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Series GSE139413 Query DataSets for GSE139413
Status Public on May 11, 2022
Title EED is required for Mouse Primordial Germ Cell Differentiation in the Embryonic Gonad
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Summary Development of Primordial germ cells (PGCs) is required for reproduction. During PGC development in mammals, major epigenetic remodeling occurs which is hypothesized to establish an epigenetic landscape for sex-specific germ cell differentiation and gametogenesis. In order to address the role of Embryonic Ectoderm Development (EED) and Histone 3 lysine 27 trimethylation (H3K27me3) in this process, we created a conditional deletion in EED and show that EED is essential for regulating the timing of sex-specific PGC differentiation in both ovaries and testes, as well as X chromosome dosage decompensation in testes. Integrating chromatin and whole genome bisulfite sequencing of epiblast and PGCs, we identified a poised repressive signature of H3K27me3/DNA methylation which we propose is established in the epiblast where EED and DNMT1 interact. Thus, EED joins DNMT1 in regulating the timing of sex-specific PGC differentiation during the critical window when the gonadal niche cells specialize into an ovary or testis.
Overall design Examination of Transcription and DNA methylation in control and PGC-specific EED conditional knockout primordial germ cells
Contributor(s) Lowe M, Yen M, Hsu F, Hosohama L, Hu Z, Chitiashvili T, Hunt T, Gorgy I, Bernard M, Wamaitha S, Chen P, Clark AT
Citation(s) 35679863
Submission date Oct 25, 2019
Last update date Aug 10, 2022
Contact name Pao-Yang Chen
Organization name Academia Sinica
Department Institute of Plant and Microbial Biology
Lab Pao-Yang Chen
Street address 128 Sec. 2, Academia Rd, Nankang,
City Taipei
ZIP/Postal code 115
Country Taiwan
Platforms (3)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (222)
GSM5504847 RNA-seq_E11.5_XY_Control_Rep_1
GSM5504848 RNA-seq_E11.5_XY_Control_Rep_2
GSM5504849 RNA-seq_E11.5_XY_Control_Rep_3
BioProject PRJNA579580
SRA SRP227031

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
GSE139413_E11_5_female_counts.txt.gz 216.6 Kb (ftp)(http) TXT
GSE139413_E11_5_male_counts.txt.gz 284.0 Kb (ftp)(http) TXT
GSE139413_E13_5_male_counts.txt.gz 246.5 Kb (ftp)(http) TXT
GSE139413_MattLowe5704_female_counts.txt.gz 989.8 Kb (ftp)(http) TXT
GSE139413_MattLowe5704_male_counts.txt.gz 1.1 Mb (ftp)(http) TXT
GSE139413_RAW.tar 435.5 Mb (http)(custom) TAR (of CGMAP)
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Raw data are available in SRA
Processed data are available on Series record

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