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Bioinformatics

  1. A Tramontano

Published Online: 15 SEP 2009

DOI: 10.1002/9780470015902.a0001900.pub2

eLS

eLS

How to Cite

Tramontano, A. 2009. Bioinformatics. eLS. .

Author Information

  1. Sapienza University, Department of Biochemical Sciences, Rome, Italy

Publication History

  1. Published Online: 15 SEP 2009
Table 1. Bioinformatics resources on the web
Databases 
Nucleotide sequencesEMBL Nucleotide Database: http://www.ebi.ac.uk/embl/index.html
Genbank: http://www.ncbi.nlm.nih.gov/Genbank/
DDBJ: http://www.ddbj.nig.ac.jp/
GenomesEnsembl: http://www.ensembl.org/index.html
UCSC GB: http://genome.ucsc.edu/
Genome reviews: http://www.ebi.ac.uk/GenomeReviews/
Entrez Genome: http://www.ncbi.nlm.nih.gov/sites/entrez?db=genome
Amino acid sequencesUniProt: http://www.ebi.ac.uk/uniprot/index.html
Protein structuresPDB: http://www.wwpdb.org/
Genome variationsOMIM: http://www.ncbi.nlm.nih.gov/omim/
HapMap: http://www.hapmap.org/
Expression dataArrayExpress: http://www.ebi.ac.uk/microarray-as/ae/
GEO: http://www.ncbi.nlm.nih.gov/geo/
LiteraturePUBMED: http://www.ncbi.nlm.nih.gov/pubmed/
Gene ontology vocabularyGO: http://www.geneontology.org/
  
Tools 
Biological database navigatorsEntrez: http://www.ncbi.nlm.nih.gov/sites/gquery
EB-eye: http://www.ebi.ac.uk/eb-eye/
BLAST series/PSI-BLASThttp://blast.ncbi.nlm.nih.gov/Blast.cgi
FASTAhttp://www.ebi.ac.uk/Tools/fasta/
Multiple sequence alignmentClustal: http://www.ebi.ac.uk/Tools/clustalw2/
T-coffee: http://tcoffee.vital-it.ch/cgi-bin/Tcoffee/tcoffee_cgi/index.cgi
Comparative modelingModeller: http://salilab.org/modeller/modeller.html
Swiss-model: http://swissmodel.expasy.org/SWISS-MODEL.html
Fold recognitionThreader: http://bioinf.cs.ucl.ac.uk/threader/
Pcons: http://www.bioinfo.se/pcons/
Fragment based methodsFragfold: http://bioinf.cs.ucl.ac.uk/
Rosetta, Rosetta@home, FoldIt!: http://depts.washington.edu/bakerpg/
  
Useful starting points for exploring bioinformatics on the webEBI: http://www.ebi.ac.uk
NCBI: http://www.ncbi.nlm.nih.gov/
EXPASY: http://www.expasy.org/
CBS: http://www.cbs.dtu.dk/