Links to Bioinformatics Databases and Tools

search engines

EBI bioinformatics search

Google

Yahoo!

Infoseek

general reference

Wentian Li's site at Rockefeller

databases

primary databases

GenBank

protein sequences: SWISS-PROT/TrEMBL

protein structure: PDB WWW Server

genome databases

a list of sequenced genomes

E. coli

E. coli Genome/Univ. Wisconsin-Madison

E Coli database/Pasteur Institute

RegulonDB DataBase

S. cerevisae

Saccharomyces Genome Database

Yeast Promoter Database

Yeast regulatory sequence analysis

MIPS Protein-Protein Interaction Table

C. elegans

The Sanger Centre : C. elegans Project

WU GSC: C. elegans

WormBase - Home Page

Drosophila

Berkeley Drosophia Genome Project databases

FlyBase @ flybase.bio.indiana.edu

human genome

Human Genome-NCBI

Human Genome-UCSC

derived databases and other specialized sources

Eukaryotic Promoter Database

TRANSFAC - The Transcription Factor Database

PROSITE - Database of protein families and domains

BLOCKS database

Pfam - database of protein domains and HMMs

tools

sequence alignment and trees

Smith-Walterman at EBI/EMBL

BLAST at NCBI

Fasta3

ClustalW - multiple sequence alignment

A List of Phylogeny Programs

PHYLIP - one of the most popular phylogeny programs

gene finding

a list of gene finding algorithms

New GENSCAN Web Server at MIT

GrailEXP: A System for the Computational Analysis of DNA Sequence

BCM gene finder

motif search

MEME - Introduction

The Gibbs Motif Sampler Homepage

CONSENSUS

ftp site to download CONSENSUS