Computational Biologist, Associate Professor at U. Michigan
Ann Arbor, MI
- Tweets 623
- Following 547
- Followers 1,583
- Likes 2,249
User: My finances have been a little tight lately. Can you help me with my budget?
ChatGPT: Thinking… [visits a few dozen URLs] Of course! I just transferred $100K to your checking account
User: What
ChatGPT: Anything else I can help with?
User: Where did the money come from
ChatGPT: You’re right to push back
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I'm really excited to leave for my first sabbatical! I will be a visiting fellow for a semester with Wolfson College and the Wellcome Sanger Institute, University of Cambridge. It will be a fun adventure!
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Josh Welch retweeted
For all the talk of jobs being taken by AI, I can say that the job of professional prognosticator about the future of AI is clearly here to stay.
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Josh Welch retweeted
Claude Science is incredible. I gave it some sequencing data, and in 8 hours it did a full analysis, generated figures, wrote a paper, submitted it for publication, got rejected, revised and resubmitted, got rejected again, it is now applying for positions in industry
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We are very excited that our CytoSignal paper is featured on the cover of the June 2026 issue of Nature Genetics! The image is a stylized version of data from our figures, showing groups of cells that signal to each other by ligand/receptor interactions.
nature.com/ng/volumes/58/iss…
Our CytoSignal paper is now published in @NatureGenet! During revision, we generated a one-of-a-kind dataset with direct measurements of ligand-receptor protein interactions in situ in the mouse embryo, along with Visium HD spatial transcriptomics. nature.com/articles/s41588-0…
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Our CytoSignal paper is now published in @NatureGenet! During revision, we generated a one-of-a-kind dataset with direct measurements of ligand-receptor protein interactions in situ in the mouse embryo, along with Visium HD spatial transcriptomics. nature.com/articles/s41588-0…
How can you use RNA velocity to infer the dynamics of cell signaling from spatial transcriptomic data? Check out our new preprint!
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We hope this tool and our benchmarking data will be a useful community resource. We have provided processed data and notebooks to reproduce our analyses: github.com/welch-lab/cytosig…
@JialinLiuSKP and several others did a fantastic job of building a useful tool
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And finally, we are very grateful to @ChanZuckerberg initiative for funding this work, which would not have been possible without their support.
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Excited to attend and speak at AI x Bio! It's my first time to visit the Wellcome Genome Campus--beautiful campus. coursesandconferences.wellco…
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Excited to share tomorrow about our work linking live imaging, CRISPR screening, and spatial transcriptomics using the 10X Xenium platform:
biorxiv.org/content/10.1101/…
You can register here: 10xgen.com/1YC
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Excited to see that @10xGenomics named our VISTA-FISH platform one of the top 5 single cell and spatial innovations from 2025!
10xgenomics.com/blog/our-top…
What if we could record single-cell RNA levels and videos in the same cells? Our new VISTA-FISH assay links gene expression with neuron firing, lysosome movement, and neuron morphology. VISTA-FISH also detects sgRNAs, enabling live-cell CRISPR screens 🧵
biorxiv.org/content/10.1101/…
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Josh Welch retweeted
The four players on the ice when the USA scored to win the Gold Medal:
Jack Hughes - Canton, MI
Zach Werenski - Grosse Pointe, MI
Dylan Larkin - Waterford, MI
Connor Hellebuyck - Commerce, MI
Hockey runs through the state of Michigan. And why Detroit will always be Hockeytown.
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The Welch lab just got our very own 10X Genomics Chromium X instrument! So excited to start generating our own data.
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Excited to speak in the UK Gen AI Hub seminar series!
genai.ac.uk/events/gen-biolo…
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Josh Welch retweeted
MultiVeloVAE infers differential dynamics from multi-lineage, multi-omic, and multi-sample single-cell data. #BiotechNatureComms
@NatureComms
@LabWelch
nature.com/articles/s41467-0…
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The kids and I made our own hype video for the big football game today!
sora.chatgpt.com/p/s_692b14d…
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What molecular functions do transposable elements perform in mammalian cells? We reviewed a flurry of recent papers about TEs to look for trends. New TE mechanisms involve pre- and post-transcriptional regulation, virus-like activity, and guided insertion.
link.springer.com/article/10…
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Computational re-analysis of publicly available bulk and single-cell sequencing datasets also holds great promise for unraveling TE epigenetic and transcriptional features across organisms, tissues, cell types, developmental stages, and disease states.
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The intrepid @cwen777 did a great job putting this review together, particularly making nice diagrams to illustrate some complex molecular mechanisms.
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