Without naming your job, tell me something you say over and over again at work. “Immunity is complicated, you heard it here first” (Alternatively, “finished is better than perfect”)

Are you an undergrad looking for a summer internship? Application season is underway! Check out these internship opportunities at Fred Hutch. Apply now: linktr.ee/fredhutch #datascience #statistics #labexperience

Your written protocols and lab notebooks are a love letter to your future self (whether it’s you or a future lab member). Please be kind. Here are some critical things I have frequently noticed missing: (feel free to add yours in thread 🧵)

I am looking for a postdoc to develop high-performance algorithms in computational genomics. Email or DM me if interested. For more information, see hlilab.github.io/vacancies. RTs appreciated!

Ok, I got my own answer, use html coding to get formatting into your personal statement part: www.markdownguide.org/basic-syntax/

Brianna Bribel's biology videos are amazing, you should follow her @bumblingbiochemist.bsky.social in 2026.

Works for me. I’ll make this my major objective in 2026

The Uncanny Valley of biology: good for pulling in expensive program grants, largely useless for understanding life itself

Thanks to the AWS Open Data program, this dataset along some derived data is also openly accessible via @AWSCloud at openhgl.s3.us-east-1.amazonaws.com/index.html

BCD, right on schedule. I don’t think we will regret sending our work to this fine journal. Great work @dblipka.bsky.social and @mphartmann.bsky.social … I didn’t have time to read the PDF but I’m assuming it evolved a bit during review? It was exciting even before😁

579 high-quality human genomes from @humanpangenome.bsky.social, Arab Pangenome and individual papers (CHM13, CN1, KSA001, I002C, YAO and KOREF1). Sequences available in the AGC format (3.7GB) and FM-index in the ropebwt3 format (20.3GB). For details, see github.com/lh3/human-asm

Guaranteed funding for five years and a 20% increase in a $39K base stipend if you haul in a fellowship. World class facilities and faculty in metabolism, structural biology, epigenetics, and beyond. Grand Rapids is half the cost of living of California or Boston. Apply by December 1st if interested

the reason why he’s doing this

Guaranteed funding for five years and a 20% increase in a $39K base stipend if you haul in a fellowship. World class facilities and faculty in metabolism, structural biology, epigenetics, and beyond. Grand Rapids is half the cost of living of California or Boston. Apply by December 1st if interested

🦒Long read giraffe is out!🦒 Mapping long reads to pangenome graphs is ~10x faster than with GraphAligner, with veeery slightly better mapping accuracy, short variant calling, and SV genotyping than GraphAligner or Minimap2

We want to congratulate our President, Dr. Tony Letai, on his appointment as Director of the NCI. This announcement marks an historic moment for cancer research. Dr. Letai has been a tireless advocate and visionary leader for functional precision medicine 🧵 www.nih.gov/news-events/...

Good news for @alice.soragnilab.com, SFPM, and rare disease models. Bad news for mouse cancer enthusiasts (humans are unreliable models of mouse disease).

Mathematical models in biology are powerful, but often hard to run, visualise, or reuse without specialist skills. Menelmacar is a new platform that makes biological models interactive and easy to explore directly in the browser: biomodels.bacpop.org 🧬💻

Post a perfect album from the 90s that isn’t Nirvana, Pearl Jam, Soundgarden, or Alice In Chains

What gif pops up for your name?

Our paper benchmarking foundation models for perturbation effect prediction is finally published 🎉🥳🎉 www.nature.com/articles/s41... We show that none of the available* models outperform simple linear baselines. Since the original preprint, we added more methods, metrics, and prettier figures! 🧵

So this happened... Useful if you want to make economic (and health) arguments about the importance of NIH.

An intuitive visualization of the regulatory layers influencing the stoichiometry of a protein complex. pmc.ncbi.nlm.nih.gov/articles/PMC...

