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Chemistry

D-Index
75
Citations
24907
World Ranking
4380
National Ranking
1389

Biology and Biochemistry

D-Index
77
Citations
26133
World Ranking
4710
National Ranking
2281

Research.com Recognitions

  • 2014 - Fellow of the Indian National Academy of Engineering (INAE)

Overview

Sandor Vajda is affiliated with Boston University in the United States and focuses research efforts primarily in biochemistry, genetics, and molecular biology. Their scientific contributions include significant work in molecular biology, computational theory and mathematics, materials chemistry, surgery, and immunology.

The research topics covered by Vajda span protein structure and dynamics, computational drug discovery methods, enzyme structure and function, vaccines and immunoinformatics approaches, RNA and protein synthesis mechanisms, pancreatitis pathology and treatment, and glycosylation and glycoproteins research.

Vajda's publication record includes numerous articles in prominent venues, with frequent contributions to:

  • Proteins Structure Function and Bioinformatics
  • bioRxiv (Cold Spring Harbor Laboratory)
  • Journal of Chemical Information and Modeling
  • Current Opinion in Structural Biology
  • Journal of Molecular Biology

Key recent papers authored or coauthored by Vajda include:

  • Performance and Its Limits in Rigid Body Protein-Protein Docking, 2020, Structure
  • Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment, 2021, Proteins Structure Function and Bioinformatics
  • Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment, 2023, Proteins Structure Function and Bioinformatics
  • Improved Docking of Protein Models by a Combination of Alphafold2 and ClusPro, 2021, bioRxiv (Cold Spring Harbor Laboratory)
  • Elucidation of protein function using computational docking and hotspot analysis by ClusPro and FTMap, 2022, Acta Crystallographica Section D Structural Biology

Frequently collaborating researchers include Dima Kozakov, Sergei Kotelnikov, Dzmitry Padhorny, George Jones, and Diane Joseph-McCarthy.

In recognition of contributions to the field, Vajda was named a Fellow of the Indian National Academy of Engineering (INAE) in 2014.

Best Publications

  • The ClusPro web server for protein-protein docking.

    Dima Kozakov;David R Hall;Bing Xia;Kathryn A Porter

  • ClusPro: an automated docking and discrimination method for the prediction of protein complexes

    Stephen R. Comeau;David W. Gatchell;Sandor Vajda;Carlos J. Camacho

  • PIPER: An FFT‐based protein docking program with pairwise potentials

    Dima Kozakov;Ryan Brenke;Stephen R. Comeau;Sandor Vajda

  • ClusPro: a fully automated algorithm for protein–protein docking

    Stephen R. Comeau;David W. Gatchell;Sandor Vajda;Carlos J. Camacho

  • How good is automated protein docking

    Dima Kozakov;Dmitri Beglov;Tanggis Bohnuud;Scott E. Mottarella

  • CAPRI: A Critical Assessment of PRedicted Interactions

    Joel Janin;Kim Henrick;John Moult;Lynn Ten Eyck

  • The FTMap family of web servers for determining and characterizing ligand-binding hot spots of proteins.

    Dima Kozakov;Laurie E Grove;David R Hall;Tanggis Bohnuud

  • Performance and Its Limits in Rigid Body Protein-Protein Docking

    Israel T. Desta;Kathryn A. Porter;Bing Xia;Dima Kozakov

  • New additions to the ClusPro server motivated by CAPRI.

    Sandor Vajda;Christine Yueh;Dmitri Beglov;Tanggis Bohnuud

  • Fragment-based identification of druggable ‘hot spots’ of proteins using Fourier domain correlation techniques

    Ryan Brenke;Dima Kozakov;Gwo-Yu Chuang;Dmitri Beglov

  • Principal component analysis of kinetic models

    S. Vajda;P. Valko;T. Turányi

  • Anchor residues in protein-protein interactions.

    Deepa Rajamani;Spencer Thiel;Sandor Vajda;Carlos J. Camacho

  • How proteins bind macrocycles

    Elizabeth A Villar;Dmitri Beglov;Spandan Chennamadhavuni;John A Porco

  • Similarity transformation approach to identifiability analysis of nonlinear compartmental models.

    Sandor Vajda;Sandor Vajda;Keith R. Godfrey;Herschel Rabitz

  • FTSite: High accuracy detection of ligand binding sites on unbound protein structures

    Chi-Ho Ngan;David R. Hall;Brandon S. Zerbe;Laurie E. Grove

  • Achieving reliability and high accuracy in automated protein docking: ClusPro, PIPER, SDU, and stability analysis in CAPRI rounds 13-19.

    Dima Kozakov;David R. Hall;Dmitri Beglov;Ryan Brenke

  • Structural conservation of druggable hot spots in protein–protein interfaces

    Dima Kozakov;David R. Hall;Gwo-Yu Chuang;Regina Cencic

  • Convergence and combination of methods in protein-protein docking.

    Sandor Vajda;Dima Kozakov

  • Quantifying the chameleonic properties of macrocycles and other high-molecular-weight drugs.

    Adrian Whitty;Mengqi Zhong;Lauren Viarengo;Dmitri Beglov

  • Free energy landscapes of encounter complexes in protein-protein association.

    Carlos J. Camacho;Zhiping Weng;Sandor Vajda;Charles DeLisi

  • Accelerating and focusing protein–protein docking correlations using multi-dimensional rotational FFT generating functions

    David W. Ritchie;Dima Kozakov;Sandor Vajda

  • Reaction rate analysis of complex kinetic systems

    T. Turányi;T. Bérces;S. Vajda

Frequent Co-Authors

Charles DeLisi
Charles DeLisi Boston University
Ioannis Ch. Paschalidis
Ioannis Ch. Paschalidis Boston University
Zhiping Weng
Zhiping Weng University of Massachusetts Chan Medical School
Gwo-Yu Chuang
Gwo-Yu Chuang Moderna Therapeutics (United States)
Charles R. Cantor
Charles R. Cantor Boston University
Herschel Rabitz
Herschel Rabitz Princeton University
Karen N. Allen
Karen N. Allen Boston University
Shoshana J. Wodak
Shoshana J. Wodak Vrije Universiteit Brussel
Alexandre M. J. J. Bonvin
Alexandre M. J. J. Bonvin Utrecht University
Juan Fernández-Recio
Juan Fernández-Recio Spanish National Research Council

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