Jess Smith
@nanojess.io
I do bioinformatics stuff with @fulcrumgenomics.com. I do garden stuff at home in Somerville, MA.
DivRef is a resource for including common human variants and haplotypes in CRISPR off-target searches. I rebuilt the generation workflow to make its inputs, assumptions and population choices easier to inspect and change. blog.fulcrumgenomics.com/p/a-crispr-o...
A CRISPR off-target search is only as good as the sequences it searches
Rebuilding DivRef so CRISPR off-target searches can account for human variation
blog.fulcrumgenomics.com
I've been using Typer more lately and I'm liking it. That's it! That's the post. Not every post can be 🔥🔥🔥🔥 typer.tiangolo.com
Typer
Typer, build great CLIs. Easy to code. Based on Python type hints.
typer.tiangolo.com
We cannot let China bet us in button-having. I want buttons back!!
China says enough with touchscreens, mandates physical buttons from 2027
Whether you love or hate it, the trend of ultra-minimalist interior design in cars from China is now numbered. This shift comes as the Chinese government
autobuzz.my
LinkedIn added an "AI slop" button. The U-Turn is happening, expect to see a lot more of this from other tech companies.
This is cool! I love techniques that can give us insight beyond identifying bases. Nucleic acids deserve better than their reduced representation
Direct detection of alternative DNA conformations with long-read sequencing and machine learning approaches
Progress has been made in identifying G-quadruplexes (G4s) and other non-canonical (non-B) DNA structures in live cells. However, these experiments have been limited by methodological constraints,…
biorxiv.org
"There's no such thing as a free lunch"
Reece@thiccreese.bsky.social · 6d agoNEW: I’m living in the dystopian future, so you don’t have to ✨
What? What does this even mean! I have mad respect for plant people - so much more complicated than mammals
Jeff Groh@jeffgroh.bsky.social · last wk.Avocados come in 2 varieties - A-types start each day female and switch to male midday. B-types do the reverse. In work just published from the last chapter of my PhD, we show this system evolved 40+million yrs ago and is regulated by alleles of 1 transcription factor www.pnas.org/doi/10.1073/...
This doesn't totally surprise me - US education system isn't great at training this kind of skilled labor
GenomeWeb@genomeweb.bsky.social · last wk.Liquid Biopsy Testing Labs Face Staffing Challenges as Demand Explodes
Good news! It's important to sometimes read the good news and be happy
Nicolas Fulghum@nicolasfulghum.bsky.social · last wk.NEW | California just reached a world-first solar milestone Over HALF (51%) of electricity generation across the whole month of May came from solar power. Battery storage is the big difference maker, enabling California to push the share of solar generation to this level.
Okay this is so cool. File under: yet another thing I pessimistically thought would never work
Precise DNA base editing using AlphaFold3-based contact modelling - Nature
ContactSeek is an AlphaFold3-driven model that can improve the precision of genome-editing tools.
nature.com
I interviewed 99-year old Joan Birman who must be the oldest author on a major breakthrough paper. As an added bonus: her team beat the guys trying to use AI! Please read and share about this human triumph: www.scientificamerican.com/article/how-... #science #math 👩🔬
How a 99-year-old mathematician unraveled a century-old braid mystery
Joan Birman popularized the Burau representation problem decades ago. Now she and two colleagues have a proof that reveals brand new insights into the geometry of braids
scientificamerican.com
I like this take because it implies I get to keep my job! > AI is an extraordinarily powerful accelerant whose value scales directly with the expertise brought to bear on it. It is a springboard, not a replacement. www.nature.com/articles/s41...
Rethinking bioinformatics expertise in the era of artificial intelligence - npj Digital Medicine
npj Digital Medicine - Rethinking bioinformatics expertise in the era of artificial intelligence
nature.com
That magical time of year when the cones burst into full bloom www.universalhub.com/2026/magical... #Boston #Allston #CommAve
We definitely need to be able to measure LLM performance, but that will inevitably cause some "teaching to the test." I'm not sure how big of a problem this is though? Clearly the technology continues to improve, at least in my hands. dylancastillo.co/posts/pelica...
Are AI labs pelicanmaxxing? – Dylan Castillo
I generated 1,000+ SVGs across 7 frontier models to test whether AI labs are training on Simon Willison’s pelican-riding-a-bicycle benchmark.
dylancastillo.co
Damn, this is how I learn the Earth's core is waaaayyyyyy hotter than I thought. What's going on in there?
Science Magazine@science.org · 2w agoEarth’s core may be as much as 1000°C cooler than previously thought, according to a new technique for measuring the temperature of molten iron under extreme pressures. Learn more: https://scim.ag/4yIOLkf
Good work, guys*! www.broadinstitute.org/news/low-cos... * guys in the gender-neutral way
Low-cost genome sequencing approach is powering genetics research on mental illness and many other studies
The Blended Genome Exome approach delivers high-quality, unbiased genetic data at a quarter of the cost of the leading sequencing method.
broadinstitute.org
This seems like it can't possibly be true! Six foot wide heart! My word
ContempraInn 🌹@contemprainn.bsky.social · 2w agoThe largest dinosaur weighed around 85 tons. Some male blue whales weigh as much as 200 tons. A blue whale's heart is 6 feet wide and weighs 400 lbs. The largest animal that ever lived.
Hard to argue with this, she's got receipts
Sarah McAnulty, Ph.D.@sarahmackattack.bsky.social · 2w ago…bugs is shrimp.
Turns out we need boring government agencies to do boring regulatory things or else bad, sometimes non-boring things happen
Taylor Farms Spent Big on MAGA and Anti-Regulatory Lobbying Before Diarrhea Outbreak
The company donated more than $3.6 million to conservative groups between 2020 and 2025, including $1 million to the MAGA Inc. super PAC.
wired.com
