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Ambrish Roy
Ambrish Roy
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Title
Cited by
Cited by
Year
I-TASSER: a unified platform for automated protein structure and function prediction
A Roy, A Kucukural, Y Zhang
Nature protocols 5 (4), 725-738, 2010
71642010
The I-TASSER Suite: protein structure and function prediction
J Yang, R Yan, A Roy, D Xu, J Poisson, Y Zhang
Nature methods 12 (1), 7-8, 2015
58752015
Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment
J Yang, A Roy, Y Zhang
9362013
COFACTOR: an accurate comparative algorithm for structure-based protein function annotation
A Roy, J Yang, Y Zhang
Nucleic acids research 40 (W1), W471-W477, 2012
7832012
BioLiP: a semi-manually curated database for biologically relevant ligand–protein interactions
J Yang, A Roy, Y Zhang
Nucleic acids research 41 (D1), D1096-D1103, 2012
6852012
Automated protein structure modeling in CASP9 by I‐TASSER pipeline combined with QUARK‐based ab initio folding and FG‐MD‐based structure refinement
D Xu, J Zhang, A Roy, Y Zhang
Proteins: Structure, Function, and Bioinformatics 79 (S10), 147-160, 2011
1822011
Recognizing protein-ligand binding sites by global structural alignment and local geometry refinement
A Roy, Y Zhang
Structure 20 (6), 987-997, 2012
1242012
A protocol for computer-based protein structure and function prediction
A Roy, D Xu, J Poisson, Y Zhang
JoVE (Journal of Visualized Experiments), e3259, 2011
1112011
CANDO and the infinite drug discovery frontier
M Minie, G Chopra, G Sethi, J Horst, G White, A Roy, K Hatti, R Samudrala
Drug discovery today 19 (9), 1353-1363, 2014
712014
Brain activity patterns in high-throughput electrophysiology screen predict both drug efficacies and side effects
PM Eimon, M Ghannad-Rezaie, G De Rienzo, A Allalou, Y Wu, M Gao, ...
Nature communications 9 (1), 219, 2018
682018
LIGSIFT: an open-source tool for ligand structural alignment and virtual screening
A Roy, J Skolnick
Bioinformatics 31 (4), 539-544, 2014
552014
Functional Implications of Structural Predictions for Alternative Splice Proteins Expressed in Her2/neu–Induced Breast Cancers
R Menon, A Roy, S Mukerjee, S Belkin, Y Zhang, GS Omenn
Journal of proteome research, 2011
472011
PoLi: A Virtual Screening Pipeline Based on Template Pocket and Ligand Similarity
A Roy, B Srinivasan, J Skolnick
Journal of chemical information and modeling 55 (8), 1757-1770, 2015
392015
Chemical space of Escherichia coli dihydrofolate reductase inhibitors: New approaches for discovering novel drugs for old bugs
B Srinivasan*, S Tonddast‐Navaei, A Roy , H Zhou, J Skolnick
Medicinal research reviews 39 (2), 684-705, 2019
372019
HAAD: a quick algorithm for accurate prediction of hydrogen atoms in protein structures
Y Li, A Roy, Y Zhang
PloS one 4 (8), e6701, 2009
372009
Implications of the small number of distinct ligand binding pockets in proteins for drug discovery, evolution and biochemical function
J Skolnick, M Gao, A Roy, B Srinivasan, H Zhou
Bioorganic & medicinal chemistry letters 25 (6), 1163-1170, 2015
322015
Parkin, a top level manager in the cell’s sanitation department
CA Rankin, A Roy, Y Zhang, M Richter
The open biochemistry journal 5, 9, 2011
272011
QAUST: protein function prediction using structure similarity, protein interaction, and functional motifs
FZ Smaili, S Tian, A Roy, M Alazmi, ST Arold, S Mukherjee, PS Hefty, ...
Genomics, Proteomics and Bioinformatics 19 (6), 998-1011, 2021
192021
The role of covalent dimerization on the physical and chemical stability of the EC1 domain of human E-cadherin
M Trivedi, RA Davis, Y Shabaik, A Roy, G Verkhivker, JS Laurence, ...
Journal of pharmaceutical sciences 98 (10), 3562-3574, 2009
192009
Protein structure prediction
A Roy, Y Zhang
eLS, 2012
162012
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