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Low Input Asay for Transposase-Accessible Chromatin Identifies Epigenetic Signatures of Liver Group 1 Innate Lymphoid Cells

GSE296068 Mus musculus Genome binding/occupancy profiling by high throughput sequencing 6 samples Submitted 2025/11/18 Platform GPL34290
Summary
Epigenetic regulation is fundamental to the development, activation, and memory formation of Group 1 innate lymphoid cells (ILCs), including NK cells and ILC1s. Studying chromatin accessibility in these cells, especially from tissues, is limited by low cell numbers. Here, we present a robust, low-input bulk ATAC-seq protocol optimized for primary NK cells and ILC1s. Our improved protocol achieves high-quality libraries with as few as 5,000 cells. Applying this protocol to liver-derived NK cells and ILC1s, we identify over 30,000 differentially accessible regions, reflecting distinct epigenetic regulation. Our findings reveal key transcription factor motifs and confirm known gene accessibility patterns, highlighting functional divergence between these cell types. This accessible protocol enables reliable epigenetic profiling of rare ILC populations, improving the study of tissue-resident immunity.
Published in
Low-Input Assay for Transposase-Accessible Chromatin Identifies Epigenetic Signatures of Liver Group 1 Innate Lymphoid Cells
Schmid K, Schenk RP, Wiedemann GM · European journal of immunology 2025 · PMID 41042132 · doi:10.1002/eji.70066
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Also filed as BioProject PRJNA1257436 and SRA study SRP582478. Searching any of these in the dataset finder brings you back here.

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