RNA-Sequencing Analysis of LNCaP Wildtype (WT) and RB-p53 CRISPR-Cas9 Double Knockout (DKO) Cells Treated with Enzalutamide
RNA-seq (gene expression) · human · 16 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
- 16 samples: 16 samples, each with a distinct title — no replicated groupsGroups 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.
- Paper
- A Genome Wide CRISPR Screen Reveals That HOXA9 Promotes Enzalutamide Resistance in Prostate CancerMolecular and cellular biology · 2024
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 GSE226978_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 PRJNA942354 and SRA study SRP426334. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 distinct titles with little repetition. 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.
- GSM7089301 LNCaP WT Replicate 1 DMSO
- GSM7089302 LNCaP WT Replicate 2 DMSO
- GSM7089303 LNCaP WT Replicate 3 DMSO
- GSM7089304 LNCaP WT Replicate 4 DMSO
- GSM7089305 RB-p53 DKO Replicate 1 DMSO
- GSM7089306 RB-p53 DKO Replicate 2 DMSO
- GSM7089307 RB-p53 DKO Replicate 3 DMSO
- GSM7089308 RB-p53 DKO Replicate 4 DMSO
- GSM7089309 LNCaP WT Replicate 1 EZ
- GSM7089310 LNCaP WT Replicate 2 EZ
- GSM7089311 LNCaP WT Replicate 3 EZ
- GSM7089312 LNCaP WT Replicate 4 EZ
- GSM7089313 RB-p53 DKO Replicate 1 EZ
- GSM7089314 RB-p53 DKO Replicate 2 EZ
- GSM7089315 RB-p53 DKO Replicate 3 EZ
- GSM7089316 RB-p53 DKO Replicate 4 EZ
- GSE303975 Transcriptomic profiling of LNCaP cells treated with enzalutamide, olaparib, or combination across multiple time points 36 samples shares enzalutamide, treated
- GSE301583 Polysome seq of treated with Enzalutamide and untreated (DMSO)prostate cancer cell line with SPEN wt and SPEN KO 30 samples shares enzalutamide, treated
- GSE255384 RNA-sequencing of alpha beta hydrolase domain 6 (ABHD6) wild type (WT) versus knockout (KO) Huh7 hepatoma cells with or without palmitic acid treatment. 24 samples shares rna-sequencing, knockout
- GSE290417 Bulk RNA-sequencing of human Crohn's disease (CD) enteroids treated with interferon-gamma (IFNγ) 20 samples shares rna-sequencing, treated
- GSE280100 RNA-sequencing analysis of differential expressed genes in TGFβ-treated HK-2 cells after HDAC11 inhibition 15 samples shares rna-sequencing, treated
- GSE290418 Bulk RNA-sequencing of human non-IBD enteroids treated with interferon-gamma (IFNγ) 12 samples shares rna-sequencing, treated
- GSE296894 RNA-sequencing of Oral Squamous Cell carcinoma cells, PE/CA-PJ41, treated with human plasma or platelet-rich-plasma (PRP) 12 samples shares rna-sequencing, treated
- GSE283148 Pol II degradation activates cell death independently from the loss of transcription [DKO_wasting_RNAseq] 30 samples shares dko
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.