GEO series

Transcriptomic study on the effect of Igf1r deficiency in control and bleomycin-challenged mouse lungs.

GSE274184 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2024/11/01 Platform GPL18480

At a glance

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, SAL, Igf1rfl/fl, biol vs 3 × Lung, SAL, CreERT2, biol vs 3 × Lung, BLM, Igf1rfl/fl, biol vs 3 × Lung, BLM, CreERT2, biolGroups 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: IGF1R deficiency mitigates acute lung injury by promoting anti-inflammatory transcriptional profilesRespiratory research · 2025

Summary (written by the submitters)

Acute lung injury (ALI), ARDS and COVID-19 usually involve a “cytokine storm”. IGF1R (Insulin-like growth factor receptor 1) maintains lung homeostasis and is implicated in these pulmonary inflammatory diseases. In mice, widespread IGF1R deficiency was reported to counteract respiratory inflammation and alveolar damage after bleomycin (BLM)-induced ALI.

Read the full summary ↓

To explore the molecular mechanisms mediated by Igf1r signaling after BLM challenge, we performed RNA-sequencing in lungs of IGF1R-deficient mice after BLM or saline (SAL) instillation. Transcriptomic analysis identified differentially expressed genes between BLM-challenged and SAL-treated control lungs, detecting biological processes and signaling pathways involved in ALI pathobiology. Igf1r depletion in BLM-challenged mice reversed large part of the transcriptional changes triggered by BLM, counteracting the transcriptomic profile of the inflammatory "cytokine storm". Data mining also identified changes in the expression of gene clusters with key roles in DNA damage, metabolic reprogramming, mitochondrial homeostasis, and epigenetics. Exploration of these functional groups, together with validation studies, provide new insights into the molecular mechanisms underlying the attenuating effect of Igf1r deficiency on ALI. These findings allow a more comprehensive view of IGF1R signaling at the transcriptional level, reinforcing its important role in promoting ALI and postulating it as a global epigenetic regulator in ARDS.

Published in

IGF1R deficiency mitigates acute lung injury by promoting anti-inflammatory transcriptional profiles

Urtubia A, Piñeiro-Hermida S, Alfaro-Arnedo E et al. · Respiratory research 2025 · PMID 41126254 · doi:10.1186/s12931-025-03339-x

This dataset

Open GSE274184 in finder → Find more mouse RNA-seq datasets →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE274184_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1145366 and SRA study SRP524884. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41126254) ↗

Study design

3 × Lung, SAL, Igf1rfl/fl, biol vs 3 × Lung, SAL, CreERT2, biol vs 3 × Lung, BLM, Igf1rfl/fl, biol vs 3 × Lung, BLM, CreERT2, biol

Supports a between-group comparison across 12 samples.

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.

Samples in this study

GSM8444779 Lung, SAL, Igf1rfl/fl, biol rep1 Lung, SAL, Igf1rfl/fl, …
GSM8444780 Lung, SAL, Igf1rfl/fl, biol rep2 Lung, SAL, Igf1rfl/fl, …
GSM8444781 Lung, SAL, Igf1rfl/fl, biol rep3 Lung, SAL, Igf1rfl/fl, …
GSM8444782 Lung, SAL, CreERT2, biol rep1 Lung, SAL, CreERT2, biol
GSM8444783 Lung, SAL, CreERT2, biol rep2 Lung, SAL, CreERT2, biol
GSM8444784 Lung, SAL, CreERT2, biol rep3 Lung, SAL, CreERT2, biol
GSM8444785 Lung, BLM, Igf1rfl/fl, biol rep1 Lung, BLM, Igf1rfl/fl, …
GSM8444786 Lung, BLM, Igf1rfl/fl, biol rep2 Lung, BLM, Igf1rfl/fl, …
GSM8444787 Lung, BLM, Igf1rfl/fl, biol rep3 Lung, BLM, Igf1rfl/fl, …
GSM8444788 Lung, BLM, CreERT2, biol rep1 Lung, BLM, CreERT2, biol
GSM8444789 Lung, BLM, CreERT2, biol rep2 Lung, BLM, CreERT2, biol
GSM8444790 Lung, BLM, CreERT2, biol rep3 Lung, BLM, CreERT2, biol

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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.