Abstract

Colonomics is a multi-omics dataset that includes 250 samples: 50 samples from healthy colon mucosa donors and 100 paired samples from colon cancer patients (tumor/adjacent). From these samples, Colonomics project includes data from genotyping, DNA methylation, gene expression, whole exome sequencing and micro-RNAs (miRNAs) expression. It also includes data from copy number variation (CNV) from tumoral samples. In addition, clinical data from all these samples is available. The aims of the project were to explore and integrate these datasets to describe colon cancer at molecular level and to compare normal and tumoral tissues. Also, to improve screening by finding biomarkers for the diagnosis and prognosis of colon cancer. This project has its own website including four browsers allowing users to explore Colonomics datasets. Since generated data could be reuse for the scientific community for exploratory or validation purposes, here we describe omics datasets included in the Colonomics project as well as results from multi-omics layers integration.

Measurement(s)

Colon Gene expression • Colon DNA methylation • Colon Genptyping data • Colon Copy Number Variation • Colon miRNAs • Colon Whole Exome Sequencing

Technology Type(s)

Affymetrix Human Genome U219 Array Plate platform • Illumina Infinium HumanMethylation 450k BeadChip • Affymetrix Genome-Wide Human SNP 6.0 array • Small RNA Assay of the Agilent 2100 Bioanalyzer • Agilent kit Sure Select XT Human All Exon 50MB

Factor Type(s)

batch • background

Sample Characteristic - Organism

Homo sapiens

Sample Characteristic - Environment

colonic mucosa

Sample Characteristic - Location

Catalonia Autonomous Community, Spain

Details

Title
COLONOMICS - integrative omics data of one hundred paired normal-tumoral samples from colon cancer patients
Author
Díez-Villanueva, Anna 1 ; Sanz-Pamplona, Rebeca 1   VIAFID ORCID Logo  ; Solé, Xavier 2 ; Cordero, David 1 ; Crous-Bou, Marta 3 ; Guinó, Elisabet 1 ; Lopez-Doriga, Adriana 1 ; Berenguer, Antoni 4 ; Aussó, Susanna 5 ; Paré-Brunet, Laia 6 ; Obón-Santacana, Mireia 1 ; Moratalla-Navarro, Ferran 7 ; Salazar, Ramon 8 ; Sanjuan, Xavier 9 ; Santos, Cristina 8 ; Biondo, Sebastiano 10 ; Diez-Obrero, Virginia 11 ; Garcia-Serrano, Ainhoa 1 ; Alonso, Maria Henar 7 ; Carreras-Torres, Robert 1 ; Closa, Adria 12 ; Moreno, Víctor 7   VIAFID ORCID Logo 

