1-BIN-301, 2-AIN-501 Methods in Bioinformatics, 2023/24
Journal club papers: Rozdiel medzi revíziami
| Riadok 1: | Riadok 1: | ||
| − | + | Podľa vašich preferencií sme Vás zadelili ku článkom (v prípade, že o vaše vybrané články bol velký záujem, snažili sme sa dať prednosť študentom, ktorí svoje preferencie odvzdali skôr). | |
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1. {{cite journal| author=Do CB, Mahabhashyam MS, Brudno M, Batzoglou S| title=ProbCons: Probabilistic consistency-based multiple sequence alignment. | journal=Genome Res | year= 2005 | volume= 15 | issue= 2 | pages= 330-40 | pmid=15687296 }} | 1. {{cite journal| author=Do CB, Mahabhashyam MS, Brudno M, Batzoglou S| title=ProbCons: Probabilistic consistency-based multiple sequence alignment. | journal=Genome Res | year= 2005 | volume= 15 | issue= 2 | pages= 330-40 | pmid=15687296 }} | ||
| Riadok 15: | Riadok 14: | ||
6. {{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}} | 6. {{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''' Michal Antonič, Matej Darebník, Juraj Mešťánek, Pavol Panák, Tomáš Paulenda | + | ::: '''Čítajú''' Michal Antonič, Matej Darebník, Juraj Mešťánek, Pavol Panák, Tomáš Paulenda |
7. {{cite journal| author=Eisen MB, Spellman PT, Brown PO, Botstein D| title=Cluster analysis and display of genome-wide expression | 7. {{cite journal| author=Eisen MB, Spellman PT, Brown PO, Botstein D| title=Cluster analysis and display of genome-wide expression | ||
| Riadok 21: | Riadok 20: | ||
8. {{cite journal| author=Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW et al.| title=Transcriptional regulatory code of a eukaryotic genome. | journal=Nature | year= 2004 | volume= 431 | issue= 7004 | pages= 99-104 | pmid=15343339 | doi=10.1038/nature02800 | url=http://www.psrg.csail.mit.edu/pubs/nature-2004.pdf }} | 8. {{cite journal| author=Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW et al.| title=Transcriptional regulatory code of a eukaryotic genome. | journal=Nature | year= 2004 | volume= 431 | issue= 7004 | pages= 99-104 | pmid=15343339 | doi=10.1038/nature02800 | url=http://www.psrg.csail.mit.edu/pubs/nature-2004.pdf }} | ||
| − | ::: '''Čítajú''' | + | ::: '''Čítajú''' Ladislav Benc, Maroš Gálik, Jana Konkoľová, Martin Kravec, Michaela Libiaková |
9. {{cite journal| author=Bystroff C, Baker D| title=Prediction of local structure in proteins using a library of sequence-structure motifs. | journal=J Mol Biol | year= 1998 | volume= 281 | issue= 3 | pages= 565-77 | pmid=9698570 | doi=10.1006/jmbi.1998.1943 | url=http://depts.washington.edu/bakerpg/papers/Bystroff-JMB-v281-p565.pdf}} | 9. {{cite journal| author=Bystroff C, Baker D| title=Prediction of local structure in proteins using a library of sequence-structure motifs. | journal=J Mol Biol | year= 1998 | volume= 281 | issue= 3 | pages= 565-77 | pmid=9698570 | doi=10.1006/jmbi.1998.1943 | url=http://depts.washington.edu/bakerpg/papers/Bystroff-JMB-v281-p565.pdf}} | ||
| − | ::: '''Čítajú''' | + | ::: '''Čítajú''' Matúš Fedák, Jana Hlavačiková, Adam Ješko, Lenka Kyjacová, Michal Nánási |
10. {{cite journal| author=Sharan R, Suthram S, Kelley RM, Kuhn T, McCuine S, Uetz P et al.| title=Conserved patterns of protein interaction in multiple species. | journal=Proc Natl Acad Sci U S A | year= 2005 | volume= 102 | issue= 6 | pages= 1974-9 | pmid=15687504 | doi=10.1073/pnas.0409522102 }} | 10. {{cite journal| author=Sharan R, Suthram S, Kelley RM, Kuhn T, McCuine S, Uetz P et al.| title=Conserved patterns of protein interaction in multiple species. | journal=Proc Natl Acad Sci U S A | year= 2005 | volume= 102 | issue= 6 | pages= 1974-9 | pmid=15687504 | doi=10.1073/pnas.0409522102 }} | ||
