AI4Science researcher. Associate Professor @CSHL. My lab advances AI for genomics and healthcare! http://koo-lab.github.iohttps://bsky.app/profile/pkoo562.bsky.socialhttps://bsky.app/profile/pkoo562.bsky.social/post/3mbkmpc77n225Save the date: The premier AI x Bio meeting of 2026 will be held at CSHL on May 26-31! The program brings together 50+ invited leaders in genomics, transcriptomics, protein design, drug discovery, neuro-AI, pathology, agentic AI, and more! Abstract due: March 26 https://meetings.cshl.edu/meetings.aspx?meet=SYMP&year=2604 Jan 2026 00:03 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3mbkmpc77n225https://bsky.app/profile/pkoo562.bsky.social/post/3m55jqn4s3k27Beware of LLM blindspots. #AI4Science08 Nov 2025 21:24 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3m55jqn4s3k27https://bsky.app/profile/pkoo562.bsky.social/post/3m4ysfmq2zs25Exciting symposium on AI and Biology at EMBO | EMBL in Heidelberg on 10-13 March 2026! Excellent lineup of invited speakers across various scales of biology! Deadline for abstract submission is coming up — Dec 2. 🔗 https://www.embl.org/about/info/course-and-conference-office/events/ees26-02/ #EESAIBio @EMBLEvents07 Nov 2025 00:16 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3m4ysfmq2zs25https://bsky.app/profile/pkoo562.bsky.social/post/3m2r4elknhk2kWhich mutations rewire function of regulatory DNA? Excited to share SEAM: Systematic Explanation of Attribtuion-based Mechanisms. SEAM is an explainable AI method that dissects cis-regulatory mechanisms learned by seq2fun genomic deep learning models. Led by @EESetiz 1/N 🧵👇09 Oct 2025 12:02 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3m2r4elknhk2khttps://bsky.app/profile/pkoo562.bsky.social/post/3m2mcvcy2vc2qCongratulations to John Clarke, Michel Devoret and John Martinis on receiving the 2025 Nobel Prize in Physics! https://www.nobelprize.org/prizes/physics/2025/summary/ I have fond memories of my time in the Clarke lab, where I did my Honors Thesis on ultra low-field MRI w/ SQUIDs as an undergrad at UC Berkeley!07 Oct 2025 14:16 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3m2mcvcy2vc2qhttps://bsky.app/profile/pkoo562.bsky.social/post/3lz7ccej6wk2hCheck out a Research Highlights on our work at @naturemethods by Lin Tang! https://www.nature.com/articles/s41592-025-02829-6 [contains quote post or other embedded content]19 Sep 2025 16:36 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lz7ccej6wk2hhttps://bsky.app/profile/pkoo562.bsky.social/post/3lylc5zre3k2dRichard Bonneau giving the last keynote on navigating the complexity of drug discovery and their lab-in-the-loop for molecule design! #MLCB11 Sep 2025 17:40 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lylc5zre3k2dhttps://bsky.app/profile/pkoo562.bsky.social/post/3lykuv63qfs222025 MLCB day 2 is starting now! Streaming live now! m.youtube.com/watch?v=PxlXNb… https://m.youtube.com/watch?v=PxlXNb…11 Sep 2025 13:42 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lykuv63qfs22https://bsky.app/profile/pkoo562.bsky.social/post/3lyiexby6v22oSome technical delays but we are all set! First talk by Alexis Battle! @alexisbattle.bsky.social [contains quote post or other embedded content]10 Sep 2025 13:52 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lyiexby6v22ohttps://bsky.app/profile/pkoo562.bsky.social/post/3lyi5ovjr422m2025 Machine Learning in Computational Biology (#MLCB) meeting starts TODAY (9/10) at 9:30a (EST) at the NY Genome Center in NYC! We have a great lineup of keynotes, contributed talks, and posters today and tomorrow Schedule: mlcb.org/schedule Join for free via livestream: m.youtube.com/@mlcbconf https://mlcb.org/schedule10 Sep 2025 11:42 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lyi5ovjr422mhttps://bsky.app/profile/pkoo562.bsky.social/post/3lu3fiv66us2x*Easter egg alert* NOT in the published paper. We also benchmarked Evo 2 and while it did better than other gLMs (consistent that scale can improve gLMs), it still falls short of a basic CNN trained using one-hot sequences and far short of supervised SOTA [contains quote post or other embedded content]16 Jul 2025 12:16 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lu3fiv66us2xhttps://bsky.app/profile/pkoo562.bsky.social/post/3lu3favd3l22xOur work on "Evaluating the representational power of pre-trained DNA language models for regulatory genomics" led by @AmberZqt with help from @NiraliSomia & @stevenyuyy is finally published in Genome Biology! Check it out! https://genomebiology.biomedcentral.com/articles/10.1186/s13059-025-03674-816 Jul 2025 12:12 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lu3favd3l22xhttps://bsky.app/profile/pkoo562.bsky.social/post/3lsh5tm227s2wCongrats @avsecz.bsky.social! Looking forward to exploring what it has learned! 🧬 [contains quote post or other embedded content]25 Jun 2025 17:41 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lsh5tm227s2whttps://bsky.app/profile/pkoo562.bsky.social/post/3lqmrjyhkic2nThe #MLCB deadline has been extended to June 3 (AOE)! Still time to submit your cutting-edge work on machine learning in biology. Don’t miss out! 👉 www.mlcb.org #ComputationalBiology #ML4Bio https://www.mlcb.org/02 Jun 2025 12:26 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lqmrjyhkic2nhttps://bsky.app/profile/pkoo562.bsky.social/post/3lqanddxatc2pBuilding virtual cells is a great goal in the age of AI, but it requires far more than training transformers with scRNAseq. *Scaling* as the primary strategy with hopes of emergent properties is lazy. Will the plan to fuse representations across mediocre (unimodal) foundation models work?!28 May 2025 16:39 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lqanddxatc2phttps://bsky.app/profile/pkoo562.bsky.social/post/3lptrnrsljc22Excited to share an update to D3 (DNA Discrete Diffusion) — an application of score-entropy discrete diffusion model for regulatory genomics! 🧬 Paper: biorxiv.org/content/10.110… (See thread below 👇) (1/n)23 May 2025 13:52 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lptrnrsljc22https://bsky.app/profile/pkoo562.bsky.social/post/3lpbwbb7f622bThe premier conference on Machine Learning for Computational Biology is Sep 9-10 at the NY Genome Center in NYC! Submission deadline is June 1 for 2-page abstracts and 8-page papers (eligible for proceedings track). Registration is now open! (Link below) Please retweet!16 May 2025 11:26 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lpbwbb7f622bhttps://bsky.app/profile/pkoo562.bsky.social/post/3lp63yw4ln22aAs #NeurIPS2025 submission deadline approaches, I’m expecting lots of posts of papers that be like…14 May 2025 22:58 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lp63yw4ln22ahttps://bsky.app/profile/pkoo562.bsky.social/post/3lnoqnfdp3c2gAt @iclr_conf and interested in AI x Bio? Come see new work by the Koo Lab! 1. Oral presentation at @gembioworkshop by Evan Seitz (@EESeitz) on Decoding the mechanistic impact of genetic variation on regulatory sequences with deep learning! https://openreview.net/forum?id=PtjMeyHcTt26 Apr 2025 03:00 +0000at://did:plc:db2rycw6inkr2colpfjpawk4/app.bsky.feed.post/3lnoqnfdp3c2g