The application of multi-omics and systems biology to identify therapeutic targets in chronic kidney disease.
The quest for the ideal therapeutic target in chronic kidney disease (CKD) has been riddled with many obstacles stemming from the molecular complexity of the disease and its co-morbidities. Recent advances in omics technologies and the resulting amount of available data encompassing genomics, proteomics, peptidomics, transcriptomics and metabolomics has created an opportunity for integrating omics datasets to build a comprehensive and dynamic model of the molecular changes in CKD for the purpose of biomarker and drug discovery. This article reviews relevant concepts in omics data integration using systems biology, a mathematical modelling method that globally describes a biological system on the basis of its modules and the functional connections that govern their behaviour. The review describes key databases and bioinformatics tools, as well as the challenges and limitations of the current state of the art, along with practical application to CKD therapeutic target discovery. Moreover, it describes how systems biology and visualization tools can be used to generate clinically relevant molecular models with the capability to identify specific disease pathways, recognize key events in disease development and track disease progression.
Mosaiques Diagnostics GmbH, Hannover, Germany.
Katryna
K
Cisek
Biotechnology Division, Biomedical Research Foundation Academy of Athens, Athens, Greece.|Institute for Molecular Cardiovascular Research, Universitätsklinikum RWTH Aachen, Aachen, Germany.
Magdalena
M
Krochmal
Institut National de la Santé et de la Recherche Médicale (INSERM), U1048, Toulouse, France.|Université Toulouse III Paul-Sabatier, Toulouse, France.
Julie
J
Klein
Mosaiques Diagnostics GmbH, Hannover, Germany.|BHF Glasgow Cardiovascular Research Centre, University of Glasgow, Glasgow, UK.
Harald
H
Mischak
D000818:Animals; D015415:Biomarkers / Q000032:analysis*; D019295:Computational Biology / Q000379:methods*; D016208:Databases, Factual; D023281:Genomics / Q000379:methods*; D006801:Humans; D055432:Metabolomics / Q000379:methods*; D040901:Proteomics / Q000379:methods*; D051436:Renal Insufficiency, Chronic / Q000235:genetics / Q000378:metabolism / Q000473:pathology*; D049490:Systems Biology / Q000379:methods*
D015415:Biomarkers
chronic kidney disease; data integration; omics; systems biology; therapeutic target