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Hi Alex, You could use the biomaRt package for this, here the code to do it: >library(biomaRt) >ensembl=useMart("ensembl",dataset="hsapiens_gene_ensembl") >map = getBM(c("hgnc_symbol","entrezgene"), filters=c("hgnc_symbol","with_entrezgene"), values=list(c("Btk","Casp8"),TRUE), mart=ensembl) it should give: >unique(map) hgnc_symbol entrezgene 1 CASP8 841 6 BTK 695 Cheers, Steffen Alex Tsoi wrote: > Dear all, > > I have a list of gene symbols (eg. Btk, Casp8), and I would like to get > their corresponding gene locus link IDs. > > Could anyone show me the ways I could do it. > > Greatly appreciate for any suggestion. > > Thanks, > Alex- > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Steffen Durinck, Ph.D. Oncogenomics Section Pediatric Oncology Branch National Cancer Institute, National Institutes of Health URL: http://home.ccr.cancer.gov/oncology/oncogenomics/ Phone: 301-402-8103 Address: Advanced Technology Center, 8717 Grovemont Circle Gaithersburg, MD 20877

Hi, Alex, You can parse ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/gene_info.gz There are 4 useful columns: tax_id (column 1), GeneID (column 2), Symbol (column 3), and Synonyms (column 5). You can: 1 Read in the file 2 filter it based on tax_id 3 match your gene symboles to the "Symbol" column and find their Gene ID 4 removed the matched gene symboles from your list 5 match the rest of gene symboles to the "Synonyms" column and find their Gene ID hope this helps nianhua Nianhua Li Software Developer