Very excited about Nova-ST : high resolution and cost-effective spatial transcriptomics on Illumina S4 flow cells. A massive achievement by Suresh Poovathingal and his VIB-KU Leuven Center for Brain & Disease Research single-cell unit and Kristofer Davie and his single-cell bioinformatics unit. Thread from Suresh below 👇

Wanna dissect host-microbiome interactions in situ? Incredibly excited to share work from Bokai_Zhu with Garry P. Nolan, and Shalek Lab Michael Angelo YaoYu Yeo Xavier Rovira Clavé Han Chen and others

We've updated our #bioRxiv preprint investigating the potential impact of #geneexpression normalization methods with different gene panels in analysis + interpretation of #singlecell imaging-based targeted #spatialtranscriptomics data. Check it out: biorxiv.org/content/10.110… 🧵1/n

Excited to share Nicheformer! Led by Alejandro Tejada Lapuerta & Anna Schaar, Nicheformer is a foundation model for single-cell & spatial omics. Its innovation is going beyond disassociated analysis to capture & predict local tissue context at single-cell level. biorxiv.org/content/10.110…

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… 👇

check out the CREsted package if you like to model & decode genomic enhancers or design synthetic enhancers