Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 6
Release date: Aug 15 2013
Last update date: Oct 18 2018
Access: Public
Diseases: Neoplasms, Prostatic Neoplasms
Chemicals: Androgens
Computational protocol: Bowtie2, BEDTools, edgeR
Dataset link LncRNA-dependent mechanisms of androgen receptor-regulated gene activation programs [GRO-seq II]

Experimental Protocol


Global Run On (GRO) assay followed by high throughput sequencing (GRO-seq); after knocking-down lincRNAs PCGEM1 and PRNCR1. LNCaP cells were grown to 30-50% confluence and siRNA/ASO transfections were carried out using Lipofectamine 2000 (Invitrogen) according to the manufacturer’s instructions. Control samples were transfected with scramble ASO and control siRNA, respectively. On the following day of transfection, the cells were cultured in UltraCULTURE (Phenol red free) + 5% Charcoal Dextran Stripped (CDS) serum for 48 hours. For androgen induction, we treat cells with DHT from a 100 uM stock in 70% ethanol to a final concentration of 100 nM for 1 hour Scramble ASO, -DHT Scramble ASO, +DHT PRNCR1 ASO, -DHT PRNCR1 ASO, +DHT PCGEM1 ASO, -DHT PCGEM1 ASO, +DHT

Repositories


GEO

GSE47806

ArrayExpress

E-GEOD-47806

ENA

SRP024674

BioProject

PRJNA207828

Download


Contact


MICHAEL ROSENFELD
MICHAEL G ROSENFELD

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