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Data Sources

Annotate Probes and Convert Genes

Annotate Probes and Convert Genes services links Affymetrix microarray probes to

  • Gene Ontology (GO) terms
  • IMAGE clone identifiers
  • UniGene
  • LocusLink
  • RefSeq
  • SwissProt
  • TIGR human gene indices
  • TIGR mouse gene indices

External links are also provided to the corresponding information in external resources such as

  • PubMed
  • GenBank
  • GeneCards
  • Gene Expression Omnibus (GEO)

To ensure optimum performance and the most up-to-date information, an automated process regularly retrieves information from the genomic data sources to a database local to the GeneCruiser server and indexes the mappings between the data sources and the Affymetrix microarray probes.

Find Variations and Variations to Genes

Find Variations and Variations to Genes services use genomic information from the Ensembl database. Ensembl automatically annotates and indexes data from several sources such as Entrez, RefSeq, EMBL, Uniprot/SWISS-PROT, Affymetrix and Gene Ontology (GO).

Ensembl variation information contains information about minor genomic variations such as single nucleotide polymorphisms (SNPs) and multi-base deletions and insertions (IN-DELs). Variations from dbSNP, Human Genome Variation Database (HGVbase), Affymetrix SNP microarrays, The SNP Consortium (TSC) and Ensembl are available.

Information about the Ensembl version currently used by GeneCruiser.

  • Ensembl version: 43.36e, Feb 2007.
  • Assembly: NCBI 36, Oct 2005
  • Genebuild: Ensembl, Aug 2006
  • Variation db-version: 43
  • Variation data source versions: dbSNP (126), HGVbase (15), TSC (1).
(c) 2007 Broad Institute