Tool for translating chromosomal location to gene name (for human)

Question

[haasroni]

Hello,

Can anyone recommend a good tool for translating a list of chromosomal locations to gene names

For example:

chr1 2000 -> <gene_name1>

chr2 2008880 -> <gene_name2>

Thanks! Roni

Answer 1

[Carambakaracho]

Based on the assumption your reference would be the human genome, the Ensembl variant effect predictor would be an option

Answer 2

[Jean-Karim Heriche]

For a small data set, try Ensembl's biomart otherwise, you can also do it using the Ensembl perl API.