suinlee.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

Atul Butte died yesterday. The world lost a giant. A big bear of a man. With a huge smile. With love for everyone. With energy that could power a room. I loved everything about Atul. I loved how he was always happy. I loved how excited he was about science and helping people.

submitted 1 day ago • 14 comments

Atul Butte’s talk introduced me to systems biology—I was presynapse scientist and opened my horizon to "biomedical moments, thawing frozen discoveries in data". Ideas that changed my career. Thank you for the science, the spirit, and the inspiration. You will be remembered.

submitted 1 day ago • 0 comments

Wow, this paper on interpreting ML models by @suinlee.bsky.social and Scott Lundberg came out in 2017 and has 34k citations! Congratulations @suinlee.bsky.social and your team, what an achievement :-). arxiv.org/abs/1705.07874

submitted 36 days ago • 0 comments

📢📢 Junior researchers attending #ICLR2025, be sure to check out the mentoring chat sessions! More info here: blog.iclr.cc/2025/04/23/i... You can find all the sessions on the ICLR.cc schedule!

submitted 54 days ago • 0 comments

Thrilled to share that @ethanweinberger.bsky.social is becoming Dr. Weinberger in CSE2, where he is presenting his work, including the popular contrastiveVI for single-cell data (Weinberger et al. Nature Methods)! I feel so fortunate to work with such amazing Ph.D. students at @uwcse.bsky.social! 🎉🎓

submitted 55 days ago • 0 comments

Genomic language models: opportunities and challenges: Trends in Genetics www.cell.com/trends/genet...

submitted 63 days ago • 0 comments

#UWAllen's @suinlee.bsky.social was recently elected a Fellow of the @iscb.bsky.social for her work on #AI techniques to provide new insights into disease and drive #healthcare breakthroughs. Read more about her contributions: news.cs.washington.edu/2025/04/02/s... #ThisIsUW #CompBio #AIforGood

submitted 72 days ago • 0 comments

Thank you @uwcse.bsky.social! “Su-In’s body of work has completely transformed how people analyze and interpret AI/ML models. Her SHAP approach is used by essentially the entire field, not only in computational biology but all of computer science...” news.cs.washington.edu/2025/04/02/s...

submitted 74 days ago • 0 comments

The cover of Nature Biomedical Engineering features work from #UWAllen’s @suinlee.bsky.social on techniques for auditing #AI dermatology image classifiers—one of two projects from the lab highlighted in this issue, alongside a deep learning model for cancer insights. www.nature.com/natbiomedeng...

submitted 75 days ago • 0 comments

Thank you so much for the highlight and for the nice summary of our recent work!

submitted 88 days ago • 0 comments

Congratulations to #UWAllen professor @suinlee.bsky.social on her election as a Fellow of the International Society for Computational Biology! @iscb.bsky.social honored Lee for her pioneering work on explainable #AI for biology and medicine. www.iscb.org/iscb-news-it... #PopulationHealth #ThisIsUW

submitted 95 days ago • 0 comments

🌟 Congrats to the 2025 ISCB Fellows! 🌟 Honoring leaders in #computationalbiology for outstanding research, innovation and service. See this year's Fellows and their contributions here: https://t.ly/VYfLk

submitted 97 days ago • 0 comments

I'm deeply honored to be elected as an ISCB Fellow this year!🏅 Following last year’s ISCB Innovator Award, this recognition strengthens my commitment to advancing computational biology.🧬 Grateful to my students, mentors, and colleagues for their support! www.iscb.org/iscb-news-it...

submitted 96 days ago • 1 comment

Allen School professor Amy X. Zhang receives Sloan Research Fellowship for empowering users to make ‘our online spaces as rich and varied as our offline ones’ news.cs.washington.edu/2025/02/24/a...

submitted 111 days ago • 2 comments

Check out LUNA by my colleague @mariabrbic—a generative AI model that reassembles tissues from dissociated cells! 🚀🔬 A potential game-changer for single-cell & spatial transcriptomic, IMHO!

submitted 111 days ago • 0 comments

Thrilled to share LUNA🌕 – our new generative AI model that reassembles tissue structures from dissociated cells! LUNA learns spatial priors over existing spatially resolved datasets with the aim to predict cell locations de novo. Check out our paper here: www.biorxiv.org/content/10.1...

submitted 111 days ago • 0 comments

Our new paper describing a scalable approach for training sequence-to-function models on personal genomes ("personal genome training"), includes our observations on when this works and its limitations. www.biorxiv.org/content/10.1... Congrats: Anna, @xinmingtu.bsky.social , @lxsasse.bsky.social

submitted 112 days ago • 0 comments

Congratulations! 🥳🎉 This is so well-deserved! I'm truly honored to have you as part of my ISCB Award alumni.😊

submitted 114 days ago • 0 comments

Congratulations to Prof. Fabian Theis on winning the ISCB Innovator Award! 🏆 💡Theis is honored for his pioneering research in #ComputationalBiology. 👉More in our news: t1p.de/u8olc @fabiantheis.bsky.social @iscb.bsky.social #AI #MachineLearning #ISCBInnovatorAward #CellResearch

submitted 116 days ago • 1 comment

📣Meet our amazing @HiTSeq Keynotes speakers at the #ISMB2024 conference on July 12-16 in Montréal, Canada! Bringing the most novel statistical and computational methods for medicine and cell evolution to you! Call for abstracts is already open! iscb.org/ismb2024/home #ISCB

submitted 481 days ago • 0 comments

#UWAllen - www.geekwire.com/2025/overlan...

