “On the Maintenance of Reproductive Isolation in a Mosaic
Hybrid Zone between the Toads Bombina Bombina and B. Variegata.” Evolution,
vol. 57, no. 8, Wiley-Blackwell, 2003, pp. 1876–88, doi:10.1111/j.0014-3820.2003.tb00595.x.
short: T. Vines, S.C. Kohler, M. Thiel, I. Ghira, T.R. Sands, C. Maccallum, N.H.
Barton, B. Nürnberger, Evolution 57 (2003) 1876–1888.
date_created: 2018-12-11T12:08:20Z
date_published: 2003-08-01T00:00:00Z
date_updated: 2024-01-23T09:16:43Z
day: '01'
doi: 10.1111/j.0014-3820.2003.tb00595.x
extern: '1'
intvolume: ' 57'
issue: '8'
language:
- iso: eng
month: '08'
oa_version: None
page: 1876 - 1888
publication: Evolution
publication_identifier:
issn:
- 0014-3820
publication_status: published
publisher: Wiley-Blackwell
publist_id: '1692'
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the maintenance of reproductive isolation in a mosaic hybrid zone between
the toads Bombina bombina and B. variegata
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 57
year: '2003'
...
---
_id: '4350'
abstract:
- lang: eng
text: 'The phylogeny of Crocodylia offers an unusual twist on the usual molecules
versus morphology story. The true gharial (Gavialis gangeticus) and the false
gharial (Tomistoma schlegelii), as their common names imply, have appeared in
all cladistic morphological analyses as distantly related species, convergent
upon a similar morphology. In contrast, all previous molecular studies have shown
them to be sister taxa. We present the first phylogenetic study of Crocodylia
using a nuclear gene. We cloned and sequenced the c-myc proto-oncogene from Alligator
mississippiensis to facilitate primer design and then sequenced an 1,100-base
pair fragment that includes both coding and noncoding regions and informative
indels for one species in each extant crocodylian genus and six avian outgroups.
Phylogenetic analyses using parsimony, maximum likelihood, and Bayesian inference
all strongly agreed on the same tree, which is identical to the tree found in
previous molecular analyses: Gavialis and Tomistoma are sister taxa and together
are the sister group of Crocodylidae. Kishino-Hasegawa tests rejected the morphological
tree in favor of the molecular tree. We excluded long-branch attraction and variation
in base composition among taxa as explanations for this topology. To explore the
causes of discrepancy between molecular and morphological estimates of crocodylian
phylogeny, we examined puzzling features of the morphological data using a priori
partitions of the data based on anatomical regions and investigated the effects
of different coding schemes for two obvious morphological similarities of the
two gharials.'
acknowledgement: "We thank Lou Densmore and Herb Dessauer for crocodylian tissue\r\nsamples.
Dave Swofford, Jim Wilgenbusch, and Kevin de Queiroz gave\r\nus much helpful advice.
Dave also allowed us to use an experimental\r\nversion of PAUP∗ with partitioned
likelihood, and Jim also provided\r\nprograms to make possible partitioned model
KH tests. Chris Brochu\r\nand Lou Densmore sent us preprints of their papers in
press, and Chris\r\nprovided an unpublished version of his morphological data set.
Allan\r\nBaker, Lou Densmore, and an anonymous reviewer provided useful\r\ncomments
on the manuscript. We especially wish to acknowledge Chris\r\nBrochu’s help; although
we remain in disagreement on many points,\r\nhis comments on several previous drafts
have greatly improved this\r\npaper."
article_processing_charge: No
article_type: original
author:
- first_name: John
full_name: Harshman, John
last_name: Harshman
- first_name: Christopher
full_name: Huddleston, Christopher
last_name: Huddleston
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
- first_name: Thomas
full_name: Parsons, Thomas
last_name: Parsons
- first_name: Michael
full_name: Braun, Michael
last_name: Braun
citation:
ama: 'Harshman J, Huddleston C, Bollback JP, Parsons T, Braun M. True and false
gharials: A nuclear gene phylogeny of crocodylia. Systematic Biology. 2003;52(3):386-402.
doi:10.1080/10635150390197028'
apa: 'Harshman, J., Huddleston, C., Bollback, J. P., Parsons, T., & Braun, M.
