Cardiac Organoids for Modeling Hypertrophic Cardiomyopathy
RNA-seq (gene expression) · human · 16 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
- 16 samples: 16 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
- MYBPC3 D389V Variant Induces Hypercontractility in Cardiac OrganoidsCells · 2024
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 GSE262876_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 PRJNA1094569 and SRA study SRP498881. 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 16 sample titles: 16 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.
- GSM8180911 2D_mutant_1 [DD1-7851]
- GSM8180912 2D_mutant_2 [DD2-7851]
- GSM8180913 2D_mutant_3 [DD3-7851]
- GSM8180914 2D_mutant_4 [DD4-7851]
- GSM8180915 2D_nonCarrier_1 [DD9-7851]
- GSM8180916 2D_nonCarrier_2 [DD10-7851]
- GSM8180917 2D_nonCarrier_3 [DD11-7851]
- GSM8180918 2D_nonCarrier_4 [DD12-7851]
- GSM8180919 3D_mutant_1 [DD5-7851]
- GSM8180920 3D_mutant_2 [DD6-7851]
- GSM8180921 3D_mutant_3 [DD7B_7851]
- GSM8180922 3D_mutant_4 [DD8-7851]
- GSM8180923 3D_nonCarrier_1 [DD13-7851]
- GSM8180924 3D_nonCarrier_2 [DD14-7851]
- GSM8180925 3D_nonCarrier_3 [DD15-7851]
- GSM8180926 3D_nonCarrier_4 [DD16-7851]
- GSE280050 Senolytics rejuvenate aging cardiomyopathy in human cardiac organoids 15 samples shares cardiomyopathy, organoids, cardiac
- GSE249925 Human Hypertrophic Cardiomyopathy mRNA Profiling. 120 samples shares cardiomyopathy, hypertrophic
- GSE334500 Psychotropic-drug and neurotransmitter perturbation RNA-seq of human iPSC-derived cardiac and retinal organoids (ToxiPred) 96 samples shares organoids, cardiac
- GSE246299 Cardiac Fibrosis in Dilated Cardiomyopathy: Transcriptomics Insights, Histological Correlations, and Organoid Model Verifications 67 samples shares cardiomyopathy, cardiac
- GSE294532 Multi-layer stratified oncology platform utilizing transcriptomics, prostate cancer organoids, and modeling of drug response 63 samples shares organoids, modeling
- GSE299171 Hypoimmunogenic hPSC-derived cardiac organoids for immune evasion and heart repair [bulkRNA-seq] 48 samples shares organoids, cardiac
- GSE341748 3D Human iPSC-Derived Cardiac Organoids for Antifibrotic Drug Screening 12 samples shares organoids, cardiac
- GSE245825 Cardiac Fibrosis in Dilated Cardiomyopathy: Transcriptomics Insights, Histological Correlations, and Organoid Model Verifications [RNA-seq I] 58 samples shares cardiomyopathy, cardiac
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.