Bioinformatics: Difference between revisions

Revision as of 11:10, 8 September 2006

BioCocoa is an open source Cocoa framework for bioinformatics written in Objective-C

Biological web services - Taverna Project
WebLogo - create sequence logos
T-COFFEE server
MAFFT: A Program for Multiple Sequence Alignment
Block WWW Server
- SIFT Sorting Intolerant From Tolerant - will return predictions for what amino acid substitutions will affect protein function
- CODDLE Codons Optimized to Discover Deleterious Lesions - will identify regions of a gene where mutations are likely to be deleterious
Regulatory Sequence Analysis Tools (RSAT) provide a series of modular computer programs specifically designed for the detection of regulatory signals in non-coding sequences
GeneDesign β2.0

Entrez cross-database search
ExPASy Proteomics Server is dedicated to the analysis of protein sequences and structures as well as 2-D PAGE
UniProt (Universal Protein Resource) is the world's most comprehensive catalog of information on proteins. It is a central repository of protein sequence and function created by joining the information contained in Swiss-Prot, TrEMBL, and PIR
DIP catalogs experimentally determined interactions between proteins, it combines information from a variety of sources to create a single, consistent set of protein-protein interactions
KEGG: Kyoto Encyclopedia of Genes and Genomes
BIND - Biomolecular Interaction Network Database
SCOP: Structural Classification of Proteins

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 *[http://www.genome.ad.jp/kegg/ KEGG]: Kyoto Encyclopedia of Genes and Genomes
 *[http://www.bind.ca/Action BIND] - Biomolecular Interaction Network Database
+*[http://scop.berkeley.edu/ SCOP]: Structural Classification of Proteins