ColPortal, an integrative multiomic platform for analysing epigenetic interactions in colorectal cancer

• Published in: Scientific data Vol. 6; no. 1; pp. 255 - 14
• Main Authors: Esteban-Gil, Angel, Pérez-Sanz, Fernando, García-Solano, José, Alburquerque-González, Begoña, Parreño-González, María Antonia, Legaz-García, María del Carmen, Fernández-Breis, Jesualdo Tomás, Rodriguez-Braun, Edith, Pimentel, Paola, Tuomisto, Anne, Mäkinen, Markus, Slaby, Ondrej, Conesa-Zamora, Pablo
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 31.10.2019; Nature Publishing Group
• Subjects: 631/67/1504/1885/1393; 692/53/2421; Cancer; Carcinogenesis; Colorectal cancer; Colorectal carcinoma; Colorectal Neoplasms - genetics; Data Descriptor; DNA methylation; DNA sequencing; Epigenesis, Genetic; Europe; Gene Expression Regulation, Neoplastic; Histology; Humanities and Social Sciences; Humans; Image processing; Microbiota; MicroRNAs; miRNA; multidisciplinary; Phenotypes; Photography; Science; Science (multidisciplinary); Transcriptome; Europe
• ISSN: 2052-4463; 2052-4463
• DOI: 10.1038/s41597-019-0198-z

Colorectal cancer (CRC) is the third leading cause of cancer mortality worldwide. Different pathological pathways and molecular drivers have been described and some of the associated markers are used to select effective anti-neoplastic therapy. More recent evidence points to a causal role of microbiota and altered microRNA expression in CRC carcinogenesis, but their relationship with pathological drivers or molecular phenotypes is not clearly established. Joint analysis of clinical and omics data can help clarify such relations. We present ColPortal, a platform that integrates transcriptomic, microtranscriptomic, methylomic and microbiota data of patients with colorectal cancer. ColPortal also includes detailed information of histological features and digital histological slides from the study cases, since histology is a morphological manifestation of a complex molecular change. The current cohort consists of Caucasian patients from Europe. For each patient, demographic information, location, histology, tumor staging, tissue prognostic factors, molecular biomarker status and clinical outcomes are integrated with omics data. ColPortal allows one to perform multiomics analyses for groups of patients selected by their clinical data. Measurement(s) miRNA • methylation • clinical history • histology • transcription profiling assay • microbiome Technology Type(s) DNA sequencing • clinical monitoring • RNA sequencing • amplicon sequencing • ex vivo photography with digital image analysis • methylation profiling by array Factor Type(s) tumor status Sample Characteristic - Organism Homo sapiens Machine-accessible metadata file describing the reported data: https://doi.org/10.6084/m9.figshare.9785795