1  Oncology Data Analytics Program, Catalan Institute of Oncology (ICO). Hospitalet de Llobregat, Barcelona, Spain (GRID:grid.417656.7); Bellvitge Biomedical Research Institute (IDIBELL). Hospitalet de Llobregat, Colorectal Cancer Group, ONCOBELL, Barcelona, Spain (GRID:grid.418284.3) (ISNI:0000 0004 0427 2257); Biomedical Research Centre Network for Epidemiology and Public Health (CIBERESP), Madrid, Spain (GRID:grid.466571.7) (ISNI:0000 0004 1756 6246) 
2  Hospital Clínic de Barcelona, Molecular Biology CORE, Center for Biomedical Diagnostics, Barcelona, Spain (GRID:grid.410458.c) (ISNI:0000 0000 9635 9413); August Pi i Sunyer Biomedical Research Institute (IDIBAPS), Translational Genomic and Targeted Therapeutics in Solid Tumors, Barcelona, Spain (GRID:grid.10403.36) (ISNI:0000000091771775) 
3  Catalan Institute of Oncology (ICO) - Bellvitge Biomedical Research Institute (IDIBELL). L’Hospitalet de Llobregat, Unit of Nutrition and Cancer, Cancer Epidemiology Research Program, Barcelona, Spain (GRID:grid.418701.b) (ISNI:0000 0001 2097 8389); Harvard T.H. Chan School of Public Health, Department of Epidemiology, Boston, USA (GRID:grid.38142.3c) (ISNI:000000041936754X) 
4  Rheumatology Department - Parc Taulí Research and Innovation Institute (I3PT), Barcelona, Spain (GRID:grid.466571.7) 
5  TIC Salut Social Foundation. Ministry of Health of Generalitat de Catalunya, Barcelona, Spain (GRID:grid.454735.4) (ISNI:0000000123317762) 
6  Reveal Genomics. S.L., Barcelona, Spain (GRID:grid.454735.4) 
7  Oncology Data Analytics Program, Catalan Institute of Oncology (ICO). Hospitalet de Llobregat, Barcelona, Spain (GRID:grid.417656.7); Bellvitge Biomedical Research Institute (IDIBELL). Hospitalet de Llobregat, Colorectal Cancer Group, ONCOBELL, Barcelona, Spain (GRID:grid.418284.3) (ISNI:0000 0004 0427 2257); Biomedical Research Centre Network for Epidemiology and Public Health (CIBERESP), Madrid, Spain (GRID:grid.466571.7) (ISNI:0000 0004 1756 6246); University of Barcelona, Department of Clinical Sciences, Faculty of Medicine and health Sciences and Universitat de Barcelona Institute of Complex Systems (UBICS), Barcelona, Spain (GRID:grid.5841.8) (ISNI:0000 0004 1937 0247) 
8  Bellvitge Biomedical Research Institute (IDIBELL). Hospitalet de Llobregat, Colorectal Cancer Group, ONCOBELL, Barcelona, Spain (GRID:grid.418284.3) (ISNI:0000 0004 0427 2257); University of Barcelona, Department of Clinical Sciences, Faculty of Medicine and health Sciences and Universitat de Barcelona Institute of Complex Systems (UBICS), Barcelona, Spain (GRID:grid.5841.8) (ISNI:0000 0004 1937 0247); Medical Oncology Department. Catalan Institute of Oncology (ICO), Hospitalet de Llobregat, Barcelona, Spain (GRID:grid.5841.8); Biomedical Research Centre Network for Oncology (CIBERONC), Madrid, Spain (GRID:grid.510933.d) (ISNI:0000 0004 8339 0058) 
9  University of Barcelona, Department of Clinical Sciences, Faculty of Medicine and health Sciences and Universitat de Barcelona Institute of Complex Systems (UBICS), Barcelona, Spain (GRID:grid.5841.8) (ISNI:0000 0004 1937 0247); Hospitalet de Llobregat, Pathology Service, Bellvitge University Hospital (HUB), Barcelona, Spain (GRID:grid.417656.7) 
10  University of Barcelona, Department of Clinical Sciences, Faculty of Medicine and health Sciences and Universitat de Barcelona Institute of Complex Systems (UBICS), Barcelona, Spain (GRID:grid.5841.8) (ISNI:0000 0004 1937 0247); Bellvitge University Hospital (HUB). Hospitalet de Llobregat, Digestive Surgery Service, Barcelona, Spain (GRID:grid.411129.e) (ISNI:0000 0000 8836 0780) 
11  Oncology Data Analytics Program, Catalan Institute of Oncology (ICO). Hospitalet de Llobregat, Barcelona, Spain (GRID:grid.417656.7); Bellvitge Biomedical Research Institute (IDIBELL). Hospitalet de Llobregat, Colorectal Cancer Group, ONCOBELL, Barcelona, Spain (GRID:grid.418284.3) (ISNI:0000 0004 0427 2257) 
12  Australian National University, The John Curtin School of Medical Research, Canberra, Australia (GRID:grid.1001.0) (ISNI:0000 0001 2180 7477); EMBL Australia Partner Laboratory Network at the Australian National University, Canberra, Australia (GRID:grid.1001.0) (ISNI:0000 0001 2180 7477) 
Publication year
2022
Publication date
2022
Publisher
Nature Publishing Group
e-ISSN
20524463
Source type
Scholarly Journal
Language of publication
English
DOI
https://doi.org/10.1038/s41597-022-01697-5
ProQuest document ID
2719938828
Copyright
© The Author(s) 2022. corrected publication 2022. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.