Pan-Cancer Analysis Reveals Mutation-Driven TE Dysregulation as a Contributor to Immune Suppression [RNA-seq]
RNA-seq (gene expression) · human · 14 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
- 14 samples: 6 conditions, mostly in duplicateGroups 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.
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 GSE320255_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 PRJNA1427209 and SRA study SRP678816. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 6 replicated groups read from 14 sample titles; they account for 14 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.
- GSM9538391 NUGC4,ARID1AKO,rep1 NUGC4,ARID1AKO,
- GSM9538392 NUGC4,ARID1AKO,rep2 NUGC4,ARID1AKO,
- GSM9538393 NUGC4,WT,rep1 NUGC4,WT,
- GSM9538394 NUGC4,WT,rep2 NUGC4,WT,
- GSM9538395 NUGC4,WT,rep3 NUGC4,WT,
- GSM9538396 NUGC4,WT,rep4 NUGC4,WT,
- GSM9538397 NUGC4,ARID1A,CRISPRi,vector,rep1 NUGC4,ARID1A,CRISPRi,ve…
- GSM9538398 NUGC4,ARID1A,CRISPRi,vector,rep2 NUGC4,ARID1A,CRISPRi,ve…
- GSM9538399 NUGC4,ARID1A,CRISPRi,sgRNA1,rep1 NUGC4,ARID1A,CRISPRi,sg…
- GSM9538400 NUGC4,ARID1A,CRISPRi,sgRNA1,rep2 NUGC4,ARID1A,CRISPRi,sg…
- GSM9538401 HepG2,CTNNB1,vec,rep1 HepG2,CTNNB1,vec,
- GSM9538402 HepG2,CTNNB1,vec,rep2 HepG2,CTNNB1,vec,
- GSM9538403 HepG2,CTNNB1,OE,rep1 HepG2,CTNNB1,OE,
- GSM9538404 HepG2,CTNNB1,OE,rep2 HepG2,CTNNB1,OE,
- GSE320398 Pan-Cancer Analysis Reveals Mutation-Driven TE Dysregulation as a Contributor to Immune Suppression 28 samples shares mutation-driven, dysregulation, contributor, suppression, pan-cancer
- GSE314004 Decoding Immune Dysregulation in Newly Diagnosed Cancer through integrated Single-Cell RNA-Seq, Spectral Immune Phenotyping and Machine Learning 7 samples shares dysregulation, rna-seq
- GSE289574 Multi-omics Analysis of Skeletal Muscle Identifies Dysregulation of Hypoxia-Induced Genes in Peripheral Artery Disease [RNA-seq] 40 samples shares dysregulation, rna-seq
- GSE239843 Suppression of ERK signalling promotes pluripotent epiblast in the human blastocyst [RNA-seq I] 134 samples shares suppression, rna-seq
- GSE269826 Conserved patterns of transcriptional dysregulation, heterogeneity and cell states in clear cell kidney cancer [scRNA-seq] 79 samples shares dysregulation, rna-seq
- GSE293276 Synovial Dysregulation in Ankle Osteoarthritis: Molecular Insights and Pathogenetic Pathways [RNA-Seq 1] 34 samples shares dysregulation, rna-seq
- GSE304101 Loss of ATM causes R-loop-associated transcriptional dysregulation and attenuates the related response to DNA damage [RNA-Seq] 18 samples shares dysregulation, rna-seq
- GSE244526 Wnt/β-catenin signaling regulates amino acid metabolism through the suppression of CEBPA and FOXA1 in liver cancer cells [RNA-seq] 15 samples shares suppression, 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.