Description

An R object that contains associations between Gene Ontology Cellular Component terms and Zebrafish Entrez Genes. This data is prepared based on http://www.geneontology.org/ontology/obo_format_1_2/gene_ontology.1_2.obo and ftp://ftp.ncbi.nih.gov/gene/DATA/gene2go.gz.

Usage

org.Da.egGOCC <- dRDataLoader(RData = "org.Da.egGOCC")

Value

an object of class "GS", a list with following components:

• set_info: a matrix of nSet X 4 containing gene set information, where nSet is the number of gene sets (i.e. GOCC terms), and the 4 columns are "setID" (i.e. "Term ID"), "name" (i.e. "Term Name"), "namespace" and "distance"
• gs: a list of gene sets, each storing gene members thereof. Always, gene sets are identified by "setID" and gene members identified by "Entrez ID"

References

Maglott et al. (2011) Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res, 39:D52-57.

Ashburner et al. (2000) Gene ontology: tool for the unification of biology. Nat Genet, 25:25-29.

Examples

org.Da.egGOCC <- dRDataLoader(RData='org.Da.egGOCC')

'org.Da.egGOCC' (from https://github.com/hfang-bristol/RDataCentre/blob/master/dnet/1.0.7/org.Da.egGOCC.RData?raw=true) has been loaded into the working environment (at 2018-01-19 12:37:42)
names(org.Da.egGOCC)

[1] "gs"       "set_info"