submitted 115 days ago • 0 comments

Incredibly grateful and honored to receive the 2025 Overton Prize ♥️ Surreal to follow the steps of my science heroes🙏 Truly, credit goes to my amazing students, collaborators and mentors who make research so inspiring! Also underscores the value of open academic environment that make this possible

submitted 115 days ago • 3 comments

I am deeply honored to be named a Sloan Fellow this year. Thank you to my students, collaborators, and colleagues for making all of our work in @socialfutureslab.bsky.social possible. And thank you to the Sloan Foundation for your support of science and early career scientists in these times.

submitted 117 days ago • 3 comments

‘Open source will win’: Allen Institute for AI CEO Ali Farhadi on the new era of artificial intelligence https://www.geekwire.com/2025/open-source-will-win-allen-institute-for-ai-ceo-ali-farhadi-on-the-new-era-of-artificial-intelligence/

submitted 120 days ago • 2 comments

This week our class had an awesome discussion on this review article discussing #transformers for #SingleCell. One of my favorite parts was discussing Figure 3 on current strategies for how to transform the counts to a format that can be used by transformer. 1/n 🧪🧬💻 www.nature.com/articles/s41...

submitted 123 days ago • 2 comments

[SAVE THE DATE] MLCB 2025 is happening Sept 10-11 at the NY Genome Center in NYC! Attend the premier conference at the intersection of ML & Bio, share your research and make lasting connections! Submission deadline: June 1 More details: mlcb.github.io Help spread the word—please RT! #MLCB2025

submitted 131 days ago • 1 comment

A must-read featuring an all-star author list!

submitted 148 days ago • 0 comments

Was asked to contribute brief commentary about my views on the present and future of AI models for regulatory genomics. Wud love for others to add their comments to this thread. Also check out commentaries from @jianma.bsky.social, Katie Pollard, Remo Rohs & others www.cell.com/molecular-ce...

submitted 148 days ago • 3 comments

📢I am on the academic job market this year! My research interest involves utilizing AI and explainable AI to explore the mechanisms of aging and age-related diseases. I'm looking for faculty positions in AI for Biomedicine. Check out my website: qiuweipku.github.io

submitted 148 days ago • 1 comment

Honored to work with the exceptional @weiqiu.bsky.social @uwcse.bsky.social and brilliant co-senior author Kamila Naxerova @harvardmed.bsky.social! I still can’t believe I have the privilege of collaborating with them www.nature.com/articles/s41... @weiqiu.bsky.social is on the academic job market!

submitted 148 days ago • 0 comments

Very strongly disagree with this post. I use several LLMs to help improve & speed up my writing. They almost never deliver something I feel is good enough to use directly but they provide many useful variations that help me iterate & improve much faster. 1/

submitted 149 days ago • 7 comments

OpenAI working on a longevity foundation model www.technologyreview.com/2025/01/17/1...

submitted 148 days ago • 0 comments

We share a lot of our ideas, code, datasets (that we spend years sanitizing) early. Often way before we release preprints. We do this so that others can use, build on, improve & even "beat" our approaches. But I want to say a few things about some simple expectations 1/

submitted 149 days ago • 1 comment

PS @jotlovell.bsky.social is the wizard behind GENESPACE if you have any questions/issues

submitted 149 days ago • 1 comment

One month to go until the CSHL Biology of Genomes abstract deadline! My all-time fav meeting, and one of the few covering genomics broadly. We have a ✨🤩 lineup of speakers, but it's the abstract talks & posters that really make the meeting - send us your best work! meetings.cshl.edu/meetings.asp...

submitted 153 days ago • 1 comment

Our study is up! Context-specificity galore -- we explore genetic regulation of gene expression across many cell types and temporal states simultaneously in an efficient experimental system + scRNA-seq:

submitted 192 days ago • 0 comments

Does anyone have any favorite reviews of autoencoders or VAEs for genomics data?

submitted 150 days ago • 4 comments

Congratulations!!!

submitted 150 days ago • 0 comments

Such high recognition! I remember how much I wished for this when I was younger! :) Congratulations @jef.works! You more than deserved!!

submitted 150 days ago • 0 comments

#ThisIsUW: Researchers at #UWAllen and @uwmedicine.bsky.social developed the FeverPhone app to turn a smartphone into a thermometer. They got a warm reception at #UbiComp2024 #ISWC2024 this fall, where they earned an #IMWUT Distinguished Paper Award. #CSforGood news.cs.washington.edu/2024/12/10/u...

submitted 178 days ago • 0 comments

“She never settled—she always challenged herself to learn more.” As @geekwire.bsky.social’s latest Uncommon Thinkers honoree, #UWAllen & AI2's Hanna Hajishirzi is curious, competitive and committed to solving real-world problems through open #AI. #ThisIsUW www.geekwire.com/2024/uncommo...

submitted 188 days ago • 0 comments

Thrilled to receive the Presidential Early Career Award for Scientists and Engineers (PECASE)! Could not have done this without my amazing lab members and mentors.

submitted 152 days ago • 21 comments

If you like Decision Neuroscience, Aging, and Alzheimer's research, check it out! go.bsky.app/RGJjwqA

submitted 152 days ago • 0 comments

Great talk by @suinlee.bsky.social at @pacsym.bio #psb25 on interpretability approaches for AI systems in radiology, and generally the process/approach to quality/reliability assurance for healthcare system AI robustness and generalizability. paperswithcode.com/method/shap

submitted 159 days ago • 1 comment

So exciting to have our session (AI in clinical medicine) at #PSB25 kicking off with invited speaker @suinlee.bsky.social talking about the importance of explainable AI for understanding clinical systems.

submitted 159 days ago • 0 comments

#psb25 Kicking off with workshops today, main program starts tomorrow. Can’t believe this is the 30th PSB! psb.stanford.edu

submitted 162 days ago • 0 comments