Mikkelsen TS, Galagan JE, Mesirov JP. Improving genome annotations using phylogenetic profile anomaly detection. Bioinformatics. 2005;21(4):464-70. doi:10.1093/bioinformatics/bti027
Trapnell C, Roberts A, Goff L, et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat Protoc. 2012;7(3):562-78. doi:10.1038/nprot.2012.016
Schloegel LM, Toledo LF, Longcore JE, et al. Novel, panzootic and hybrid genotypes of amphibian chytridiomycosis associated with the bullfrog trade. Mol Ecol. 2012;21(21):5162-77. doi:10.1111/j.1365-294X.2012.05710.x
Wang P, Dong Q, Zhang C, et al. Mutations in isocitrate dehydrogenase 1 and 2 occur frequently in intrahepatic cholangiocarcinomas and share hypermethylation targets with glioblastomas. Oncogene. 2013;32(25):3091-100. doi:10.1038/onc.2012.315
Brastianos PK, Taylor-Weiner A, Manley PE, et al. Exome sequencing identifies BRAF mutations in papillary craniopharyngiomas. Nat Genet. 2014;46(2):161-5. doi:10.1038/ng.2868
Gymrek M. PyBamView: a browser-based application for viewing short read alignments. Bioinformatics. 2014;30(23):3405-7. doi:10.1093/bioinformatics/btu565
Walker BJ, Abeel T, Shea T, et al. Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLoS One. 2014;9(11):e112963. doi:10.1371/journal.pone.0112963
Morgan XC, Kabakchiev B, Waldron L, et al. Associations between host gene expression, the mucosal microbiome, and clinical outcome in the pelvic pouch of patients with inflammatory bowel disease. Genome Biol. 2015;16:67. doi:10.1186/s13059-015-0637-x
Schmidt SM, Lukasiewicz J, Farrer R, van Dam P, Bertoldo C, Rep M. Comparative genomics of Fusarium oxysporum f. sp. melonis reveals the secreted protein recognized by the Fom-2 resistance gene in melon. New Phytol. 2016;209(1):307-18. doi:10.1111/nph.13584
Chain PSG, Grafham DV, Fulton RS, et al. Genomics. Genome project standards in a new era of sequencing. Science. 2009;326(5950):236-7. doi:10.1126/science.1180614