Predicting Oncology Drug-Induced Cardiotoxicity with Donor-Specific iPSC-CMs – Model Verification with Doxorubicin
RNA-seq (gene expression) · human · 88 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
- 88 samples: 88 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.
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 GSE242692_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 PRJNA1014359 and SRA study SRP459240. 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 88 sample titles: 88 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.
- GSM7767108 c1060 0 µM
- GSM7767109 c1060 0.3 µM
- GSM7767110 c1060 1 µM
- GSM7767111 c1060 3 µM
- GSM7767112 c1434_1 0 µM
- GSM7767113 c1434_1 0.3 µM
- GSM7767114 c1434_1 1 µM
- GSM7767115 c1434_1 3 µM
- GSM7767116 c1434_2 0 µM
- GSM7767117 c1434_2 0.3 µM
- GSM7767118 c1434_2 1 µM
- GSM7767119 c1434_2 3 µM
- GSM7767120 c1302 0 µM
- GSM7767121 c1302 0.3 µM
- GSM7767122 c1302 1 µM
- GSM7767123 c1302 3 µM
- GSM7767124 c1324 0 µM
- GSM7767125 c1324 0.3 µM
- GSM7767126 c1324 1 µM
- GSM7767127 c1324 3 µM
- GSM7767128 c1102 0.3 µM
- GSM7767129 c1102 1 µM
- GSM7767130 c1102 3 µM
- GSM7767131 c1102 0 µM
- GSM7767132 c1120 0.3 µM
- GSM7767133 c1120 1 µM
- GSM7767134 c1120 3 µM
- GSM7767135 c1120 0 µM
- GSM7767136 c1139 0.3 µM
- GSM7767137 c1139 1 µM
- GSM7767138 c1139 3 µM
- GSM7767139 c1139 0 µM
- GSM7767140 c1159 0 µM
- GSM7767141 c1159 0.3 µM
- GSM7767142 c1159 1 µM
- GSM7767143 c1159 3 µM
- GSM7767144 c1194 0.3 µM
- GSM7767145 c1194 1 µM
- GSM7767146 c1194 3 µM
- GSM7767147 c1194 0 µM
+ 48 more — browse all 88 samples with per-sample file links →
- GSE232868 Effect of Terpenes from Poria Cocos: Verification of Therapeutic Modes of Action for Alzheimer’s Disease using Molecular Docking, Drug-induced Transcriptomes and Diffusion Network [SW1783] 21 samples shares drug-induced, verification
- GSE232862 Effect of Terpenes from Poria Cocos: Verification of Therapeutic Modes of Action for Alzheimer’s Disease using Molecular Docking, Drug-induced Transcriptomes and Diffusion Network 18 samples shares drug-induced, verification
- GSE76314 Human Induced Pluripotent Stem Cells Recapitulate Breast Cancer Patients’ Predilection to Doxorubicin-Induced Cardiotoxicity 12 samples shares cardiotoxicity, doxorubicin
- GSE247345 Colchicine Ameliorates Doxorubicin Cardiotoxicity Via Promoting Autophagic Flux 6 samples shares cardiotoxicity, doxorubicin
- GSE79413 Human induced pluripotent stem cell–derived cardiomyocytes recapitulate the predilection of breast cancer patients to doxorubicin-induced cardiotoxicity 8 samples shares cardiotoxicity, doxorubicin
- GSE275008 Blood Gene Expression Profiling in Patients with Idiosyncratic Drug-Induced Liver Injury 78 samples shares drug-induced
- GSE264120 Trastuzumab-associated cardiotoxicity in Patient Specific iPSC-derived cardiomyocytes from HER2+ breast cancer patients 74 samples shares cardiotoxicity
- GSE309795 Multiscale profiling of tyrosine kinase inhibitor cardiotoxicity reveals mechanosensitive ion channel PIEZO1 as cardioprotective [bulk RNA-seq] 72 samples shares cardiotoxicity
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.