geneHuman {GenomicFeatures} | R Documentation |
Gene coordinates and annotations for H. sapiens from UCSC. Coordinates are
relative to the hg18 build and are in nucleotides from the 5' end of the
positive "+"
strand. Each “gene”, or row in the dataset,
corresponds to a unique combination of transcript (TSS, TES and exons)
and coding sequence (start and end).
data(geneHuman)
A data frame with 56722 observations on the following 12 variables.
name
chrom
strand
"+"
, or
"-"
.txStart
txEnd
cdsStart
cdsEnd
exonCount
exonStarts
exonEnds
proteinID
alignID
name
.
For genes coded on the negative strand the txStart
is really the end,
and similarly for the coding regions.
This table was taken directly from the knownGene table in the UCSC database for hg18, see http://genome.ucsc.edu/cgi-bin/hgTables and Hsu F, Kent WJ, Clawson H, Kuhn RM, Diekhans M, Haussler D. The UCSC Known Genes. Bioinformatics. 2006 May 1;22(9):1036-46.
data(geneHuman) str(geneHuman) transcripts(geneHuman)