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ATAC-seq of E9.5 WT and Smyd1-KO mouse hearts

GSE260690 Mus musculus Genome binding/occupancy profiling by high throughput sequencing 4 samples Submitted 2024/04/18 Platform GPL17021
Summary
Purpose: The goal of this study is to identify the differential cardiac chromatin accessibility between WT and Smyd1 null (Smyd1-KO) hearts at E9.5 using ATAC-seq. Methods: Four hearts at E9.5 were pooled per genotype per replicate, and were then dissociated into single cells. 40,000 viable cells were taken for were lysed to isolate nuclei, which were treated with Tn5 transposase (Nextera DNA Sample Prep Kit, Illumina) to isolate DNA. Fragmented DNA was then amplified using bar-coded PCR primers and libraries were seuqenced. Results: 25851 differential peaks (2-fold change) were identified between E9.5 WT and Smyd1-KO hearts.
Published in
CHD4 and SMYD1 repress common transcriptional programs in the developing heart
Shi W, Wasson LK, Dorr KM et al. · Development (Cambridge, England) 2024 · PMID 38619323 · doi:10.1242/dev.202505
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Also filed as BioProject PRJNA1082682 and SRA study SRP492834. Searching any of these in the dataset finder brings you back here.

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