NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
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
Other
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
E-mail(s) einari.niskanen@uef.fi
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
Relations
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
GSE83860_GROseq_LNCaP_DHT-TNFa.plus.tdf 21.6 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_DHT.minus.tdf 19.5 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_DHT.plus.tdf 21.2 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_DMSO.minus.tdf 19.6 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_DMSO.plus.tdf 21.4 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_TNFa.minus.tdf 19.7 Mb (ftp)(http) TDF
GSE83860_GROseq_LNCaP_TNFa.plus.tdf 21.4 Mb (ftp)(http) TDF
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