Effect of depletion of ISG20 on gene expression in EMT6 mouse breast cancer cells with RNA-Seq.
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 12 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
- HIF-1-mediated ISG20 expression promotes breast cancer stemness and immune evasionThe Journal of experimental medicine · 2026
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 GSE287164_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 PRJNA1211535 and SRA study SRP557819. 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 12 sample titles: 12 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.
- GSM8740289 EMT6 cells, shNTC, 20% O2 (biol rep 1)
- GSM8740290 EMT6 cells, shNTC, 20% O2 (biol rep 2)
- GSM8740291 EMT6 cells, shNTC, 20% O2 (biol rep 3)
- GSM8740292 EMT6 cells, shNTC, 1% O2 (biol rep 1)
- GSM8740293 EMT6 cells, shNTC, 1% O2 (biol rep 2)
- GSM8740294 EMT6 cells, shNTC, 1% O2 (biol rep 3)
- GSM8740295 EMT6 cells, shISG20, 20% O2 (biol rep 1)
- GSM8740296 EMT6 cells, shISG20, 20% O2 (biol rep 2)
- GSM8740297 EMT6 cells, shISG20, 20% O2 (biol rep 3)
- GSM8740298 EMT6 cells, shISG20, 1% O2 (biol rep 1)
- GSM8740299 EMT6 cells, shISG20, 1% O2 (biol rep 2)
- GSM8740300 EMT6 cells, shISG20, 1% O2 (biol rep 3)
- GSE297298 Single-cell RNA-sequencing identifies anti-cancer immune phenotypes in the early lung metastatic niche during breast cancer 18 samples shares rna-seq, breast
- GSE300288 Single-cell and spatial transcriptomics analysis of tobacco-associated lung adenocarcinoma development, and in response to targeting inflammation alone or in combination with immune checkpoint blockade in precancerous phase [scRNA-seq] 31 samples shares rna-seq
- GSE291118 Macropinocytosis maintains CAF subtype identity under metabolic stress in pancreatic cancer [RNA-seq] 20 samples shares rna-seq
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq
- GSE277789 Spatiotemporal and genetic cell lineage tracing of endodermal organogenesis at single-cell resolution [Smart-seq3-RNA-seq-add] 830 samples shares rna-seq
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares 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.