Cell-Type-Specific Gene Programs of the Normal Human Nephron Define Kidney Cancer Subtypes

Lindgren, David (author): Lund University,Lunds universitet,Avdelningen för translationell cancerforskning,Institutionen för laboratoriemedicin,Medicinska fakulteten,Division of Translational Cancer Research,Department of Laboratory Medicine,Faculty of Medicine

Eriksson, Pontus (author): Lund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine

Krawczyk, Krzysztof (author): Lund University,Lunds universitet,Klinisk patologi, Malmö,Forskargrupper vid Lunds universitet,Clinical pathology, Malmö,Lund University Research Groups,Skåne University Hospital

Nilsson, Helén (author): Lund University,Lunds universitet,Klinisk patologi, Malmö,Forskargrupper vid Lunds universitet,Clinical pathology, Malmö,Lund University Research Groups,Skåne University Hospital

Hansson, Jennifer (author): Lund University,Lunds universitet,Avdelningen för translationell cancerforskning,Institutionen för laboratoriemedicin,Medicinska fakulteten,Division of Translational Cancer Research,Department of Laboratory Medicine,Faculty of Medicine

Veerla, Srinivas (author): Lund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine

Sjölund, Jonas (author): Lund University,Lunds universitet,Avdelningen för translationell cancerforskning,Institutionen för laboratoriemedicin,Medicinska fakulteten,Division of Translational Cancer Research,Department of Laboratory Medicine,Faculty of Medicine

Höglund, Mattias (author): Lund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine

Johansson, Martin E. (author): Lund University,Lunds universitet,Klinisk patologi, Malmö,Forskargrupper vid Lunds universitet,Clinical pathology, Malmö,Lund University Research Groups,Skåne University Hospital

Axelson, Håkan (author): Lund University,Lunds universitet,Avdelningen för translationell cancerforskning,Institutionen för laboratoriemedicin,Medicinska fakulteten,Division of Translational Cancer Research,Department of Laboratory Medicine,Faculty of Medicine,Skåne University Hospital

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Abstract Subject headings

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.

By the author/editor: Lindgren, David; Eriksson, Pontus; Krawczyk, Krzysz ...; Nilsson, Helén; Hansson, Jennife ...; Veerla, Srinivas; show more...; Sjölund, Jonas; Höglund, Mattias; Johansson, Marti ...; Axelson, Håkan; show less...

About the subject

NATURAL SCIENCES: NATURAL SCIENCES; and Biological Scien ...; and Bioinformatics a ...

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