2-AIN-505, 2-AIN-251: Seminár z bioinformatiky (1) a (3)
Zima 2012
Rozvrh

Seminár:
Utorok 17:20, I-9
Vyučujúci:
Mgr. Tomáš Vinař, PhD	M-163,
Konzultačné hodiny: TBA
Oznamy:
Prvé stretnutie pre tento semester bude v utorok 25.9. (druhý týždeň semestra). Ak sa plánujete seminára zúčastňovať, ale nemôžete prísť na stretnutie, prosím pošlite mi e-mail, aby sme mohli prispôsobiť organizáciu počtu ľudí.
Zoznam prezentácií:

25.9.2012 Kubo Kováč	Jimmy Yang, Tandy Warnow. Fast and accurate methods for phylogenomic analyses. BMC bioinformatics, 2011. link
2.10.2012 Mic Nánási	Son K. Pham, Dmitry Antipov, Alexander Sirotkin, Glenn Tesler, Pavel A. Pevzner, Max A. Alekseyev. Pathset Graphs: A Novel Approach for Comprehensive Utilization of Paired Reads in Genome Assembly. Journal of computational biology, 2012. link
9.10.2012 Martin Králik	Anthony J. Cox, Tobias Jakobi, Giovanna Rosone, Ole B. Schulz-Trieglaff. Comparing DNA Sequence Collections by Direct Comparison of Compressed Text Indexes . In WABI 2012, 2012. link
16.10.2012 Martin Kravec	Olivier {Tremblay Savard}, Denis Bertrand, Nadia El-Mabrouk. Evolution of orthologous tandemly arrayed gene clusters. BMC bioinformatics, 2011. link
23.10.2012 Jaro Budiš	Steffen Heyne, Fabrizio Costa, Dominic Rose, Rolf Backofen. GraphClust: alignment-free structural clustering of local RNA secondarystructures. Bioinformatics, 2012. link
30.10.2012 Matúš Kempa	Nikolay Vyahhi, Alex Pyshkin, Son Pham, Pavel A. Pevzner. From de Bruijn Graphs to Rectangle Graphs for Genome Assembly. In WABI 2012, 2012. link
6.11.2012 Martin Višňovec	Giltae Song, Cathy Riemer, Benjamin Dickins, Hie Lim Kim, Louxin Zhang, Yu Zhang, Chih-Hao Hsu, Ross C. Hardison, {Nisc Comparative Sequencing Program}, Eric D. Green, Webb Miller. Revealing mammalian evolutionary relationships by comparative analysis of gene clusters. Genome Biol Evol, 2012. link
13.11.2012 Iveta Halanova	Elizabeth P. Murchison et al.. Genome sequencing and analysis of the Tasmanian devil and its transmissiblecancer. Cell, 2012. link
20.11.2012 Lucia Simanova	Ilan Gronau, Melissa J. Hubisz, Brad Gulko, Charles G. Danko, Adam Siepel. Bayesian inference of ancient human demography from individual genome sequences. Nature genetics, 2011. link
27.11.2012 mimoriadne voľno
4.12.2012 Martin Bobák	Rene L. Warren, Robert A. Holt. Targeted assembly of short sequence reads. PLoS One, 2011. link
11.12.2012 Lukáš Bača	Thomas A. Hopf, Lucy J. Colwell, Robert Sheridan, Burkhard Rost, Chris Sander, Debora S. Marks. Three-dimensional structures of membrane proteins from genomic sequencing. Cell, 2012. link
15.1.2013 Eliška Pätoprstá	Hosein Mohimani, Wei-Ting Liu, Joshua S. Mylne, Aaron G. Poth, Michelle L. Colgrave, Dat Tran, Michael E. Selsted, Pieter C. Dorrestein, Pavel A. Pevzner. Cycloquest: identification of cyclopeptides via database search of their massspectra against genome databases. Journal of proteome research, 2011. link
22.1.2013 Rasťo Pánis	Webb Miller, Stephan C. Schuster, Andreanna J. Welch, Aakrosh Ratan, Oscar C. Bedoya-Reina, Fangqing Zhao, Hie Lim Kim, Richard C. Burhans, Daniela I. Drautz, Nicola E. Wittekindt, Lynn P. Tomsho, Enrique Ibarra-Laclette, Luis Herrera-Estrella, Elizabeth Peacock, Sean Farley, George K. Sage, Karyn Rode, Martyn Obbard, Rafael Montiel, Lutz Bachmann, Olafur Ingolfsson, Jon Aars, Thomas Mailund, Oystein Wiig, Sandra L. Talbot, Charlotte Lindqvist. Polar and brown bear genomes reveal ancient admixture and demographic footprints of past climate change. Proceedings of the National Academy of Sciences of the United States of America, 2012. link