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  • zhouyi
    Junior Member
    • May 2010
    • 2
    #1

    problems about 454 transcription data analysis

    Hi! Folks
    Our group focus on transcription differentiation (sequence and expression copies) of different cyprinid fishes. Different samples were sequenced by company we commited (454), then they gave us the result.
    As a freshman, i don't know how to analysis. I think i should blast the fasta sequences of "454Isotigs.fna". However, the data is so huge that maybe some software must be used. The most similar modle species is zebrafish (Danio rerio).
    I wanna to know is the method which blast the sequence of "454Isotigs.fna". is correct and i wonder if there any software could be competent for the work.
    Thank you guys!
    Tags: None
  • cdragon
    Professor of Health Informatic
    • Jan 2010
    • 12
    #2
    You may need to read some transcriptome analysis papers and learn to write programs to analyze your data. Or just try to find a bioinformatics collaborator.
    Website: http://www.fengfengzhou.org/FengfengZhou/

    Comment

    • jiaco
      Member
      • May 2010
      • 35
      #3
      Go to the galaxy site: http://main.g2.bx.psu.edu/
      and they have some nice intro movies about processing various data sets.

      Blast is not a good first step if you have quality information in your data as there are many programs that will use that quality information during the alignment phase.

      Comment

      • zhouyi
        Junior Member
        • May 2010
        • 2
        #4
        Thank you, folks.
        Although my problem is not resolved, i got a lot information. I am learning how to use galaxy. It's not easy for fresh man but i am trying.
        Last edited by zhouyi; 05-24-2010, 12:03 AM.

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