Ben Langmead
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benlangmead.bsky.social
Ben Langmead
@benlangmead.bsky.social
Reposted by Ben Langmead
“The Trump administration is closing NASA’s largest research library on Friday, a facility that houses tens of thousands of books, documents and journals — many of them not digitized or available anywhere else.”
NASA’s Largest Library Is Closing Amid Staff and Lab Cuts
www.nytimes.com
December 31, 2025 at 8:35 PM
Reposted by Ben Langmead
If you’ve heard me talk in the past ~5 years, you will know I have developed an obsession with acrocentric chromosomes. This is all of that, condensed into one paper. I will do a full thread in the new year, but for those that want something to read over the holidays, have at it. Such a cool story!
Origin and evolution of acrocentric chromosomes in human and great apes https://www.biorxiv.org/content/10.64898/2025.12.22.696095v1
December 24, 2025 at 3:59 AM
Reposted by Ben Langmead
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
December 22, 2025 at 5:01 PM
Trump-Kennedy's Law: If you did your life's work so that you could be rewarded with having your name emblazoned on something forever, that was the wrong reason, you are not in good company, and it won't work out in the long run.
December 18, 2025 at 11:18 PM
Reposted by Ben Langmead
SCOOP: American Academy of Pediatrics loses HHS funding after criticizing RFK Jr. Research included reducing sudden infant deaths and identifying autism early. Me and @Paigecunningham.Bsky.Social
www.washingtonpost.com/health/2025/...
American Academy of Pediatrics loses HHS funding after criticizing RFK Jr.
HHS cuts key AAP grants, citing concerns about “identity-based language” and insufficient focus on agency priorities. The organization said the cuts could harm child health.
www.washingtonpost.com
December 17, 2025 at 7:27 PM
Reposted by Ben Langmead
My lab is recruiting postdocs in AI/ML for genetics & genomics through the Malone Postdoctoral Fellows program. Apply by Jan 30! Lots of other great labs across the Malone Center as well.
Looking for a postdoc opportunity in computational & engineering applications in medicine & health care? Apply to the Malone Fellows Program and work with mentors in genomics, AI/data science, robotics, human-computer interaction, augmented/virtual reality, & more.

Deadline coming up: Jan 31, 2025
Malone Fellows Program
malonecenter.jhu.edu
December 16, 2025 at 7:29 PM
Reposted by Ben Langmead
Huge shoutout to all the NIH scientific review officers and external academics who stepped up after the government shutdown to help reschedule hundreds of study sections. Thanks to this great community, my fellowship review was rescheduled within two months of its original review date 🧪
December 12, 2025 at 1:24 PM
Reposted by Ben Langmead
I think some folks might be happy to see this. NIGMS MIRA R35 for EI/NI has been published. PAR-26-121 files.simpler.grants.gov/opportunitie...
PAR-26-121: Maximizing Investigators' Research Award (MIRA) (R35 - Clinical Trial Optional)
files.simpler.grants.gov
December 11, 2025 at 6:48 PM
Reposted by Ben Langmead
I still can’t believe the National Science Foundation is being forced to move out of their brand new, purpose-built building because the HUD secretary thought his building was ugly.

The Trump administration is destroying the best parts of this country, and it will take decades to rebuild.
NSF

- Forced reorg

- POs down ~ 40% (DRP, most rotators not renewed, retirements)

- Forced move (and we have to pack and clean) to a building with no furniture, little to no conference space for panels, inadequate 🛜, …)

I personally love the boxes they gave us for packing.
“Details matter” 🙃
December 11, 2025 at 1:58 PM
Reposted by Ben Langmead
I’m recruiting a postdoc to work on algorithms for cancer genome reconstruction. We have access to a rich set of tumour samples sequenced across multiple technologies. If interested, feel free to DM. Please share.
December 11, 2025 at 3:04 AM
Kraken 2 (K2) community: we are giving more attention to our new `k2` wrapper, and a NEW functionality since 2.17.0 is: you can build several component K2 indexes, e.g. each covering a different Refseq database, and then query them all at once...
github.com/DerrickWood/... 1/6
github.com
December 3, 2025 at 2:09 PM
Reposted by Ben Langmead
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
GitHub - lh3/human-asm: A collection of high-quality human genomes
A collection of high-quality human genomes. Contribute to lh3/human-asm development by creating an account on GitHub.
github.com
December 3, 2025 at 3:44 AM
Reposted by Ben Langmead
New York Times article on science funding with some depressing but familiar curves with interactive graphics.

www.nytimes.com/interactive/...
The U.S. Is Funding Fewer Grants in Every Area of Science and Medicine (Gift Article)
A quiet policy change means the government is making fewer bets on long-term science.
www.nytimes.com
December 2, 2025 at 11:57 AM
Reposted by Ben Langmead
We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen.

