Identifying genes based on EXCAVATOR chromosomal coordinates

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9.9 years ago

esskay ▴ 50

This seems like it should be a very simple task but I am having trouble with it.

I have Copy Number Variant (CNV) results from EXCAVATOR. The output text files have chromosomal coordinates (chromosome #, start, end) for areas with changes in copy number. I want to identify any genes that may be associated with these coordinates. I am using org.Hs.eg.db, and was sent this page as a reference, but I am having trouble understanding how to use these two to simply feed in a list of coordinates and get a list of genes found there. Suggestions? Any ideas would be appreciated.

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ADD COMMENT • link updated 2.7 years ago by Ram 44k • written 9.9 years ago by esskay ▴ 50

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See Retrieve All Genes Contained Within A Specific Chromosomal Region Using R And Biomart, How Find Genes On Specific Positions, ...

ADD REPLY • link updated 2.7 years ago by Ram 44k • written 9.9 years ago by Pierre Lindenbaum 164k

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