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  • samhokin
    Member
    • Nov 2013
    • 20

    Hello from Wisconsin

    Hiya folks, I'm new to computational biology, got a gig doing analysis for Kathy Barton in the Department of Plant Biology at the Carnegie Institution for Science in Stanford, although I live in Madison, Wisconsin. I'm a plasma physicist, and currently teach elementary physics at the UW-Madison as a lecturer when they need me, as well as owning a web app company (IMS) here in Madison where I do a lot of Java programming. I left experimental physics research in 1998.

    You may have seen me if you were at the Cold Spring Harbor Lab conference on Gene Informatics a couple weeks ago.

    Right now I'm working on a bunch of RNA-Seq data (Otogenetics/DNANexus) as well as some older microarray data on similar samples. This is Arabidopsis thaliana, of course.
    Sam Hokin
    Computational Scientist, Carnegie and NCGR

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  • GATTACAT
    Reply to Nine Things a Sample Prep Scientist Thinks About Before Sequencing
    by GATTACAT
    Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.
    07-01-2026, 11:43 AM
  • SEQadmin2
    Nine Things a Sample Prep Scientist Thinks About Before Sequencing
    by SEQadmin2


    I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.

    Here are nine questions we think about, in roughly the order they matter, before...
    06-18-2026, 07:11 AM

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