Cole Trapnell

Ideas aren’t just born fully mature into commercial realization. They require refinement, testing, well-integrated teams, and, moreover, a need for their purpose. I am thrilled, therefore, to announce the acquisition of Scale Biosciences by 10X Genomics. I co-founded Scale Bio with Frank Steemers (formerly of Illumina), along with Professors Jay Shendure & Cole Trapnell (University of Washington). Together, we integrated quantum bar coding and combinatorial indexing technologies for single-cell analysis of protein, gene expression, and epigenetics at the multi-million cell scale. We join now with the technological and global reach of 10x Genomics. I am incredibly excited to join 10x Genomics as a scientific advisor to amplify the broad-scale application of these ideas to researchers and patients worldwide. There is near limitless value in the data suite now produced by combined technologies at 10x that, along with the rapidly enabling landscape of artificial intelligence, will bring exciting new insights, and thereby therapies, across a range of biomedical needs. It’s an exciting time to be in the biosciences, watching as ideas evolve from scribblings on paper to helping patients!

Thrilled at the news of @10xGenomics ' acquisition of @scalebio, which I co-founded with Frank Steemers (ex-Illumina), @coletrapnell and @GarryPNolan. Further thrilled to joining 10X Genomics as an scientific advisor and for the synergies that lie ahead!

Big day! Proud of what Scale Biosciences has built, and excited to help combinatorial cellular indexing thrive at 10x Genomics. Huge congratulations to both teams.

Excited to share our human RA-gastruloid model in @NatureCellBio! Early retinoic acid supplementation, followed by later Matrigel addition, robustly induces human embryonic morphologies and diverse cell lineages, including somitic, renal, cardiac, and neural cell types in #gastruloid. rdcu.be/dRtj9

Scale up your research with the #100MillionCellChallenge! 📈 First 50M cells accepted highly subsidized. Early submissions get priority review. Submit your 1M+ cell project now! hubs.la/Q02Lc1ps0 #QuantumScale #SingleCell

🚨Free for 1 month: Revealing gene function with statistical inference at single-cell resolution go.nature.com/4eMji6A #Review by @coletrapnell @uwgenome

I am pleased to share our paper on axis formation in annual killifish, published in @sciencemagazine! See the thread below for a summary of the story. science.org/doi/10.1126/sc…

sci-Plex-GxE is out @CellGenomics! Combined single-cell genetic and chemical screens at scale. In this proof-of-concept, we performed sci-Plex-GxE on ~1M perturbed cells to define the contribution of protein kinases to the regulation of transcriptional changes induced by therapy.

We’re looking for a postdoc shared with @OliverStegle. Join us: design ambitious multi-sample single-cell experiments in developing embryos, model temporal response patterns, test predictions. Open to different backgrounds and expertise. If you’re interested, get in touch soon!

Today with the @ChanZuckerberg Initiative and @UWMedicine, we’re launching the Seattle Hub for Synthetic Biology (#SeaSynBio), a first-of-its-kind research initiative that will reimagine how we study cells by turning them into their own recording devices. alleninstitute.org/news/seattle-h…

📢 Registration for Single Cell Biology 2024 conference is open! #SCB2024 Explore biology at the #SingleCell resolution and network with global leaders. Join the discussion focusing on six key questions shaping the research field today. Find out more ➡️ bit.ly/45oPeIs

Congratulations to the team at Scale Bio! businesswire.com/news/home/2022…

Single-cell biology, whether you are talking about the epigenetic state, RNA, or protein, needs deep data. Why? Because the correlated measure of multiple points of reference within a system, in this case, cells, is reflective of the LANGUAGE the cell is speaking about itself, the decisions it is making, and how it talks to other cells in the system. A company I co-founded, Scale Biosciences, with scientists Jay Shendure, Cole Trapnell, and Frank Steemers, takes advantage of a high throughput system for massively parallel single-cell labeling. Explore your, at-scale, biology... businesswire.com/news/home/2023…

1/9 CPAis finally published. It can predict single-cell responses to combinatorial perturbation (drugs, CRISPR). This is a joint collab between @meta and @fabian_theis @HelmholtzMunich. Read the thread to understand the LEGO analogy! embopress.org/doi/full/10.15…

Big News🚨: #CZCellxGene Discover Census launched today! czi.co/3Nzpfsk Built from >500 datasets, Census gives you efficient access to the largest aggregation of #SingleCell RNA data that’s immediately ready for analysis with harmonized labels for cell and gene metadata

Excited to share our pre-print, spearheaded by @DoronTheViking (who did a phenomenal job, great fun to have grad students come up with the best ideas) providing a way to integrate scRNA-seq and spatial transcriptomics that fully utilizes spatial context biorxiv.org/cgi/content/sh…

Excited to share our lab's latest preprint, led by @CXchengxiangQIU, @bethkarenmartin & Ian Welsh of @jacksonlab. We set out to build a single cell roadmap for all of mouse prenatal development, from single cell zygote to free-living pup. Preprint: tinyurl.com/2nhe4mm9 1/n

Excited to share our preprint describing sci-Plex-GxE. A highly multiplexed workflow for combined exposure and genetic molecular screens at single-cell resolution. biorxiv.org/content/10.110…

Excited to share our preprint biorxiv.org/content/10.110… (my first)! This was an amazing collaboration with the incredibly talented and rare gem @jb_lalanne. Also indebted to a rockstar team @sdomcke @diegoisworking @bethkarenmartin @TonyLiHQ @Chase_C_Suiter @coletrapnell! 🧵(1/10)

Our latest preprint on multiomic single-cell lineage tracing is online!