Omics · study · 2026
Single-cell RNA sequencing of kidney tissue from a conditional Vhlh knockout mouse model. [sc-RNA_Seq]
Listed in NCBI GEO
Clear cell renal cell carcinoma (ccRCC) is the most common and aggressive subtype of renal cancer, accounting for approximately 75% of cases.
Description
A well-established early oncogenic event in ccRCC tumorigenesis is the loss of the tumor suppressor gene von Hippel-Lindau (VHL), which occurs in roughly 80% of cases. However, deletion of Vhlh— the mouse VHL locus —alone is insufficient to drive malignant ccRCC development in mouse models.
Previously, we generated a conditional Vhlh knockout model targeting a subset of kidney epithelial cells using Hoxb7 promoter-driven Cre recombinase (Hoxb7-Cre-GFP; VhlhloxP/loxP, henceforth Vhlh-KO). This model recapitulates several features of premalignant ccRCC, including immune cell infiltration, fibrosis, epithelial hyperplasia in cortical and medullary tubules, pseudohypoxic responses (e.g., metabolic reprogramming and increased angiogenesis), and the presence of clear-cell clusters.
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As such, this strain represents a rare example of an autochthonous model of early-stage ccRCC. To further investigate the early oncogenic and microenvironmental changes that contribute to ccRCC initiation, we performed single-cell RNA sequencing (scRNA-seq) on whole kidney tissues from Vhlh-KO mice and their wild-type (WT) counterparts.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE301nnn/GSE301372 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE301372 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1284871 ncbi.nlm.nih.gov/bioproject/PRJNA1284871 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Mus musculus
- From keywords
- Life Sciences
- Inferred from text
- Cancer 75% · RNA sequencing 75% · Sequencing 75% · Single-cell RNA sequencing 75%
Provenance · 1 source records, 11 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE301372 | 14 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[disease].local:disease:cancer | 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 (75%) |
| concepts[organism].NCBITaxon:10090 | 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 |