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79 Publications

2015 | Journal Article | IST-REx-ID: 5749   OA
Wielgoss, S., Bergmiller, T., Bischofberger, A. M., & Hall, A. R. (2015). Adaptation to Parasites and Costs of Parasite Resistance in Mutator and Nonmutator Bacteria. Molecular Biology and Evolution, 33(3), 770–782. https://doi.org/10.1093/molbev/msv270
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2014 | Journal Article | IST-REx-ID: 1894   OA
Grabowska, A., Wywiał, E., Dunin Horkawicz, S., Łasica, A., Wösten, M., Nagy-Staron, A. A., … Jagusztyn Krynicka, E. (2014). Functional and bioinformatics analysis of two Campylobacter jejuni homologs of the thiol-disulfide oxidoreductase, DsbA. PLoS One, 9(9). https://doi.org/10.1371/journal.pone.0106247
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2014 | Journal Article | IST-REx-ID: 2056   OA
Ganguly, A., Petrov, T., & Koeppl, H. (2014). Markov chain aggregation and its applications to combinatorial reaction networks. Journal of Mathematical Biology, 69(3), 767–797. https://doi.org/10.1007/s00285-013-0738-7
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2014 | Journal Article | IST-REx-ID: 2083
Lagator, M., Morgan, A., Neve, P., & Colegrave, N. (2014). Role of sex and migration in adaptation to sink environments. Evolution, 68(8), 2296–2305. https://doi.org/10.1111/evo.12440
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2014 | Journal Article | IST-REx-ID: 1913
Milenković, I., Petrov, T., & Kovács, G. (2014). Patterns of hippocampal tau pathology differentiate neurodegenerative dementias. Dementia and Geriatric Cognitive Disorders, 38(5–6), 375–388. https://doi.org/10.1159/000365548
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2014 | Journal Article | IST-REx-ID: 2036   OA
Lagator, M., Colegrave, N., & Neve, P. (2014). Selection history and epistatic interactions impact dynamics of adaptation to novel environmental stresses. Proceedings of the Royal Society of London Series B Biological Sciences, 281(1794). https://doi.org/10.1098/rspb.2014.1679
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2013 | Conference Paper | IST-REx-ID: 2718   OA
Barton, N. H., & Paixao, T. (2013). Can quantitative and population genetics help us understand evolutionary computation? In Proceedings of the 15th annual conference on Genetic and evolutionary computation (pp. 1573–1580). Amsterdam, Netherlands: ACM. https://doi.org/10.1145/2463372.2463568
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2013 | Journal Article | IST-REx-ID: 2720   OA
Long, H., Paixao, T., Azevedo, R., & Zufall, R. (2013). Accumulation of spontaneous mutations in the ciliate Tetrahymena thermophila. Genetics, 195(2), 527–540. https://doi.org/10.1534/genetics.113.153536
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2013 | Journal Article | IST-REx-ID: 499
Wakamoto, Y., Dhar, N., Chait, R. P., Schneider, K., Signorino Gelo, F., Leibler, S., & Mckinney, J. (2013). Dynamic persistence of antibiotic-stressed mycobacteria. Science, 339(6115), 91–95. https://doi.org/10.1126/science.1229858
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2013 | Conference Paper | IST-REx-ID: 2719
Paixao, T., & Barton, N. H. (2013). A variance decomposition approach to the analysis of genetic algorithms. In Proceedings of the 15th annual conference on Genetic and evolutionary computation (pp. 845–852). Amsterdam, Netherlands: ACM. https://doi.org/10.1145/2463372.2463470
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2013 | Journal Article | IST-REx-ID: 2853   OA
Refardt, D., Bergmiller, T., & Kümmerli, R. (2013). 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, 280(1759). https://doi.org/10.1098/rspb.2012.3035
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2012 | Journal Article | IST-REx-ID: 2943   OA
Hadizadeh Yazdi, N., Guet, C. C., Johnson, R., & Marko, J. (2012). Variation of the folding and dynamics of the Escherichia coli chromosome with growth conditions. Molecular Microbiology, 86(6), 1318–1333. https://doi.org/10.1111/mmi.12071
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2012 | Conference Paper | IST-REx-ID: 3136
Guet, C. C., Gupta, A., Henzinger, T. A., Mateescu, M., & Sezgin, A. (2012). Delayed continuous time Markov chains for genetic regulatory circuits (Vol. 7358, pp. 294–309). Presented at the CAV: Computer Aided Verification, Berkeley, CA, USA: Springer. https://doi.org/10.1007/978-3-642-31424-7_24
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2012 | Journal Article | IST-REx-ID: 2302
Henzinger, T. A., & Mateescu, M. (2012). The propagation approach for computing biochemical reaction networks. IEEE ACM Transactions on Computational Biology and Bioinformatics, 10(2), 310–322. https://doi.org/10.1109/TCBB.2012.91
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2012 | Journal Article | IST-REx-ID: 3130   OA
Bergmiller, T., Ackermann, M., & Silander, O. (2012). Patterns of evolutionary conservation of essential genes correlate with their compensability. PLoS Genetics, 8(6). https://doi.org/10.1371/journal.pgen.1002803
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2011 | Journal Article | IST-REx-ID: 6496   OA
Park, H., Oikonomou, P., Guet, C. C., & Cluzel, P. (2011). Noise underlies switching behavior of the bacterial flagellum. Biophysical Journal, 101(10), 2336–2340. https://doi.org/10.1016/j.bpj.2011.09.040
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2010 | Conference Paper | IST-REx-ID: 3719   OA
Feret, J., Henzinger, T. A., Koeppl, H., & Petrov, T. (2010). Lumpability abstractions of rule-based systems (Vol. 40, pp. 142–161). Presented at the MECBIC: Membrane Computing and Biologically Inspired Process Calculi, Jena, Germany: Open Publishing Association.
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2010 | Conference Paper | IST-REx-ID: 3847   OA
Didier, F., Henzinger, T. A., Mateescu, M., & Wolf, V. (2010). SABRE: A tool for the stochastic analysis of biochemical reaction networks (pp. 193–194). Presented at the QEST: Quantitative Evaluation of Systems, Williamsburg, USA: IEEE. https://doi.org/10.1109/QEST.2010.33
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2009 | Conference Paper | IST-REx-ID: 3843
Didier, F., Henzinger, T. A., Mateescu, M., & Wolf, V. (2009). Fast adaptive uniformization of the chemical master equation (Vol. 4, pp. 118–127). Presented at the HIBI: High-Performance Computational Systems Biology, Trento, Italy: IEEE. https://doi.org/10.1109/HiBi.2009.23
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