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Methods (San Diego, Calif.)|July 13, 2015
ARMADA: Using motif activity dynamics to infer gene regulatory networks from gene expression dataPeter J Pemberton-Ross, Mikhail Pachkov, Erik van NimwegenNucleic Acids Research|November 30, 2006
SwissRegulon: a database of genome-wide annotations of regulatory sitesMikhail Pachkov, Ionas Erb, Nacho Molina, et al.Bioinformatics (Oxford, England)|February 16, 2012
MotEvo: integrated Bayesian probabilistic methods for inferring regulatory sites and motifs on multiple alignments of DNA sequencesPhil Arnold, Ionas Erb, Mikhail Pachkov, et al.Nucleic Acids Research|November 28, 2012
SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updatesMikhail Pachkov, Piotr J Balwierz, Phil Arnold, et al.Plos Computational Biology|July 29, 2017
Automated incorporation of pairwise dependency in transcription factor binding site prediction using dinucleotide weight tensorsSaeed Omidi, Mihaela Zavolan, Mikhail Pachkov, et al.Molecular Biology and Evolution|March 7, 2014
Automated reconstruction of whole-genome phylogenies from short-sequence readsFrederic Bertels, Olin K Silander, Mikhail Pachkov, et al.F1000Research|February 25, 2017
The ISMARA clientPanu Artimo, Séverine Duvaud, Mikhail Pachkov, et al.Genome Research|February 12, 2014
ISMARA: automated modeling of genomic signals as a democracy of regulatory motifsPiotr J Balwierz, Mikhail Pachkov, Phil Arnold, et al.Journal of Immunology (Baltimore, Md. : 1950)|December 26, 2008
MicroRNA-221-222 regulate the cell cycle in mast cellsRamon J Mayoral, Matthew E Pipkin, Mikhail Pachkov, et al.Genome Research|May 30, 2019
Crunch: integrated processing and modeling of ChIP-seq data in terms of regulatory motifsSeverin Berger, Mikhail Pachkov, Phil Arnold, et al.Pageof 9