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Series GSE141716 Query DataSets for GSE141716
Status Public on Dec 16, 2022
Title The histone demethylase KDM5C represses trophoblast proliferation and invasion in woman with recurrent miscarriage [RNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary KDM5C is a H3K4- specific demethylase, which has multiple biological roles in development and disease. However, the role of KDM5C in trophoblasts at the maternal-fetal interface remains unknown. Here, we showed that KDM5C was upregulated in placental trophoblasts from patient with recurrent miscarriage (RM). Trophoblasts proliferation and invasion was inhibited by KDM5C overexpression and was enhanced by KDM5C knockdown. Interestingly, KDM5C knockdown promoted trophoblast invasion in villous explant culture system. RNA-seq and ChIP-seq analyses revealed that KDM5C exerts anti-proliferation and anti-invasion effect by directly modulating H3K4 methylation level to repress the expression of a number of key regulatory genes. We show that two of these genes, TGFβ2, RAGE, are essential for the proliferation and invasion of trophoblasts. Taken together, our results show that the KDM5C is regulator of trophoblast function during early pregnancy and indicated that KDM5C may be involved in the pathogenesis of RM.
Next Generation Sequencing Facilitates Quantitative Analysis of HTR-8/SVneo cells transduced with control or KDM5C-expression vector, and HTR-8/SVneo cells transduced with NC or KDM5C shRNA-expression vector,
Overall design mRNA profiles of HTR-8/SVneo cells were generated by deep sequencing, in triplicate, using Illumina HiSeq 2500. Raw sequence reads were initially processed using FastQC (Babraham Institute, Cambridge, UK) for quality control, and then adapter sequences and poor quality reads were removed using Cutadapt. Quality-filtered reads were then mapped to human genome (hg19) using STAR, and only the uniquely mapped reads were kept. Read counts were calculated using HTSeq-count. Differentially expressed genes were identified using R package DESeq2.
Contributor(s) Xiao M
Citation(s) 36550096
Submission date Dec 09, 2019
Last update date Jan 11, 2023
Contact name Shanhe Yu
Organization name Shanghai Institute of Hematology,Rui Jin Hospital
Street address 197# Rui Jin Road II
City Shanghai
ZIP/Postal code 200025
Country China
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (12)
GSM4212342 Vector_rep1
GSM4212343 Vector_rep2
GSM4212344 Vector_rep3
This SubSeries is part of SuperSeries:
GSE141718 The histone demethylase KDM5C represses trophoblast proliferation and invasion in woman with recurrent miscarriage
BioProject PRJNA594454
SRA SRP235382

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
GSE141716_KDM5C_shRNA-2_vs_NC_shRNA_diff.txt.gz 1.1 Mb (ftp)(http) TXT
GSE141716_KDM5C_vs_Vector_diff.txt.gz 1.1 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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