(2003). True and false gharials: A nuclear gene phylogeny of crocodylia. Systematic
Biology. Oxford University Press. https://doi.org/10.1080/10635150390197028'
chicago: 'Harshman, John, Christopher Huddleston, Jonathan P Bollback, Thomas Parsons,
and Michael Braun. “True and False Gharials: A Nuclear Gene Phylogeny of Crocodylia.”
Systematic Biology. Oxford University Press, 2003. https://doi.org/10.1080/10635150390197028.'
ieee: 'J. Harshman, C. Huddleston, J. P. Bollback, T. Parsons, and M. Braun, “True
and false gharials: A nuclear gene phylogeny of crocodylia,” Systematic Biology,
vol. 52, no. 3. Oxford University Press, pp. 386–402, 2003.'
ista: 'Harshman J, Huddleston C, Bollback JP, Parsons T, Braun M. 2003. True and
false gharials: A nuclear gene phylogeny of crocodylia. Systematic Biology. 52(3),
386–402.'
mla: 'Harshman, John, et al. “True and False Gharials: A Nuclear Gene Phylogeny
of Crocodylia.” Systematic Biology, vol. 52, no. 3, Oxford University Press,
2003, pp. 386–402, doi:10.1080/10635150390197028.'
short: J. Harshman, C. Huddleston, J.P. Bollback, T. Parsons, M. Braun, Systematic
Biology 52 (2003) 386–402.
date_created: 2018-12-11T12:08:24Z
date_published: 2003-06-01T00:00:00Z
date_updated: 2024-01-23T08:53:58Z
day: '01'
doi: 10.1080/10635150390197028
extern: '1'
external_id:
pmid:
- ' 12775527'
intvolume: ' 52'
issue: '3'
language:
- iso: eng
month: '06'
oa_version: None
page: 386 - 402
pmid: 1
publication: Systematic Biology
publication_identifier:
issn:
- '0039-7989 '
publication_status: published
publisher: Oxford University Press
publist_id: '1110'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'True and false gharials: A nuclear gene phylogeny of crocodylia'
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 52
year: '2003'
...
---
_id: '4348'
abstract:
- lang: eng
text: Many questions in evolutionary biology are best addressed by comparing traits
in different species. Often such studies involve mapping characters on phylogenetic
trees. Mapping characters on trees allows the nature, number, and timing of the
transformations to be identified. The parsimony method is the only method available
for mapping morphological characters on phylogenies. Although the parsimony method
often makes reasonable reconstructions of the history of a character, it has a
number of limitations. These limitations include the inability to consider more
than a single change along a branch on a tree and the uncoupling of evolutionary
time from amount of character change. We extended a method described by Nielsen
(2002, Syst. Biol. 51:729-739) to the mapping of morphological characters under
continuous-time Markov models and demonstrate here the utility of the method for
mapping characters on trees and for identifying character correlation.
acknowledgement: "We thank J. Kohn, D. Stern, and M. Hart for sending the alignments\r\nused
in this study. J.P.H. was supported by NSF grants DEB-0075406\r\nand MCB-0075404.