Everyone can go home now, scholarly Bluesky has peaked

Excited to share a new preprint from the lab with @ryandhindsa.bsky.social ! www.biorxiv.org/content/10.1... Led by @sherrynyeo.bsky.social, @erinmayc.bsky.social, and friends, we continue our journey to find viral DNA in our favorite place-- the overlooked and discarded reads in existing data! 1/

Academic job search guide

Me examining a new follower:

“But why should I learn statistics? AI can handle it for me!” Not if you don’t know how to ask questions. It’s the intuition about probability that we want people to walk away with: how to make decisions under uncertainty where information can be wrong. Why does this matter? Here’s a thread.

I am paw-sitively thrilled to say that out latest work is out in Nature today! #Virology #Genomics #Coronavirus #AnimalHealth #InfectiousDisease #Sequencing #FIP #FCoV23 www.nature.com/articles/s41...

I'm proud to announce the latest release of 🧬 #Oxbow 🏹, with new features to make NGS data analysis more powerful, efficient, and "composable". Learn more at: oxbow.readthedocs.io

Excited to share our latest by my postdoc Ben KS: we use statistical physics & Bayesian inference to model genome-wide perturbation outcomes. Remarkably, perturbation responses are encoded in gene "chatter" even before the perturbation–a fundamental insight with broad implications shorturl.at/2LHbw

I am incredibly honored to be named a 2025 Jane Coffin Childs Fellow! Grateful for my mentors, supporters, and the stability this award provides! Very excited to join this community of outstanding scientists.

Now published! Note that since Vikram's original post (quoted here), he's made it easy to dynamically update a set of multi-MUMs (e.g. when more genomes are added to a pangenome) and to find multi-MUMs for huge collections like HPRCv2 genomebiology.biomedcentral.com/articles/10....

As grant money starts drying up, it's more important than ever not to waste it on paying publishers' open access "article processing fees" when we can host PDFs for free. Tom Morgan and I wrote a paper on this, forthcoming at Science and Public Policy. Accepted draft here: osf.io/preprints/os...

Finally, something AI can do just as well as real "researchers". www.nature.com/articles/d41...

New preprint with the Shendure lab @jshendure.bsky.social ! We apply the DNA Typewriter lineage recorder to mouse 3D gastruloids, a powerful model of early mammalian development. Led by Sam Regalado and CX Qiu @cxqiu.bsky.social : www.biorxiv.org/content/10.1... (1/13)

Atul Butte died yesterday. The world lost a giant. A big bear of a man. With a huge smile. With love for everyone. With energy that could power a room. I loved everything about Atul. I loved how he was always happy. I loved how excited he was about science and helping people.

My HemeSky feed is now also picking up #EHA2025! bsky.app/profile/dpas...

Attention @bloodjournals.hematology.org and #hemesky : the singularity has arrived.

EPIGENETIC HULK READY TO SMASH AGAIN! GET IN LOSERS!

Pedixplorer: a Bioconductor package to streamline pedigree design and visualization. #PedigreeDesign #PedigreeVisualization #Bioconductor #Bioinformatics 🧬 🖥️ academic.oup.com/bioinformati... louislenezet.github.io/Pedixplorer/

A Developer Engagement position for the BIoconductor community is open for applications, based at the University of Limerick. Applications close on July 4th. universityvacancies.com/university-l... #rstats #bioconductor #bioinformatics

"a fascinating case study on the limits of AI in biology and the harms of current publishing incentives" rachel.fast.ai/posts/2025-0...

Everyone should watch and share. Thank you David. youtu.be/8YhJM6zxYDw

Axolotls are the "moopsy" of model organisms, they do all the things humans wish we could and look great doing them. Here is how, at a cellular level, they do their magic! Starting to think that @nature.com might have some solid editors 🤔

Time for a short thread! We developed HiddenFoot, a biophysics-inspired approach to decode single-molecule footprinting data and infer TF, nucleosome, and RNA Pol II binding profiles on individual DNA molecules. One molecule at a time! www.biorxiv.org/content/10.1... 1/6

@sonalish25.bsky.social your recent nature paper is fantastic! www.nature.com/articles/s41...