Dylan Webster

Check out what's next for 10x Genomics across #singlecell, #spatialbiology, and software!

#singlecell has come a long way. But we're also just getting started!

👀🤯

👀 Spotted in the wild! The official 10x Genomics account has landed on Bluesky.

Want to help build software that enables researchers to answer biology’s hardest and most elusive questions? Do so as Senior Product Manager, Cloud Visualization Software at
10x Genomics!

boards.greenhouse.io/10xgenomics/...

#singlecell #spatialbiology #hiring #productmanagement #TechJobs

Kudos to the Xenium Explorer team at 10x Genomics for consistently upleveling what's possible out of the box for Xenium analysis!

Check out our analysis page to see all Xenium analysis improvements! bit.ly/4flCNSu

#spatialbiology #insitu #singlecellspatial #bioinformatics

Want to help build software that enables researchers to answer biology’s hardest and most elusive questions? Do so as Senior Product Manager, Cloud Visualization Software at
10x Genomics!

boards.greenhouse.io/10xgenomics/...

#singlecell #spatialbiology #hiring #productmanagement #TechJobs

Emilie Schario says today's data tooling and LLMs make it so everyone can be a "data hire" 📊

Emilie Schario on making all your hires a ‘data hire’ | Signals & Stories Insights for digital builders

Really good blog post!

"... [T]he answer isn’t SQL expertise; it’s curiosity... Remember, a data hire isn't just a job title; it's a mindset."

mixpanel.com/blog/emilie-...

Sainsc: A Computational Tool for Segmentation‐Free Analysis of In Situ Capture Data Spatially resolved transcriptomics methods can now profile the entire transcriptome, at full organism scale with nanometre resolution. Analysis frameworks that can efficiently and intuitively process....

Check out our new tools for #SpatialTranscriptomics. It's called Sainsc: onlinelibrary.wiley.com/doi/10.1002/....
#Sainsc can map cell types in high resolution spatial transcriptomics data, without segmenting cells! It's light weight, fast, and easy to use: sainsc.readthedocs.io/tutorials/in...

Wow!

Extremely cool application of the Flex chemistry!

Check out our updated scatterbar package for visualizing proportional data across spatial coordinates like deconvolved cell types in #spatialtranscriptomics using stacked bar plots (alternative to scatterpies)!

Preprint: www.biorxiv.org/content/10.1...
Code: github.com/JEFworks-Lab...

#dataviz

And now you can try the automated cell annotation directly in Cell Ranger 9!

www.10xgenomics.com/support/soft...

#singlecell #bioinformatics #genomics

Infographic of the Cell Annotation Service

Super excited about this cell typing collab between 10x Genomics and the Broad. broad.io/CAS-News

Try it for free on cloud.10xgenomics.com/cloud-analysis and look out for more in the next Cell Ranger release coming imminently ;) (Let us know what you think!)

#singlecell #bioinformatics #genomics

Overview of the roadmap for 10x Genomics data analysis

Did you know that 10x Genomics publishes intros, tutorials, and blogs that help navigate the journey to publish #SingleCell, Visium #SpatialTranscriptomics and Xenium #singlecellspatial data? Check out the Analysis Guides!

www.10xgenomics.com/resources/an...

#Genomics #Bioinformatics

You can also check out the public datasets that show this plexy: www.10xgenomics.com/resources/da...

There are 18,536 genes in the human probe set and 20,551 in the mouse probe set.
This page also documents the Human Immune Cell Profiling Panel Antibody List for simultaneous readout of 35 proteins on Visium: www.10xgenomics.com/support/spat...

Hi Albert, this document has an overview of both the poly(A) capture approach for FF and the probe based approach for FFPE: www.10xgenomics.com/resources/do...

This page has detailed documentation of the FFPE probe sets (click through to the individual pages: www.10xgenomics.com/support/spat...

Download Loupe Browser - Official 10x Genomics Support Loupe Browser is a powerful visualization software that provides intuitive analysis functionality you need to explore your 10x Genomics data.

Download the new Loupe here:
www.10xgenomics.com/support/soft...
Our goal is to accelerate your journey to experimental insights, and we hope you give Loupe 7 & and LoupeR a spin to see for yourself!

And check out how the redesigned Loupe user interface makes it simple to visualize the expression of your favorite genes!

The feature I’m most excited about: Finding target genes in your experiment just got easier with the new multi-sample differential expression in Loupe 7

Want to analyze Seurat data without code? Use the new 10x Genomics LoupeR package to move your data into the new Loupe 7. It sports a redesigned UI, and includes new features that put publication-ready figures just a few clicks away!

#genomics #singlecell

Finally, review the recommendations for optimal assay performance. Either accept the recommendations or iterate as needed. At the end of the workflow, your panel is ready to be ordered and manufactured. Check it out for yourself!
cloud.10xgenomics.com/xenium-panel...

Next, paste the list of genes you want to include. You can easily clean up the list to resolve any ambiguous gene names, etc. Then start building the design when you’re done.

Easily design 10x Genomics #singlecellspatial custom panels with the new #Xenium Panel Designer: Start with a pre-designed panel, or build a standalone custom panel (up to 480 plex). Design against curated references from CELLxGENE and GEO or bring your own references.

Xenium Analysis - 10x Genomics The Xenium In Situ platform enables high-throughput subcellular mapping of 100s to 1,000s of RNA targets alongside multiplexed protein, revealing new insights into cellular structure and function. The...

Read all about how Xenium analysis shortens the path to insight at www.10xgenomics.com/products/xen...

Use the per-gene localization gallery to fly through expression of each individual gene.

If you do H&E on the same section as your Xenium run, XE 1.2 also provides an intuitive workflow to align and overlay H&E in the Xenium coordinate space so you can see sub-cellular gene expression on top of your histopathological ground truth.

The Xenium Explorer screenshot represents exactly what can be visualized directly following a Xenium instrument run—where transcripts are decoded, cells are segmented, and graph-based clustering is computed as soon as the run is done with Xenium Onboard Analysis.