1/n
Intro to Bedder – The Quinlan Lab
quinlanlab.org
December 2, 2025 at 2:28 AM
Reposted by Ben Langmead
We’re preparing workshop materials on debugging and troubleshooting in bioinformatics and computational biology, aimed at audience with bio background. Is anyone aware of relevant courses, workshops, or resources?
December 1, 2025 at 4:16 PM
R: We might as well be dead. Do you think death could possibly be a boat?
G: No, no, no... Death is...not. Death isn't. You take my meaning. Death is the ultimate negative. Not-being. You can't not-be on a boat.
R: I've frequently not been on boats.
G: No, no, no--what you've been is...not on boats
November 29, 2025 at 6:55 PM
Iranian Professor in Oklahoma Released 3 Days After His Detention by ICE www.nytimes.com/2025/11/25/u...

Quote: Tricia McLaughlin, asst. secretary for public affairs at [DHS], said by text Tuesday morning that Dr. Abedini “was detained for standard questioning and was released.”
Iranian Professor in Oklahoma Released 3 Days After His Detention by ICE
www.nytimes.com
November 25, 2025 at 5:58 PM
Reposted by Ben Langmead
My colleague, Dr. Vahid Abedini, was illegally detained by ICE on Saturday. He is currently being held without a court date in sight, despite being in the country legally. Please spread the word! We must ensure his due process rights are upheld. www.oudaily.com/news/ou-prof...
OU College of International Studies professor reportedly arrested by ICE
U.S. Immigration and Customs Enforcement reportedly arrested an OU professor at Will Rogers International Airport Saturday.
www.oudaily.com
November 24, 2025 at 11:05 PM
Reposted by Ben Langmead
Very excited to share that Department of Biomedical Engineering @hopkinsengineer.bsky.social is hiring for open rank tenure-track faculty in #Biomedical #DataScience!

🔗 apply.interfolio.com/177042
Apps starting to be reviewed Dec 5 and ongoing after!

🧪🧬🖥️🧠 #StatsSky #WomenInSTEM
Apply - Interfolio {{$ctrl.$state.data.pageTitle}} - Apply - Interfolio
apply.interfolio.com
November 6, 2025 at 6:20 AM
Reposted by Ben Langmead
We spent a year investigating billionaires for @washingtonpost.com.

We found: the wealthiest 100 Americans gave $1.1 billion to influence the 2024 elections — 140x more than they did in 2000. And almost all of that giving boosted Republicans.

washingtonpost.com/politics/int...
November 21, 2025 at 2:56 PM
Reposted by Ben Langmead
Our trilogy of orthology publications is online!
Review on Hierarchical Orthologous Groups doi.org/10.1007/s00239-025-10277-1

OrthoXML-Tools doi.org/10.1007/s00239-025-10271-7

A great community effort on Quest for Orthologs in the era of Data Deluge and AI doi.org/10.1007/s00239-025-10272-6
November 21, 2025 at 4:26 PM
Reposted by Ben Langmead
Connect with the UK’s #bioinformatics and #computationalbiology community at #ISCBUK 2026. Share your latest research, build new collaborations, and be part of this inaugural meeting.

Submissions are open until February 5, 2026.

📥 Submit: https://www.iscb.org/uk2026/call-for-submissions/abstracts
November 19, 2025 at 11:16 AM
Reposted by Ben Langmead
I'm a longtime fan of Affinity Designer as an affordable Illustrator-killer for figures, and... it's now free?! www.canva.com/newsroom/new...
Highly recommended if you're sick of paying Adobe $. Maybe Canva can buy NPG too and get rid of the OA fees.
Why we made Affinity free, and how we’ll keep it that way
We’ve made Affinity completely free, empowering professional designers with studio-grade creative software, supported by Canva’s sustainable ecosystem.
www.canva.com
November 18, 2025 at 11:28 PM
Reposted by Ben Langmead
The James P. Taylor Foundation for Open Science is pleased to announce the recipients of the 2025 JXTX+CSHL Genome Informatics Scholarships. JXTX provides support for students to attend conferences in CompBio and data science, where they can present their work [1/8]
November 6, 2025 at 3:27 PM
Reposted by Ben Langmead
Former UVA president Jim Ryan, who resigned over the summer due to pressure from the Trump Administration, just shared this 12-page letter with the Faculty Senate, detailing his experience with the Board of Visitors and DOJ.

It's a surreal--and troubling--read.

drive.google.com/file/d/1Is6x...
November 14, 2025 at 2:15 PM