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Is There An Easy And Automated Way To Resolve Gene Names Into A Consistent Naming System?

Suppose I have several lists of genes in a text file, from different papers and different years. The gene names come from different naming systems.

How would you go about translating them all into ensembl gene names?

gene
• 3,017 views • link
updated by Damian Kao Damian Kao • written by KCC KCC

3 answers

ID / gene name mapping is a problem that will be keeping bioinformaticists employed for the next few centuries. AFAIK there are no "easy" ways to convert the names given in various publications to the names used by Ensembl, unfortunately, but you could try some of the tools listed here: ID mapping tools.

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written by girlwithglasses girlwithglasses

Short answer: there probably isn't.

For a possible strategy see the most viewed Biostar question (with 18K views): Gene ID conversion tool

• 160 views • link
written by Istvan Albert Istvan Albert

Some kind of a mass literature data-mining operation could make it more amenable by linking terms and phrases together. Maybe some of those cool IBM Watson natural language parsing algorithms can help in this.

• 0 views • link
written by Damian Kao Damian Kao

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