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Series GSE128405 Query DataSets for GSE128405
Status Public on Nov 24, 2020
Title Characterization of prostate cancer cell expression profile upon treatment with extracellular vesicles derived from senescent stromal cells in the tumor microenvironment
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 study to establish the transcriptomic profiling (RNA-seq) of human prostate cancer cells exposed to extracellular vesicles (EVs) released by stromal cells developing a typical senescence-associated secretory phenotype (SASP) in a genotoxic setting.
Overall design Overall transcript profiles of prostate cancer cell lines including PC3 and DU145 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, Han L
Citation(s) 32366480
Submission date Mar 16, 2019
Last update date Nov 24, 2020
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 (12)
GSM3673767 PC3-C 01
GSM3673768 PC3-C 02
GSM3673769 PC3-C 03
BioProject PRJNA527458
SRA SRP188590

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Supplementary file Size Download File type/resource
GSE128405_DU145_C_vs_DU145_D.deseq2.annot.txt.gz 12.8 Mb (ftp)(http) TXT
GSE128405_PC3_C_vs_PC3_D.deseq2.annot.txt.gz 12.7 Mb (ftp)(http) TXT
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Processed data are available on Series record

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