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89 Publications

2015 | Conference Paper | IST-REx-ID: 1430 | OA
Paixao, Tiago, et al. “First Steps towards a Runtime Comparison of Natural and Artificial Evolution.” Proceedings of the 2015 Annual Conference on Genetic and Evolutionary Computation, ACM, 2015, pp. 1455–62, doi:10.1145/2739480.2754758.
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2014 | Journal Article | IST-REx-ID: 2036 | OA
Lagator, Mato, et al. “Selection History and Epistatic Interactions Impact Dynamics of Adaptation to Novel Environmental Stresses.” Proceedings of the Royal Society of London Series B Biological Sciences, vol. 281, no. 1794, 20141679, Royal Society, The, 2014, doi:10.1098/rspb.2014.1679.
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2014 | Journal Article | IST-REx-ID: 2056 | OA
Ganguly, Arnab, et al. “Markov Chain Aggregation and Its Applications to Combinatorial Reaction Networks.” Journal of Mathematical Biology, vol. 69, no. 3, Springer, 2014, pp. 767–97, doi:10.1007/s00285-013-0738-7.
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2014 | Journal Article | IST-REx-ID: 2083 | OA
Lagator, Mato, et al. “Role of Sex and Migration in Adaptation to Sink Environments.” Evolution, vol. 68, no. 8, Wiley, 2014, pp. 2296–305, doi:10.1111/evo.12440.
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2014 | Journal Article | IST-REx-ID: 1894 | OA
Grabowska, Anna, et al. “Functional and Bioinformatics Analysis of Two Campylobacter Jejuni Homologs of the Thiol-Disulfide Oxidoreductase, DsbA.” PLoS One, vol. 9, no. 9, e106247, Public Library of Science, 2014, doi:10.1371/journal.pone.0106247.
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2014 | Journal Article | IST-REx-ID: 1913 | OA
Milenković, Ivan, et al. “Patterns of Hippocampal Tau Pathology Differentiate Neurodegenerative Dementias.” Dementia and Geriatric Cognitive Disorders, vol. 38, no. 5–6, S. Karger AG, 2014, pp. 375–88, doi:10.1159/000365548.
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2013 | Journal Article | IST-REx-ID: 499
Wakamoto, Yurichi, et al. “Dynamic Persistence of Antibiotic-Stressed Mycobacteria.” Science, vol. 339, no. 6115, American Association for the Advancement of Science, 2013, pp. 91–95, doi:10.1126/science.1229858.
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2013 | Conference Paper | IST-REx-ID: 2718 | OA
Barton, Nicholas H., and Tiago Paixao. “Can Quantitative and Population Genetics Help Us Understand Evolutionary Computation?” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 1573–80, doi:10.1145/2463372.2463568.
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2013 | Conference Paper | IST-REx-ID: 2719
Paixao, Tiago, and Nicholas H. Barton. “A Variance Decomposition Approach to the Analysis of Genetic Algorithms.” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 845–52, doi:10.1145/2463372.2463470.
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2013 | Journal Article | IST-REx-ID: 2720 | OA
Long, Hongan, et al. “Accumulation of Spontaneous Mutations in the Ciliate Tetrahymena Thermophila.” Genetics, vol. 195, no. 2, Genetics Society of America, 2013, pp. 527–40, doi:10.1534/genetics.113.153536.
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2013 | Journal Article | IST-REx-ID: 2853 | OA
Refardt, Dominik, et al. “Altruism Can Evolve When Relatedness Is Low: Evidence from Bacteria Committing Suicide upon Phage Infection.” Proceedings of the Royal Society of London Series B Biological Sciences, vol. 280, no. 1759, Royal Society, The, 2013, doi:10.1098/rspb.2012.3035.
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2012 | Journal Article | IST-REx-ID: 2302
Henzinger, Thomas A., and Maria Mateescu. “The Propagation Approach for Computing Biochemical Reaction Networks.” IEEE ACM Transactions on Computational Biology and Bioinformatics, vol. 10, no. 2, IEEE, 2012, pp. 310–22, doi:10.1109/TCBB.2012.91.
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2012 | Journal Article | IST-REx-ID: 2943 | OA
Hadizadeh Yazdi, Nastaran, et al. “Variation of the Folding and Dynamics of the Escherichia Coli Chromosome with Growth Conditions.” Molecular Microbiology, vol. 86, no. 6, Wiley-Blackwell, 2012, pp. 1318–33, doi:10.1111/mmi.12071.
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2012 | Journal Article | IST-REx-ID: 3130 | OA
Bergmiller, Tobias, et al. “Patterns of Evolutionary Conservation of Essential Genes Correlate with Their Compensability.” PLoS Genetics, vol. 8, no. 6, e1002803, Public Library of Science, 2012, doi:10.1371/journal.pgen.1002803.
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2012 | Conference Paper | IST-REx-ID: 3136
Guet, Calin C., et al. Delayed Continuous Time Markov Chains for Genetic Regulatory Circuits. Vol. 7358, Springer, 2012, pp. 294–309, doi:10.1007/978-3-642-31424-7_24.
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2011 | Journal Article | IST-REx-ID: 6496 | OA
Park, Heungwon, et al. “Noise Underlies Switching Behavior of the Bacterial Flagellum.” Biophysical Journal, vol. 101, no. 10, Elsevier BV, 2011, pp. 2336–40, doi:10.1016/j.bpj.2011.09.040.
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2010 | Conference Paper | IST-REx-ID: 3719 | OA
Feret, Jérôme, et al. Lumpability Abstractions of Rule-Based Systems. Vol. 40, Open Publishing Association, 2010, pp. 142–61.
View | Files available | arXiv
 
2010 | Conference Paper | IST-REx-ID: 3847 | OA
Didier, Frédéric, et al. SABRE: A Tool for the Stochastic Analysis of Biochemical Reaction Networks. IEEE, 2010, pp. 193–94, doi:10.1109/QEST.2010.33.
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2009 | Conference Paper | IST-REx-ID: 3843 | OA
Didier, Frédéric, et al. Fast Adaptive Uniformization of the Chemical Master Equation. Vol. 4, no. 6, IEEE, 2009, pp. 118–27, doi:10.1109/HiBi.2009.23.
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