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111 Publications


2004 | Journal Article | IST-REx-ID: 4253
N. H. Barton, A. Etheridge, and A. Sturm, “Coalescence in a Random Background,” Annals of Applied Probability, vol. 14, no. 2. Institute of Mathematical Statistics, pp. 754–785, 2004.
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2004 | Book Review | IST-REx-ID: 3142
S. Hippenmeyer, I. Kramer, and S. Arber, “Control of neuronal phenotype: What targets tell the cell bodies,” Trends in Neurosciences, vol. 27, no. 8. Elsevier, pp. 482–488, 2004.
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2004 | Journal Article | IST-REx-ID: 3178
Y. Boykov and V. Kolmogorov, “An experimental comparison of min-cut/max-flow algorithms for energy minimization in vision,” IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 26, no. 9. IEEE, pp. 1124–1137, 2004.
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2004 | Journal Article | IST-REx-ID: 3173
V. Kolmogorov and R. Zabih, “What energy functions can be minimized via graph cuts? ,” IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 26, no. 2. IEEE, pp. 147–159, 2004.
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2004 | Journal Article | IST-REx-ID: 3172
V. Kolmogorov et al., “Multiprocessor scheduling implementation of the simultaneous multiple volume SMV navigator method,” Magnetic Resonance in Medicine, vol. 52, no. 2. Wiley-Blackwell, pp. 362–367, 2004.
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2004 | Conference Paper | IST-REx-ID: 3177
R. Zabih and V. Kolmogorov, “Spatially coherent clustering using graph cuts,” presented at the CVPR: Computer Vision and Pattern Recognition, 2004, vol. 2, pp. 437–444.
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2004 | Conference Paper | IST-REx-ID: 3179
C. Rother, V. Kolmogorov, and A. Blake, “"GrabCut" - Interactive foreground extraction using iterated graph cuts ,” presented at the SIGGRAPH: Special Interest Group on Computer Graphics and Interactive Techniques, 2004, vol. 23, no. 3, pp. 309–314.
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2004 | Journal Article | IST-REx-ID: 3420
A. Kedrov, C. Ziegler, H. L. Janovjak, W. Kühlbrandt, and D. Mueller, “Controlled unfolding and refolding of a single sodium/proton antiporter using atomic force microscopy,” Journal of Molecular Biology, vol. 340, no. 5. Elsevier, pp. 1143–1152, 2004.
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2004 | Journal Article | IST-REx-ID: 3419
H. L. Janovjak, J. Struckmeier, M. Hubain, M. Kessler, A. Kedrov, and D. Mueller, “Probing the energy landscape of the membrane protein bacteriorhodopsin,” Structure, vol. 12, no. 5. Cell Press, pp. 871–879, 2004.
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2004 | Book Chapter | IST-REx-ID: 3575
H. Edelsbrunner and J. Harer, “Jacobi sets of multiple Morse functions,” in Foundations of Computational Mathematics, vol. 312, Springer, 2004, pp. 37–57.
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2004 | Book Chapter | IST-REx-ID: 3574
H. Edelsbrunner, “Biological applications of computational topology,” in Handbook of Discrete and Computational Geometry, CRC Press, 2004, pp. 1395–1412.
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2004 | Book Review | IST-REx-ID: 3595
B. Charlesworth and N. H. Barton, “Genome size: Does bigger mean worse?,” Current Biology, vol. 14, no. 6. Cell Press, pp. R233–R235, 2004.
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2004 | Journal Article | IST-REx-ID: 3614
N. H. Barton and M. Turelli, “Effects of allele frequency changes on variance components under a general model of epistasis,” Evolution; International Journal of Organic Evolution, vol. 58, no. 10. Wiley-Blackwell, pp. 2111–2132, 2004.
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2004 | Journal Article | IST-REx-ID: 3615
M. Turelli and N. H. Barton, “Polygenic variation maintained by balancing selection: pleiotropy, sex-dependent allelic effects and GxE interactions,” Genetics, vol. 166, no. 2. Genetics Society of America, pp. 1053–1079, 2004.
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2004 | Journal Article | IST-REx-ID: 3807 | OA
B. Kampa, J. Clements, P. M. Jonas, and G. Stuart, “Kinetics of Mg(2+) unblock of NMDA receptors: implications for spike-timing dependent synaptic plasticity,” Journal of Physiology, vol. 556, no. Pt 2. Wiley-Blackwell, pp. 337–45, 2004.
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2004 | Journal Article | IST-REx-ID: 3809
C. Schmidt Hieber, P. M. Jonas, and J. Bischofberger, “Enhanced synaptic plasticity in newly generated granule cells of the adult hippocampus,” Nature, vol. 429, no. 6988. Nature Publishing Group, pp. 184–7, 2004.
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2004 | Journal Article | IST-REx-ID: 3805
P. M. Jonas, J. Bischofberger, D. Fricker, and R. Miles, “Interneuron Diversity series: Fast in, fast out--temporal and spatial signal processing in hippocampal interneurons,” Trends in Neurosciences, vol. 27, no. 1. Elsevier, pp. 30–40, 2004.
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2004 | Journal Article | IST-REx-ID: 3918
J. Heinze, A. Böttcher, and S. Cremer, “Production of winged and wingless males in the ant, Cardiocondyla minutior,” Insectes Sociaux, vol. 51, no. 3. Springer, pp. 275–278, 2004.
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2004 | Conference Paper | IST-REx-ID: 3988
V. Choi, P. Agarwal, H. Edelsbrunner, and J. Rudolph, “Local search heuristic for rigid protein docking,” presented at the WABI: 4th International Workshop on Algorithms in Bioinformatics, 2004, vol. 3240, pp. 218–229.
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2004 | Journal Article | IST-REx-ID: 3986
R. Bryant, H. Edelsbrunner, P. Koehl, and M. Levitt, “The area derivative of a space-filling diagram,” Discrete & Computational Geometry, vol. 32, no. 3. Springer, pp. 293–308, 2004.
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2004 | Journal Article | IST-REx-ID: 3984
P. Bremer, H. Edelsbrunner, B. Hamann, and V. Pascucci, “A topological hierarchy for functions on triangulated surfaces,” IEEE Transactions on Visualization and Computer Graphics, vol. 10, no. 4. IEEE, pp. 385–396, 2004.
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2004 | Journal Article | IST-REx-ID: 3987
V. Natarajan and H. Edelsbrunner, “Simplification of three-dimensional density maps,” IEEE Transactions on Visualization and Computer Graphics, vol. 10, no. 5. IEEE, pp. 587–597, 2004.
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2004 | Journal Article | IST-REx-ID: 3985
K. Cole Mclaughlin, H. Edelsbrunner, J. Harer, V. Natarajan, and V. Pascucci, “Loops in Reeb graphs of 2-manifolds,” Discrete & Computational Geometry, vol. 32, no. 2. Springer, pp. 231–244, 2004.
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2004 | Conference Paper | IST-REx-ID: 3989
H. Edelsbrunner, J. Harer, V. Natarajan, and V. Pascucci, “Local and global comparison of continuous functions,” presented at the VIS: IEEE Visualization, 2004, pp. 275–280.
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2004 | Journal Article | IST-REx-ID: 4172
J. Montero and C.-P. J. Heisenberg, “Gastrulation dynamics: cells move into focus,” Trends in Cell Biology, vol. 14, no. 11. Cell Press, pp. 620–627, 2004.
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2004 | Journal Article | IST-REx-ID: 4238
H. de Vladar and J. González, “Dynamic response of cancer under the influence of immunological activity and therapy,” Journal of Theoretical Biology, vol. 227, no. 3. Elsevier, pp. 335–348, 2004.
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2004 | Book Chapter | IST-REx-ID: 4230
H. de Vladar, R. Cipriani, B. Scharifker, and J. Bubis, “A mechanism for the prebiotic emergence of proteins,” in Life in the Universe From the Miller Experiment to the Search for Life on Other Worlds, A. Hanslmeier, S. Kempe, and J. Seckbach, Eds. Springer, 2004, pp. 83–87.
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2004 | Thesis | IST-REx-ID: 4236
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
O. Maler and D. Nickovic, “Monitoring Temporal Properties of Continuous Signals,” presented at the FORMATS: Formal Modeling and Analysis of Timed Systems, 2004, pp. 152–166.
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2004 | Thesis | IST-REx-ID: 4424
R. Jhala, “Program verification by lazy abstraction,” University of California, Berkeley, 2004.
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2004 | Conference Paper | IST-REx-ID: 4445
T. A. Henzinger and C. Kirsch, “A typed assembly language for real-time programs,” presented at the EMSOFT: Embedded Software , 2004, pp. 104–113.
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2004 | Conference Paper | IST-REx-ID: 4458
T. A. Henzinger, R. Jhala, R. Majumdar, and K. Mcmillan, “Abstractions from proofs,” presented at the POPL: Principles of Programming Languages, 2004, pp. 232–244.
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2004 | Book Chapter | IST-REx-ID: 4461
T. A. Henzinger, R. Jhala, R. Majumdar, and M. Sanvido, “Extreme model checking,” in Verification: Theory and Practice, vol. 2772, Springer, 2004, pp. 332–358.
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2004 | Conference Paper | IST-REx-ID: 4459
T. A. Henzinger, R. Jhala, and R. Majumdar, “Race checking by context inference,” presented at the PLDI: Programming Languages Design and Implementation, 2004, pp. 1–13.
