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Series GSE128282 Query DataSets for GSE128282
Status Public on Nov 24, 2020
Title Influence of histone lysine demethylase JMJD2-specific inhibition on the senescence-associated secretory phenotype developed in human stromal cells upon DNA damage
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Recent advances in next generation sequencing (NGS) has revolutionized system-based analysis of genome-wide expression, cellular pathways and responses. We performed this epigenetic study to streamline the transcriptome profiling (RNA-seq) of human stromal cells developing a typical senescence-associated secretory phenotype (SASP) upon stress induced by DNA damage or DNA damage together with pharmacological targeting of JMJD2, a trimethylation-specific demethylase of histone H3K9 and H3K36.
Overall design Overall transcript profiles of human primary prostate stromal cells (PSC27) were generated by deep sequencing in triplicate, using Illumina NovaSeq 6000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays
Contributor(s) Sun Y, Zhang B
Citation(s) 32366480, 34263179
Boyi Zhang, Qilai Long, Shanshan Wu, Qixia Xu, Shuling Song, Liu Han, Min Qian, Xiaohui Ren, Hanxin Liu, Jing Jiang, Jianming Guo, Xiaoling Zhang, Xing Chang, Qiang Fu, Eric W-F Lam, Judith Campisi, James L Kirkland and Yu Sun. KDM4 orchestrates epigenomic remodeling of senescent cells and potentiates the senescence-associated secretory phenotype. Nat Aging 1, 454-472 (2021). doi:10.1038/s43587-021-00063-1
Submission date Mar 14, 2019
Last update date Jul 20, 2021
Contact name Yu Sun
Phone 86-21-54923302
Organization name Chinese Academy of Sciences
Department Shanghai Institute of Nutrition and Health
Lab Cancer Resistance
Street address 320 Yueyang Rd, Life Sciences Building A #1508
City Shanghai
ZIP/Postal code 200031
Country China
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (9)
GSM3670628 PSC27-C 01
GSM3670629 PSC27-C 02
GSM3670630 PSC27-C 03
BioProject PRJNA527008
SRA SRP188405

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Supplementary file Size Download File type/resource
GSE128282_DiffExp_G_BLEO.xls.gz 6.5 Mb (ftp)(http) XLS
GSE128282_DiffExp_G_BLEO_M.xls.gz 6.5 Mb (ftp)(http) XLS
GSE128282_DiffExp_G_CTRL.xls.gz 6.4 Mb (ftp)(http) XLS
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