Molecular and Structural Basis of Drift in the Functions of Closely-Related Homologous Enzyme Domains: Implications for Function Annotation Based on Homology Searches and Structural Genomics. - Ambrish Roy; Narayanaswamy Srinivasan; Venkatraman S. Gowri (Silico Biol., 2009)

COFACTOR: an accurate comparative algorithm for structure-based protein function annotation. - Ambrish Roy; Jianyi Yang 002; Yang Zhang 040 (Nucleic Acids Res., 2012)

Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment. - Jianyi Yang 002; Ambrish Roy; Yang Zhang 040 (Bioinform., 2013)

BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions. - Jianyi Yang 002; Ambrish Roy; Yang Zhang 040 (Nucleic Acids Res., 2013)

LIGSIFT: an open-source tool for ligand structural alignment and virtual screening. - Ambrish Roy; Jeffrey Skolnick (Bioinform., 2015)

PoLi: A Virtual Screening Pipeline Based on Template Pocket and Ligand Similarity. - Ambrish Roy; Bharath Srinivasan; Jeffrey Skolnick (J. Chem. Inf. Model., 2015)

QAUST: Protein Function Prediction Using Structure Similarity, Protein Interaction, and Functional Motifs. - Fatima Zohra Smaili; Shuye Tian; Ambrish Roy; Meshari Alazmi; Stefan T. Arold; Srayanta Mukherjee; P. Scott Hefty; Wei Chen 029; Xin Gao 001 (Genom. Proteom. Bioinform., 2021)