Omics · study · 2026
Circadian bulk RNA-seq profiling in human cerebral organoids
Listed in NCBI GEO
Bulk mRNA sequencing was performed on human cerebral organoids derived from gene-edited H9 human embryonic stem cells to characterise circadian transcriptomic dynamics.
Description
Organoids were collected every 3 hours across 17 timepoints over a 48-hour period (GCT0–GCT48) under constant conditions, with three biological replicates per timepoint. Libraries were prepared using poly(A)+ selection with the KAPA mRNA HyperPrep kit (KK8581) and sequenced using single-end 70 bp reads on an Illumina NextSeq 2000 platform, generating approximately 40 million reads per sample.
The resulting dataset supports analyses of circadian mRNA expression and underlies the transcriptomic analyses reported in the manuscript ‘Circadian clocks time targets of disease in human brain organoids’.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE317nnn/GSE317981 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE317981 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1416245 ncbi.nlm.nih.gov/bioproject/PRJNA1416245 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- Bioinformatics and computational biology 72% · Disease 75% · RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 11 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE317981 | 13 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[disease].local:disease:disease | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].anzsrc:group:3102 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (72%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:expression-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[modality].local:modality:rna-seq | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[organism].NCBITaxon:9606 | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /taxon |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |