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
              Beyond CRISPR/Cas9: Understand, Choose, and Use the Right Genome Editing Tool
              by SEQadmin2



              CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).

              Despite this, “CRISPR helped turn genome editing from a specialized technique into              ...
              07-31-2026, 11:01 AM
            • SEQadmin2
              Proteomic Platforms: How to Choose the Right Analytical Strategy to Improve Detection and Clinical Applications
              by SEQadmin2


              Proteomics platforms are evolving rapidly, with advances in mass spectrometry and affinity-based approaches expanding what researchers can detect and at what scale. As the field moves toward deeper proteome coverage and clinical applications, scientists face an increasingly complex landscape of tools. This article will explore how researchers are navigating these choices to find the right platform for their work.

              The systematic characterization of the human proteome has              ...
              07-20-2026, 11:48 AM
            • SEQadmin2
              Advanced Sequencing Platforms Tackle Neuroscience’s Toughest Genomics Problems
              by SEQadmin2



              Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
              ...
              07-09-2026, 11:10 AM
            View All

            ad_right_rmr

            Collapse

            News

            Collapse
            Topics Statistics Last Post
            Long-Read Sequencing Closes Decades-Old Gaps in the Medaka Genome by SEQadmin2
            Started by SEQadmin2, 08-03-2026, 10:13 AM
            0 responses
            21 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            08-03-2026, 10:13 AM  
            New Genomic Method Uncovers Ancient Hominin DNA by SEQadmin2
            Started by SEQadmin2, 07-31-2026, 02:55 AM
            0 responses
            35 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            07-31-2026, 02:55 AM  
            Study Captures the First Moments of DNA Replication by SEQadmin2
            Started by SEQadmin2, 07-24-2026, 12:17 PM
            0 responses
            25 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            07-24-2026, 12:17 PM  
            Chemotherapy Leaves Detectable DNA Signatures in Childhood Tumors by SEQadmin2
            Started by SEQadmin2, 07-23-2026, 11:41 AM
            0 responses
            21 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            07-23-2026, 11:41 AM  
            View All
            Working...