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  • #15243
    Lyle-Hopkins
    Lyle-Hopkins
    Participant

    Hi,

    I’m studying computational biology, and have been getting quotes from various labs for a 30X WGS of my dog.

    I’ve got some questions on your Trailblazer Level sequencing:

    Will I get full access access to the raw sequencing data so that I can perform my own bioinformatics analysis?
    What sequencing platform will be used?
    What is the expected error rate in sequencing?
    Does the saliva sample provide the most accurate results? I.e. would other tissue samples such as blood lead to more accurate sequencing?

    Thank you.

    #15251

    Hi Lyle, thank you for your interest in the Trailblazer sequencing.

    1. We send your dog’s variant call file (VCF) alongside a printed booklet about their genome. We will gladly facilitate full access to raw sequencing data such as BAM files and can easily set up a data transfer that works for you.

    2. We use Illumina NovaSeq with at least 30x coverage (although usually higher) through the Broad Genomics Platform in Cambridge, MA.

    3. Error rate will be comparable to error rates for human 30x genomes produced using that technology. We use the standard 30x sequencing pipeline at the Broad Genomics Platform, detailed here: http://genomics.broadinstitute.org/data-sheets/DTS_WGS_12-2019.pdf

    4. We typically mail two saliva swabs which we pool together. Whole blood might offer certain improvements to sequencing accuracy but saliva is sufficient. We can work with a whole blood sample, if you would prefer. The booklet we print for Trailblazer dogs does include a tree of oral microbiome diversity, which would be absent for a blood sample. If you are interested in studying the micro-organisms present in your dog’s saliva, then sequencing from saliva offers that opportunity.

    Feel free to reach out for more information,
    Kathleen

    #15257
    Lyle-Hopkins
    Lyle-Hopkins
    Participant

    Hi Kathleen,

    Thank you for your fast response.

    I’ve been looking into different delivery options. I’m in the UK and I’m finding dry ice courier services to the US to be limited. I’ll talk to my vet next as they may already have courier agreements in place that might be usable.

    Lyle

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