Ruben Abagyan
Molecular Biology · 1994–2018
A researcher in the Science corpus: 18 papers; trusts 17 researchers and is trusted by 38 researchers here, as inferred from the citation graph.
Subfields
- Molecular Biology — 131 citations into it; #1,395 of 17,773 by trust here, #1,795 by citations
- Cellular and Molecular Neuroscience — 47 citations into it
- Computational Theory and Mathematics — 43 citations into it; #2,163 of 12,182 by trust here, #1,184 by citations
- Materials Chemistry — 30 citations into it; #5,512 of 11,513 by trust here, #9,147 by citations
- Computational Chemistry & Drug Discovery — 25 citations into it
- Computational Biology & Bioinformatics — 18 citations into it; #232 of 660 by trust here, #331 by citations
- Evaluation & Benchmarks — 8 citations into it
- Virology — 8 citations into it
Whom Ruben Abagyan trusts overall
Their strongest outbound trust, strongest first, inferred from their citations.
- Maxim Totrov
- Mark McGann
- Jacob D. Durrant
- Marco A. C. Neves
- Adam T. Zemla
- Garrett M. Morris
- J. Kyte
- Vadim Cherezov
- James Andrew McCammon
- Stephen K. Burley
Who trusts Ruben Abagyan overall
- Shengyou Huang
- Xiaoqin Zou
- Xuanyu Meng
- Maxim Totrov
- Claudio N. Cavasotto
- Elizabeth Yuriev
- Zsolt Bikádi
- Evanthia Lionta
- Marco A. C. Neves
- Gregory Sliwoski
Papers from Ruben Abagyan's perspective
Ordered by how strongly the researchers Ruben Abagyan trusts endorse each paper. Same corpus, a different order for every researcher.
- Diverse, high-quality test set for the validation of protein-ligand docking performance.
- Benchmarking sets for molecular docking.
- SCOP database in 2004: refinements integrate structure and sequence family data
- Evaluating Virtual Screening Methods: Good and Bad Metrics for the "Early Recognition" Problem
- The G-protein-coupled receptors in the human genome form five main families. Phylogenetic analysis, paralogon groups, and fingerprints.
- Crystal structure of opsin in its G-protein-interacting conformation (Nature)
- LGA: a method for finding 3D similarities in protein structures
- The RCSB Protein Data Bank: redesigned web site and web services
- Role of binding entropy in the refinement of protein–ligand docking predictions: Analysis based on the use of 11 scoring functions
- Comparative protein modelling by satisfaction of spatial restraints.
Their papers
- Pocketome via Comprehensive Identification and Classification of Ligand Binding Envelopes* (2005) — 395 citations
- Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment (2011) — 283 citations
- Structures of the CXCR4 chemokine receptor in complex with small molecule and cyclic peptide antagonists (2010) — 1,770 citations
- Structure of the human histamine H1 receptor complex with doxepin (2011) — 796 citations
- Docking and scoring with ICM: the benchmarking results and strategies for improvement (2012) — 350 citations
- XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification. (2006) — 4,796 citations
- METLIN: A Metabolite Mass Spectral Database (2005) — 2,125 citations
- Comparative study of several algorithms for flexible ligand docking (2003) — 341 citations
- Ligand-biased ensemble receptor docking (LigBEnD): a hybrid ligand/receptor structure-based approach (2017) — 42 citations
- Protein flexibility in ligand docking and virtual screening to protein kinases. (2004) — 393 citations
- Virtual Ligand Screening of the p300/CBP Histone Acetyltransferase: Identification of a Selective Small Molecule Inhibitor (2010) — 629 citations
- Methods of protein structure comparison (2012) — 592 citations
- GPCR Network: a large-scale collaboration on GPCR structure and function (2012) — 303 citations
- Hybrid receptor structure/ligand-based docking and activity prediction in ICM: development and evaluation in D3R Grand Challenge 3 (2018) — 22 citations
- Structure of CC Chemokine Receptor 5 with a Potent Chemokine Antagonist Reveals Mechanisms of Chemokine Recognition and Molecular Mimicry by HIV (2017) — 148 citations
- Sirtuin 2 Inhibitors Rescue α-Synuclein-Mediated Toxicity in Models of Parkinson's Disease (2007) — 961 citations
- Homology modeling by the ICM method (1995)
- ICM—A new method for protein modeling and design: Applications to docking and structure prediction from the distorted native conformation (1994)