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IMMUcan UroCCR RCC cohort

The goal of IMMUcan is to understand how the immune system interacts with tumors and how therapeutic interventions influence this interaction. This cohort includes samples from UroCCR, the French Research Network on Kidney Cancer, a multi-institutional database established to advance the understanding and treatment of kidney cancer. Comprehensive profiling data are integrated with longitudinally collected clinical information. Cellular profiling of the same tumor samples was performed using multiplex immunofluorescence imaging, imaging mass cytometry, and H&E staining.

Type: Cancer Genomics
Archive: European Genome-phenome Archive (EGA)

2 Datasets

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD50000002946	The IMMUcan project aims to characterize the interactions between the immune system and tumors, and to evaluate how therapeutic interventions modulate these interactions. This cohort includes patients enrolled in UroCCR, the French Research Network on Kidney Cancer, a multicenter database established to advance kidney cancer research and improve patient care.This dataset contains transcriptomics data processed with the STAR pipeline. Two sequencing kits were employed: Roche KAPA for high-quality RNA samples and Takara SMART-Seq Stranded for samples with limited RNA quantities. It contains gene-level counts.	Illumina Genome Analyzer II	245
EGAD50000002947	The IMMUcan project aims to characterize the interactions between the immune system and tumors, and to evaluate how therapeutic interventions modulate these interactions. This cohort includes patients enrolled in UroCCR, the French Research Network on Kidney Cancer, a multicenter database established to advance kidney cancer research and improve patient care. This dataset contains whole-exome sequencing (WES) data generated from tumor samples and processed using the Vegan pipeline. The analysis includes both single-nucleotide variant (SNV) and copy number variant (CNV) calling. As no matched germline samples were available, somatic variant calling was performed using sex-specific Panels of Normals (PoNs), one for male and one for female samples. These PoNs were generated from germline samples of IMMUcan participants and applied according to GATK best-practice recommendations for somatic analysis without matched normal samples (https://gatk.broadinstitute.org/hc/en-us/articles/360037058172-CreateSomaticPanelOfNormals-BETA).	Illumina Genome Analyzer II	246