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  • Ace5858
    Junior Member
    • Mar 2012
    • 8

    Sequencing NYC Subway bacteria????

    Hello fellow researchers!

    I have an exciting and ambitious project to present.

    My name is Jorge Gandara. I'm the wetlab manager for the research lab of Dr. Christopher Mason at Weill Cornell Medical College in New York City. Our website is www.masonlab.net

    We are currently embarking on an ambitious project here in New York City. We have just taken swab samples at EVERY subway station in the NYC Subway system. Our goal is to extract DNA from all the bacteria we find and run the sequencing data through MetaPhlAn to find all the bacteria and microbiomes found at all the stations. Ergo...a Pathomap!

    Our team have just taken over 1400 swab samples from every stop and are currently extracting and sequencing DNA from all the samples.

    Between the staff, the swabs, the subway metrocards, the extraction/sequencing reagents, it's a very pricey project.

    We have recently opened an indiegogo account and are looking for donations towards our project. We have some very awesome gifts for each level of donation. Want to know what types of bacteria are in your home? We'll sequence the DNA for you!

    Here's the website: http://www.indiegogo.com/projects/pa...opic-residents

    Please donate and help us out. Thanks so much!!!

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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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