1-BIN-301, 2-AIN-501 Methods in Bioinformatics, 2021/22

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Cvičenia vo štvrtok o 14:00 sú určené pre študentov BIN, INF, mINF, mAIN, DAV. Cvičenia vo štvrtok o 17:20 sú pre študentov z PriFUK a z fyzikálnych odborov. Obidvoje cvičenia sa budú konať už v prvom týždni semestra.


Journal club papers: Rozdiel medzi revíziami

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3. {{cite journal| author=Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D| title=Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. | journal=Proc Natl Acad Sci U S A | year= 2003 | volume= 100 | issue= 20 | pages= 11484-9 | pmid=14500911 | doi=10.1073/pnas.1932072100 }} '''Čítajú:''' Danko, Dávid_Dobiáš, Gunčaga, Masaryk, Slavkovský, Vetrík
 
3. {{cite journal| author=Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D| title=Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. | journal=Proc Natl Acad Sci U S A | year= 2003 | volume= 100 | issue= 20 | pages= 11484-9 | pmid=14500911 | doi=10.1073/pnas.1932072100 }} '''Čítajú:''' Danko, Dávid_Dobiáš, Gunčaga, Masaryk, Slavkovský, Vetrík
  
4. {{cite journal| author=Wapinski I, Pfeffer A, Friedman N, Regev A| title=Natural history and evolutionary principles of gene duplication in fungi | journal=Nature | year= 2007 | volume= 449 | issue= 7158 | pages= 54-61 | pmid=17805289 | doi=10.1038/nature06107 | url=http://llama.mshri.on.ca/courses/Biophysics205/Papers/Wapinski_2007.pdf}} '''Čítajú:''' Karlubík, Mrózek, Seč, Šinský, Vajdová
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4. {{cite journal| author=Wapinski I, Pfeffer A, Friedman N, Regev A| title=Natural history and evolutionary principles of gene duplication in fungi | journal=Nature | year= 2007 | volume= 449 | issue= 7158 | pages= 54-61 | pmid=17805289 | doi=10.1038/nature06107 | url=http://llama.mshri.on.ca/courses/Biophysics205/Papers/Wapinski_2007.pdf}} (pozrite aj [http://www.nature.com/nature/journal/v449/n7158/suppinfo/nature06107.html Online supplement]) '''Čítajú:''' Karlubík, Mrózek, Seč, Šinský, Vajdová
  
 
5. {{cite journal| author=Clamp M, Fry B, Kamal M, Xie X, Cuff J, Lin MF et al.| title=Distinguishing protein-coding and noncoding genes in the human genome. | journal=Proc Natl Acad Sci U S A | year= 2007 | volume= 104 | issue= 49 | pages= 19428-33 | pmid=18040051 | doi=10.1073/pnas.0709013104}} '''Čítajú:''' Dominik_Dobiáš, Filip, Kolková, Krampl, Pisarčíková, Rabatin
 
5. {{cite journal| author=Clamp M, Fry B, Kamal M, Xie X, Cuff J, Lin MF et al.| title=Distinguishing protein-coding and noncoding genes in the human genome. | journal=Proc Natl Acad Sci U S A | year= 2007 | volume= 104 | issue= 49 | pages= 19428-33 | pmid=18040051 | doi=10.1073/pnas.0709013104}} '''Čítajú:''' Dominik_Dobiáš, Filip, Kolková, Krampl, Pisarčíková, Rabatin

Verzia zo dňa a času 13:13, 10. november 2015

2. Lunter G (2007). "Probabilistic whole-genome alignments reveal high indel rates in the human and mouse genomes.". Bioinformatics 23 (13): i289-96. doi:10.1093/bioinformatics/btm185. PMID 17646308. Čítajú: Hajkovský, Mihál, Miklošovič, Poliak, Schichman

3. Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D (2003). "Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes.". Proc Natl Acad Sci U S A 100 (20): 11484-9. doi:10.1073/pnas.1932072100. PMID 14500911. Čítajú: Danko, Dávid_Dobiáš, Gunčaga, Masaryk, Slavkovský, Vetrík

4. 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. PMID 17805289. (pozrite aj Online supplement) Čítajú: Karlubík, Mrózek, Seč, Šinský, Vajdová

5. 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. doi:10.1073/pnas.0709013104. PMID 18040051. Čítajú: Dominik_Dobiáš, Filip, Kolková, Krampl, Pisarčíková, Rabatin

6. 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. PMID 15343339. Čítajú: Jamrichová, Kmeťová, Kubica, Lukáč, Metohajrova, Scholtzová

8. 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. PMID 15095976. Čítajú: Fikar, Gahurová, Holas, Petrucha, Šešerová, Szabo

9. Hernandez RD, Hubisz MJ, Wheeler DA, Smith DG, Ferguson B, Rogers J et al. (2007). "Demographic histories and patterns of linkage disequilibrium in Chinese and Indian rhesus macaques.". Science 316 (5822): 240-3. doi:10.1126/science.1140462. PMID 17431170. Čítajú: Greššák, Klembarová, Krajčovič, Kunertová, Marčanová

Nepoužité články

1. Valouev, A., Schwartz, D. C., Zhou, S., & Waterman, M. S. "An algorithm for assembly of ordered restriction maps from single DNA molecules". Proceedings of the National Academy of Sciences 03 (43 (2006)): 15770-15775.

7. Sharan R, Suthram S, Kelley RM, Kuhn T, McCuine S, Uetz P et al. (2005). "Conserved patterns of protein interaction in multiple species.". Proc Natl Acad Sci U S A 102 (6): 1974-9. doi:10.1073/pnas.0409522102. PMID 15687504.