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2004 | Conference Paper | IST-REx-ID: 4525
A. Ghosal, T. A. Henzinger, C. Kirsch, and M. Sanvido, “Event-driven programming with logical execution times,” presented at the HSCC: Hybrid Systems - Computation and Control, 2004, vol. 2993, pp. 167–170.
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2004 | Conference Paper | IST-REx-ID: 4555
K. Chatterjee, L. De Alfaro, and T. A. Henzinger, “Trading memory for randomness,” presented at the QEST: Quantitative Evaluation of Systems, 2004, pp. 206–217.
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2004 | Conference Paper | IST-REx-ID: 4558
K. Chatterjee, M. Jurdziński, and T. A. Henzinger, “Quantitative stochastic parity games,” presented at the SODA: Symposium on Discrete Algorithms, 2004, pp. 121–130.
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2004 | Journal Article | IST-REx-ID: 4556
K. Chatterjee, D. Ma, R. Majumdar, T. Zhao, T. A. Henzinger, and J. Palsberg, “Stack size analysis for interrupt-driven programs,” Information and Computation, vol. 194, no. 2. Elsevier, pp. 144–174, 2004.
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2004 | Conference Paper | IST-REx-ID: 4578
D. Beyer, A. Chlipala, T. A. Henzinger, R. Jhala, and R. Majumdar, “The BLAST query language for software verification,” presented at the SAS: Static Analysis Symposium, 2004, vol. 3148, pp. 2–18.
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2004 | Conference Paper | IST-REx-ID: 4577
D. Beyer, T. A. Henzinger, R. Jhala, and R. Majumdar, “An eclipse plug-in for model checking,” presented at the IWPC: Program Comprehension, 2004, pp. 251–255.
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2004 | Conference Paper | IST-REx-ID: 4581
D. Beyer, A. Chlipala, T. A. Henzinger, R. Jhala, and R. Majumdar, “Generating tests from counterexamples,” presented at the ICSE: Software Engineering, 2004, pp. 326–335.
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2004 | Conference Paper | IST-REx-ID: 4629
L. De Alfaro, M. Faella, T. A. Henzinger, R. Majumdar, and M. Stoelinga, “Model checking discounted temporal properties,” presented at the TACAS: Tools and Algorithms for the Construction and Analysis of Systems, 2004, vol. 2988, pp. 77–92.
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2004 | Journal Article | IST-REx-ID: 6155
B. H. . Cheung, F. Arellano-Carbajal, I. Rybicki, and M. de Bono, “Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior,” Current Biology, vol. 14, no. 12. Elsevier, pp. 1105–1111, 2004.
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2004 | Journal Article | IST-REx-ID: 7334
J. Mantzaras et al., “Fuel cell modeling and simulations,” CHIMIA International Journal for Chemistry, vol. 58, no. 12. Swiss Chemical Society, pp. 857–868, 2004.
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2004 | Journal Article | IST-REx-ID: 7333
M. Santis, D. Schmid, M. Ruge, S. A. Freunberger, and F. N. Büchi, “Modular stack-internal air humidification concept-verification in a 1 kW stack,” Fuel Cells, vol. 4, no. 3. Wiley, pp. 214–218, 2004.
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2004 | Journal Article | IST-REx-ID: 864
A. Panchenko, F. Kondrashov, and S. Bryant, “Prediction of functional sites by analysis of sequence and structure conservation,” Protein Science, vol. 13, no. 4. Wiley-Blackwell, pp. 884–892, 2004.
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2004 | Journal Article | IST-REx-ID: 870
F. Kondrashov, A. Ogurtsov, and A. Kondrashov, “Bioinformatical assay of human gene morbidity,” Nucleic Acids Research, vol. 32, no. 5. Oxford University Press, pp. 1731–1737, 2004.
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2004 | Journal Article | IST-REx-ID: 875
F. Kondrashov and E. Koonin, “A common framework for understanding the origin of genetic dominance and evolutionary fates of gene duplications,” Trends in Genetics, vol. 20, no. 7. Elsevier, pp. 287–291, 2004.
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2004 | Journal Article | IST-REx-ID: 889
A. Kern and F. Kondrashov, “Mechanisms and convergence of compensatory evolution in mammalian mitochondrial tRNAs,” Nature Genetics, vol. 36, no. 11. Nature Publishing Group, pp. 1207–1212, 2004.
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2004 | Journal Article | IST-REx-ID: 9493 | OA
D. Zilberman, X. Cao, L. K. Johansen, Z. Xie, J. C. Carrington, and S. E. Jacobsen, “Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats,” Current Biology, vol. 14, no. 13. Elsevier, pp. 1214–1220, 2004.
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