Atul Butte

Yemaachi Biotechnology Launches The African Cancer Atlas, in Partnership with Roche Yemaachi Biotech, a pioneering genomics research company based in Ghana, announced today a partnership with Roche to launch The African Cancer Atlas (

The African Cancer Atlas (TACA)

www.businesswire.com/news/home/20...

8 colored circles who different scientific assays used in #immune #studies part of Human Immunology Project. Data is free for sharing.

Go look at our #data
Free and #FAIRsharing.
144 studies, 10,244 human participants and > 135,000 samples.
#systems #immunology
@immportdb.bsky.social
#IDsky #immunesky
Check our #analysis tools at immunespace.org

immport.org/resources/hipc

UC Merced achieves R1 classification, bringing all UC campuses to the highest tier among research universities Each UC campus now resides among the exclusive group of 187 accredited doctoral-granting universities in the United States designated R1 by the Carnegie Classification of Institutions of Higher…

Yeah! All 10 campuses of the @UofCalifornia are now considered R1 research institutions!

YouTube video by carlsagandotcom Carl Sagan - Cosmos - Cosmic Calendar

Wasn’t that calendar analogy a Carl Sagan Cosmos thing? youtu.be/Ln8UwPd1z20?...

Data science is accelerating UC medical research, diagnosis and treatment in California

Great new article showcasing how researchers across @UofCAHealth are using @UofCalifornia Health Data Warehouse to study endometriosis, glaucoma, rare disease, cirrhosis, and more! Includes the work of @ManishButte @msirota84 @DrJonWatanabe and many others! bit.ly/4h5lmrh

Ferry Service at Mission Bay: When You’ll Benefit From a New Commute Option A new all-electric ferry to Mission Bay launches in 2027, supported by a $55M EPA grant, aiding UCSF commuters and patients.

So awesome! “Daily ferry service is sailing toward Mission Bay.”  Imagine commuting directly to @UCSF Mission Bay via high-speed zero-emissions boat! Scheduled to begin service in 2027. Now all we need is service to the South Bay! 😊
www.ucsf.edu/news/2025/01...

Use my starter pack to add about 90 accounts to follow in science, #AI, bioinformatics, and clinical informatics! go.bsky.app/97wmgsZ

Thinking of and praying for my friends, family, and colleagues in and around Santa Monica and @UCLA @UCLAHealth during these terrible fires…

Whoa!! @HHSGov drops 125 page HIPAA update for comments: "update[s] HIPAA Security Rule for the first time since 2013"!

www.hhs.gov/hipaa/for-pr...

Join us for Post-Doctoral projects at @atulbutte.bsky.social on a newly funded FDA project on real-world analysis of onco-therapies! If you have a passion for epidemiology, causal inference, LLMs & scientific rigor, we'd love to hear from you. Please DM me. Spread the word. Thank you.

I often wish the default iPad on screen keyboard had arrow keys to navigate in text…

2024 saw another record for bioRxiv postings. Thanks to all the CSHL staff, affiliates, authors, funders, and everyone who advocates for the project. Happy New Year and #letsmakethisthenorm ! 🧪

I have a colleague (not on social media) who likes to say that works don't *fall* into the public domain, they *ascend* into the public domain. I really love that.

Qwest commercial 1999 - Every Movie Remember how absurd this seemed in 1999 before the internet really took off? When the weary traveler asked the front desk what entertainment was available, t...

This ad seemed so hard to believe back in 1999… "all rooms have every movie ever made in any language anytime, day or night."

A Multimodal Biomedical Foundation Model Trained from Fifteen Million Image–Text Pairs Biomedical data are inherently multimodal, comprising physical measurements and natural-language narratives. A generalist biomedical artificial intelligence (AI) model needs to simultaneously proce...

Whoa! In @NEJM_AI:
A Multimodal Biomedical Foundation Model Trained from 15 Million Image–Text Pairs… fully open-access foundation model!
ai.nejm.org/doi/full/10....

California nets large population increase in 2024 — nearly returning to pre-pandemic level It had the third most new residents of any state, by raw numbers.

