Our new paper is out today! PhD student Brian Johnson tour de force in applying and validating LLMs for phenotyping in massive EHR databases. Opens up many exciting opportunities for disease research using population-scale data #mathonco bmjopengastro.bmj.com/content/12/1...

Gorgeous week in Edmonton, Alberta for #SMB2025 @smbmathbiology.bsky.social Fred Adler giving us the laughs we all need with his plenary on “Education, Bureaucracy and Corruption”

Next up at #EBECancer25 summer school - hands-on digital pathology workshop with @mihaelaangelova.bsky.social @chandler-gatenbee.bsky.social

here this week learning with all of our students at #EBECancer25 @eventswcs.bsky.social ! having a lot of Sudoku-type fun at our “grammar of somatic evolution” with tutor @afrankell.bsky.social

That’s a wrap for QCC lab representation at #DDW2025! So fun to work with these people everyday. I’m also rocking yellow for osteogenesis imperfecta awareness day each May 6th #WishboneDay 💛

Quite an earthquake today in SD! We're all good, but I loved watching the elephants' reaction to a natural threat at our beloved SD Zoo Safari Park 🐘

Congrats to @cgucci.bsky.social on successfully defending her PhD on pi day! First PhD from our lab, so grateful for her dedication to our team and her supportive thesis committee (not pictured: Ludmil Alexandrov, sorry Ludmil!). Very excited to see all she does next... ☺️

Our Division at UCSD Medicine is hiring postdocs in biomedical informatics on our T15 grant. Please apply if interested or share with others who might be! @ucsdmedschool.bsky.social @ucsandiego.bsky.social @ucsdhealth.bsky.social

Applications are open for our Evolutionary Biology and Ecology of Cancer summer course at the Wellcome Genome Campus, UK! This is a great opportunity for early career scientists/trainees to get plugged into this field #mathonco @amyboddy.bsky.social @trevorgraham.bsky.social @afrankell.bsky.social

Today our study using copy number alterations (CNAs) from low-coverage WGS to predict FUTURE colorectal cancer in patients with IBD is published, details in thread! 1/5 gut.bmj.com/content/earl...

Our work on filtering host DNA from WGS data is also out today in @naturecomms.bsky.social! Congrats to first authors Caitlin Guccione and Lucas Patel - their methods were used in our new preprint and are freely available to use on your own data 🧬 www.nature.com/articles/s41...

How do microbial communities assemble during precancer and cancer evolution? Excited to share our new preprint on modeling of microbial evolution in Barrett's esophagus and esophageal adenocarcinoma! 🦠 Led by PhD student Caitlin Guccione #barretts #mathonco more in 🧵 www.biorxiv.org/content/10.1...

Devastated for those who lost everything in the horrible LA fires. Please send me any links to boost here to help those who need to rebuild <3

So cool to see this go to an amazing mathematical biologist, congrats!! And I’m honored to win the Leah Edelstein-Keshet prize this year from SMB @smbmathbiology.bsky.social can’t wait for Edmonton, Canada next year 🌲🏔️ #mathonco

Thankful this Thanksgiving break for this scientific community refresh to share with! PhD student Brian Johnson led our new preprint up today on using LLMs for extracting diagnoses in large EHR data- extremely accurate + easy to use for (pre)cancer Dx, go Brian! www.medrxiv.org/content/10.1...