Cell biologist, geneticist and fascinated by all things science 🦠🔬 . @CZIScience program officer leading single cell tech & supporting @humancellatlas
California, USA
Joined July 2017
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Jonah Cool retweeted
Yesterday we announced the integration of Boltz with Claude Science. One thing I wanted to take a moment to highlight was the results we got from letting Claude drive the Boltz API end-to-end, so I wanted to give a bit more detail here. A thread! 🧵
Jonah Cool retweeted
What is scientific taste?
Tell us what you think in this 10-min Claude-led interview on how scientists choose problems, judge evidence, and decide what's worth doing.
claude.ai/interviewer/how_sc…
Jonah Cool retweeted
AI has transformed how we design therapeutics.
But targeted delivery is still an expensive guessing game.
Today @BobbyHollings and I are launching @deliverome with @beckypferdehirt and @radialscience at @AsteraInstitute, to fix that. 🧵
Jonah Cool retweeted
Train and submit your model predictions for the OpenADMET Expansion challenge!! Lots of submissions already rolling in. Check out the webinar from @wpwalters, @barrybunin @huggingface et al for more info youtube.com/watch?v=9v0Ej_FL…
Jonah Cool retweeted
Today @AnthropicAI released PubMed integration for Claude. No hallucinations. Just real science, real data. As a beta tester, this has been a game changer—like having a supercharged research assistant. Here are 6 prompts that will transform how you search the literature. A 🧵
Jonah Cool retweeted
A scientist's guide to AI agents — how could they help your research? @Nature
👉 nature.com/articles/d41586-0…
Enjoyed discussing this with @LizzieGibney. Great to see @ScientistTools featured, along with several ongoing projects in our group.
AI agents can accelerate discovery, but their true scientific value depends on how we evaluate and test them, an open challenge for the field
Jonah Cool retweeted
Deadline extended to May 25! ⏳Consider submitting your recent work to the Generative AI and Biology workshop at @icmlconf
⏰ Deadline extended to May 25th for GenAI and Biology workshop, considering multiple requests & NeurIPS deadline!
🚀Recent submissions to NeurIPS & other conferences/journals are welcome!
🧬For amazing speakers and more details: genbio-workshop.github.io/20…
Jonah Cool retweeted
It’s time again for Cell Biology at Scale (CB@S), an annual gathering for researchers from diverse disciplines to share ideas on how new technologies can transform #cellbiology!
Co-hosted by #CZBiohubNY & @ChanZuckerberg.
Learn more and register:
czbiohub.org/events/cell-bio…
Jonah Cool retweeted
1/ The Chan Zuckerberg Initiative @cziscience is now hosting our AIDO.Cell-100M in its virtual cells platform. 🧬đź¦
ALT A digital infographic titled “Transcriptome-Scale Cell Foundation Model” visually explains the architecture and capabilities of AIDO.Cell-100M. On the left, four icons highlight model capabilities: pretraining on 50 million human cells, capturing both upregulated and repressed gene expression, modeling continuous single-cell expression, and enabling transfer learning for perturbation modeling. In the center, a magnified cell shows colorful DNA strands and intracellular components above a pastel tissue background, symbolizing the model's transcriptome-level understanding. On the right, a flowchart represents the data pipeline: gene context length of 20,000, hierarchical downsampling, gene embedding layer, and transformer models (10M, 100M, 650M parameters). The final box notes masked language modeling to predict high read-depth expression values. The bottom states: “Models the Whole Human Transcriptome Distribution Across 50 Million Cells.” AIDO.Cell-100M by GenBio AI.
Jonah Cool retweeted
Big Network news! #CZBiohubSF + #CZImagingInstitute will join forces to form a new Biohub aimed at developing groundbreaking imaging technologies to observe, measure, and understand biology like never before.
Learn more:
czi.co/43W0LBO
Jonah Cool retweeted
It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS, indeterminate dendritic cell histiocytosis or other (non-LCH) histiocytic sarcomas cases.
I'm trying to understand non-surgical chemo and targeted therapy options, new pathology markers to better diagnose subtypes/treatments, and any data on progression in pediatric patients. Please feel free to share – I’m trying to cast a wide net due to the rarity of this condition and how little is known.