| − | ::: '''Čítajú''' | + | ::: '''Čítajú''' Stanislav Hreha, Martin Králik, Martin Macko, Miroslav Nadhajský, Martina Petrušová |
11. {{cite journal| author=Andronescu M, Fejes AP, Hutter F, Hoos HH, Condon A| title=A new algorithm for RNA secondary structure design. | journal=J Mol Biol | year= 2004 | volume= 336 | issue= 3 | pages= 607-24 | pmid=15095976 | doi=10.1016/j.jmb.2003.12.041 | url=http://people.cs.ubc.ca/~hutter/papers/jmb04-rna-ssd.pdf }} | 11. {{cite journal| author=Andronescu M, Fejes AP, Hutter F, Hoos HH, Condon A| title=A new algorithm for RNA secondary structure design. | journal=J Mol Biol | year= 2004 | volume= 336 | issue= 3 | pages= 607-24 | pmid=15095976 | doi=10.1016/j.jmb.2003.12.041 | url=http://people.cs.ubc.ca/~hutter/papers/jmb04-rna-ssd.pdf }} | ||
| − | ::: '''Čítajú''' | + | ::: '''Čítajú''' Peter Herman, Jakub Kollár, Peter Kováč, Peter Perešíni, Ladislav Rampášek, Jozef Vavro |
12. {{cite journal| author=Hernandez RD, Hubisz MJ, Wheeler DA, Smith DG, Ferguson B, Rogers J et al.| title=Demographic histories and patterns of linkage disequilibrium in Chinese and Indian rhesus macaques. | journal=Science | year= 2007 | volume= 316 | issue= 5822 | pages= 240-3 | pmid=17431170 | url=http://www.sciencemag.org/cgi/content/full/316/5822/240 | doi=10.1126/science.1140462 }} | 12. {{cite journal| author=Hernandez RD, Hubisz MJ, Wheeler DA, Smith DG, Ferguson B, Rogers J et al.| title=Demographic histories and patterns of linkage disequilibrium in Chinese and Indian rhesus macaques. | journal=Science | year= 2007 | volume= 316 | issue= 5822 | pages= 240-3 | pmid=17431170 | url=http://www.sciencemag.org/cgi/content/full/316/5822/240 | doi=10.1126/science.1140462 }} | ||
Verzia zo dňa a času 18:43, 22. október 2009
Podľa vašich preferencií sme Vás zadelili ku článkom (v prípade, že o vaše vybrané články bol velký záujem, snažili sme sa dať prednosť študentom, ktorí svoje preferencie odvzdali skôr).
1. Do CB, Mahabhashyam MS, Brudno M, Batzoglou S (2005). "ProbCons: Probabilistic consistency-based multiple sequence alignment.". Genome Res 15 (2): 330-40. PMID 15687296.
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.
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 Michal Burger, Peter Galiovský, Peter Jurčo, Marcel Kucharík, Bianka Mateášiková
4. Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K et al. (2005). "Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes". Genome Res 15 (8): 1034-50. doi:10.1101/gr.3715005. PMID 16024819.
- Čítajú Tomáš Eichler, Martin Gallus, Martin Sárközi, Martina Višňovská, Matej Vitko
5. 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.
- Čítajú Barbora Candráková, Jakub Kováč, Michal Kožuch, Ján Kriška, Milan Uherčík
6. 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 Michal Antonič, Matej Darebník, Juraj Mešťánek, Pavol Panák, Tomáš Paulenda
7. Eisen MB, Spellman PT, Brown PO, Botstein D (1998). "Cluster analysis and display of genome-wide expression patterns.". Proc Natl Acad Sci U S A 95 (25): 14863-8. PMID 9843981.
8. 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 Ladislav Benc, Maroš Gálik, Jana Konkoľová, Martin Kravec, Michaela Libiaková
9. Bystroff C, Baker D (1998). "Prediction of local structure in proteins using a library of sequence-structure motifs.". J Mol Biol 281 (3): 565-77. doi:10.1006/jmbi.1998.1943. PMID 9698570.
- Čítajú Matúš Fedák, Jana Hlavačiková, Adam Ješko, Lenka Kyjacová, Michal Nánási
10. 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.
- Čítajú Stanislav Hreha, Martin Králik, Martin Macko, Miroslav Nadhajský, Martina Petrušová
11. 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 Peter Herman, Jakub Kollár, Peter Kováč, Peter Perešíni, Ladislav Rampášek, Jozef Vavro
12. 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.
