Hi Lara, Have you seen this: http://www4.ncsu.edu/~stsai2/annotation/ They have updated their annotation in 2010. with regards, Lavinia.

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Message: 2 Date: Wed, 6 Oct 2010 09:13:09 +0200 From: "NONELL MAZELON, LARA"<lnonell@imim.es> To: "galaxy-user@bx.psu.edu"<galaxy-user@bx.psu.edu> Subject: [galaxy-user] Reannotate microarray data Message-ID: <BB3B87345736EE45843CC0ADF9EEEB0D2AE8CD85CE@hermes2.imim.es> Content-Type: text/plain; charset="us-ascii"

Dear Galaxy team,

I just discovered your tool and is fantastic!. I want to reannotate the porcine affymetrix microarray. So I wanted to perform the following steps:

1. Run blat/blast to the porcine genome SGSC sscrofa9.2/susScr2 with the sequences of all probes on the array (which i have in a csv file) 2. Get genes 3. Do the same with human genome

I can load my file and the entire pig genome but i do not know how to perform the "alignment" Is it possible to perform blat/blast (or any other alignment tool similar) through Galaxy?

Thanks very much in advance,

<mailto:lnonell@imim.es>Lara Nonell Microarray Analysis Service Scientific and Technical Services IMIM-Hospital del Mar

Barcelona Biomedical Research Park (office 166) Doctor Aiguader, 88 | 08003 Barcelona Tel.+34 933 160 577 | Fax +34 933 160 410 lnonell@imim.es<mailto:lnonell@imim.es> www.imim.es<http://www.imim.es/>