Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Time
  • Show
Clear All
new posts
Previous template Next
  • zee
    NGS specialist
    • Apr 2008
    • 249
    #1

    BS-Seq Public /Sharing Data

    Hi,

    Does anybody know of a source of public BS-Seq data to validate methylation alignment on?
    I'm looking for SEQ-PRB/FASTQ formatted short reads from the Illumina GA platform.

    I found the Cokus dataset at http://epigenomics.mcdb.ucla.edu/BS-Seq/download.html but I cant make head or tail of what's in there or how to get at the actual reads. Can anybody help?
    Last edited by zee; 01-21-2009, 12:47 AM.
    Tags: None
    • zee
      NGS specialist
      • Apr 2008
      • 249
      #2
      I decompressed the Cokus et al., 2008, data and obtained a whole lot of directories and C programs. I cant run the C programs because I dont have a license for Matlab.

      Anybody know what to do with these :

      N1try2-L7-sig2_T-17.littleEndianDoubles.bin
      N1try2-L7-sig2_T-18.littleEndianDoubles.bin
      N1try2-L7-sig2_T-19.littleEndianDoubles.bin
      N1try2-L7-sig2_T-20.littleEndianDoubles.bin
      N1try2-L7-sig2_T-21.littleEndianDoubles.bin
      N1try2-L7-sig2_T-22.littleEndianDoubles.bin
      N1try2-L7-sig2_T-23.littleEndianDoubles.bin
      N1try2-L7-sig2_T-24.littleEndianDoubles.bin
      N1try2-L7-sig2_T-25.littleEndianDoubles.bin
      N1try2-L7-sig2_T-26.littleEndianDoubles.bin
      N1try2-L7-sig2_T-27.littleEndianDoubles.bin
      N1try2-L7-sig2_T-28.littleEndianDoubles.bin
      N1try2-L7-sig2_T-29.littleEndianDoubles.bin
      N1try2-L7-sig2_T-30.littleEndianDoubles.bin
      N1try2-L7-sig2_T-31.littleEndianDoubles.bin
      N1try2-L7-sig2_T-32.littleEndianDoubles.bin
      N1try2-L7-sig2_T-33.littleEndianDoubles.bin
      N1try2-L7-sig2_T-34.littleEndianDoubles.bin
      N1try2-L7-sig2_T-35.littleEndianDoubles.bin
      N1try2-L7-sig2_T-36.littleEndianDoubles.bin


      Are these the raw images from the Illumina machine and how do I produce some reads from this?

        Comment

        • forrest
          Junior Member
          • Sep 2009
          • 2
          #3
          I don't how to convent these bin files to fastq/fasta file? Any one know how to do this? Thanks so much.

            Comment

            Previous template Next

            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
            View All

            ad_right_rmr

            Collapse

            News

            Collapse
            Topics Statistics Last Post
            Exeter-Led Study Maps What an Average Human Genome Looks Like by SEQadmin2
            Started by SEQadmin2, Yesterday, 11:13 AM
            0 responses
            17 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            Yesterday, 11:13 AM  
            Long-Read Sequencing Uncovers Cancer Mutations Conventional Testing Missed by SEQadmin2
            Started by SEQadmin2, Yesterday, 10:48 AM
            0 responses
            18 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            Yesterday, 10:48 AM  
            Mayo Clinic-Led Study Detects DNA Mutations Across Noncancerous Tissues by SEQadmin2
            Started by SEQadmin2, 10-15-2026, 10:52 AM
            0 responses
            36 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            10-15-2026, 10:52 AM  
            Study Finds Chromatin Motion Holds Steady Until Cells Face Stress by SEQadmin2
            Started by SEQadmin2, 10-14-2026, 05:39 AM
            0 responses
            42 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            10-14-2026, 05:39 AM  
            View All
            Working...