Blocking antibodies against integrin-α3, -αM, and -αMβ2 de-differentiate myofibroblasts, and improve lung fibrosis and kidney fibrosis
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: 3 × lung tissue, healthy, vs 3 × lung tissue, fibrotic, vs 3 × lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin A3, vs 3 × lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin AMB2,Groups 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
- Blocking antibodies against integrin-α3, -αM, and -αMβ2 de-differentiate myofibroblasts, and improve lung fibrosis and kidney fibrosisScientific reports · 2024
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 GSE273713_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 PRJNA1142900 and SRA study SRP523601. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 6 samples read as cases, 3 as controls.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8435905 lung tissue, healthy, replicate 1 lung tissue, healthy,
- GSM8435906 lung tissue, healthy, replicate 2 lung tissue, healthy,
- GSM8435907 lung tissue, healthy, replicate 3 lung tissue, healthy,
- GSM8435908 lung tissue, fibrotic, replicate 1 lung tissue, fibrotic,
- GSM8435909 lung tissue, fibrotic, replicate 2 lung tissue, fibrotic,
- GSM8435910 lung tissue, fibrotic, replicate 3 lung tissue, fibrotic,
- GSM8435911 lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin A3, replicate 1 lung tissue, fibrotic, …
- GSM8435912 lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin A3, replicate 2 lung tissue, fibrotic, …
- GSM8435913 lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin A3, replicate 3 lung tissue, fibrotic, …
- GSM8435914 lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin AMB2, replicate1 lung tissue, fibrotic, …
- GSM8435915 lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin AMB2, replicate2 lung tissue, fibrotic, …
- GSM8435916 lung tissue, fibrotic, treated with targeted anti-fibrotic antibody against integrin AMB2, replicate3 lung tissue, fibrotic, …
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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.