Omics · study · 2026
Human DCM-time machine unravels cell state changes during primitive gut tube differentiation [RNA-seq]
Listed in NCBI GEO
Cell state changes in development and differentiation are directed by gene and enhancer activity dynamics, which are difficult to study in real time.
Description
We introduce the DCM-time machine (DCM-TM) into human induced pluripotent stem cells (iPSCs) to enable retrospective, genome-wide tracing of transcriptional activity. This system labels active genes and enhancers with DCM methylation marks that are propagated during S-phase.
Applied to iPSC differentiation towards definitive endoderm and primitive gut tube, DCM-TM resolves activity dynamics and enables integration with transcription factor networks and CpG methylation profiles. Together, DCM-TM provides a powerful platform for dissecting both healthy and pathogenic embryogenesis.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE304nnn/GSE304232 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE304232 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1299437 ncbi.nlm.nih.gov/bioproject/PRJNA1299437 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- Biochemistry and cell biology 70% · RNA sequencing 65%
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE304232 | 14 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].anzsrc:group:3101 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (70%) |
| 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[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 |