Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • Celestic
    Junior Member
    • Oct 2018
    • 2

    #1

    Need help reading this data

    Hi I am a computer science graduate student and need help reading some data for this bioinformatics research I am helping out on. I have a few hundred text files containing the following sample information:

    Geno SNP_A-8343733 NA
    Geno SNP_A-8338245 1
    Geno SNP_A-8338251 NA
    Geno SNP_A-8338258 0
    Geno SNP_A-8344803 1
    Geno SNP_A-8349310 1

    I want to know how to read this data and what kind of data is this? I am new to Biology and Bioinformatics in general so any help would be greatly appreciated!
  • Richard Finney
    Senior Member
    • Feb 2009
    • 701

    #2
    check out "affymetrix array snp calling" output formats and codes

    SNP_A* are snp ids (which map to dbSNPS's rsIDS)

    The code is probably ...
    0=AA (homozygous for the reference allele)
    1=AB (heterozybous)
    2=BB (homozygous for the alternative allele)

    but make sure.

    Comment

    • Celestic
      Junior Member
      • Oct 2018
      • 2

      #3
      Okay thank you. I found out that it is affymetrix array snp calling 6.0 but not sure what I can do with this data exactly?

      Comment

      Latest Articles

      Collapse

      • SEQadmin2
        Multiomic Liquid Biopsy: What DNA/RNA Panels Reveal That DNA Alone Can’t
        by SEQadmin2



        Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?

        Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating
        ...
        10-14-2026, 09:55 AM
      • SEQadmin2
        New Genomics Technologies Take Aim at Long-Standing Limits
        by SEQadmin2


        Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.

        We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing
        ...
        09-28-2026, 10:25 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by SEQadmin2, Yesterday, 11:13 AM
      0 responses
      19 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, Yesterday, 10:48 AM
      0 responses
      18 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 10-15-2026, 10:52 AM
      0 responses
      36 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 10-14-2026, 05:39 AM
      0 responses
      42 views
      0 reactions
      Last Post SEQadmin2  
      Working...