Hi Lara,
Have you seen this: http://www4.ncsu.edu/~stsai2/annotation/ They have updated their annotation in 2010.
with regards,
Lavinia.
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:
- 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)
- Get genes
- 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.esLara 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.esmailto:lnonell@imim.es www.imim.eshttp://www.imim.es/