<p>I ended up using option 4 and parsing the columns for "Synonym" and "Previous Symbol".</p>

<p><a href="https://www.genenames.org/cgi-bin/genefamilies/set/471" rel="nofollow noreferrer">https://www.genenames.org/cgi-bin/genefamilies/set/471</a></p>

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2018-04-30T18:07:31.693Z
2018-04-30T18:07:31.693Z
eric_kernfeld
<p>I want to convert names according to the "cluster of differentiation" nomenclature into accepted gene symbols. For example, CD3 should map to "CD3a;CD3b;CD3c;CD247" and "CD45RO" should map to "PTPRC". If the surface antigen isn't coded for by a gene, it should map to "" or something similar. </p>

<p>I've seen <a href="https://bioinformatics.stackexchange.com/questions/2655/obtain-cd-cluster-of-differentiation-marker-expression-information">Obtain CD (cluster of differentiation) marker expression information</a>, but the Abcam table used there does not give the gene symbol -- it gives a list of alternate names. I've seen table 1 of <a href="http://www.jimmunol.org/content/195/10/4555" rel="nofollow noreferrer">this paper</a>, but it contains errors -- for example, TNFRSF11 should be TNFRSF11A. I could copy <a href="http://www.hcdm.org/index.php/molecule-information" rel="nofollow noreferrer">this table</a> by hand, or I could download <a href="https://www.genenames.org/cgi-bin/genefamilies/set/471" rel="nofollow noreferrer">this one</a>, though that's annoying because it doesn't have one row per CD. </p>

<p>Is there a canonical (or just a convenient and reliable) way to do this?</p>

<public-databases>
Convert CD (cluster of differentiation) into gene symbol
# Convert CD (cluster of differentiation) into gene symbol

(Asked by: username_0 on 2018-04-30)

I want to convert names according to the "cluster of differentiation" nomenclature into accepted gene symbols. For example, CD3 should map to "CD3a;CD3b;CD3c;CD247" and "CD45RO" should map to "PTPRC". If the surface antigen isn't coded for by a gene, it should map to "" or something similar.

I've seen [Obtain CD (cluster of differentiation) marker expression information](https://bioinformatics.stackexchange.com/questions/2655/obtain-cd-cluster-of-differentiation-marker-expression-information), but the Abcam table used there does not give the gene symbol -- it gives a list of alternate names. I've seen table 1 of [this paper](http://www.jimmunol.org/content/195/10/4555), but it contains errors -- for example, TNFRSF11 should be TNFRSF11A. I could copy [this table](http://www.hcdm.org/index.php/molecule-information) by hand, or I could download [this one](https://www.genenames.org/cgi-bin/genefamilies/set/471), though that's annoying because it doesn't have one row per CD.

Is there a canonical (or just a convenient and reliable) way to do this?

**Tags:** public-databases

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## 1 answers

### Answer by username_0 on 2018-04-30. Score: 2

I ended up using option 4 and parsing the columns for "Synonym" and "Previous Symbol".

<https://www.genenames.org/cgi-bin/genefamilies/set/471>


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