ratLLMappingsLL2GO {ratLLMappings}R Documentation

An annotation data file that maps LocusLink identifiers to Gene Ontology identifiers

Description

ratLLMappingsLL2GO maps LocusLink ids to Gene Ontology (GO) ids representing functions of the products of genes correspinding to the LocusLink ids

Details

This is an environment object containing key and value pairs. Keys are LocusLink ids and values are GO ids. Values are vectors of length 1 or more depending on whether a LocusLink id can be mapped to one or more Gene Ontology ids. Names of values are evidence code.

The evidence codes in use include:

IMP: inferred from mutant phenotype IGI: inferred from genetic interaction IPI: inferred from physical interaction ISS: inferred from sequence similarity IDA: inferred from direct assay IEP: inferred from expression pattern IEA: inferred from electronic annotation TAS: traceable author statement NAS: non-traceable author statement ND: no biological data avai

Mappings were derived from data provided by:

Entrez Gene: Not available

Package built: Sat Mar 25 23:16:08 2006

References

ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.gz

Examples

        require("annotate") || stop("annotate unavailable")
        xx <- as.list(ratLLMappingsLL2GO)
        if(length(xx) > 0){
                # Get the value of the first key
                xx[[1]]
                # Get the values  for a few keys
                if(length(xx) >= 3){
                        xx[1:3]
                }
        }

[Package ratLLMappings version 1.12.0 Index]