Human fetal kidney organoids model early human nephrogenesis and Notch-driven cell fate
RNA-seq (gene expression) · human · 39 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
- 39 samples: 33 distinct titles, 6 of them repeatedGroups 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
- Human fetal kidney organoids model early human nephrogenesis and Notch-driven cell fateThe EMBO journal · 2025
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 GSE300015_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 PRJNA1278701 and SRA study SRP517534. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 39 sample titles: 33 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.
- GSM8374424 Replicate 1, Human Fetal kidney organoids cultured for 3 weeks
- GSM8374425 Replicate 2, Human Fetal kidney organoids cultured for 3 weeks
- GSM8374426 Replicate 3, Human Fetal kidney organoids cultured for 3 weeks
- GSM8374427 Replicate 1, Human Fetal kidney organoids passaged twice and cultured for 8 weeks
- GSM8374428 Replicate 2, Human Fetal kidney organoids passaged twice and cultured for 8 weeks
- GSM8374429 Replicate 3, Human Fetal kidney organoids passaged twice and cultured for 8 weeks
- GSM8374430 Replicate 1, Week 18 human fetal kidney tissue
- GSM8374431 Replicate 2, Week 18 human fetal kidney tissue
- GSM8374432 Replicate 3, Week 18 human fetal kidney tissue
- GSM8374433 Replicate 1, First passage of adult kidney organoids
- GSM8374434 Replicate 2, First passage of adult kidney organoids
- GSM8374435 Replicate 3, First passage of adult kidney organoids
- GSM8374436 Replicate 1, adult kidney organoids after 2 passages
- GSM8374437 Replicate 2, adult kidney organoids after 2 passages
- GSM8374438 Replicate 3, adult kidney organoids after 2 passages
- GSM8374439 Replicate 1, Adult kidney tissue after nephrectomy
- GSM8374440 Replicate 2, Adult kidney tissue after nephrectomy
- GSM8374441 Replicate 3, Adult kidney tissue after nephrectomy
- GSM8374442 Replicate 1, iPSC-derived kidney organoids at day 16 of differentiation protocol, donor 1
- GSM8374443 Replicate 2, iPSC-derived kidney organoids at day 16 of differentiation protocol, donor 1
- GSM8374444 Replicate 1, iPSC-derived kidney organoids at day 16 of differentiation protocol, donor 2
- GSM8374445 Replicate 2, iPSC-derived kidney organoids at day 16 of differentiation protocol, donor 2
- GSM9052428 Replicate 1, Human Fetal kidney organoids cultured for 3 weeks.
- GSM9052429 Replicate 2, Human Fetal kidney organoids cultured for 3 weeks.
- GSM9052430 Replicate 3, Human Fetal kidney organoids cultured for 3 weeks.
- GSM9052431 Replicate 1, P5 human Fetal kidney organoids cultured for 15 weeks
- GSM9052432 Replicate 2, P5 human Fetal kidney organoids cultured for 15 weeks
- GSM9052433 Replicate 1, P6 human Fetal kidney organoids cultured for 18 weeks, 5 months
- GSM9052434 Replicate 2, P6 human Fetal kidney organoids cultured for 18 weeks, 5 months
- GSM9052435 Replicate 1, iPSC-derived kidney organoids at day 10 of differentiation protocol
- GSM9052436 Replicate 2, iPSC-derived kidney organoids at day 10 of differentiation protocol
- GSM9052437 Replicate 3, iPSC-derived kidney organoids at day 10 of differentiation protocol
- GSM9052438 Replicate 1, iPSC-derived kidney organoids at day 18 of differentiation protocol
- GSM9052439 Replicate 2, iPSC-derived kidney organoids at day 18 of differentiation protocol
- GSM9052440 Replicate 3, iPSC-derived kidney organoids at day 18 of differentiation protocol
- GSM9054768 hFKO18
- GSM9054769 hFKO26
- GSM9058150 DMSO
- GSM9058151 DAPT
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- GSE318601 Early differential impact of MeCP2 mutations on functional networks in Rett syndrome patient-derived human cortical organoids [RNA-Seq] 8 samples shares organoids, early
- GSE315877 Metabolic surgery mitigates early kidney injury in obese youth with diabetes by suppressing mTORC1/JAK–STAT signaling 16 samples shares kidney, early
- GSE277922 Chromatin Accessibility Analysis Reveals Regulatory Dynamics in hESC-Derived Kidney Organoids 25 samples shares organoids, kidney
- GSE277967 Reconstitution of Human Brain Cell Diversity in Organoids via Four Protocols [time-course bulk RNA-seq] 768 samples shares organoids
- GSE210993 RNA sequencing of human gastrointestinal organoids and Intestinal Metaplasia (IM) organoids 103 samples shares organoids
- GSE334500 Psychotropic-drug and neurotransmitter perturbation RNA-seq of human iPSC-derived cardiac and retinal organoids (ToxiPred) 96 samples shares organoids
- GSE287174 Patient-Derived Meningioma Organoids: A Reliable Model for Studying Human Tumor Pathophysiology 65 samples shares organoids
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.