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_posts/2007-11-15-gene-identifiers.markdown

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+---
+author: einar
+comments: true
+date: 2007-11-15 19:57:16+00:00
+layout: post
+slug: gene-identifiers
+title: Gene identifiers
+wordpress_id: 336
+categories:
+- Science
+tags:
+- annotation
+- bioinformatics
+- microarray
+- python
+---
+
+While working today on an annotation class in Python I stumbled on a problem. Normally I work with lists of genes that are consistent, i.e. all Entrez Gene IDs (or RefSeq IDs, or Genome Browser IDs...), but today I had a list of mixed identifiers.
+
+The subsequent idea was "let's implement auto-detection of common identifiers in the class". The problem is... is there any actual documentation on how identifiers are made? So far, using regular expressions, I've tracked down a few:
+
+
+
+	
+  * RefSeq
+
+	
+  * GenBank
+
+	
+  * Entrez Gene
+
+	
+  * UCSC Genome Browser
+
+	
+  * Ensembl
+
+
+However, I have no idea if I have implemented all types of these IDs. Does anyone know a place where to look these information up?
+
+(On a related note: my thesis defense will be on January 14th, 2008, so I have to get the printing going)