In Vivo Direct Reprogramming by AAV Improves Cardiac Function after Myocardial Infarction. [RNA-seq]
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 10 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
- Development of adeno-associated viral vectors targeting cardiac fibroblasts for efficient in vivo cardiac reprogrammingStem cell 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 GSE246524_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 PRJNA1033565 and SRA study SRP469129. 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 10 sample titles: 10 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.
- GSM7870480 Ctrl, replicate1, RNA-seq
- GSM7870481 Ctrl, replicate2, RNA-seq
- GSM7870482 Ctrl, replicate3, RNA-seq
- GSM7870483 Ctrl, replicate4, RNA-seq
- GSM7870484 Ctrl, replicate5, RNA-seq
- GSM7870485 4FM3, replicate1, RNA-seq
- GSM7870486 4FM3, replicate2, RNA-seq
- GSM7870487 4FM3, replicate3, RNA-seq
- GSM7870488 4FM3, replicate4, RNA-seq
- GSM7870489 4FM3, replicate5, RNA-seq
- GSE282766 VEGFA Stop-gained Variant Deteriorates Cardiac Remodeling in Myocardial Infarction [RNA-seq] 43 samples shares myocardial, infarction, cardiac, rna-seq
- GSE267256 Bulk RNA-seq analysis reveals the crucial role of Collagen triplex helix repeat containing-1 (Cthrc1) cardiac fibroblasts for ventricular remodeling after myocardial infarction 17 samples shares myocardial, infarction, cardiac, rna-seq
- GSE308914 Temporal Dynamics in Murine Cardiac Transcriptome following Myocardial Infarction 30 samples shares myocardial, infarction, cardiac
- GSE305170 Maintenance of Fibroblast Identity During Cardiac Reprogramming and Heart Repair [RNA-seq] 18 samples shares reprogramming, cardiac, rna-seq
- GSE305453 Perturb-seq uncovers pathological obstacles to direct cardiac reprogramming in vivo 15 samples shares reprogramming, cardiac, direct
- GSE304090 Pharmacological inhibition of the epigenetic enzyme EZH2 attenuates cardiac dysfunction and mitigates lipid metabolism perturbations in a murine model of myocardial infarction 15 samples shares myocardial, infarction, cardiac
- GSE263545 Resident and recruited macrophages differentially contribute to cardiac healing after myocardial ischemia [scRNA-seq] 10 samples shares myocardial, cardiac, rna-seq
- GSE267452 Loss of Nuclear Receptor Nr4a3 Alleviates Cellular Senescence to Promote Adult Direct Cardiac Reprogramming 54 samples shares reprogramming, cardiac, direct
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.