R.N. was supported by NSF grant DEB-0089487."
article_processing_charge: No
article_type: original
author:
- first_name: John
full_name: Huelsenbeck, John
last_name: Huelsenbeck
- first_name: Rasmus
full_name: Nielsen, Rasmus
last_name: Nielsen
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Huelsenbeck J, Nielsen R, Bollback JP. Stochastic mapping of morphological
characters. Systematic Biology. 2003;52(2):131-158. doi:10.1080/10635150390192780
apa: Huelsenbeck, J., Nielsen, R., & Bollback, J. P. (2003). Stochastic mapping
of morphological characters. Systematic Biology. Oxford University Press.
https://doi.org/10.1080/10635150390192780
chicago: Huelsenbeck, John, Rasmus Nielsen, and Jonathan P Bollback. “Stochastic
Mapping of Morphological Characters.” Systematic Biology. Oxford University
Press, 2003. https://doi.org/10.1080/10635150390192780.
ieee: J. Huelsenbeck, R. Nielsen, and J. P. Bollback, “Stochastic mapping of morphological
characters,” Systematic Biology, vol. 52, no. 2. Oxford University Press,
pp. 131–158, 2003.
ista: Huelsenbeck J, Nielsen R, Bollback JP. 2003. Stochastic mapping of morphological
characters. Systematic Biology. 52(2), 131–158.
mla: Huelsenbeck, John, et al. “Stochastic Mapping of Morphological Characters.”
Systematic Biology, vol. 52, no. 2, Oxford University Press, 2003, pp.
131–58, doi:10.1080/10635150390192780.
short: J. Huelsenbeck, R. Nielsen, J.P. Bollback, Systematic Biology 52 (2003) 131–158.
date_created: 2018-12-11T12:08:24Z
date_published: 2003-04-01T00:00:00Z
date_updated: 2024-01-23T09:10:59Z
day: '01'
doi: 10.1080/10635150390192780
extern: '1'
external_id:
pmid:
- '12746144 '
intvolume: ' 52'
issue: '2'
language:
- iso: eng
month: '04'
oa_version: None
page: 131 - 158
pmid: 1
publication: Systematic Biology
publication_identifier:
issn:
- '0039-7989 '
publication_status: published
publisher: Oxford University Press
publist_id: '1111'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Stochastic mapping of morphological characters
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 52
year: '2003'
...
---
_id: '4254'
abstract:
- lang: eng
text: Chromosomal rearrangements can promote reproductive isolation by reducing
recombination along a large section of the genome. We model the effects of the
genetic barrier to gene flow caused by a chromosomal rearrangement on the rate
of accumulation of postzygotic isolation genes in parapatry. We find that, if
reproductive isolation is produced by the accumulation in parapatry of sets of
alleles compatible within but incompatible across species, chromosomal rearrangements
are far more likely to favor it than classical genetic barriers without chromosomal
changes. New evidence of the role of chromosomal rearrangements in parapatric
speciation suggests that postzygotic isolation is often due to the accumulation
of such incompatibilities. The model makes testable qualitative predictions about
the genetic signature of speciation.
acknowledgement: "We thank A. Andrés, C. Bartolomé, J. Bertranpetit, F. Calafell,
B. Charlesworth, D. Charlesworth, F. Depaulis, S. Gavrilets, T. Johnson, P. Keightley,
M. Kirkpatrik, A. Kondrashov, H. Laayouni, X. Maside, M. Noor, D. Ortiz-Barrientos,\r\nL.
Rieseberg, and T. Vines for valuable discussion and criticism. The detailed comments
of B. Charlesworth, D. Charlesworth, and F. Depaulis greatly improved the original
manuscript. AN is particularly grateful to X. Maside, who was a patient guide through
the jungle of speciation. This work was supported by the NERC grant GR3/11635 (United
Kingdom). AN is funded by the Ramón y Cajal Program (Spain)."