Folks moving back to California!
“California nets large population increase in 2024 — nearly returning to pre-pandemic level”
https://buff.ly/4fxlMVs

A great job for someone, for certain.

But I am re-posting this because this photo of the Geisel (of Dr. Seuss fame) Library at UC San Diego is a reminder of the twinned seriousness and surreality of my undergraduate education there--and the (re)imagining and (re)visioning it made possible for me.

Associate or Full Professor (Ladder/In-Residence) Biomedical Informatics Research University of California, San Diego is hiring. Apply now!

Great! @UCSD Biomedical Informatics is recruiting new tenure-track faculty!
Assistant Professor  https://buff.ly/49LX6rf ; Associate or Full Professor  

Here’s the full list of 49 US AI startups that have raised $100M or more in 2024 | TechCrunch AI startups continue to dominate the venture capital funding landscape. Here are the all the megarounds so far in 2024.

Nearly 50 US #AI startups raised $100M+ in 2024!

NIH Data Sharing Index (S-index) Challenge Check out this contest and enter now!

$1 million dollars up for grabs from @NIH for the teams that come up with the best measures of research data sharing, also known as a Data Sharing Index (S-index)! www.freelancer.com/contest/nih-... HT @michaelfchiang.bsky.social

“When a measure becomes a target, it ceases to be a good measure." - Goodhart’s Law

en.m.wikipedia.org/wiki/Goodhar...

NIH Data Sharing Index (S-index) Challenge Check out this contest and enter now!

Here's a website that describes the NIH "s-index challenge" to promote data sharing by developing a robust metric to identify exemplary data sharers.

National Eye Institute is excited lead a large group of participating NIH institutes (shown on website).

www.freelancer.com/contest/NIH-...

There’s a lot to unpack in the Bipartisan House Task Force Report on AI. It’s clear that progress will require collaboration to ensure a healthy evaluation/adoption pipeline.

Glad to see @ucsdhealth.bsky.social’s work in sepsis AI highlighted in this report.

Link: www.speaker.gov/wp-content/u...

This took more than 10 years to get published! 😜

Repurposing an epithelial sodium channel inhibitor as a therapy for murine and human skin inflammation Computational and molecular analysis identified benzamil as a potential treatment for skin inflammation in murine and human xenograft skin models.

After nearly 15 years since its publication, #MANTRA (the tool for drug repositioning I designed during my PhD in Diego di Bernardo's lab at TIGEM) still goes strong! @atulbutte.bsky.social and colleagues using it for drug repurposing in skin inflammation here 👇 👍
www.science.org/doi/10.1126/...

GitHub - microsoft/markitdown: Python tool for converting files and office documents to Markdown. Python tool for converting files and office documents to Markdown. - microsoft/markitdown

Woah! New Microsoft python packages convert from Office documents into Markdown! github.com/microsoft/ma...

Assessing Large Language Models for Oncology Data Inference From Radiology Reports | JCO Clinical Cancer Informatics PURPOSEWe examined the effectiveness of proprietary and open large language models (LLMs) in detecting disease presence, location, and treatment response in pancreatic cancer from radiology reports.ME...

Excited to share our latest paper evaluating large language models in assessing oncology radiology reports. Led by superstars Travis Zack and CPH student Li-Cheng Chen!
@atulbutte.bsky.social

Annotated reports included

@ucsf-bcshi.bsky.social @ucsfcancer.bsky.social

ascopubs.org/doi/10.1200/...

1 Genomic Test Can Diagnose Nearly Any Infection A decade-long effort has resulted in a new, rapid genomic test to diagnose rare infectious diseases in the brain and lungs.

Very cool! One genomic test can diagnose nearly any infection! Comes out of the lab of Charles Chiu @ucsfhealth.bsky.social
www.ucsf.edu/news/2024/11...

Welcome to @bsky.app !

Tech firm signs huge Menlo Park office deal, enough space for thousands A tech company has signed a mammoth office deal in the South Bay.

Whoa… @Snowflake expanding into Menlo Park?
"The 773,000 square feet that Snowflake subleased from @Meta is enough office space for 3,000 to 3,800 workers."
https://buff.ly/3CSJq15