Bounded search for de novo identification of degenerate cis-regulatory elements. - Jonathan M. Carlson; Arijit Chakravarty; Radhika S. Khetani; Robert H. Gross (BMC Bioinform., 2006)

BEAM: A Beam Search Algorithm for the Identification of Cis-Regulatory Elements in Groups of Genes. - Jonathan M. Carlson; Arijit Chakravarty; Robert H. Gross (J. Comput. Biol., 2006)

SPACER: identification of cis-regulatory elements with non-contiguous critical residues. - Arijit Chakravarty; Jonathan M. Carlson; Radhika S. Khetani; Charles E. DeZiel; Robert H. Gross (Bioinform., 2007)

A novel ensemble learning method for de novo computational identification of DNA binding sites. - Arijit Chakravarty; Jonathan M. Carlson; Radhika S. Khetani; Robert H. Gross (BMC Bioinform., 2007)

SCOPE: a web server for practical de novo motif discovery. - Jonathan M. Carlson; Arijit Chakravarty; Charles E. DeZiel; Robert H. Gross (Nucleic Acids Res., 2007)

Computational identification of antibody-binding epitopes from mimotope datasets. - Rang Li; Sabrina Wilderotter; Madison Stoddard; Debra Van Egeren; Arijit Chakravarty; Diane Joseph-McCarthy (Frontiers Bioinform., 2024)

Identification of a druggable site on GRP78 at the GRP78-SARS-CoV-2 interface and virtual screening of compounds to disrupt that interface. - Maria Lazou; Jonathan R. Hutton; Arijit Chakravarty; Diane Joseph-McCarthy (J. Comput. Aided Mol. Des., 2024)