Fragment assembly with short reads. - Mark Chaisson; Pavel A. Pevzner; Haixu Tang (Bioinform., 2004)

Microinversions in mammalian evolution. - Mark Chaisson; Benjamin J. Raphael; Pavel A. Pevzner (Proc. Natl. Acad. Sci. USA, 2006)

Paired de Bruijn Graphs: A Novel Approach for Incorporating Mate Pair Information into Genome Assemblers. - Paul Medvedev; Son K. Pham; Mark Chaisson; Glenn Tesler; Pavel A. Pevzner (J. Comput. Biol., 2011)

Mapping single molecule sequencing reads using Basic Local Alignment with Successive Refinement (BLASR): Theory and Application. - Mark Chaisson; Glenn Tesler (BMC Bioinform., 2012)

STAR: ultrafast universal RNA-seq aligner. - Alexander Dobin; Carrie A. Davis; Felix Schlesinger; Jorg Drenkow; Chris Zaleski; Sonali Jha; Philippe Batut; Mark Chaisson; Thomas R. Gingeras (Bioinform., 2013)

Assembly of Long Error-Prone Reads Using de Bruijn Graphs. - Yu Lin 001; Max W. Shen; Jeffrey Yuan; Mark Chaisson; Pavel A. Pevzner (RECOMB, 2016)

Assembly of long error-prone reads using de Bruijn graphs. - Yu Lin 001; Jeffrey Yuan; Mikhail Kolmogorov; Max W. Shen; Mark Chaisson; Pavel A. Pevzner (Proc. Natl. Acad. Sci. USA, 2016)

VISTA: an integrated framework for structural variant discovery. - Varuni Sarwal; Seungmo Lee; Jianzhi Yang; Sriram Sankararaman; Mark Chaisson; Eleazar Eskin; Serghei Mangul (Briefings Bioinform., 2024)