Hey folks, as news of Watson's demise spreads, please don't set aside his weighty legacy of misogyny and racism. He was truly among the worst of us. www.vox.com/2019/1/15/18...

Check out the cool work being presented by our students at Genome Informatics! This year’s event was co-organized by @benlangmead.bsky.social, & features talks from @vikramshivakumar.bsky.social & more, plus posters from @alexsweeten.bsky.social, @maojanlin.bsky.social, & @sinamajidian.bsky.social:

Fantastic talk by @vikramshivakumar.bsky.social Mumemto—Scalable multi-MUM finding for pangenomes
Papers biorxiv.org/content/10.1101/2025.05.20.654611 & doi.org/10.1186/s13059-025-03644-0
Code: github.com/vikshiv/mume...
Very efficient pangenome visualization tool, revealing synteny and variations!

Today, for no particular reason at all, it is worth sharing this, as a reminder of what one man's lies can do.

Taken from this resource from my alma mater: costsofwar.watson.brown.edu

(Specific page is: costsofwar.watson.brown.edu/costs/human/...)

Delighted to finally announce a preprint describing the Q100 project! “A complete diploid human genome benchmark for personalized genomics” For which we finished HG002 to near-perfect accuracy: www.biorxiv.org/content/10.1... 🧵[1/14]

Small victories, but this doesn’t seem to apply to those currently on an H-1B visa.

Wish it was made clear in the initial “proclamation”, before we spent the entire day panicking while trying to figure out a way to get a friend back to the US before midnight.

This is catastrophic.

So, so many people I know and love are going to find it impossible to stay and work in the US, and it makes it almost impossible for people like me to stay and work here in the longer term, no matter how qualified we are.

New blog post – A quick look at Roche's SBX
lh3.github.io/2025/09/11/a...

Extremely disappointed in my alma mater, who have chosen to fold without a fight and endanger the most vulnerable members of our community instead of standing up for them.

Spineless and shameful.

Getting into computational biology this summer? 🏖️ 📖 Check out “Beyond the Human Genome Project: The Age of Complete Human Genome Sequences and Pangenome References” by @arun-das.bsky.social‬, @mikeschatz.bsky.social, and more for a great introduction to the field:

Excited to share a new update to Mumemto, scaling MUM and conserved element finding to any size pangenome! Preprint out now w/ @benlangmead.bsky.social.
Mumemto scales to the new HPRC v2 release and beyond, and can merge in future assemblies without any recomputation! 1/n

Easily the most important thing happening next week.

Come and watch my friend Sara defend her PhD!

Really cool work from @arun-das.bsky.social on recovering sequence from unmapped reads (even with T2T reference or HPRC pangenomes!). Can recover a decent amount of sequence per individual using these approaches. Check it out!

@arun-das.bsky.social's thesis research demonstrates that short-read mapping-based approaches, even using complete linear (T2T-CHM13) and pangenome (HPRC) references, miss a lot of variation that can be recovered from unmapped reads.

Our pre-print on investigating variation in South Asian genomes is now out!

Thank you to @mikeschatz.bsky.social, @rajivmccoy.bsky.social and @aabiddanda.bsky.social for all their work on this.

🧵 A thread on the key results and takeaways from our work:

Happening at 2pm in Biondi - come and check out Vikram’s great work!

Thank you to everyone who attended, and thank you to everyone who got me to this point - I appreciate you all.

I'm on the job market this summer, so please send any interesting opportunities my way 😃

Hello Bluesky 👋🏾

I’m going to be defending my thesis on Wednesday, so I thought this was as good a time as any to introduce myself and my work.

I’m Arun Das, I’m a PhD student in Schatz Lab @ JHU, and my work broadly focuses on algorithms to improve accessibility and representation in genomics.