Immunopeptidome profiling in pulmonary fibrosis provides a new platform for identifying therapeutic targets
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 16 samples: 3 × TCR_NC vs 3 × TCR_VC vs 2 × BLM_Maf vs 2 × MafGroups 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
- Immunopeptidome profiling in pulmonary fibrosis provides a platform for identifying therapeutic targetsNature immunology · 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 GSE315637_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 PRJNA1398364 and SRA study SRP659815. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 10 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.
- GSM9433607 PBS_1
- GSM9433608 model_2
- GSM9433609 BLM_Maf_1 BLM_Maf
- GSM9433610 BLM_Maf_2 BLM_Maf
- GSM9433611 Maf_1 Maf
- GSM9433612 Maf_2 Maf
- GSM9433613 BLM_Apbb2
- GSM9433614 Apbb2
- GSM9433615 BLM_Tns3
- GSM9433616 Tns3
- GSM9433617 TCR_NC1 TCR_NC
- GSM9433618 TCR_NC2 TCR_NC
- GSM9433619 TCR_NC3 TCR_NC
- GSM9433620 TCR_VC1 TCR_VC
- GSM9433621 TCR_VC2 TCR_VC
- GSM9433622 TCR_VC3 TCR_VC
- GSE314584 Toll-Like-Receptor 5 Reduces Lung Dysbiosis and Protects Against Pulmonary Fibrosis 124 samples shares pulmonary, fibrosis
- GSE295426 Targeting branched-chain amino acids alleviates pulmonary fibrosis [RNA-seq] 54 samples shares pulmonary, fibrosis
- GSE301216 Distinct lung functional, histological and cell senescence signatures in the single vs repetitive bleomycin mouse model of idiopathic pulmonary fibrosis 53 samples shares pulmonary, fibrosis
- GSE338894 An orally active, gut-enriched AhR agonist demonstrates therapeutic efficacy in colitis through regulation of inflammation, barrier homeostasis, and fibrosis 50 samples shares therapeutic, fibrosis
- GSE325548 Time-resolved transcriptomic profiling of surgical wounds identifies stage-specific therapeutic targets for residual ovarian cancer 48 samples shares therapeutic, targets
- 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 pulmonary, fibrosis
- GSE308578 Consistent lack of efficacy of nintedanib in a spirometry-confirmed and bleomycin-induced mouse model of idiopathic pulmonary fibrosis 43 samples shares pulmonary, fibrosis
- GSE307419 Pulmonary fibroblast subsets demonstrate differentially enriched signaling pathways during fibrosis resolution and repair 26 samples shares pulmonary, fibrosis
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.