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API for searching for adjacent genes

Hi, is anyone able to advise whether there is an API available to find adjacent upstream or downstream genes from a given gene location?

I am looking at viral insertions in the human genome, and once I've identified the viral insertion points, I need to identify what genes are in the flanking regions.

Any advice is appreciated. Thank you

genome alignment sequencing gene
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updated by WouterDeCoster WouterDeCoster • written by VictoriaP • VictoriaP

1 answer

I would get a bed file of human genes and use bedtools closest

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written by WouterDeCoster WouterDeCoster

Do you know how to create a BED file from a VCF file? - I have multiple vcf files with viral insertion data, that I need to use to make a BED file to then use with bedtools as you previously suggested.

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written by VictoriaP • VictoriaP

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