Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Mouse (MM10) SNPs

    Hello,

    Does anyone know if there is a VCF file of SNPs and Indels available yet for MM10 (mouse), and where to obtain it?

    I need this for GATK.

    Jim

  • #2
    I don't think there's a dbSNP VCF for mm10 yet.

    You'll likely have to download the snp128.txt from the UCSC annotation database for mm9, convert it to VCF and lift over to mm10 coordinates. Its a little taxing but that's the only workflow I'm aware of.

    Comment


    • #3
      See ftp://ftp.ncbi.nih.gov/snp/organisms...00--README.txt

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Choosing Between NGS and qPCR
        by seqadmin



        Next-generation sequencing (NGS) and quantitative polymerase chain reaction (qPCR) are essential techniques for investigating the genome, transcriptome, and epigenome. In many cases, choosing the appropriate technique is straightforward, but in others, it can be more challenging to determine the most effective option. A simple distinction is that smaller, more focused projects are typically better suited for qPCR, while larger, more complex datasets benefit from NGS. However,...
        10-18-2024, 07:11 AM
      • seqadmin
        Non-Coding RNA Research and Technologies
        by seqadmin




        Non-coding RNAs (ncRNAs) do not code for proteins but play important roles in numerous cellular processes including gene silencing, developmental pathways, and more. There are numerous types including microRNA (miRNA), long ncRNA (lncRNA), circular RNA (circRNA), and more. In this article, we discuss innovative ncRNA research and explore recent technological advancements that improve the study of ncRNAs.

        Nobel Prize for MicroRNA Discovery
        This week,...
        10-07-2024, 08:07 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, 11-01-2024, 06:09 AM
      0 responses
      20 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 10-30-2024, 05:31 AM
      0 responses
      20 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 10-24-2024, 06:58 AM
      0 responses
      24 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 10-23-2024, 08:43 AM
      0 responses
      53 views
      0 likes
      Last Post seqadmin  
      Working...
      X