TIme-cource single-cell RNA-seq analysis of bleomycin and LPS-induced lung injury and fibrosis
Single-cell RNA-seq · mouse · 18 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Mus musculus (mouse)
- Samples
- 18 samples: 18 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
- SFTPB in serum extracellular vesicles as a biomarker of progressive pulmonary fibrosisJCI insight · 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 GSE264278_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1101114 and SRA study SRP502157. 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 18 sample titles: 18 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.
- GSM8215373 Untreated_cDNA
- GSM8215374 Untreated_SampleTag
- GSM8215375 BLMday3_cDNA
- GSM8215376 BLMday3_SampleTag
- GSM8215377 BLMday7_cDNA
- GSM8215378 BLMday7_SampleTag
- GSM8215379 BLMday14_cDNA
- GSM8215380 BLMday14_SampleTag
- GSM8215381 BLMday28_cDNA
- GSM8215382 BLMday28_SampleTag
- GSM8215383 BLMday42_cDNA
- GSM8215384 BLMday42_SampleTag
- GSM8215385 BLMday63_cDNA
- GSM8215386 BLMday63_SampleTag
- GSM8215387 LPSday7day14_cDNA
- GSM8215388 LPSday7day14_SampleTag
- GSM8215389 LPSday42_cDNA
- GSM8215390 LPSday42_SampleTag
- GSE309471 Single-cell RNA sequencing of lung cells from bleomycin-induced and doxycycline-inducible TGF-β transgenic mouse models of pulmonary fibrosis 46 samples shares single-cell, bleomycin, fibrosis, lung
- GSE276682 Single-cell transcriptome analysis revealed cellular reprogramming following Tetramethylpyrazine treatment in LPS-induced acute lung injury 12 samples shares single-cell, lps-induced, injury, lung
- GSE301216 Distinct lung functional, histological and cell senescence signatures in the single vs repetitive bleomycin mouse model of idiopathic pulmonary fibrosis 53 samples shares bleomycin, fibrosis, lung
- 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 single-cell, rna-seq, lung
- GSE297298 Single-cell RNA-sequencing identifies anti-cancer immune phenotypes in the early lung metastatic niche during breast cancer 18 samples shares single-cell, rna-seq, lung
- GSE249931 Temporal single-cell profiling of distinct mesenchymal, epithelial, endothelial, and immune cell lineages in the lung after injury 17 samples shares single-cell, injury, lung
- GSE289939 Gene expression profiling of mouse lung tissue in a bleomycin-induced pulmonary fibrosis model 15 samples shares bleomycin, fibrosis, lung
- GSE274819 Single-cell RNA sequencing of murine kidneys for ischemia-reperfusion induced renal injury and fibrosis 10 samples shares single-cell, fibrosis, injury
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.