People can contact me directly at my first name (as written in my profile) at octant.bio.
Jonah Cool retweeted
Pleased to share that our #earlyAIR cross-tissue, age-specific, #flowcytometry reference of immune cells from five tissues of the pediatric #airway is now published in @jacionline.
jacionline.org/article/S0091…
@cziscience @MCRI_for_kids @UniMelbMDHS @RCHMelbourne
Jonah Cool retweeted
In collaboration with Reuben Saunders, @JswLab, and Xiaowei Zhuang, we are very excited to release Perturb-Multi: a platform for pooled multimodal genetic screens in intact mammalian tissue.
Check it out!
biorxiv.org/content/10.1101/…
Jonah Cool retweeted
Interested in #singlecell and #spatial #metabolomics ? Then book your calendar for December 10th! – Our online, free event will summarize major achievements of the field in 2024. #metabolism #omics #MALDI #EPFL With @Gio_Dangel0 lab we prepared a fantastic lineup. 🧵 1/5
Jonah Cool retweeted
We are thrilled to share an HCA Collection of 40+ peer-reviewed papers in @NaturePortfolio shedding light on human development, healthy and disease biology and vital analytical tools. #HCA2024NatureCollection #HumanCellAtlas nature.com/immersive/d42859-…
Jonah Cool retweeted
A big day of output for the Human Cell Atlas, a global collaborative project with 100 countries to understand our ~37 trillion cells
A Wikipedia of our cells, a "remarkable achievement"
nature.com/articles/d41586-0…
nature.com/immersive/d42859-…
Jonah Cool retweeted
🚨Big news! Five years in the making, our Zebrahub paper is now published in #Cell 🎉. We’ve built a timecourse atlas of zebrafish embryonic development, combining #scRNAseq data and #lightsheet live imaging, and delved deep into the dynamics of key progenitors.
cell.com/cell/fulltext/S0092…
Explore the datasets here:
zebrahub.sf.czbiohub.org
Led by @Merlin_Lange with key contributions by @ale_agranados, @Shruthi94Vijay, @jobragantini, @Sarah_E_Ancheta and @yangjoonkim
#zebrahub #devbio #cell #Biology #imaging @CellCellPress @czbbiohub #CZBiohubS
Jonah Cool retweeted
Neat position at HHMI in Chevy Chase MD:
"Open Science Strategy Program Coordinator"
pay range $75-120k, PhD required
hhmi.wd1.myworkdayjobs.com/E…
Jonah Cool retweeted
One more week to submit your papers! ⌛️We're accepting submissions on AI-related topics in drug discovery & biology 🧬 at the AI for New Drug Modalities #NeurIPS Workshop ! We welcome your submissions!
sites.google.com/view/newmod…
Jonah Cool retweeted
Excited to share TxGNN, a model that identifies potential therapies from existing medicines for thousands of diseases. Trained across 17,080 diseases, TxGNN predicts drug candidates for conditions with limited or no treatment options, including rare diseases
@NatureMedicine paper: nature.com/articles/s41591-0…
Globally, there are over 7,000 rare and undiagnosed diseases, yet only 5 to 7 percent have treatments, leaving the majority untreated or undertreated. Even for more common diseases, new drugs could offer alternatives with fewer side effects or replace drugs that are ineffective for certain patients
TxGNN generates new insights on its own in the form of multi-hop interpretable rationales, applies them to diseases it was not trained for, and offers explanations for its predictions
Human evaluation showed that TxGNN's predictions perform well across multiple axes of performance
Many of TxGNN's predictions align with off-label prescriptions used in a large healthcare system
Many thanks to a fantastic research team @KexinHuang5 @payal_chandak @WangQianwenToo @_toolazyto_ @AkhilVaidMD @jure @girish_nadkarni @BenGlicksberg
@HarvardDBMI @harvardmed @KempnerInst @harvard_data @broadinstitute @cziscience
@harvardmed News and Gazette: hms.harvard.edu/news/researc… Thanks @EkaterinaPeshev
