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BMC Bioinformatics|March 31, 2006
Protein secondary structure prediction for a single-sequence using hidden semi-Markov modelsZafer Aydin, Yucel Altunbasak, Mark BorodovskyFrontiers in Bioinformatics|October 28, 2022
StartLink and StartLink+: Prediction of Gene Starts in Prokaryotic GenomesKarl Gemayel, Alexandre Lomsadze, Mark BorodovskyNAR Genomics and Bioinformatics|May 23, 2020
GeneMark-EP+: eukaryotic gene prediction with self-training in the space of genes and proteinsTomáš Brůna, Alexandre Lomsadze, Mark BorodovskyJournal of Theoretical Biology|January 24, 2007
Control of Streptococcus pyogenes virulence: modeling of the CovR/S signal transduction systemAlexander Y Mitrophanov, Gordon Churchward, Mark BorodovskyNucleic Acids Research|July 4, 2014
Integration of mapped RNA-Seq reads into automatic training of eukaryotic gene finding algorithmAlexandre Lomsadze, Paul D Burns, Mark BorodovskyInternational Journal of Bioinformatics Research and Applications|December 1, 2007
Multiple testing in large-scale contingency tables: inferring patterns of pair-wise amino acid association in beta-sheetsSeoung Bum Kim, Kwok-Leung Tsui, Mark BorodovskyBMC Genomics|August 30, 2007
Exonization of the LTR transposable elements in human genomeJittima Piriyapongsa, Nalini Polavarapu, Mark Borodovsky, et al.NAR Genomics and Bioinformatics|May 31, 2021
GeneMark-HM: improving gene prediction in DNA sequences of human microbiomeAlexandre Lomsadze, Christophe Bonny, Francesco Strozzi, et al.Current Protocols in Bioinformatics|April 23, 2008
Eukaryotic gene prediction using GeneMark.hmmMark Borodovsky, Alex Lomsadze, Nikolai Ivanov, et al.Genome Research|May 19, 2018
Modeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotesAlexandre Lomsadze, Karl Gemayel, Shiyuyun Tang, et al.Pageof 7