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Series GSE215987 Query DataSets for GSE215987
Status Public on Feb 26, 2024
Title Single-cell chromatin landscape of non-myocytes reveals AP-1 as a key transcriptional regulator contributing to highly cooperative networks among non-myocyte subtypes during zebrafish heart regeneration [Cut&Tag]
Organism Danio rerio
Experiment type Other
Summary We applied single-cell Assay for Transposase Accessible Chromatin using sequencing (scATAC-seq) to determine the intrinsic genetic programs underlying nonCM subpopulation determination during zebrafish heart regeneration at a single cell level. A total of approximately 13,000 single non-CMs derived from zebrafish hearts isolated at different time points during heart regeneration were measured and defined into diverse cell populations, exploited for cell type-specific cis-regulatory elements and enriched motifs as control catalog of downstream cell-state-determining transcription factors.
 
Overall design To assess the dynamics of chromatin lanscape of non-CMs during zebrafish heart regenration, we collected the hearts from 0, 2, 7, 14 days post amputation and lysis the nuclei to perform scATAC-seq.
 
Contributor(s) Dong Y, Wang H, Liu J
Citation(s) 38381829
Submission date Oct 18, 2022
Last update date Feb 27, 2024
Contact name LI QIAN
E-mail(s) li_qian@med.unc.edu
Phone 919 9624982
Organization name UNC
Department Department of pathology
Lab Qian Lab
Street address 111 Mason Farm Road, MBRB
City Chapel Hill
ZIP/Postal code 27517
Country USA
 
Platforms (1)
GPL21930 Illumina MiSeq (Danio rerio)
Samples (4)
GSM6652440 dpi7_CUT&Tag_H3R27ac_FB:dnAP-1_replicate1 [ROSL_T_1]
GSM6652441 dpi7_CUT&Tag_H3R27ac_FB:dnAP-1_replicate2 [ROSL_T_2]
GSM6652442 dpi7_CUT&Tag_H3R27ac_CTRL_replicate1 [WT_1]
This SubSeries is part of SuperSeries:
GSE215988 Single-cell chromatin landscape of non-myocytes reveals AP-1 as a key transcriptional regulator contributing to highly cooperative networks among non-myocyte subtypes during zebrafish heart regeneration
Relations
BioProject PRJNA891666

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE215987_RAW.tar 3.0 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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