Omics · study · 2026
Identifying transcription factors distinguishing regenerating cardiomyocytes in the zebrafish heart using single cell transcriptomics
Listed in NCBI GEO
Zebrafish hearts present a remarkable regenerative capacity upon injury, constituting a valuable source of information for cardiomyocyte (CM) cycle re-entry/proliferation.
Description
Understanding which factors contribute for zebrafish heart regeneration is crucial for developing regeneration-inducing strategies as mammalian hearts are limited in regenerative capacity. Exploring further our recently published optimized approach for increasing the single cell RNA sequencing (scRNA-seq) resolution specifically CMs, we have systematically evaluated transcription factors (TFs) defining regenerating zebrafish CMs.
Here, after the scRNA-seq analysis, we observed a CM cycling cluster exclusively present in zebrafish injured hearts, which allowed us to identify potential TFs.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE280nnn/GSE280871 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE280871 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1180955 ncbi.nlm.nih.gov/bioproject/PRJNA1180955 ↗
project · from NCBI GEO
- PubMed 42645184 pubmed.ncbi.nlm.nih.gov/42645184 ↗
publication · from NCBI GEO
Topics
- Stated by source
- Danio rerio · Expression profiling by high throughput sequencing
- From keywords
- Life Sciences
- Inferred from text
- Heart 75% · RNA sequencing 75% · Sequencing 75% · Single-cell RNA sequencing 65%
Provenance · 1 source records, 11 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE280871 | 8 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[anatomy].local:anatomy:heart | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| 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 (75%) |
| concepts[modality].local:modality:sequencing | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:single-cell-rna-seq | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[organism].NCBITaxon:7955 | 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 |