article_processing_charge: No
article_type: original
author:
- first_name: Arcadio
full_name: Navarro, Arcadio
last_name: Navarro
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Navarro A, Barton NH. Accumulating postzygotic isolation genes in parapatry:
a new twist on chromosomal speciation. Evolution; International Journal of
Organic Evolution. 2003;57(3):447-459. doi:10.1111/j.0014-3820.2003.tb01537.x'
apa: 'Navarro, A., & Barton, N. H. (2003). Accumulating postzygotic isolation
genes in parapatry: a new twist on chromosomal speciation. Evolution; International
Journal of Organic Evolution. Wiley-Blackwell. https://doi.org/10.1111/j.0014-3820.2003.tb01537.x'
chicago: 'Navarro, Arcadio, and Nicholas H Barton. “Accumulating Postzygotic Isolation
Genes in Parapatry: A New Twist on Chromosomal Speciation.” Evolution; International
Journal of Organic Evolution. Wiley-Blackwell, 2003. https://doi.org/10.1111/j.0014-3820.2003.tb01537.x.'
ieee: 'A. Navarro and N. H. Barton, “Accumulating postzygotic isolation genes in
parapatry: a new twist on chromosomal speciation,” Evolution; International
Journal of Organic Evolution, vol. 57, no. 3. Wiley-Blackwell, pp. 447–459,
2003.'
ista: 'Navarro A, Barton NH. 2003. Accumulating postzygotic isolation genes in parapatry:
a new twist on chromosomal speciation. Evolution; International Journal of Organic
Evolution. 57(3), 447–459.'
mla: 'Navarro, Arcadio, and Nicholas H. Barton. “Accumulating Postzygotic Isolation
Genes in Parapatry: A New Twist on Chromosomal Speciation.” Evolution; International
Journal of Organic Evolution, vol. 57, no. 3, Wiley-Blackwell, 2003, pp. 447–59,
doi:10.1111/j.0014-3820.2003.tb01537.x.'
short: A. Navarro, N.H. Barton, Evolution; International Journal of Organic Evolution
57 (2003) 447–459.
date_created: 2018-12-11T12:07:52Z
date_published: 2003-03-01T00:00:00Z
date_updated: 2024-01-23T10:21:57Z
day: '01'
doi: 10.1111/j.0014-3820.2003.tb01537.x
extern: '1'
external_id:
pmid:
- '12703935 '
intvolume: ' 57'
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 447 - 459
pmid: 1
publication: Evolution; International Journal of Organic Evolution
publication_identifier:
issn:
- 0014-3820
publication_status: published
publisher: Wiley-Blackwell
publist_id: '1840'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Accumulating postzygotic isolation genes in parapatry: a new twist on chromosomal
speciation'
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 57
year: '2003'
...
---
_id: '4257'
abstract:
- lang: eng
text: Variation within a species may be structured both geographically and by genetic
background. We review the effects of such structuring on neutral variants, using
a framework based on the coalescent process. Short-term effects of sex differences
and age structure can be averaged out using fast timescale approximations, allowing
a simple general treatment of effective population size and migration. We consider
the effects of geographic structure on variation within and between local populations,
first in general terms, and then for specific migration models. We discuss the
close parallels between geographic structure and stable types of genetic structure
caused by selection, including balancing selection and background selection. The
effects of departures from stability, such as selective sweeps and population
bottlenecks, are also described. Methods for distinguishing population history
from the effects of ongoing gene flow are discussed. We relate the theoretical
results to observed patterns of variation in natural populations.
article_processing_charge: No
article_type: original
author:
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
- first_name: Deborah
full_name: Charlesworth, Deborah
last_name: Charlesworth
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Charlesworth B, Charlesworth D, Barton NH. The effects of genetic and geographic
structure on neutral variation. Annual Review of Ecology and Systematics.
2003;34:99-125. doi:10.1146/annurev.ecolsys.34.011802.132359
apa: Charlesworth, B., Charlesworth, D., & Barton, N. H. (2003). The effects
of genetic and geographic structure on neutral variation. Annual Review of
Ecology and Systematics. Annual Reviews. https://doi.org/10.1146/annurev.ecolsys.34.011802.132359
chicago: Charlesworth, Brian, Deborah Charlesworth, and Nicholas H Barton. “The
Effects of Genetic and Geographic Structure on Neutral Variation.” Annual Review
of Ecology and Systematics. Annual Reviews, 2003. https://doi.org/10.1146/annurev.ecolsys.34.011802.132359.
ieee: B. Charlesworth, D. Charlesworth, and N. H. Barton, “The effects of genetic
and geographic structure on neutral variation,” Annual Review of Ecology and
Systematics, vol. 34. Annual Reviews, pp. 99–125, 2003.
ista: Charlesworth B, Charlesworth D, Barton NH. 2003. The effects of genetic and
geographic structure on neutral variation. Annual Review of Ecology and Systematics.
