RNA sequencing data of PC3, an androgen negative human prostate cell line, treated with estrogenic compounds
RNA-seq (gene expression) · human · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 3 × CTL vs 3 × DPN vs 3 × E2 vs 3 × PPTGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE157605_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA662218 and SRA study SRP281172. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM4771523 CTL 1 CTL
- GSM4771524 CTL 2 CTL
- GSM4771525 CTL 3 CTL
- GSM4771526 DPN 1 DPN
- GSM4771527 DPN 2 DPN
- GSM4771528 DPN 3 DPN
- GSM4771529 E2 1 E2
- GSM4771530 E2 2 E2
- GSM4771531 E2 3 E2
- GSM4771532 PPT 1 PPT
- GSM4771533 PPT 2 PPT
- GSM4771534 PPT 3 PPT
- GSE222196 Treatment of prostate cancer cell lines with Androgen Receptor and Receptor Tyrosine Kinase inhibitors 246 samples shares androgen, prostate, line
- GSE298185 RNAseq analysis of LGG275, a diffuse IDH-mutant low-grade astrocytoma cell line treated with different molecules (cytokines, compounds and coatings) plus Gb4, IDH-wildtype glioblastoma stem cell line treated with ET1 21 samples shares compounds, treated, line
- GSE256370 The estrogen and androgen responses in the immortalized human prostate cancer cell line VCaP 12 samples shares androgen, prostate, line
- GSE313838 Androgen receptor-negative prostate cancer is vulnerable to SWI/SNF-targeting degrader molecules 32 samples shares androgen, negative, prostate
- GSE279005 Effect of MIEN1-Based Peptide LA3IK on Gene Expression in EGF-Induced PC3 Prostate Cancer Cells at 0h, 30 Minutes, 1h, and 6h Time Points 25 samples shares pc3, prostate
- GSE168292 Androgen Deprivation Alters the Transcriptome of Endothelial Cells More Dramatically in Human Prostate Cancer Tissue than in Benign Prostate Tissue 127 samples shares androgen, prostate
- GSE296144 Androgenic Effects of 11-Oxygenated Androgens in Castration-Resistant Prostate Cancer 63 samples shares androgen, prostate
- GSE229394 Molecular and immune profiles linked to androgen response categories in metastatic castration-resistant prostate cancers (mCRPC) 56 samples shares androgen, prostate
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.