hgu95aREFSEQ {hgu95a} | R Documentation |
hgu95aREFSEQ is an R environment that provides mappings between manufacturer identifiers and RefSeq identifiers.
Each manufacturer identifier is mapped to a named vector of RefSeq identifiers. The
name represents the manufacturer identifier and the vector contains all RefSeq
identifiers that can be mapped to that manufacturer identifier. The length of the
vector may be one or greater, depending on how many RefSeq identifiers a given
manufacturer identifier can be mapped to. An NA
is reported for any
manufacturer identifier that cannot be mapped to a RefSeq identifier at this time.
RefSeq identifiers differ in format according to the type of record the identifiers are for as shown below:
NG_XXXXX: RefSeq accessions for genomic region (nucleotide) records
NM_XXXXX: RefSeq accessions for mRNA records
NC_XXXXX: RefSeq accessions for chromosome records
NP_XXXXX: RefSeq accessions for protein records
XR_XXXXX: RefSeq accessions for model RNAs that are not associated with protein products
XM_XXXXX: RefSeq accessions for model mRNA records
XP_XXXXX: RefSeq accessions for model protein records
Where XXXXX is a sequence of integers.
NCBI http://www.ncbi.nlm.nih.gov/RefSeq/ allows users to query the RefSeq database using RefSeq identifiers.
Mappings were based on data provided by:
Entrez Gene:ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/. Built: Source data downloaded from Entrez Gene on Mon Sep 25 20:19:44 2006
Package built Mon Sep 25 20:43:03 2006
http://www.ncbi.nlm.nih.gov http://www.ncbi.nlm.nih.gov/RefSeq/
# Convert the environment to a list xx <- as.list(hgu95aREFSEQ) # Remove probe identifiers that do not map to any RefSeq xx <- xx[!is.na(xx)] if(length(xx) > 0){ # The RefSeq for the first two elements of XX xx[1:2] # Get the first one xx[[1]] }