Publications &




General Bioinformatics

NCBI - National Center for Biotechnology Information, contains PubMed literature database and GenBank sequence and genome database
Bioinformatics resources
Bioinformatics Software on the Web

Genomics and proteomics

UniProt - annotated protein sequence database
TRANSFAC - transcription factor database
RegulonDB - a database on transcriptional regulation and genome organization
E. coli genome project
GenProtEC - E. coli genome and proteome database
EcoCyc - encyclopedia of E. coli genes and metabolism
E. coli promoters - experimentally identified transcriptional start sites
E. coli transcription factor binding sites - transcription factor binding site predictions in the E. coli genome made by cross-species comparison

Protein and DNA structure

PDB - Protein Data Bank, a repository for the processing and distribution of 3-D biological macromolecular structure data
NDB - Nucleic Acid Database, a repository of three-dimensional structural information about nucleic acids

DNA-protein interaction

DPInteract - a database on protein-DNA interactions
ProNIT - thermodynamic database for protein-nucleic acid interactions

Molecular Biomechanics Labs

Bustamante Group - single-molecule manipulation studies of the dynamics, structure and kinetics of molecular motors and nucleo-protein assemblies
Crothers Lab - relation between DNA bending and its function, RNA conformation
Richard Ebright - understanding of the structure, function, and regulation of transcription initiation complexes, and to develop gene-specific inhibitors of transcription initiation as potential gene-specific therapeutic agents.
Gerstein Lab - research on comparative genomics, mining expression datasets, macromolecular motions
Robert Jernigan - theoretical studies on the structures of proteins, nucleic acids, and small molecules, and on their interactions; study of large motion of proteins
Kahn Lab - use of designed or random DNA molecules with intrinsic curvature to investigate protein-DNA conformation or nucleic acid structure and dynamics.
Ned Seeman's Lab - DNA nanotechnology
Alex Vologodskii - large-scale conformational properties of double-helical DNA


BMEnet - The Biomedical Engineering Network
International Society for Computational Biology
Biophysical Society
SIAM - Society for Industrial and Applied Mathematics

(More coming soon...)