I'm sorry to hear that Julie.

Go for the lagging commodity...fertilizers

Surprisingly small amount of sequencing data too!

Had a conversation with a colleague in the Bay area and the amount of cancer biotech companies that are a front for "longevity research" is a non-zero number.

Google Has a Secret Reference Desk. Here's How to Use It. 40 Google features to find exactly what you need, the alternative search engines that do things Google won't, and the reference desk framework underneath all of it.

This is a great list of techniques for getting real information out of a Google search and avoiding AI slop and paid results.
(One thing not included is that if you add "-ai" to a search, you block the AI summary) cardcatalogforlife.substack.com/p/google-has...

Absolutely. In the amplicon/microbiome sequencing space the chimeras and homopolymer errors with illumina were more easily recognizable. Particularly paired end chemistries, since you can throw away all the <100% completely overlapping reads.

FWIW, Roche 454 sequencing ruined our final microbial ecology undergrad capstone project in undergrad.

a man in a gray shirt is holding a can of soda and says `` time is a flat circle . '' ALT: a man in a gray shirt is holding a can of soda and says `` time is a flat circle . ''

I think there's a generation of scientists that never really had to deal with homopolymer errors, since illumina short reads were the norm for a long time. While, now, in the long read era, we're back to homopolymer errors.

Interesting thread y'all. Hi-C makes sense with Euks where the structure is a lot more physically defined, seems like early days for protocols for anything not euk-structural variant related.

This is a cool use of Hi-C within microbiology.

Exposing Staph aureus to both low-dose antibiotics and a host drove rapid evolution of extreme virulence. Researchers passaged MRSA and MSSA through nematodes with sub-MIC oxacillin for 12 rounds, then tracked how virulence and resi...

www.biorxiv.org/content/10.1101/2024.08....

Spatial structure: shaping the ecology and evolution of microbial communities Spatial structure naturally emerges in microbial communities, shaping growth, interactions, and evolution, and revealing how microscale processes scale up

Most microbes don't live in shaking flasks; spatial structure shapes how microbes interact and evolve at every scale, as we discuss in our recent review @jeroenmeijer.bsky.social @simonvanvliet.bsky.social @bedutilh.bsky.social @bramvandijk.bsky.social and others
academic.oup.com/femsre/artic... 🧵👇

Nevermind the jobs you had, tell me five classes you took at university

International Relations
History of the Scientific Revolution
Vampires in Literature & Film
Microbial Ecology
Microeconomics

Congratulations!!

R is effectively C++/FORTRAN-lite. I said what I said.

Has anyone explored using MCP with Juicer for de novo assembly chromosomal rearrangement? #bioinformatics #AI

Artist rendering of Sagittarius A* Supermassive Black Hole

New Blog Post, Self-Hosting is a Beautiful Black Hole: Self-hosting—running your own services on hardware you control—offers a DIY path to digital autonomy. Whether you want to fight platform enshittification, own your data, or just tinker with hardware for fun... rbartelme.github.io/blog/selfhos...

Working on a self-hosting code/data blogpost. Pretty excited about this one.

For some reason oatmeal + peanut butter + maple syrup gets me through morning eating troubles. Call it a deconstructed cookie.

Plant genomes are so weird!

Still far better than having to buy options for a privately held company. That makes even less sense IMHO.

🤣😂🤣😂

AFAIK, this is due to Delta Dental's ADA association

Genome Reduction Is Associated with Bacterial Pathogenicity across Different Scales of Temporal and Ecological Divergence Abstract. Emerging bacterial pathogens threaten global health and food security, and so it is important to ask whether these transitions to pathogenicity h

academic.oup.com/mbe/article/...

Question for the #microsky nerds -- Would you expect to see the same trends for environmentally transmitted plant pathogens?
(Also if you have any papers on this topic, please share!)

a man with a beard is wearing a black and white sweater and making a face . ALT: a man with a beard is wearing a black and white sweater and making a face .

So fundamental they paywalled the article.

Add this to the list of things no one asked for!

www.rdocumentation.org/packages/Rbi...

I've had my oldest cat for ~13 of his 14 years on Earth. He's still a little stinker, but also an elderly baby?