title: Gene expression profiling of the tumor microenvironment in human intrahepatic cholangiocarcinoma.
abstract: Intrahepatic cholangiocarcinoma (ICC) is the second most common type of malignant primary tumors in the liver. ICC is an aggressive cancer with a poor survival and limited therapeutic options. At the histological level, ICC is characterized by an abundant stroma (i.e. the tumor microenvironment that notably includes components of the extracellular matrix, stromal cells and soluble factors). Tumor microenvironment is known to play a key role in tumor onset and progression but it is poorly characterized at the molecular level. Thus, this study was specifically designed to identify genes that are significantly deregulated in the tumor microenvironment of human ICC. Here we provide a detailed description of the experimental design and methods used to acquire the genomic data deposited into Gene Expression Omnibus (GEO) under the accession number GSE45001. Our genomic dataset provides insights on the molecular pathways altered in the microenvironment of ICC and allows the identification of novel ICC biomarkers, as exemplified previously in Hepatology (PMID: 23775819).
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France; CHU Rennes, F-35033 Rennes, France.
authors.forename: Laurent
authors.initials: L
authors.lastname: Sulpice
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France; CHU Rennes, Centre de Ressources Biologiques Santé, F-35033 Rennes, France.
authors.forename: Mireille
authors.initials: M
authors.lastname: Desille
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France; CHU Rennes, Centre de Ressources Biologiques Santé, F-35033 Rennes, France; CHU Rennes, Service d'Anatomie et Cytologie Pathologiques, F-35033 Rennes, France.
authors.forename: Bruno
authors.initials: B
authors.lastname: Turlin
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France.
authors.forename: Alain
authors.initials: A
authors.lastname: Fautrel
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France; CHU Rennes, F-35033 Rennes, France.
authors.forename: Karim
authors.initials: K
authors.lastname: Boudjema
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France.
authors.forename: Bruno
authors.initials: B
authors.lastname: Clément
authors.affiliation: Inserm, UMR991, Liver Metabolisms and Cancer, F-35033 Rennes, France; Université de Rennes 1, F-35043 Rennes, France.
authors.forename: Cédric
authors.initials: C
authors.lastname: Coulouarn
keywords: Cancer; Cholangiocarcinoma; Liver; Microenvironment; Profiling