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111 Publications


2004 | Journal Article | IST-REx-ID: 3984
A topological hierarchy for functions on triangulated surfaces
P. Bremer, H. Edelsbrunner, B. Hamann, V. Pascucci, IEEE Transactions on Visualization and Computer Graphics 10 (2004) 385–396.
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2004 | Journal Article | IST-REx-ID: 3987
Simplification of three-dimensional density maps
V. Natarajan, H. Edelsbrunner, IEEE Transactions on Visualization and Computer Graphics 10 (2004) 587–597.
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2004 | Journal Article | IST-REx-ID: 3985
Loops in Reeb graphs of 2-manifolds
K. Cole Mclaughlin, H. Edelsbrunner, J. Harer, V. Natarajan, V. Pascucci, Discrete & Computational Geometry 32 (2004) 231–244.
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2004 | Conference Paper | IST-REx-ID: 3989
Local and global comparison of continuous functions
H. Edelsbrunner, J. Harer, V. Natarajan, V. Pascucci, in:, IEEE, 2004, pp. 275–280.
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2004 | Journal Article | IST-REx-ID: 4172
Gastrulation dynamics: cells move into focus
J. Montero, C.-P.J. Heisenberg, Trends in Cell Biology 14 (2004) 620–627.
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2004 | Journal Article | IST-REx-ID: 4238
Dynamic response of cancer under the influence of immunological activity and therapy
H. de Vladar, J. González, Journal of Theoretical Biology 227 (2004) 335–348.
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2004 | Book Chapter | IST-REx-ID: 4230
A mechanism for the prebiotic emergence of proteins
H. de Vladar, R. Cipriani, B. Scharifker, J. Bubis, in:, A. Hanslmeier, S. Kempe, J. Seckbach (Eds.), Life in the Universe From the Miller Experiment to the Search for Life on Other Worlds, Springer, 2004, pp. 83–87.
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2004 | Thesis | IST-REx-ID: 4236
Métodos no lineales y sus aplicaciones en dinámicas aleatorias de poblaciones celulares
H. de Vladar, Métodos No Lineales y Sus Aplicaciones En Dinámicas Aleatorias de Poblaciones Celulares, Centro de estudios avazados, IVIC, 2004.
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2004 | Conference Paper | IST-REx-ID: 4372
Monitoring Temporal Properties of Continuous Signals
O. Maler, D. Nickovic, in:, Springer, 2004, pp. 152–166.
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2004 | Thesis | IST-REx-ID: 4424
Program verification by lazy abstraction
R. Jhala, Program Verification by Lazy Abstraction, University of California, Berkeley, 2004.
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2004 | Conference Paper | IST-REx-ID: 4445
A typed assembly language for real-time programs
T.A. Henzinger, C. Kirsch, in:, ACM, 2004, pp. 104–113.
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2004 | Conference Paper | IST-REx-ID: 4458
Abstractions from proofs
T.A. Henzinger, R. Jhala, R. Majumdar, K. Mcmillan, in:, ACM, 2004, pp. 232–244.
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2004 | Book Chapter | IST-REx-ID: 4461
Extreme model checking
T.A. Henzinger, R. Jhala, R. Majumdar, M. Sanvido, in:, Verification: Theory and Practice, Springer, 2004, pp. 332–358.
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2004 | Conference Paper | IST-REx-ID: 4459
Race checking by context inference
T.A. Henzinger, R. Jhala, R. Majumdar, in:, ACM, 2004, pp. 1–13.
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2004 | Conference Paper | IST-REx-ID: 4525
Event-driven programming with logical execution times
A. Ghosal, T.A. Henzinger, C. Kirsch, M. Sanvido, in:, Springer, 2004, pp. 167–170.
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2004 | Conference Paper | IST-REx-ID: 4555
Trading memory for randomness
K. Chatterjee, L. De Alfaro, T.A. Henzinger, in:, IEEE, 2004, pp. 206–217.
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2004 | Conference Paper | IST-REx-ID: 4558
Quantitative stochastic parity games
K. Chatterjee, M. Jurdziński, T.A. Henzinger, in:, SIAM, 2004, pp. 121–130.
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2004 | Journal Article | IST-REx-ID: 4556
Stack size analysis for interrupt-driven programs
K. Chatterjee, D. Ma, R. Majumdar, T. Zhao, T.A. Henzinger, J. Palsberg, Information and Computation 194 (2004) 144–174.
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2004 | Conference Paper | IST-REx-ID: 4578
The BLAST query language for software verification
D. Beyer, A. Chlipala, T.A. Henzinger, R. Jhala, R. Majumdar, in:, Springer, 2004, pp. 2–18.
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2004 | Conference Paper | IST-REx-ID: 4577
An eclipse plug-in for model checking
D. Beyer, T.A. Henzinger, R. Jhala, R. Majumdar, in:, IEEE, 2004, pp. 251–255.
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2004 | Conference Paper | IST-REx-ID: 4581
Generating tests from counterexamples
D. Beyer, A. Chlipala, T.A. Henzinger, R. Jhala, R. Majumdar, in:, IEEE, 2004, pp. 326–335.
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2004 | Conference Paper | IST-REx-ID: 4629
Model checking discounted temporal properties
L. De Alfaro, M. Faella, T.A. Henzinger, R. Majumdar, M. Stoelinga, in:, Springer, 2004, pp. 77–92.
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2004 | Journal Article | IST-REx-ID: 6155
Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior
B.H.. Cheung, F. Arellano-Carbajal, I. Rybicki, M. de Bono, Current Biology 14 (2004) 1105–1111.
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2004 | Journal Article | IST-REx-ID: 7334
Fuel cell modeling and simulations
J. Mantzaras, S.A. Freunberger, F.N. Büchi, M. Roos, W. Brandstätter, M. Prestat, L.J. Gauckler, B. Andreaus, F. Hajbolouri, S.M. Senn, D. Poulikakos, A.K. Chaniotis, D. Larrain, N. Autissier, F. Maréchal, CHIMIA International Journal for Chemistry 58 (2004) 857–868.
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2004 | Journal Article | IST-REx-ID: 7333
Modular stack-internal air humidification concept-verification in a 1 kW stack
M. Santis, D. Schmid, M. Ruge, S.A. Freunberger, F.N. Büchi, Fuel Cells 4 (2004) 214–218.
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2004 | Journal Article | IST-REx-ID: 864
Prediction of functional sites by analysis of sequence and structure conservation
A. Panchenko, F. Kondrashov, S. Bryant, Protein Science 13 (2004) 884–892.
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2004 | Journal Article | IST-REx-ID: 870
Bioinformatical assay of human gene morbidity
F. Kondrashov, A. Ogurtsov, A. Kondrashov, Nucleic Acids Research 32 (2004) 1731–1737.
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2004 | Journal Article | IST-REx-ID: 875 View | DOI
 

2004 | Journal Article | IST-REx-ID: 889
Mechanisms and convergence of compensatory evolution in mammalian mitochondrial tRNAs
A. Kern, F. Kondrashov, Nature Genetics 36 (2004) 1207–1212.
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2004 | Journal Article | IST-REx-ID: 9493 | OA
Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats
D. Zilberman, X. Cao, L.K. Johansen, Z. Xie, J.C. Carrington, S.E. Jacobsen, Current Biology 14 (2004) 1214–1220.
[Published Version] View | DOI | Download Published Version (ext.) | PubMed | Europe PMC
 

2004 | Journal Article | IST-REx-ID: 9517 | OA
Genetic and functional diversification of small RNA pathways in plants
Z. Xie, L.K. Johansen, A.M. Gustafson, K.D. Kasschau, A.D. Lellis, D. Zilberman, S.E. Jacobsen, J.C. Carrington, PLoS Biology 2 (2004) 0642–0652.
[Published Version] View | DOI | Download Published Version (ext.) | PubMed | Europe PMC
 

2004 | Journal Article | IST-REx-ID: 9511 | OA
Silencing of transposons in plant genomes: kick them when they're down
D. Zilberman, S. Henikoff, Genome Biology 5 (2004).
[Published Version] View | DOI | Download Published Version (ext.) | PubMed | Europe PMC
 

2004 | Journal Article | IST-REx-ID: 8517
A limit shape theorem for periodic stochastic dispersion
D. Dolgopyat, V. Kaloshin, L. Koralov, Communications on Pure and Applied Mathematics 57 (2004) 1127–1158.
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2004 | Journal Article | IST-REx-ID: 8518
Sample path properties of the stochastic flows
L. Koralov, V. Kaloshin, D. Dolgopyat, The Annals of Probability 32 (2004) 1–27.
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2004 | Journal Article | IST-REx-ID: 898
Positive selection at sites of multiple amino acid replacements since rat-mouse divergence
G. Bazykin, F. Kondrashov, A. Ogurtsov, S. Sunyaev, A. Kondrashov, Nature 429 (2004) 558–562.
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2004 | Journal Article | IST-REx-ID: 902
The functional genomic distribution of protein divergence in two animal phyla: Coevolution, genomic conflict, and constraint
C. Castillo Davis, F. Kondrashov, D. Hartl, R. Kulathinal, Genome Research 14 (2004) 802–811.
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2004 | Journal Article | IST-REx-ID: 9454
RNA silencing genes control de novo DNA methylation
S.W.-L. Chan, D. Zilberman, Zhixin Xie, Lisa K. Johansen, J.C. Carrington, S.E. Jacobsen, Science 303 (2004) 1336.
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2004 | Journal Article | IST-REx-ID: 12203
A new geranylgeranyl Diphosphate synthase gene from Ginkgo biloba, which intermediates the biosynthesis of the key precursor for ginkgolides
Z. Liao, M. Chen, Y. Gong, L. Guo, Q. Tan, X. Feng, X. Sun, F. Tan, K. Tang, DNA Sequence 15 (2004) 153–158.
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2004 | Journal Article | IST-REx-ID: 13435
Multicolour micropatterning of thin films of dry gels
R. Klajn, M. Fialkowski, I.T. Bensemann, A. Bitner, C.J. Campbell, K. Bishop, S. Smoukov, B.A. Grzybowski, Nature Materials 3 (2004) 729–735.
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2004 | Journal Article | IST-REx-ID: 13434
Color micro- and nanopatterning with counter-propagating reaction-diffusion fronts
C.J. Campbell, M. Fialkowski, R. Klajn, I.T. Bensemann, B.A. Grzybowski, Advanced Materials 16 (2004) 1912–1917.
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2004 | Journal Article | IST-REx-ID: 7706
Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase
A. Brunet, L.B. Sweeney, J.F. Sturgill, K. Chua, P. Greer, Y. Lin, H. Tran, S. Ross, R. Mostoslavsky, H. Cohen, L. Hu, H.-L. Chen, M. Jedrychowski, S. Gygi, D. Sinclair, F. Alt, M. Greenberg, Science 303 (2004) 2011–2015.
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