hguatlas13kREFSEQ {hguatlas13k} | R Documentation

## Map between Manufacturer Identifiers and RefSeq Identifiers

### Description

hguatlas13kREFSEQ is an R environment that provides mappings between manufacturer identifiers and RefSeq identifiers.

### Details

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 Thu Mar 15 17:38:49 2007

Package built Thu Mar 15 18:04:04 2007

### References

http://www.ncbi.nlm.nih.gov http://www.ncbi.nlm.nih.gov/RefSeq/

### Examples

        # Convert the environment to a list
        xx <- as.list(hguatlas13kREFSEQ)
        # 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]]
    }

[Package hguatlas13k version 1.16.0 Index]