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Droplet Hi-C for Fast and Scalable Profiling of Chromatin Architecture in Single Cells biorxiv.org/cgi/content/sh… #biorxiv_genomic

Researchers Turn Illumina's NovaSeq 6000 Into Spatial Transcriptomics Instrument genomeweb.com/sequencing/res…

Happy that CellRank2 is out Nature Methods! Philipp Weiler & Marius Lange led this multimodal extension of CellRank, to allow study of cellular fate via multiview single-cell data of millions of cells in unified fashion. Text nature.com/articles/s4159… code github.com/theislab/cellr…

On bioRxiv today, we raise serious concerns over a recent @nature paper describing ReDeeM, a new single-cell mitochondrial DNA (mtDNA) sequencing / analysis method. Here are three things that you need to know: 1/n biorxiv.org/content/10.110…

Accurate quantification of single-cell and single-nucleus RNA-seq transcripts using distinguishing flanking k-mers | bioRxiv biorxiv.org/content/10.110…

Happy to see our work, Nova-ST, a new open-source platform for high-resolution spatial transcriptomics published in Cell Cell Reports Methods cell.com/cell-reports-m… 👇

Need to design your next Xenium/CosMx/Merfish experiment? Spapros, now out Nature Methods, allows for probe set selection for target spatial tx. Led by Louis Kuemmerle, it optimizes both cell type ID & within-cell type variation. nature.com/articles/s4159… github.com/theislab/spapr…

Sainsc: A Computational Tool for Segmentation‐Free Analysis of In Situ Capture Data - Müller‐Bötticher - Small Methods - Wiley Online Library onlinelibrary.wiley.com/doi/10.1002/sm…

💥🚀 Sub-cellular Imaging of the Entire Protein-Coding Human Transcriptome (#18933-plex) on FFPE Tissue Using Spatial Molecular Imaging | bioRxiv biorxiv.org/content/10.110…

The wait is over!! We are thrilled to announce that we have chosen Spatial Proteomics as 2024’s Method of the Year! 🥳 For more on Spatial Proteomics and a road map to this special issue, please see this month’s Editorial or read on in this thread. nature.com/articles/s4159…

Rahul Satija Congratulations Dr. Satija.. Epic!

Interested in single cell genomics but need help getting started? Check out my lab's Single Cell Genomics Day on April 25. Talks will feature recent exciting computational and experimental advances and will be live-streamed at satijalab.org/scgd. Please RT/spread the word!

Interested in single cell genomics but need help getting started? Check out the full agenda for our Single Cell Genomics Day on Friday 4/25. All talks will be live-streamed (no registration required) at satijalab.org/scgd25

Delighted to share our latest work deciphering the landscape of chromatin accessibility and modeling the DNA sequence syntax rules underlying gene regulation during human development! biorxiv.org/content/10.110…. Read on for more 🧵 [1/16]