hguatlas13kGO2PROBE {hguatlas13k} | R Documentation

## Map Between Gene Ontology (GO) and Manufacturer Identifiers

### Description

hguatlas13kGO2PROBE is an R environment that provides mappings between GO ids and manufacturer ids.

### Details

Each GO term maps to a named vector of manufacturer ids. The name associated with each manufacturer id corresponds to the evidence code for that GO id. The evidence code indicates what kind of evidence supports the association between the GO and Entrez Gene ids. Evidence codes currently 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 available

IC - inferred by curator

A GO id may be mapped to the same probe id more than once but the evidence code can be different. Mappings between Gene Ontology ids an Gene Ontology terms and other information are available in a separate data package named GO.

Mappings were based on data provided by:

LocusLink Entrez Gene:http://gopher5/compbio/annotationSourceData/ftp.ncbi.nlm.nih.gov/gene/DATA/. Built: Source data downloaded from Entrez Gene on Tue Oct 4 18:56:39 2005.

Package built Tue Oct 4 19:12:19 2005

### References

ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/

### Examples

        # Convert to a list
        xx <- as.list(hguatlas13kGO2PROBE)
        if(length(xx) > 0){
            # Gets the probe ids for the top 2nd and 3nd GO ids
            goids <- xx[2:3]
            # Gets the probe ids for the first element of goids
            goids[[1]]
            # Evidence code for the mappings
            names(goids[[1]])
        }

[Package hguatlas13k version 1.10.0 Index]