Mikael Marttinen
Postdoc researching gene regulation in disease || Tampere University and EMBL
- 🧬scCRISPRi screening of 65 Schizophrenia-linked TFs/ERs in iPSC NPCs/neurons to reveal their impact on gene regulatory mechanisms of neurodev! Happy to been part of the single cell tech dev/analysis of this study lead by @umut_yildiz12 from EMBL/Noh lab! www.biorxiv.org/content/10.1...
- Reposted by Mikael MarttinenSUM-seq is an ultra-high-throughput method for co-profiling chromatin accessibility and gene expression in single nuclei. @anniquec.bsky.social www.nature.com/articles/s41...
- Reposted by Mikael MarttinenSUM-seq: New single-cell method by @biomedizin.unibas.ch , @embl.org , @au.dk and Tampere university enables large-scale analysis of gene activity & DNA accessibility across millions of cells. Congrats Prof. Zaugg & collaborators! 🔗 www.nature.com/articles/s41...
- SUM-seq out @natmethods.nature.com ! 🚀 Ultra-high-throughput Multiplexed snATAC+RNA Used to: ⏳ link temporal macrophage GRNs to immune disease genetics 🩸 map T cell regulatory landscapes 🧬✂️ dissect TF function in hiPSC differentiation via CRISPRi/a screens doi.org/10.1038/s41592-025-02700-8 🧵
- Single-cell multiomics lets us infer cell type-specific GRNs: key to deciphering cell function in health/disease. GRNs however are dynamic, and inference demands data capturing a spectrum of cell states. But current multiomic assays are limited by scalability or data quality (1/)
- To address this, we present SUM-seq - embedding two-step combinatorial indexing to snATAC+RNA library construction. Combining sample-specific indexes with 10X droplet-barcoding permits significant scaling of number of samples and cells assayed in a single lane! (2/)
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View full threadThis was a long, fun project, which took the effort of many talented people (Sara Lobato, Umut Yildiz, @anniquec.bsky.social et al.) from the Zaugg and Noh labs! @embl.org @unibas.ch A detailed protocol is in the works for release. For now, check out the paper!
