GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE139962 Query DataSets for GSE139962
Status Public on Mar 04, 2020
Title Impact of splicing factors (ESRP1 and KHDRBS3) on prostate cancer biology
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Dysregulation of mRNA alternative splicing (AS) has been implicated in development and progression of hematological malignancies. How the global AS dysregulation contributes to the development and progression of solid tumors remains generally unclear. Recently, we show that many splicing factors (such as ESRP1 and KHDRBS3) are overexpressed in human primary prostate cancer (PCa) versus normal tissues. To further determine the biological impact of splicing factors on PCa aggressiveness, we treated AR- PC3 cells with siRNAs against either ESRP1 or KHDRBS3 and both. RNA-seq analysis was done in triplicates of rRNA-depleted total RNAs isolated from PC3 cells 48-72hr after siRNA infection. rMATS and DEseq2 were used to reveal the effect of knocking down ESRP1 and/or KHDRBS3 individually or in combination on mRNA splicing landscape and gene expression change.
Overall design Quantification of changes in RNA splicing and gene expression in prostate cancer cells treated with siRNAs to knockdown either ESRP1 or KHDRBS3 individually and in combination.
Contributor(s) Zhang D, Hu Q, Tang DG
Citation(s) 32350277
Submission date Nov 05, 2019
Last update date May 12, 2020
Contact name Dingxiao Zhang
Phone +86-15391542415
Organization name Hunan University
Department School of BioMedical Sciences
Lab Zhang lab
Street address Yuelushan
City Changsha
State/province Hunan
ZIP/Postal code 410082
Country China
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (12)
GSM4150527 PC3-siNC-rep1
GSM4150528 PC3-siNC-rep2
GSM4150529 PC3-siNC-rep3
BioProject PRJNA587741
SRA SRP228608

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
GSE139962_siSF-PCa_DESeq2_ncount.csv.gz 2.2 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap