RNA-seq of wild-type human iPSC-derived retinal organoids at different developmental stages
RNA-seq (gene expression) · human · 18 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
- 18 samples: 6 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.
- Paper
- Domain-specific mechanisms of YAP1 variants in ocular coloboma revealed by in-vitro and organoid studiesBiochimica et biophysica acta. Molecular basis of disease · 2026
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 GSE326554_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 PRJNA1445881 and SRA study SRP688106. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM9634318 Retinal organoid day 35 batch 2 Retinal organoid day 35
- GSM9634319 Retinal organoid day 35 batch 4 Retinal organoid day 35
- GSM9634320 Retinal organoid day 35 batch 5 Retinal organoid day 35
- GSM9634321 Retinal organoid day 60 batch 2 Retinal organoid day 60
- GSM9634322 Retinal organoid day 60 batch 4 Retinal organoid day 60
- GSM9634323 Retinal organoid day 60 batch 5 Retinal organoid day 60
- GSM9634324 Retinal organoid day 90 batch 2 Retinal organoid day 90
- GSM9634325 Retinal organoid day 90 batch 4 Retinal organoid day 90
- GSM9634326 Retinal organoid day 90 batch 5 Retinal organoid day 90
- GSM9634327 Retinal organoid day 120 batch 2 Retinal organoid day 120
- GSM9634328 Retinal organoid day 120 batch 4 Retinal organoid day 120
- GSM9634329 Retinal organoid day 120 batch 5 Retinal organoid day 120
- GSM9634330 Retinal organoid day 150 batch 2 Retinal organoid day 150
- GSM9634331 Retinal organoid day 150 batch 4 Retinal organoid day 150
- GSM9634332 Retinal organoid day 150 batch 5 Retinal organoid day 150
- GSM9634333 hiPSC day 0 rep 1 hiPSC day 0
- GSM9634334 hiPSC day 0 rep 2 hiPSC day 0
- GSM9634335 hiPSC day 0 rep 3 hiPSC day 0
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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.