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Temporal analysis of doxorubicin-induced cardiac toxicity and hypertrophy

GSE247245 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2025/06/27 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 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
Homo sapiens (human)
Samples
12 samples: 3 × AC16 cells, Control, Day6, Repeat vs 3 × AC16 cells, Doxorubicin 48 hrs, Day6, Repeat vs 3 × AC16 cells, Doxorubicin 96 hrs, Day6, Repeat vs 3 × AC16 cells, Doxorubicin 112 hrs, Day6, RepeatGroups 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
Temporal analysis of doxorubicin-induced cardiac toxicity and hypertrophyNPJ systems biology and applications · 2025
Summary (written by the submitters)
Doxorubicin (DOX) is a potent anti-cancer drug that could induce cardiotoxicity in human bodies. To elucidate the underlying mechanisms behind DOX-induced toxicity, we conducted RNA sequencing on AC16, a well-established immortalized cardiac cell line, after treating it with DOX for 2, 4, and 6 days. We then performed RNA-Seq analysis on the obtained data. Our findings reveal significant alterations in key pathways within the AC16 cells treated with DOX, including disruptions in the MAPK cascade, apoptosis, inflammation, immune response, angiogenesis, and cardiac hypertrophy.
Published in
Temporal analysis of doxorubicin-induced cardiac toxicity and hypertrophy
Lin YT, Lee YJ, Tseng WW et al. · NPJ systems biology and applications 2025 · PMID 40593928 · doi:10.1038/s41540-025-00545-7
This dataset
Open GSE247245 in finder → Find more human 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 GSE247245_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 PRJNA1035242 and SRA study SRP470008. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40593928) ↗
Study design
3 × AC16 cells, Control, Day6, Repeat vs 3 × AC16 cells, Doxorubicin 48 hrs, Day6, Repeat vs 3 × AC16 cells, Doxorubicin 96 hrs, Day6, Repeat vs 3 × AC16 cells, Doxorubicin 112 hrs, Day6, Repeat

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
Datasets on a similar topic

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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.