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2-AIN-506 a 2-AIN-252: Seminár z bioinformatiky (2) a (4)
Leto 2012
Zoznam článkov

  • Benedict Paten, Dent Earl, Ngan Nguyen, Mark Diekhans, Daniel Zerbino, David Haussler. Cactus: Algorithms for genome multiple sequence alignment. Genome research, 21(9):1512-1518. 2011.
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  • Shay Zakov, Dekel Tsur, Michal Ziv-Ukelson. Reducing the worst case running times of a family of RNA and CFG problems, using Valiant's approach. Algorithms Mol Biol, 6(1):20. 2011.
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  • Glenn Hickey and Mathieu Blanchette. A Probabilistic Model for Sequence Alignment with Context-Sensitive Indels. In RECOMB, 6577 volume of Lecture Notes in Computer Science, pp. 85-103, 2011. Springer.
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  • Gabriel Cuellar-Partida, Fabian A. Buske, Robert C. McLeay, Tom Whitington, William Stafford Noble, Timothy L. Bailey. Epigenetic priors for identifying active transcription factor binding sites. Bioinformatics, 28(1):56-62. 2012.
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  • David Golan, Saharon Rosset. Accurate estimation of heritability in genome wide studies using random effects models. Bioinformatics, 27(13):i317-i323. 2011.
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  • Michael Hirsch, Bernhard Scholkopf, Michael Habeck. A blind deconvolution approach for improving the resolution of cryo-EM density maps. Journal of computational biology, 18(3):335-336. 2011.
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  • Zasha Weinberg, Ronald R. Breaker. R2R - software to speed the depiction of aesthetic consensus RNA secondary structures. BMC bioinformatics, 12:3. 2011.
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  • Patrick Ng, Uri Keich. Alignment constrained sampling. Journal of computational biology, 18(2):155-158. 2011.
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  • Jr-Shiuan Yang, Michael D. Phillips, Doron Betel, Ping Mu, Andrea Ventura, Adam C. Siepel, Kevin C. Chen, Eric C. Lai. Widespread regulatory activity of vertebrate microRNA* species. RNA, 17(2):312-316. 2011.
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  • Ryan E. Mills, Klaudia Walter, Chip Stewart, et al.. Mapping copy number variation by population-scale genome sequencing. Nature, 470(7332):59-65. 2011. Clanok poskytneme zaujemcom.
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  • Tomislav Domazet-Loso, Diethard Tautz. A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns. Nature, 468(7325):815-818. 2010. Clanok poskytneme na poziadanie.
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  • Florent Murat, Jian-Hong Xu, Eric Tannier, Michael Abrouk, Nicolas Guilhot, Caroline Pont, Joachim Messing, Jerome Salse. Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution. Genome research, 20(11):1545-1547. 2010.
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  • Yarden Katz, Eric T. Wang, Edoardo M. Airoldi, Christopher B. Burge. Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nature methods, 7(12):1009-1015. 2010.
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  • Laxmi Parida. Ancestral recombinations graph: a reconstructability perspective using random-graphs framework. Journal of computational biology, 17(10):1345-1350. 2010.
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  • David J. Witherspoon, Jinchuan Xing, Yuhua Zhang, W. Scott Watkins, Mark A. Batzer, Lynn B. Jorde. Mobile element scanning (ME-Scan) by targeted high-throughput sequencing. BMC genomics, 11:410. 2010.
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  • Miklos Csuros. Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood. Bioinformatics, 26(15):1910-1912. 2010.
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  • Robert Giegerich, Christian {Honer zu Siederdissen}. Semantics and Ambiguity of Stochastic RNA Family Models. Transactions on Computational Biology and Bioinformatics, 8(2):499-516. 2010.
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  • Katherine S. Pollard, Melissa J. Hubisz, Kate R. Rosenbloom, Adam Siepel. Detection of nonneutral substitution rates on mammalian phylogenies. Genome research, 20(1):110-111. 2010.
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  • Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk. Inferring the evolutionary history of gene clusters from phylogenetic and gene order data. Molecular biology and evolution, 27(4):761-762. 2010.
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  • Alexander M. Tsankov, Dawn Anne Thompson, Amanda Socha, Aviv Regev, Oliver J. Rando. The role of nucleosome positioning in the evolution of gene regulation. PLoS Biology, 8(7):e1000414. 2010.
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