Text · study · 2026
Identification of osteopontin as a positional and functional candidate gene for cardiac hypertrophy in the SHRSP rat
Listed in NCBI GEO
Left ventricular mass is a highly heritable, polygenic trait and linkage studies in WKY and SHRSP rats identified a quantitative trait locus for left ventricular mass index on chromosome 14.
Description
Congenic strains, where trait-associated genetic loci are introduced into “healthy backgrounds, identify causal mediators relevant to human disease. Chromosome 14 congenic (WKY.SPGla14a), WKY, and SHRSP strains underwent cardiac phenotyping and transcriptome profiling at; 1-3 days (neonate), 5 weeks, and 16-weeks).
Gene expression was assessed in the whole heart of 1-day neonate rats, and the LV of 5 and 16 week rats (N=3/strain) using the RatRef-12 v1.0 microarray chip (Illumina). Whole hearts from 1-day neonate animals were collected, weighted and snap frozen for RNA extraction. LV was snap frozen following dissection and weighting from 5 and 16 week rats.
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RNA was extracted from frozen heart/LV tissue using RNeasy kits according to the manufacturer’s protocol (Qiagen). Biotinylated amplified target cDNA was prepared and hybridised to the chip.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE344nnn/GSE344388 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE344388 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1515521 ncbi.nlm.nih.gov/bioproject/PRJNA1515521 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by array · Rattus norvegicus
- From keywords
- Life Sciences
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE344388 | 15 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[disease].local:disease:disease | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].anzsrc:group:3105 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (69%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:expression-profiling-by-array | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[organism].NCBITaxon:10116 | 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 |