Reduced WNT4 expression in normal skin fibroblasts leads to ‘Dupuytren-like’ changes in the transcriptome
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: 6 × Normal cells patient vs 4 × Dupuytrens fibroblasts patient vs 4 × Unaffected wrist fibroblasts from dupuytren patientGroups 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 GSE269317_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 PRJNA1121200 and SRA study SRP512388. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 3 replicated groups read from 16 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.
- GSM8312976 WNT4_KO_P1 cells
- GSM8312977 WNT4_KO_P2 cells
- GSM8312978 Normal cells patient 1 Normal cells patient
- GSM8312979 Normal cells patient 2 Normal cells patient
- GSM8312980 Dupuytrens fibroblasts patient 1 Dupuytrens fibroblasts …
- GSM8312981 Unaffected wrist fibroblasts from dupuytren patient 1 Unaffected wrist fibrob…
- GSM8312982 Dupuytrens fibroblasts patient 2 Dupuytrens fibroblasts …
- GSM8312983 Unaffected wrist fibroblasts from dupuytren patient 2 Unaffected wrist fibrob…
- GSM8312984 Dupuytrens fibroblasts patient 3 Dupuytrens fibroblasts …
- GSM8312985 Unaffected wrist fibroblasts from dupuytren patient 3 Unaffected wrist fibrob…
- GSM8312986 Dupuytrens fibroblasts patient 4 Dupuytrens fibroblasts …
- GSM8312987 Unaffected wrist fibroblasts from dupuytren patient 4 Unaffected wrist fibrob…
- GSM8312988 Normal cells patient 3 Normal cells patient
- GSM8312989 Normal cells patient 4 Normal cells patient
- GSM8312990 Normal cells patient 5 Normal cells patient
- GSM8312991 Normal cells patient 6 Normal cells patient
- GSE251807 Investigation of gene expression changes in normal human dermal fibroblasts after exposure to bone marrow mesenchymal stromal cell secretome 32 samples shares fibroblasts, changes, normal
- GSE262112 Mechanical stretching of keloid and normal skin fibroblasts 20 samples shares fibroblasts, normal, skin
- GSE237690 Lupus dermal fibroblasts hyper-respond to inflammatory cytokines and exhibit a pro-fibrotic phenotype to TGF-β in patients with scarring skin disease 317 samples shares fibroblasts, skin
- GSE296007 Transcriptomic Changes in Human Pulmonary Fibroblasts Following Microplastics Exposure 24 samples shares fibroblasts, changes
- GSE239991 Identifying gene expression changes in fibroblasts treated with an inhibitor targeting MLL1-MENIN complex and depleted for MEN1 gene during reprogramming using RNA-seqeuncing 24 samples shares fibroblasts, changes
- GSE330762 Kabuki syndrome type I fibroblast multi-omics dataset: bulk RNA-seq profiles from primary skin fibroblasts 19 samples shares fibroblasts, skin
- GSE291559 Abnormal global longitudinal strain and reduced serum inflammatory markers in cardiac AL amyloidosis patients without significant amyloid fibril deposition 18 samples shares reduced, normal
- GSE231997 The use of ectopic volar fibroblasts to modify skin identity III 16 samples shares fibroblasts, skin
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.