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Series GSE167454 Query DataSets for GSE167454
Status Public on Feb 24, 2021
Title Neural tube closure defect: Single Cell ATAC and single cell mRNA seq
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Single-cell mRNA sequencing was overlaid with single-cell ATAC sequencing of the mouse E9.5 cranial region for both wildtype and miR-302 knockout embryos, an established example of a neural tube closure defect. The goals of this study were to compare changes in gene expression and chromatin accessibility upon loss of a stem cell miRNA and neural tube closure defect.
Overall design The cranial region of E9.5 wildtype and miR-302 knockout embryos were dissociated and single cell/ single nuclei suspension was partitioned on a 10x chromium platform. One set of embryos was used for single cell mRNA and one set of embryos was used for single-cell ATAC sequencing
This Series represents scATAC-seq data.
Contributor(s) Keuls R
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Submission date Feb 24, 2021
Last update date Feb 26, 2021
Contact name Rachel Keuls
Organization name Baylor College of Medicine
Lab Ronald Parchem Lab
Street address One Baylor Plaza, Alkek N1020
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (2)
GSM5105440 Cranial tissue, E9.5 WT (ATAC-seq)
GSM5105441 Cranial tissue, E9.5 KO (ATAC-seq)
This SubSeries is part of SuperSeries:
GSE167456 Neural tube closure defect
BioProject PRJNA704678
SRA SRP307980

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
GSE167454_E9.5_KOvWT.rds.gz 116.5 Mb (ftp)(http) RDS
GSE167454_RAW.tar 10.8 Mb (http)(custom) TAR (of BED, MTX, TSV)
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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