Mark Borodovsky

Shiyuyun Tang, Ivan Antonov, Mark Borodovsky: MetaGeneTack: ab initio detection of frameshifts in metagenomic sequences. Bioinformatics 29(1): 114-116 (2013)

Ivan Antonov, Pavel Baranov, Mark Borodovsky: GeneTack database: genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences. Nucleic Acids Research 41(Database-Issue): 152-156 (2013)

Yang Li, Hong-Mei Li, Paul Burns, Mark Borodovsky, Gene E. Robinson, Jian Ma: TrueSight: Self-training Algorithm for Splice Junction Detection Using RNA-seq. RECOMB 2012: 163-164

Mark Borodovsky, Teresa M. Przytycka, Sanguthevar Rajasekaran, Alexander Zelikovsky: Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE/ACM Trans. Comput. Biology Bioinform. 8(4): 865-866 (2011)

Jeffrey Martin, Wenhan Zhu, Karla D. Passalacqua, Nicholas H. Bergman, Mark Borodovsky: Bacillus anthracis genome organization in light of whole transcriptome sequencing. BMC Bioinformatics 11(S-3): 10 (2010)

Ivan Antonov, Mark Borodovsky: Genetack: frameshift Identification in protein-Coding Sequences by the Viterbi Algorithm. J. Bioinformatics and Computational Biology 8(3): 535-551 (2010)

Aidong Zhang, Mark Borodovsky, Gultekin Özsoyoglu, Armin R. Mikler (Eds.): Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology, BCB 2010, Niagara Falls, NY, USA, August 2-4, 2010. ACM 2010, isbn 978-1-4503-0438-2

Mark Borodovsky, Johann Peter Gogarten, Teresa M. Przytycka, Sanguthevar Rajasekaran (Eds.): Bioinformatics Research and Applications, 6th International Symposium, ISBRA 2010, Storrs, CT, USA, May 23-26, 2010. Proceedings. Lecture Notes in Computer Science 6053, Springer 2010, isbn 978-3-642-13077-9

Andrey Kislyuk, Alexandre Lomsadze, Alla L. Lapidus, Mark Borodovsky: Frameshift detection in prokaryotic genomic sequences. IJBRA 5(4): 458-477 (2009)

Jeffrey Martin, Wenhan Zhu, Nicholas H. Bergman, Mark Borodovsky: Assessment of Gene Annotation Accuracy by Inferring Transcripts from RNA-Seq. BIBM 2009: 54-59

Mark Borodovsky: Decoding Novel Genomes: From Microbiomes to the Eukaryota. BIBE 2007: 3

Mark Borodovsky: Invited Talk: Ab Initio Gene Finding Engines: What Is Under the Hood. ISBRA 2007: 577

Alexander Yu. Mitrophanov, Mark Borodovsky: Statistical significance in biological sequence analysis. Briefings in Bioinformatics 7(1): 2-24 (2006)

Zafer Aydin, Yucel Altunbasak, Mark Borodovsky: Protein secondary structure prediction for a single-sequence using hidden semi-Markov models. BMC Bioinformatics 7: 178 (2006)

Seoung Bum Kim, Kwok-Leung Tsui, Mark Borodovsky: Multiple testing in large-scale contingency tables: inferring patterns of pair-wise amino acid association in beta-sheets. IJBRA 2(2): 193-217 (2006)

Svetlana Ekisheva, Mark Borodovsky: Probabilistic models for biological sequences: selection and Maximum Likelihood estimation. IJBRA 2(3): 305-324 (2006)

Mark Borodovsky, Andrey Rzhetsky, Dmitrij Frishman: The Fifth Georgia Tech - Oak Ridge National Laboratory International Conference in Bioinformatics: in silico Biology, Computational Genomics and Evolutionary Biology. Bioinformatics 21(S3): 1 (2005)

John Besemer, Mark Borodovsky: GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses. Nucleic Acids Research 33(Web-Server-Issue): 451-454 (2005)

Jin Hong, Dong Hyun Jeong, Christopher D. Shaw, William Ribarsky, Mark Borodovsky, Chang Geun Song: GVis: A Scalable Visualization Framework for Genomic Data. EuroVis 2005: 191-198

Rajeev K. Azad, Mark Borodovsky: Probabilistic methods of identifying genes in prokaryotic genomes: Connections to the HMM theory. Briefings in Bioinformatics 5(2): 118-130 (2004)

Rajeev K. Azad, Mark Borodovsky: Effects of choice of DNA sequence model structure on gene identification accuracy. Bioinformatics 20(7): 993-1005 (2004)

Mark Borodovsky, Eugene V. Koonin, Chris Burge, James W. Fickett, John Logsdon, Andrej Sali, Gary D. Stormo, Igor B. Zhulin: The Third Georgia Tech-Emory International Conference on Bioinformatics: In Silico Biology; Bioinformatics After Human Genome (November 15-18, 2001, Atlanta, Georgia, USA). Bioinformatics 17(10): 859-861 (2001)

Chris Burge, Andrej Sali, Mark Borodovsky: The Second Georgia Tech International Conference on Bioinformatics: Sequence, Structure and Function (November 11-14, 1999, Atlanta, Georgia, USA). Bioinformatics 15(11): 865-866 (1999)

Anton M. Shmatkov, Arik A. Melikyan, Felix L. Chernousko, Mark Borodovsky: Finding prokaryotic genes by the `frame-by-frame' algorithm: targeting gene starts and overlapping genes. Bioinformatics 15(11): 874-886 (1999)

Jürgen Kleffe, Klaus Hermann, Mark Borodovsky: Statistical Analysis of Genemark Performance by Cross-validation. Computers & Chemistry 20(1): 123-133 (1996)

James D. McIninch, William S. Hayes, Mark Borodovsky: Applications of GeneMark in Multispecies Environments. ISMB 1996: 165-175

Mark Borodovsky, Anatoly Peresetsky: Deriving Non-homogeneous DNA Markov Chain Models by Cluster Analysis Algorithm Minimizing Multiple Alignment Entropy. Computers & Chemistry 18(3): 259-267 (1994)

Mark Borodovsky, James D. McIninch: GENMARK: Parallel Gene Recognition for Both DNA Strands. Computers & Chemistry 17(2): 123-133 (1993)

Jürgen Kleffe, Mark Borodovsky: First and second moment of counts of words in random texts generated by Markov chains. Computer Applications in the Biosciences 8(5): 433-441 (1992)