Most data in the schema resulting from the automated update process in EASE are derived by first converting the gene identifier into a LocusLink number and then extracting information about that Locus from the LL_tmpl flatfile from the Locuslink FTP directory.

Where a conversion to LocusLink number cannot be made, no information is given by EASE.

 

The following fields are found in the \Data\ directory:

 

ALIAS SYMBOLS: Other symbols that have been used in the literature for this gene.

CHROMOSOME: The chromosome containing this gene.

CHROMOSOMAL LOCATION: The map location of the gene.  It can be either genetic or cytogenetic.

CURRENT LOCUSLINK: The current LocusLink number for retired LocusLinks

DISTANCE FROM CENTROMERE: A distance parsed from the map location above.  This can be used to graph the location of the genes.

GENE NAME: The official or preferred name of the gene.

GENE SYMBOL: The official or preferred symbol of the gene.

GENERIF: PubMed identifiers of references with functional annotation of the gene, along with a concise summary of the article

GOID: Terminal node Gene ontology identifiers

KNOWN PMIDS: PubMed identifiers for the PubMed articles specified in the LocusLink flatfile.

LINK TO LOCUSLINK: A URL to the LocusLink webpage for the gene.

LINK TO OMIM: A URL to the OMIM webpage for the gene.

LINK TO PUBMED: A URL to a webpage displaying all of the abstracts for the PubMed articles specified in the LocusLink flatfile.

OFFICIAL GENE SYMBOL: The official symbol of the gene.

OMIM: The accession number for the description of this gene in the Online Mendelian Inheritance in Man database.

SPECIES: The organism that has this gene.

SUMMARY: Short paragraphs about the gene from RefSeq, Proteome, and other sources.

 

In addition, all categorical information in the \Data\Class\ directory can be used as fields for annotation, as well as all implied categorical information in the \Data\Class\Implies\ directory.

 

All identifiers for a given gene can also be listed in a field by selecting the appropriate file from the \Data\Convert\ directory.