Honored to share the stage with Kate Bonini at NSGC. A call to action to the GC community for the Human Pangenome #NSGC2025

Proud to participate in #RallyMedRes to advocate for biomedical research funding. Hundreds of participants discussing the importance of #FUNDNIH and the impact on research, training, and patient health across US

#1 Centromeres are epigenetic loci defined by CENP-A, positioned in unmethylated DNA flanked by highly methylated regions. Our work, published in @natgenet.nature.com in collaboration with @naltemose.bsky.social investigates the role of DNAme at human centromeres www.nature.com/articles/s41...

The Sudmant lab at UC Berkeley is seeking a postdoc to work on a fully funded NIH project to understand differences in DNA repair and somatic mutation across the primate tree of life. Please spread widely to those who may be interested aprecruit.berkeley.edu/JPF05052

Spindle checkpoint can secure additional cheating time for selfish expanded centromeres cell.com/current-biol... @currentbiology.bsky.social @takashiakeralab.bsky.social

Choose Science. Choose Europe. A new Marie Skłodowska-Curie Actions Postdoctoral Fellowships 2025 call is now open. With a budget of €404.3 million, it will support around 1,650 researchers from Europe and beyond. Apply by 10 September → europa.eu/!fBTMgF

The human pangenome continues to grow and improve! Release 2 is here! Click through for the details, but this is a pretty amazing dataset including not just the phased assemblies, but PacBio HiFi, ONT Ultralong, Dovetail/Illumina Hi-C, PacBio Kinnex, and Illumina WGS for all samples

📢 HPRC Release 2 is here! Now with phased genomes from 200+ individuals, a 5x increase from Release 1. Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️: humanpangenome.org/hprc-data-re...

"For me, the answer now lies in refusal, the withdrawal of participation from systems that require dishonesty as the price of belonging." Today I am resigning from the National Science Board and the Library of Congress Scholars Council. I wrote about my decision in TIME. time.com/7285045/resi...

"Virtually all NIH-funded training programs aimed at attracting underrepresented groups to science are now gone. 'I’m concerned that these events are very likely to affect who decides to stay in science and we will lose important and necessary scientific talent'" www.science.org/content/arti...

A project five years in the making, we've now published complete "T2T" genomes for six additional ape species! It turns out that finishing (and analyzing) six genomes is slightly more work than one... doi.org/10.1038/s415...

Our new paper on the rapid evolution of centromeres in Drosophila is out! 🚀 Discover how transposable elements and satellite DNAs shape centromere dynamics and drive karyotype evolution over short timescales. @amlarracuente.bsky.social 🌟 Check it out here: journals.plos.org/plosbiology/...

Working with an interdisciplinary team, we have developed a website to communicate how the White House's proposed cuts to health research would cause losses of $16B and 68,500 jobs. Find out how your community may be impacted. Explore more at SCIMaP: scienceimpacts.org a 🧵

Thank you @usrepjimmypanetta.bsky.social for coming to speak with us about how recent events at the NIH are dangerous for higher ed, the research enterprise and the health and economy of the US. Biomedical research and CA higher ed is a scientific and economic engine for the state and the country.

I convened a listening session with UC Santa Cruz researchers and faculty to hear how executive overreach and funding freezes are threatening education, research, and opportunity. We’ll keep fighting together to safeguard academic freedom, invest in science, & protect the progress that powers CA-19

A pie graph worth keeping in mind as the NIH budget plummets jamanetwork.com/journals/jam... for 356 new FDA drugs approved

Opinion piece in the @scsentinel.bsky.social by me, @carpenterlab.bsky.social and Carol Greider: Trump is turning off the lights on biomedical research: Why it matters for Santa Cruz www.santacruzsentinel.com/2025/03/20/g...

The New York Times is the first to put out comprehensive estimates on the cost of a year without U.S.A.I.D. and they’re higher than I thought: - 1.65 million deaths from AIDS - 500,000 from lack of vaccines - 550,000 from lack of food aid - 290,000 from malaria - 310,000 from TB

Michael Yuan is recruiting graduate students and potential postdocs to join his new evolutionary ecology lab at TCU in Fort Worth (www.myuanlab.com). He has funds to fully support PhD students starting both this fall 2025 and fall 2026. Please RT.

