Steven Hoffman

photo of a few Galaxy folks at the Galaxy booth at PAG

Stop by the Galaxy booth at #PAG33 to get snacks and talk with us about how we can help you get FREE, reproduceable, publishable high performance computing workflows. Currently serving hazelnut and maple cookies, plus PB cups!

Transcript-guided targeted cell enrichment for scalable single-nucleus RNA sequencing EnrichSci is an antibody-free, targeted single-nucleus RNA sequencing method that enables efficient profiling of rare cell types with full gene-body coverage. Applied to oligodendrocytes in the brain,...

Transcript-guided targeted cell enrichment for scalable single-nucleus RNA sequencing www.cell.com/cell-genomic...

I own this one - got it as a promo from MObio. Actually a good game.

NEW: Nature trained AI to predict which NIH grants from 2014 would have been cut if the Trump admin had its way back then — and what science would have been lost to history.

"The results show the damage that cuts in funding can do to research, and the unpredictable nature of the research process."

Looking for some best practices for analysis of Ultima Genomics Data: Start Here: link.ultimagenomics.com/199ff0

A newly discovered cell helps pythons poop out the bones of their prey The cells helps the snakes absorb the bones of their prey — and might show up in other animals that chomp their meals whole.

Pythons can eat an entire deer.

Whole.

And then...basically liquid comes out. NO skeleton. No BONES. Why doesn't what came out look like what went in?

The answer is sssssssspecial cells. www.sciencenews.org/article/new-...

Howdy!

Highly recommended read if you are looking into spatial transcriptomic options.

JCS poster on Leukocyte transendothelial migration hotspots at a glance

In their Cell Science at a Glance article and accompanying poster, Max Grönloh, Werner van der Meer, Merel Tebbens and Jaap van Buul describe the mechanisms regulating transendothelial and trans-pericyte leukocyte migration hotspots during inflammation.
journals.biologists.com/jcs/article/...

Interesting

About 15 yrs ago when I first started doing single-cell genomics plant scientists asked about analyzing single pollen grains - now Keygene demonstrates it!

Happy to be with Ultima today at the The Houston UGM hosted by @10xgenomics.bsky.social

Evaluation of the Ultima Genomics UG 100 sequencer for low-cost, high-sensitivity metagenomic pathogen detection from cerebrospinal fluid https://www.medrxiv.org/content/10.1101/2025.05.16.25327810v1

Barcoded monoclonal embryoids are a potential solution to confounding bottlenecks in mosaic organoid screens Genetic screens in organoids hold tremendous promise for accelerating discoveries at the intersection of genomics and developmental biology. Embryoid bodies (EBs) are self-organizing multicellular str...

Expanding Perturb-seq-like screens to multicellular systems also increases the complexity of confounding effects. We encountered this when we perturbed all TFs in mosaic embryoid bodies (EBs) and develop a scalable solution by barcoding monoclonal individuals. 🧵 www.biorxiv.org/content/10.1...

People that like crispy little cabbages (sometimes with balsamic vinegar)

Chicken wings - Brussels sprouts

Rene Hogers @keygene.com presented his work on establishing single-cell research for crop improvement at #RNGS25.
▶️Watch his video pitch to find out more.

Bonsai: Tree representations for distortion-free visualization and exploratory analysis of single-cell omics data Single-cell omics methods promise to revolutionize our understanding of gene regulatory processes during cell differentiation, but analysis of such data continues to pose a major challenge. Apart from...

Here it is! Bonsai. Now there is really no more excuse for using t-SNE/UMAP. Bonsai not only makes cool pictures of your data. It actually rigorously preserves its structure. No tunable parameters. Incredible work by @dhdegroot.bsky.social.
I'm so excited about this!
www.biorxiv.org/content/10.1...

Microscopy friends! Anyone know of an online resource that shows how to plate, fix and mount adherent cells using coverslips and slides? I'm digging online but figure I'd see if anyone already had something. TIA!

Want to use UK Biobank data to study ME/CFS? Can't decide which of the 5,354 UKB participants with evidence of ME/CFS to choose as cases? In this preprint, we consider what case/control definitions to apply. openresearch.nihr.ac.uk/articles/5-3... #pwME #mecfs

Glad we have these in the office supply cabinet in case I need to back up a quarter of a phone photo

I wish we could help more with the library prep, so many of the projects I have helped to vette have much higher costs associated with the library prep than our sequencing

🚀 Join Watchmaker Genomics at #AACR25 in Chicago!
Explore high-performance NGS library prep solutions for FFPE, cfDNA & RNA.

Check out our DNA/RNA kits, Equinox amplification, TAPS methylation analysis & quant-free library normalization.

📍Booth 3341 – let’s connect!

Need it!

Ultima Genomics Gives Away Sequencing for Free. Literally. Ultima Genomics announces that it will provide three trillion DNA sequencing reads free of charge to researchers across the United States and Canada.

I am thrilled to be a part of this initiative to help keep science moving forward. If you have samples you can get them sequenced for free with Ultima Genomics: www.genengnews.com/topics/omics...

An incredible resource that shows how Federal research funding supports your neighborhood, your neighbors.

Vevo Therapeutics Open Sources Tahoe-100M, the World's Largest Single-Cell Dataset, as the Inaugural Contribution to Arc Institute's New Virtual Cell Atlas /PRNewswire/ -- In a landmark move to advance AI-driven biological research, Arc Institute and Vevo Therapeutics announced today that they have partnered on...

Other links re: Tahoe-100M
Link to the press release: tinyurl.com/vevo-tahoe100
Link to Arc Virtual Cell atlas for download: arcinstitute.org/tools/virtua...
Link to our manuscript:

BIG NEWS! The Mosquito Cell Atlas preprint is live! 🦟🧬 My first senior author paper! Massive and accessible snRNA-seq dataset and a lot of cool mosquito biology. A true collaborative achievement! #MCA
biorxiv.org/content/10.1...
See @oliviagoldman.net thread here

#AGBT25 Ultima Workshop Video is available on-demand www.ultimagenomics.com/resources/?c...