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WarpSTR: determining tandem repeat lengths using raw nanopore signals.
Sitarčík J, Vinař T, Brejová B, Krampl W, Budiš J, Radvánszky J, Lucká M. Sitarčík J, et al. Among authors: vinar t. Bioinformatics. 2023 Jun 1;39(6):btad388. doi: 10.1093/bioinformatics/btad388. Bioinformatics. 2023. PMID: 37326967 Free PMC article.
The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage.
Shaffer HB, Minx P, Warren DE, Shedlock AM, Thomson RC, Valenzuela N, Abramyan J, Amemiya CT, Badenhorst D, Biggar KK, Borchert GM, Botka CW, Bowden RM, Braun EL, Bronikowski AM, Bruneau BG, Buck LT, Capel B, Castoe TA, Czerwinski M, Delehaunty KD, Edwards SV, Fronick CC, Fujita MK, Fulton L, Graves TA, Green RE, Haerty W, Hariharan R, Hernandez O, Hillier LW, Holloway AK, Janes D, Janzen FJ, Kandoth C, Kong L, de Koning AP, Li Y, Literman R, McGaugh SE, Mork L, O'Laughlin M, Paitz RT, Pollock DD, Ponting CP, Radhakrishnan S, Raney BJ, Richman JM, St John J, Schwartz T, Sethuraman A, Spinks PQ, Storey KB, Thane N, Vinar T, Zimmerman LM, Warren WC, Mardis ER, Wilson RK. Shaffer HB, et al. Among authors: vinar t. Genome Biol. 2013 Mar 28;14(3):R28. doi: 10.1186/gb-2013-14-3-r28. Genome Biol. 2013. PMID: 23537068 Free PMC article.
The sequence and de novo assembly of the giant panda genome.
Li R, Fan W, Tian G, Zhu H, He L, Cai J, Huang Q, Cai Q, Li B, Bai Y, Zhang Z, Zhang Y, Wang W, Li J, Wei F, Li H, Jian M, Li J, Zhang Z, Nielsen R, Li D, Gu W, Yang Z, Xuan Z, Ryder OA, Leung FC, Zhou Y, Cao J, Sun X, Fu Y, Fang X, Guo X, Wang B, Hou R, Shen F, Mu B, Ni P, Lin R, Qian W, Wang G, Yu C, Nie W, Wang J, Wu Z, Liang H, Min J, Wu Q, Cheng S, Ruan J, Wang M, Shi Z, Wen M, Liu B, Ren X, Zheng H, Dong D, Cook K, Shan G, Zhang H, Kosiol C, Xie X, Lu Z, Zheng H, Li Y, Steiner CC, Lam TT, Lin S, Zhang Q, Li G, Tian J, Gong T, Liu H, Zhang D, Fang L, Ye C, Zhang J, Hu W, Xu A, Ren Y, Zhang G, Bruford MW, Li Q, Ma L, Guo Y, An N, Hu Y, Zheng Y, Shi Y, Li Z, Liu Q, Chen Y, Zhao J, Qu N, Zhao S, Tian F, Wang X, Wang H, Xu L, Liu X, Vinar T, Wang Y, Lam TW, Yiu SM, Liu S, Zhang H, Li D, Huang Y, Wang X, Yang G, Jiang Z, Wang J, Qin N, Li L, Li J, Bolund L, Kristiansen K, Wong GK, Olson M, Zhang X, Li S, Yang H, Wang J, Wang J. Li R, et al. Among authors: vinar t. Nature. 2010 Jan 21;463(7279):311-7. doi: 10.1038/nature08696. Epub 2009 Dec 13. Nature. 2010. PMID: 20010809 Free PMC article.
Optimal spaced seeds for homologous coding regions.
Brejová B, Brown DG, Vinar T. Brejová B, et al. Among authors: vinar t. J Bioinform Comput Biol. 2004 Jan;1(4):595-610. doi: 10.1142/s0219720004000326. J Bioinform Comput Biol. 2004. PMID: 15290755
ExonHunter: a comprehensive approach to gene finding.
Brejová B, Brown DG, Li M, Vinar T. Brejová B, et al. Among authors: vinar t. Bioinformatics. 2005 Jun;21 Suppl 1:i57-65. doi: 10.1093/bioinformatics/bti1040. Bioinformatics. 2005. PMID: 15961499
Homology search for genes.
Cui X, Vinar T, Brejová B, Shasha D, Li M. Cui X, et al. Among authors: vinar t. Bioinformatics. 2007 Jul 1;23(13):i97-103. doi: 10.1093/bioinformatics/btm225. Bioinformatics. 2007. PMID: 17646351
55 results