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Series GSE121642 Query DataSets for GSE121642
Status Public on Oct 24, 2018
Title Histone demethylase KDM4B promotes DNA damage by activating long interspersed nuclear element-1
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We assess whole-genome H3K9me3 distribution in cancer cells and find that H3K9me3 is largely enriched in long interspersed nuclear element-1 (LINE-1). A significant proportion of KDM4B-dependent H3K9me3 was located in evolutionarily young LINE-1 elements, which likely retain retrotransposition activity. Ectopic expression of KDM4B promoted LINE-1 expression, while depletion of KDM4B reduced it. Furthermore, KDM4B overexpression enhanced LINE-1 retrotransposition efficacy, copy number, and associated DNA damage, presumably via the histone demethylase activity of KDM4B. Breast cancer cell lines expressing high levels of KDM4B also exhibited increased LINE-1 expression and copy number compared with other cell lines. Pharmacological inhibition of KDM4B significantly reduced LINE-1 expression and DNA damage in breast cancer cells with excessive KDM4B. Our study not only identifies KDM4B as a novel regulator of LINE-1, but it also suggests an unexpected oncogenic role for KDM4B overexpression in tumorigenesis, providing clues for the development of new cancer prevention strategies and therapies.
Overall design We performed H3K9me3 ChIP-seq with wild-type (WT), shKDM4B and KDM4B in MCF7 cell lines
Contributor(s) Li F, Xiang Y
Citation(s) 30459150
Submission date Oct 23, 2018
Last update date Mar 20, 2019
Contact name Xiang Ying
Organization name Wuhan University
Department medical genetics
Lab Lab LiFeng
Street address Donghu road 185
City Wuhan
ZIP/Postal code 430071
Country China
Platforms (1)
GPL20795 HiSeq X Ten (Homo sapiens)
Samples (6)
GSM3440914 WT_H3K9me3_ChIPSeq
GSM3440915 shKDM4B_H3K9me3_ChIPSeq
GSM3440916 KDM4B_H3K9me3_ChIPSeq
BioProject PRJNA497996
SRA SRP166420

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Supplementary file Size Download File type/resource
GSE121642_RAW.tar 1.5 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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