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Integrative bioinformatics analyses identify an essential role of ZBP1 in myocardial I/R injury

GSE307385 Mus musculus (mouse) RNA-seq (gene expression) 15 samples Submitted 2025/09/08 Platform GPL21273
At a glance

RNA-seq (gene expression) · mouse · 15 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
15 samples: 5 conditions, mostly in triplicateGroups 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.
Summary (written by the submitters)
Myocardial ischemia-reperfusion (I/R) injury is the primary factor that counteracts the beneficial effects of reperfusion therapy. However, the distinct pathophysiological processes and underlying mechanisms that govern the ischemic and reperfusion phases of myocardial I/R injury remain incompletely understood. Time-series RNA-seq analyses were conducted on myocardial samples from the ischemic regions of wild-type (WT) mice after being subjected to either sham surgery or 30 minutes of ischemia followed by reperfusion (duration: 0, 1, 6, and 24 hours).
Read the full summary ↓
Principal component analysis (PCA) demonstrated a clear segregation of gene-expression profiles between the ischemic and reperfusion stages of myocardial I/R injury. Zbp1 remained unchanged at 0 hours post-I/R injury but were consistently upregulated at 1, 6, and 24 hours post-I/R injury.
This dataset
Open GSE307385 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 GSE307385_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 PRJNA1320627 and SRA study SRP617750. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 conditions, mostly in triplicate
heart tissue, Sham ×3 heart tissue, IR_0h ×3 heart tissue, IR_1h ×3 heart tissue, IR_6h ×3 heart tissue, IR_24h ×3

Supports a between-group comparison across 15 samples.

How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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
Datasets on a similar topic

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