1/ Excited to see moscot-tools.org published in nature! We scaled Optimal Transport (OT) in single-cell genomics & added multimodality together with spatiotemporal trajectory inference, finding exciting new biology in the pancreas! 🚀 Read at nature.com/articles/s4158…

life is too short to not research the things you actually care about

the word/page limit is truly my enemy 😅

I’m super excited to share what I’ve been working on for the last (many) years: a spatial + genomic + transcriptomic characterization of how the breast cancer microenvironment evolves through immunotherapy! (1/x) biorxiv.org/content/10.110…

This was just a sampling of what we found; for the full details, please check out the paper, as well as our github, where we’ve made all the underlying code open source and freely available (8/x) github.com/angelolab/Spac…

🧵 (1/8) Today, Benjamin Oberlton and I are excited to share the preprint of our work on: A comprehensive multi-omic study of human gliomas, spanning diagnosis, treatment, and recurrence. We address the longstanding challenge of developing effective therapies for gliomas, which have

(7/8) Open source spatial multi-omics of human gliomas: We have made everything in this study freely available through the BRUCE data portal–a user-friendly web resource for quantitative analysis and visual data exploration of all extracted features and multiparameter imaging

Interesting in traveling to Hawaii next January? Consider submitting to our Systems Biology and Network Analysis session at PSB! Deadline: 8/1/25 psb.stanford.edu/callfor/papers…

Finding out HHMI is canceling the Hanna H. Gray Fellows competition is heartbreaking. Especially since if they decide to hold it next year I’ll no longer be eligible

Excited to share the first of many works out of Justin Milner. Be sure to check it out! Enhancer-driven gene regulatory networks reveal transcription factors governing T cell adaptation and differentiation in the tumor microenvironment: Immunity cell.com/immunity/fullt…

Structural variants are an untapped source of neoantigens but their messy representation holds us back. Enter Occam's Variant Grammar: a unified variant representation for long-read guided neoantigen discovery in personalized immunotherapy development. pirlblog.substack.com/p/variant-stan…

Super excited for this year's Spatial Biology Summit on September 11! Please join us for a series of exciting talks, in person + virtual options :)