RNA-Seq analysis of cancer models with altered SLX4/XPF reveals links to migration, DNA damage response, EMT, and drug sensitivity
RNA-seq (gene expression) · human · 60 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
- 60 samples
- 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.
Read the full summary ↓
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 GSE309364_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 PRJNA1335242 and SRA study SRP628321. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 60 more — browse all 60 samples with per-sample file links →
- GSE252447 RING1 missense variants reveal sensitivity of DNA damage repair to H2A monoubiquitination dosage during neurogenesis [bulk RNA-seq] 15 samples shares sensitivity, rna-seq, damage
- GSE312017 A FOXA1/SPDEF Co-regulatory Axis Maintains Luminal Identity in HER2-Positive Breast Cancer by Driving ERBB2 Expression and Suppressing a TEAD/YAP-Driven EMT Program [RNA-Seq] 16 samples shares emt, rna-seq
- GSE316851 SETDB1-mediated repression of RhoB promotes EMT and metastatic progression in prostate cancer [RNA-Seq] 9 samples shares emt, rna-seq
- GSE336973 Col1a1 Knockdown Suppresses EMT, Migration, and Invasion of Oral Squamous Cell Carcinoma both In Vitro and In Vivo. 8 samples shares emt, migration
- GSE150910 RNA-Sequencing of Chronic hypersensitivity pneumonitis compared with Idiopathic Pulmonary Fibrosis and Control Lung 288 samples shares sensitivity, rna-seq
- GSE302717 An automated ATAC-seq method reveals sequence determinants of transcription factor dose sensitivity [RNA-seq] 246 samples shares sensitivity, rna-seq
- GSE255179 Altered RNA export by SF3B1 mutants confers sensitivity to nuclear export inhibition 92 samples shares sensitivity, altered
- GSE249544 Phenotypical states modulate sensitivity and transcriptional reprogramming in patient-derived glioblastoma cells in response to temozolomide and radiation therapy. [RNA-Seq] 48 samples shares sensitivity, rna-seq
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.