DelPhi Web Server: A Comprehensive Online Suite for Electrostatic Calculations of Biological Macromolecules and Their Complexes

PoPMuSiC 2.1: a web server for the estimation of protein stability changes upon mutation and sequence optimality

(2011) Yves Dehouck et al.   BMC BIOINFORMATICS

A comparison of implicit- and explicit-solvent simulations of self-assembly in block copolymer and solute systems

(2011) Justin R. Spaeth et al.   JOURNAL OF CHEMICAL PHYSICS

Web servers and services for electrostatics calculations with APBS and PDB2PQR

(2011) Samir Unni et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

PAComplex: a web server to infer peptide antigen families and binding models from TCR–pMHC complexes

(2011) I-Hsin Liu et al.   NUCLEIC ACIDS RESEARCH

Electrostatics in the stability and misfolding of the prion protein: salt bridges, self energy, and solvationThis paper is one of a selection of papers published in this special issue entitled “Canadian Society of Biochemistry, Molecular & Cellular Biology 52nd Annual Meeting — Protein Folding: Principles and Diseases” and has undergone the Journal's usual peer review process.

(2010) Will C. Guest et al.   Biochemistry and Cell Biology

A performance enhanced PSI-BLAST based on hybrid alignment

(2010) Y. Li et al.   BIOINFORMATICS

MIBPB: A software package for electrostatic analysis

(2010) Duan Chen et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

I-TASSER: a unified platform for automated protein structure and function prediction

(2010) Ambrish Roy et al.   Nature Protocols

PUDGE: a flexible, interactive server for protein structure prediction

(2010) R. Norel et al.   NUCLEIC ACIDS RESEARCH

HexServer: an FFT-based protein docking server powered by graphics processors

(2010) G. Macindoe et al.   NUCLEIC ACIDS RESEARCH

Protein–water electrostatics and principles of bioenergetics

(2010) David N. LeBard et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

In silico modeling of pH-optimum of protein-protein binding

(2010) Rooplekha C. Mitra et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Explicit-water molecular dynamics study of a short-chain 3,3 ionene in solutions with sodium halides

(2009) M. Druchok et al.   JOURNAL OF CHEMICAL PHYSICS

Implicit and explicit solvent models for the simulation of a single polymer chain in solution: Lattice Boltzmann versus Brownian dynamics

(2009) Tri T. Pham et al.   JOURNAL OF CHEMICAL PHYSICS

CHARMM: The biomolecular simulation program

(2009) B. R. Brooks et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Trypano-PPI: A Web Server for Prediction of Unique Targets in Trypanosome Proteome by using Electrostatic Parameters of Protein−protein Interactions

(2009) Yamilet Rodriguez-Soca et al.   JOURNAL OF PROTEOME RESEARCH

SIB-BLAST: a web server for improved delineation of true and false positives in PSI-BLAST searches

(2009) M. M. Lee et al.   NUCLEIC ACIDS RESEARCH

I-TASSER: Fully automated protein structure prediction in CASP8

(2009) Yang Zhang   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Calculating pH and Salt Dependence of Protein-Protein Binding

(2008) Jan Jensen   CURRENT PHARMACEUTICAL BIOTECHNOLOGY

A hybrid explicit/implicit solvation method for first-principle molecular dynamics simulations

(2008) Giuseppe Brancato et al.   JOURNAL OF CHEMICAL PHYSICS

webPIPSA: a web server for the comparison of protein interaction properties

(2008) S. Richter et al.   NUCLEIC ACIDS RESEARCH

PBEQ-Solver for online visualization of electrostatic potential of biomolecules

(2008) Sunhwan Jo et al.   NUCLEIC ACIDS RESEARCH

PSI-BLAST pseudocounts and the minimum description length principle

(2008) Stephen F. Altschul et al.   NUCLEIC ACIDS RESEARCH

Continuum molecular electrostatics, salt effects, and counterion binding—A review of the Poisson–Boltzmann theory and its modifications

(2007) Paweł Grochowski et al.   BIOPOLYMERS