I first perform genome analysis, and predict many genes. I don't know how to perform Go analysis. I have try the blast2go on the net service, however it is very slowly. Can I used other located software to complete this task? look forward your help.
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Thank you for your suggest. I have construct a draft map for an eukaryotic animal. By the gene predict software, like exonhunter, I have received nearly 11000 genes among this whole genome. Now, I want to use these fasta sequences (predict genes) to receive corresponding Go annotation. I have tried the blast2go on the net service, however it is very slowly. It will spend 2 weeks in annoting 11000 genes. Do you know some more efficient software can complete this task?Last edited by henry_by; 04-08-2012, 12:48 AM.
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Hi henry_by,
If I'm not mistaken, EBI has GO annotations embedded in some fasta headers. You may want to look into creating a local blast-instance of these files and locally-blast your predicted genes against it. You can then simply parse such hits and extract out the respective GO from the header... shouldn't take very long for your 11k genes.
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