Category Archives: Genomics

We Could Have Effective COVID-19 Genomic Surveillance, Even with the Crappy U.S. Healthcare System

I’ve been meaning to get to this Washington Post article about how genomic sequencing of COVID-19 is being used in the UK to assist in tracking outbreaks, and in the U.S…. not so much. What got me off my posterior … Continue reading

Posted in Conservatives, COVID-19, Fucking Morons, Genomics

New Myxococcus Species: Myxococcus WTF?

OK, it’s not Myxococcus WTF, it’s called Myxococcus llanfairpwllgwyngyllgogerychwyrndrobwllllantysiliogogogochensis (boldface mine): Members of the predatory Myxococcales (myxobacteria) possess large genomes, undergo multicellular development and produce diverse secondary metabolites, which are being actively prospected for novel drug discovery. To direct such … Continue reading

Posted in Genomics, Microbiology

Something Genomics Does Need To Confront: Anti-Vaxxers

Last week, a Canadian arbitrator ruled in favor of a parent who wanted to prevent the vaccination of her kids (the father had gone to court to get the kids vaccinated). This from the article leapt out of me (boldface … Continue reading

Posted in Genetics, Genomics, Vaccination

AMR Genes In Space. BOOGA BOOGA?

I really try to avoid giving scientific papers the full Mad Biologist treatment, so I was going to let this paper about antimicrobial resistance in space (BOOGA! BOOGA!) lie. And then I saw RT (not a big fan in general … Continue reading

Posted in Antibiotics, Genomics | 1 Comment

The Real 23AndMe Bidness Model

Back when 23AndMe, a company that charges people to have their genome sequenced and interpreted, was making every possible move to piss off the FDA, some asshole with a blog noted (boldface added): The thing that hasn’t been discussed: why … Continue reading

Posted in Bidness, Genomics

A Potential Problem For The Business Of Genomic Prediction

Hopefully, Gwyneth Paltrow won’t get involved in this (boldface mine): Recently, Vitaliy Husar received results from a DNA screening that changed his life. It wasn’t a gene that suggested a high likelihood of cancer or a shocking revelation about his … Continue reading

Posted in Bidness, Genomics

The Clinical And Bioinformatic CTX-M Problem

We’ll get to what CTX-M is in a bit, but first some biology background. Let’s talk about some game theory carbapenem antibiotics (also referred to as carbapenems): Before we get started, let’s do a quick biology review. A serious health … Continue reading

Posted in Antibiotics, Genomics, KPC

PacBio Finally Makes A Move It Desperately Needed To Make

While everyone hunts for the Holy Grail of human genomic sequencing (and other large genome critters), I’ve noted before there’s an obvious, if less sexy, market: …microbial genomes are cheap, fast, and you can provide epidemiological relevant information to clinical … Continue reading

Posted in Genomics | 5 Comments

A Failure Of Data Transmission: The CRE Edition

There’s a very interesting article that came out recently describing the first public report of carbapenem resistance in E. coli from the U.S. food supply. Maryn McKenna provides a good overview: Bacteria containing a gene that confers resistance to a … Continue reading

Posted in Antibiotics, Data Stuff, Genomics | 1 Comment

Prospective Bacterial Genomic Surveillance

One of the things the evul federal gummint is gearing up to every food borne bacterial disease isolate that is sent to either the CDC or public health labs in what is known as the GenomeTrakr Network (I’ve heard this … Continue reading

Posted in E. coli, Food, Genomics, Public Health