Assistant Prof. @UWMadison_BME | Prev: @KrishnaswamyLab, @KavliAtYale Fellow & @Boehringer Fellow; PhD @ianywonglab @Brown_BME; ScM @Brown_DSI; BSc/MSc @UBC
Madison, WI
Joined July 2009
- Tweets163
- Following199
- Followers288
- Likes791
Can we design proteins from motion? Check out SPINET, our cellular sheaf-based inverse folding network: arxiv.org/abs/2609.34153
Curious how it works? Stop by poster #40 at the #MoML conference tomorrow (Oct 14) organized by @AIHealthMIT to meet co-first author Jens Lundsgaard! – at Shorewood Hills, WI
Congratulations, team! Incredible achievement, keep going! – at Shorewood Hills, WI
A huge congratulations to BME students Noah Kalthoff and Ruffin Bryant, along with Computer Science and Data Science student Aadya Ganjigunta, on earning 3rd place and the Best Methodology Report award at the #MICCAI 2026 @endo_vis SurgVU Challenge!
ALT Group photo of Tuo Peter Li, Dhananjay Bhaskar, Noah Kalthoff, Ruffin Bryant, Aadya Ganjigunta and Shawn Gomez.
First time visiting #Purdue for the #SIAM Great Lakes Section Meeting! A great selection of talks on MathBio, SciML, and Complex Systems - I spoke about agentic AI for autonomous modeling and simulation in biological systems - joint work with @mathoncbro!
purdue.edu/science/events/gl… – at West Lafayette, IN
First day of class in the books!! I'm teaching Computational Methods for Biological Modeling & Simulation. Mix of grads and undergrads - we're going to have a lot of fun! Course materials are #opensource, we're hosting everything on GitHub and classroom50:
bio-modeling-uw-madison-f26.… – at Shorewood Hills, WI
Dhananjay Bhaskar retweeted
The Growing Map of Open Mathematical Problems.
We mapped 15,000+ conjectures from UnsolvedMath to show potential links between concepts.
It also shows how under formalized the frontier is (less than 10%).
Just onboarded my group - sign-up was quick and painless! If it works as I expect (i.e. my students can actually see how I use it and follow along), this'll be a great way to educate them on how to prompt properly and use #Claude as a research and productivity tool correctly!! – at Shorewood Hills, WI
Starting today, 10,000 scientists across every field, from math to chemistry to physics and more, can get Claude through our new Claude Team plan for scientists. Standard seats are free, and premium seats with 5x usage limits are $15 per month, an 80% discount, for one year.
Claude is becoming increasingly capable of scientific work, with recent progress on problems from advanced physics calculations to protein design. Alongside that progress, we've been investing in the research community: Claude Science launched in June, and our AI for Science program funds high-impact projects with free credits. Today's expansion builds on both.
Principal investigators (or equivalent) at academic and nonprofit research institutions can sign up, then add the researchers in their group. Over the coming months, we plan to extend the program well beyond the initial 10,000 seats.
Learn more: claude.com/programs/team-pla…
I’m excited to launch a Brain Decoding Challenge as part of #MLM26 at UW–Madison. Teams will build ML models to decode mental imagery from EEG data.
Open to all experience levels! #Badgers can join the Challenge Showcase today (4 pm CT) to learn more: ml-marathon.wisc.edu – at Shorewood Hills, WI
Dhananjay Bhaskar retweeted
We are thrilled to announce the inaugural Stanford Virtual Embryo Challenge at NeurIPS 2026 @StanfordAILab @NeurIPSConf , in collaboration with Laude Institute @LaudeInstitute , UCSD, and Harvard!
Join us in building AI models that predict how life takes shape, across space, scale, time, and perturbation: virtualembryo.ai/challenge.
We welcome participants from academia and industry, independent researchers, and even AI agent scientists!!!
Our vision is inspired by and complementary to the virtual-cell efforts championed by @arcinstitute . But life is more than a collection of individual cells.
Why Virtual Embryos? See below 🧵👇
Back home from #AIMSConference2026. Grateful to Firas Khasawneh for bringing the #TDA community together. And while the math was beautiful, so were the Greek islands - nothing beats that caldera view after hiking Oia to Fira. Feeling rejuvenated, I'll miss Freddo Espresso though! – at Shorewood Hills, WI
Dhananjay Bhaskar retweeted
Very interesting Perspective on the role of Systems Biology within the PLOS Comp Bio journal & beyond!
journals.plos.org/ploscompbi…
Beautiful weather in Athens for the @AIM_Sciences conference. Magnificent surroundings - toured around the Acropolis yesterday. TDA session kicks off today - I'll talk about our zigzag persistent homology transformer for biological sequence embedding on Thu. #AIMSConference2026 – at Attiki, Greece
Postbac Jens Lundsgaard is presenting today at the Midwest Machine Learning Symposium at #Purdue. Stop by STEW 214, 12 - 1:30 pm to see MORFEA - a deep neural net that learns morphodynamic trajectories of embryo development for IVF decision-making:
midwest-ml.org/2026/ #MMLS26
Dhananjay Bhaskar retweeted
One effective way to use Artificial Intelligence is to benchmark it within your own field.
That's exactly what we did, for mathematics in oncology:
biorxiv.org/content/10.64898…
Just pre-ordered my copy - can’t wait to read it! Proud to have Chad as a friend and colleague - his enthusiasm and energy are second to none!!
press.princeton.edu/books/ha…
Shortly after our @law_soc booth opened, we met @PrincetonUPress author Chad Topaz with his new book, Unlocking Justice: The Power of Data to Confront Inequity and Create Change. #lsasf2026
Several thought-provoking pieces on #AI4Science in the latest issue of @americanacad journal Daedalus, featuring Charlotte Bunne, @mweber_PU and @AnimaAnandkumar: amacad.org/daedalus/ai-scien…
Dhananjay Bhaskar retweeted
We are beyond excited to be hosting the next installment of the Topological Deep Learning Challenge as part of the upcoming Boston TAG Party, August 18-20, 2026! Check out the details and we look forward to your submissions!
🏆 The 2026 Topological Deep Learning Challenge is officially live, now in its 4th edition! 🏆
This year’s theme is “Bridging the Gap” between the GNN and TDL worlds.
Win incredible prizes including up to $1000 in cash 💸 and AI research internships!
Submission deadline: Aug. 1
I have been insisting that my Fall 2026 CompBio course be hosted on a static website - self-hosting was routine when I was a student. The #Canvas hack today during finals week is a reminder that centralized LMSs create single points of failure. Ironically I'm writing this on X 😒
Dhananjay Bhaskar retweeted
Next up is @dbhaskar92 Dhananjay Bhaskar from @UWMadison_BME presenting: "STAGED: A Multi-Agent Neural Network for Learning Cellular Interaction Dynamics". Unfortunately his presentation was not recorded. #MathOnco25
🤖 Made with AI
Dhananjay Bhaskar retweeted
Neural networks might speak English, but they think in shapes.
Understanding their rich *neural geometry* is key to understanding how they work – and to debugging and controlling them with precision.
Starting today, we’re releasing a series of posts on this research agenda. 🧵
Dhananjay Bhaskar retweeted
University of Wisconsin-Madison juniors Ruffin Bryant and Noah Kalthoff turned a biomedical engineering class project into an agentic artificial intelligence tool for surgical charting.
Story by Sonia Bendre
Photo by Courtesy of Noah Kalthoff
dailycardinal.com/article/20…
