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Series GSE83860 Query DataSets for GSE83860
Status Public on Oct 05, 2016
Title Crosstalk between androgen and proinflammatory signaling activates a distinct transcription program in prostate cancer cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Crosstalk of androgen signaling induced with dihydrotestosterone (DHT) and proinflammatory signaling induced with tumor necrosis-factor alpha (TNFa) was analyzed in prostate cancer cells (LNCaP) by following chromatin binding of androgen receptor (AR), p65 (activating subunit of nuclear-factor kappa-B [NFkB]), FOXA1 and PIAS1+2 chromatin binding using ChIP-seq and transcriptional changes using GRO-seq.
Overall design LNCaP cells that were cultured in charchoal stripped medium were induced with DHT (100mM, 2h), TNFa (1000 U/ml, 2h) or both (DHT+TNFa), while DMSO treatment was used as a control. Chromatin binding of AR, p65, FOXA1, and PIAS (isoforms 1 and 2) were analyzed using ChIP-seq and changes in transcription was analyzed using global run-on sequencing (GRO-seq). All samples were done as biological replicates. Role of FOXA1 in chromatin binding of p65 was analyzed in FOXA1 siRNA silenced and control siRNA transfected cells using ChIP-seq.
Contributor(s) Niskanen EA, Malinen M, Kaikkonen MU, Palvimo JJ
Citation(s) 27672034
Submission date Jun 29, 2016
Last update date May 15, 2019
Contact name Einari Niskanen
Organization name University of Eastern Finland
Department School of Medicine
Lab Biomedicine
Street address Yliopistonranta 1E
City Kuopio
ZIP/Postal code 70210
Country Finland
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (46)
GSM2219848 ChIPseq_LNCaP-siFOXA1_p65_TNFa_rep1
GSM2219849 ChIPseq_LNCaP-siFOXA1_p65_TNFa_rep2
GSM2219850 ChIPseq_LNCaP-siNON_p65_TNFa_rep1
BioProject PRJNA327218
SRA SRP077580

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
GSE83860_ChIPseq_LNCaP-siFOXA1_p65_TNFa.bed.gz 98.8 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP-siNON_p65_TNFa.bed.gz 109.8 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_AR_DHT-TNFa.bed.gz 146.8 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_AR_DHT.bed.gz 243.1 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_AR_DMSO.tdf 43.6 Mb (ftp)(http) TDF
GSE83860_ChIPseq_LNCaP_AR_TNFa.tdf 42.1 Mb (ftp)(http) TDF
GSE83860_ChIPseq_LNCaP_FOXA1_DHT-TNFa.bed.gz 1.1 Mb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_FOXA1_DHT.bed.gz 572.3 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_FOXA1_DMSO.bed.gz 1.1 Mb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_FOXA1_TNFa.bed.gz 1.0 Mb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_PIAS1_DHT-TNFa.bed.gz 346.0 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_PIAS1_DHT.bed.gz 450.8 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_PIAS1_DMSO.bed.gz 441.4 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_PIAS1_TNFa.bed.gz 652.0 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_p65_DHT-TNFa.bed.gz 90.3 Kb (ftp)(http) BED
GSE83860_ChIPseq_LNCaP_p65_DHT.tdf 45.0 Mb (ftp)(http) TDF
GSE83860_ChIPseq_LNCaP_p65_DMSO.tdf 48.4 Mb (ftp)(http) TDF
GSE83860_ChIPseq_LNCaP_p65_TNFa.bed.gz 10.5 Kb (ftp)(http) BED
GSE83860_GROseq_LNCaP_DHT-TNFa.minus.tdf 19.8 Mb (ftp)(http) TDF 21.6 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_DHT.minus.tdf 19.5 Mb (ftp)(http) TDF 21.2 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_DMSO.minus.tdf 19.6 Mb (ftp)(http) TDF 21.4 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_TNFa.minus.tdf 19.7 Mb (ftp)(http) TDF 21.4 Mb (ftp)(http) TDF
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