The altered protein profiles in pigmented nodular synovitis revealed the important role of epithelial-to-mesenchymal transition in disease promotion
RNA-seq (gene expression) · human · 32 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
- 32 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.
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 GSE205973_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 PRJNA848677 and SRA study SRP379860. 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.
+ 32 more — browse all 32 samples with per-sample file links →
- GSE303051 Prolonged KRAS-MAPK Inhibition Induces Interferon-mediated Epithelial-to-Mesenchymal Transition and Reveals Therapeutic Opportunities. 30 samples shares epithelial-to-mesenchymal, transition
- GSE285391 Incorporating histone H2B variants into chromatin modifies chromatin accessibility to induce the epithelial-to-mesenchymal transition in breast cancer [RNA] 28 samples shares epithelial-to-mesenchymal, transition
- GSE279017 Spatial transcriptomic analysis of head and neck squamous cell carcinoma reveals novel regulators of hybrid epithelial-to-mesenchymal transition 20 samples shares epithelial-to-mesenchymal, transition
- GSE327697 Mast cells interact directly with colorectal cancer cells to promote epithelial-to-mesenchymal transition 12 samples shares epithelial-to-mesenchymal, transition
- GSE270815 The atypical KRASQ22K mutation directs TGF-β response towards partial epithelial-to-mesenchymal transition in patient-derived colorectal cancer tumoroids 12 samples shares epithelial-to-mesenchymal, transition
- GSE263717 Epigenomic profiles of SLE resting and transitional B cells 150 samples shares transition, profiles
- GSE285390 Incorporating histone H2B variants into chromatin modifies chromatin accessibility to induce the epithelial-to-mesenchymal transition in breast cancer [CUT&RUN] 32 samples shares epithelial-to-mesenchymal, transition
- GSE285389 Incorporating histone H2B variants into chromatin modifies chromatin accessibility to induce the epithelial-to-mesenchymal transition in breast cancer [ATAC-seq] 14 samples shares epithelial-to-mesenchymal, transition
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.