1-BIN-301, 2-AIN-501 Methods in Bioinformatics, 2022/23

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Quizzes can be found in Moodle.
Homework assignments and journal club papers can be found in Tasks and dates.
Groups for journal club have each their own channel in MS Teams.


Journal club papers

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Detaily ohľadom požiadavok na journal club nájdete v pravidlách predmetu.

1. David M, Dursi LJ, Yao D, Boutros PC, Simpson JT (2016). "Nanocall: An Open Source Basecaller for Oxford Nanopore Sequencing Data". Bioinformatics. Čítajú Baláž Bérešová Kováč Psota Smoľak Szelleová

2. Lunter G (2007). "Probabilistic whole-genome alignments reveal high indel rates in the human and mouse genomes.". Bioinformatics 23 (13): i289-96. Čítajú Fabianová Forbak Husár Mišíková Šomodi Szendy

3. Wapinski I, Pfeffer A, Friedman N, Regev A (2007). "Natural history and evolutionary principles of gene duplication in fungi". Nature 449 (7158): 54-61. doi:10.1038/nature06107. (pozrite aj Online supplement) Čítajú Bakoš Bilisics Heinz Kačír Kolková Kotrlová Százová

4. Clamp M, Fry B, Kamal M, Xie X, Cuff J, Lin MF et al. (2007). "Distinguishing protein-coding and noncoding genes in the human genome.". Proc Natl Acad Sci U S A 104 (49): 19428-33. Čítajú Jamrichová Koza Mašlej Ondriašová Trubač Zeman

5. Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW et al. (2004). "Transcriptional regulatory code of a eukaryotic genome.". Nature 431 (7004): 99-104. doi:10.1038/nature02800. Čítajú Borbová Brojo Bujna Búran Hadžega Hoľa Kellner

7. Andronescu M, Fejes AP, Hutter F, Hoos HH, Condon A (2004). "A new algorithm for RNA secondary structure design.". J Mol Biol 336 (3): 607-24. doi:10.1016/j.jmb.2003.12.041. Čítajú Adamec Harmanová Ištok Krajčiová Kvačkay Mayerová Mudroch


Nepoužité články

6. Heger, Andreas, and Liisa Holm (2003). "Exhaustive enumeration of protein domain families". Journal of molecular biology 328 (3): 749-67.

8. Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC, Nesvizhskii AI, Tyers M. (2010). "A global protein kinase and phosphatase interaction network in yeast". Science 328 (5981): 1043-6. doi:10.1126/science.1176495. (pozrite aj Online supplement)