Atul Butte
@atulbutte.bsky.social
Chief Data Scientist U of CA Health・Director, Bakar Computational Health Sci Institute・Distinguished Prof af UCSF・Entrepreneur・He/him・Opinions ⇨ my own
The African Cancer Atlas (TACA) www.businesswire.com/news/home/20...
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 (
businesswire.com
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
Yeah! All 10 campuses of the @UofCalifornia are now considered R1 research institutions!
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…
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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
Data science is accelerating UC medical research, diagnosis and treatment in California
bit.ly
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...
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.
ucsf.edu
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...
hhs.gov
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.
This ad seemed so hard to believe back in 1999… "all rooms have every movie ever made in any language anytime, day or night."
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...
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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....
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...
ai.nejm.org
Folks moving back to California! “California nets large population increase in 2024 — nearly returning to pre-pandemic level” https://buff.ly/4fxlMVs
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.
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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.
Atul Butte@atulbutte.bsky.social · 2y agoGreat! @UCSD Biomedical Informatics is recruiting new tenure-track faculty! Assistant Professor https://buff.ly/49LX6rf ; Associate or Full Professor
Great! @UCSD Biomedical Informatics is recruiting new tenure-track faculty! Assistant Professor https://buff.ly/49LX6rf ; Associate or Full Professor
Associate or Full Professor (Ladder/In-Residence) Biomedical Informatics Research
University of California, San Diego is hiring. Apply now!
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$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
NIH Data Sharing Index (S-index) Challenge
Check out this contest and enter now!
freelancer.com
“When a measure becomes a target, it ceases to be a good measure." - Goodhart’s Law en.m.wikipedia.org/wiki/Goodhar...
Goodhart's law - Wikipedia
en.m.wikipedia.org
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-...
NIH Data Sharing Index (S-index) Challenge
Check out this contest and enter now!
freelancer.com
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...
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/...
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.
science.org
Woah! New Microsoft python packages convert from Office documents into Markdown! github.com/microsoft/ma...
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
github.com
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/...
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...
ascopubs.org
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...
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.
ucsf.edu
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
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.
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The nerd in me loves this! Nearly 400 logos in this Space Exploration Logo Archive… https://buff.ly/3ZA8qmP
Whoa! @Amazon to invest an additional $4 billion in AI startup @Anthropic!
Amazon to invest an additional $4 billion in AI startup Anthropic
Amazon is investing an additional $4 billion in the artificial intelligence startup Anthropic as major technology companies rush to fund generative AI.
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Tens of thousands of sounds and sound effects freely available for your creations, courtesy of the @BBC! sound-effects.bbcrewind.co.uk
BBC Sound Effects
BBC Sound Effects
sound-effects.bbcrewind.co.uk