New report shows that NIH grants fueled $95 billion in economic activity and 407,782 jobs in 2024. That's not to mention the countless lives that biomedical research has saved. Show me a better investment than that. www.forbes.com/sites/michae...

#standupforscience #slugforscience

New research introduces Panacus, a pangenome graph tool that quantifies shared sequences and genomic variability across samples. Panacus efficiently processes GFA files and generates interactive visualizations, enabling deeper insights into pangenome growth and core genome size. shorturl.at/Va66Q

Francis Collins, longtime NIH director with bipartisan bona fides*, retires as of yesterday. He returned to NIH in 2023 to focus on research in his own lab, in the NIH in-house intramural research campus. His letter seems to imply he wasn’t ready to leave. NIH is being torn down. 1/🧪 #academicsky

Researchers at @ucsantacruz.bsky.social have demonstrated how long-read sequencing could improve detection of diseases that have eluded diagnosis, at a fraction of the cost. New clinical tests could be on the way. 🗞 news.ucsc.edu/2025/01/pate... 👏🏼👏🏿👏🏾 @khmiga.bsky.social @benedictpaten.bsky.social

Long-read special issue of GR is out, including our paper on T2T assembly using only Nanopore. Just in time for ONT to discontinue duplex cells on Nov 27 😅😂 Good thing Verkko also works great with HERRO-corrected simplex data! 📄 genome.cshlp.org/content/34/1... 📖 genome.cshlp.org/content/34/1...

Are you a (or do you know a) recent college graduate who wants to work in human genetics and genomics? Applications are open for the ASHG-NHGRI Post-Baccalaureate Genomics Analyst Fellowship! Great chance to understand how grants and societies work AND get paid. www.ashg.org/careers-lear...

"Dark TFs": new manuscript mapped 166 uncharacterized human transcription factors, finding half bind genomic "dark matter," often closed chromatin rich in transposable elements. www.biorxiv.org/content/10.1...

Just posting this to #popgen Here's a link to my notes on population & quantitative genetics: github.com/cooplab/popg... Hoping to extend it more after the winter holidays, as I'm just finishing up teaching the undergrad version of class.

Work by Nate Brown, @vikramshivakumar.bsky.social and I showing how compressed full-text indexes like the move structure can be extended to report "chaining" information alongside exact matches. The extension is called "col-BWT" (1/3)

Got a PhD in bioinformatics or quantiative/CS degree? Want to work with AI on real world health care data, using some of the biggest and most complete datasets in the world? Want to live in Cambridge UK and work in European EMBL? This job in my research group is for you! www.embl.org/jobs/positio...

Check out our recent preprint, co-led by two former PhD students in the lab Daniela Soto and José Uribe-Salazar, in which we identify and characterize human duplicated genes implicated in brain evolution. www.biorxiv.org/content/10.1...

"The formation and propagation of human Robertsonian chromosomes" ROBs are the most common translocation in humans, approx. ~1 per 800 people. Last year we proposed a simple mechanism for ROB formation; This year we prove it by finishing some T2T! New preprint: www.biorxiv.org/content/10.1...

T2T-F2F 2024 is a wrap! Great to hear about the new discoveries being enabled by complete genomes, and to meet so many new, enthusiastic T2T’ers. Thanks for the great meeting @khmiga.bsky.social @ucscgenomics.bsky.social !! 🎉

I'm hiring! Currently accepting applications for center coordinator, bioinformatics engineer/scientist, and postdoctoral researcher. Please share with those that might be interested: genomeinformatics.github.io/jobs2024/

A friendly reminder that today (August 1) is the last day to register for the T2T-F2F. Hope you can join us (details below and reach out if you have any questions)

A friendly reminder to register for the T2T-F2F meeting in Santa Cruz, CA Sept 3-4th. Please register by August 1st! This year registration is not limited to consortium members and is open to all. Help us spread the word. sites.google.com/ucsc.edu/t2t...

We welcome you to join us for the T2T Consortium Face-to-Face (T2T-F2F) Meeting in Santa Cruz, CA 9/2-3. Open to all -- register today.🏄‍♀️ sites.google.com/ucsc.edu/t2t...

Want to learn more about the tricks and tips for generating ONT Ultra-long DNA? The T2T Consortium and UCSC SeqTech Center are hosting a Technology-focused Webinar next Thursday with a group of experts. Register today: bit.ly/3PFTa2f @aphillippy.bsky.social