34, 99–125.
mla: Charlesworth, Brian, et al. “The Effects of Genetic and Geographic Structure
on Neutral Variation.” Annual Review of Ecology and Systematics, vol. 34,
Annual Reviews, 2003, pp. 99–125, doi:10.1146/annurev.ecolsys.34.011802.132359.
short: B. Charlesworth, D. Charlesworth, N.H. Barton, Annual Review of Ecology and
Systematics 34 (2003) 99–125.
date_created: 2018-12-11T12:07:53Z
date_published: 2003-11-01T00:00:00Z
date_updated: 2024-01-23T10:15:44Z
day: '01'
doi: 10.1146/annurev.ecolsys.34.011802.132359
extern: '1'
intvolume: ' 34'
language:
- iso: eng
month: '11'
oa_version: None
page: 99 - 125
publication: Annual Review of Ecology and Systematics
publication_identifier:
issn:
- 1543-592X
publication_status: published
publisher: Annual Reviews
publist_id: '1839'
quality_controlled: '1'
status: public
title: The effects of genetic and geographic structure on neutral variation
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 34
year: '2003'
...
---
_id: '4256'
abstract:
- lang: eng
text: Artificial Life models may shed new light on the long-standing challenge for
evolutionary biology of explaining the origins of complex organs. Real progress
on this issue, however, requires Artificial Life researchers to take seriously
the tools and insights from population genetics.
article_processing_charge: No
article_type: original
author:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Willem
full_name: Zuidema, Willem
last_name: Zuidema
citation:
ama: Barton NH, Zuidema W. The erratic path towards complexity. Current Biology.
2003;13(16):R649-R651. doi:10.1016/S0960-9822(03)00573-6
apa: Barton, N. H., & Zuidema, W. (2003). The erratic path towards complexity.
Current Biology. Cell Press. https://doi.org/10.1016/S0960-9822(03)00573-6
chicago: Barton, Nicholas H, and Willem Zuidema. “The Erratic Path towards Complexity.”
Current Biology. Cell Press, 2003. https://doi.org/10.1016/S0960-9822(03)00573-6.
ieee: N. H. Barton and W. Zuidema, “The erratic path towards complexity,” Current
Biology, vol. 13, no. 16. Cell Press, pp. R649–R651, 2003.
ista: Barton NH, Zuidema W. 2003. The erratic path towards complexity. Current Biology.
13(16), R649–R651.
mla: Barton, Nicholas H., and Willem Zuidema. “The Erratic Path towards Complexity.”
Current Biology, vol. 13, no. 16, Cell Press, 2003, pp. R649–51, doi:10.1016/S0960-9822(03)00573-6.
short: N.H. Barton, W. Zuidema, Current Biology 13 (2003) R649–R651.
date_created: 2018-12-11T12:07:53Z
date_published: 2003-08-19T00:00:00Z
date_updated: 2024-01-23T09:41:33Z
day: '19'
doi: 10.1016/S0960-9822(03)00573-6
extern: '1'
intvolume: ' 13'
issue: '16'
language:
- iso: eng
month: '08'
oa_version: Published Version
page: R649 - R651
publication: Current Biology
publication_identifier:
issn:
- 0960-9822
publication_status: published
publisher: Cell Press
publist_id: '1838'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The erratic path towards complexity
type: journal_article
user_id: ea97e931-d5af-11eb-85d4-e6957dddbf17
volume: 13
year: '2003'
...