Håkan Axelson
Research team manager
Cell-Type-Specific Gene Programs of the Normal Human Nephron Define Kidney Cancer Subtypes
Author
Summary, in English
Comprehensive transcriptome studies of cancers often rely on corresponding normal tissue samples to serve as a transcriptional reference. In this study, we performed in-depth analyses of normal kidney tissue transcriptomes from the TCGA and demonstrate that the histological variability in cellularity, inherent in the kidney architecture, lead to considerable transcriptional differences between samples. This should be considered when comparing expression profiles of normal and cancerous kidney tissues. We exploited these differences to define renal-cell-specific gene signatures and used these as a framework to analyze renal cell carcinoma (RCC) ontogeny. Chromophobe RCCs express FOXI1-driven genes that define collecting duct intercalated cells, whereas HNF-regulated genes, specific for proximal tubule cells, are an integral part of clear cell and papillary RCC transcriptomes. These networks may be used as a framework for understanding the interplay between genomic changes in RCC subtypes and the lineage-defining regulatory machinery of their non-neoplastic counterparts.
Department/s
- Division of Translational Cancer Research
- Breastcancer-genetics
- Clinical pathology, Malmö
- BioCARE: Biomarkers in Cancer Medicine improving Health Care, Education and Innovation
Publishing year
2017-08-08
Language
English
Pages
1476-1489
Publication/Series
Cell Reports
Volume
20
Issue
6
Document type
Journal article
Publisher
Cell Press
Topic
- Bioinformatics and Systems Biology
Keywords
- cell of origin
- FOXI1
- gene expression
- HIF
- kidney
- nephron
- NHF
- RCC
- renal cell carcinoma
Status
Published
Research group
- Clinical pathology, Malmö
ISBN/ISSN/Other
- ISSN: 2211-1247