Establishment of a integrative multi-omics expression database CKDdb in the context of chronic kidney disease (CKD)

Fernandes, M. and Husi, H. (2017) Establishment of a integrative multi-omics expression database CKDdb in the context of chronic kidney disease (CKD). Scientific Reports, 7, 40367. (doi: 10.1038/srep40367) (PMID:28079125) (PMCID:PMC5227717)

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Abstract

Complex human traits such as chronic kidney disease (CKD) are a major health and financial burden in modern societies. Currently, the description of the CKD onset and progression at the molecular level is still not fully understood. Meanwhile, the prolific use of high-throughput omic technologies in disease biomarker discovery studies yielded a vast amount of disjointed data that cannot be easily collated. Therefore, we aimed to develop a molecule-centric database featuring CKD-related experiments from available literature publications. We established the Chronic Kidney Disease database CKDdb, an integrated and clustered information resource that covers multi-omic studies (microRNAs, genomics, peptidomics, proteomics and metabolomics) of CKD and related disorders by performing literature data mining and manual curation. The CKDdb database contains differential expression data from 49395 molecule entries (redundant), of which 16885 are unique molecules (non-redundant) from 377 manually curated studies of 230 publications. This database was intentionally built to allow disease pathway analysis through a systems approach in order to yield biological meaning by integrating all existing information and therefore has the potential to unravel and gain an in-depth understanding of the key molecular events that modulate CKD pathogenesis.

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Fernandes, Mr Marco and Husi, Dr Holger
Authors: Fernandes, M., and Husi, H.
College/School:College of Medical Veterinary and Life Sciences > Institute of Cardiovascular and Medical Sciences
Journal Name:Scientific Reports
Publisher:Nature Publishing Group
ISSN:2045-2322
ISSN (Online):2045-2322
Published Online:12 January 2017
Copyright Holders:Copyright © 2017 The Authors
First Published:First published in Scientific Reports 7:40367
Publisher Policy:Reproduced under a Creative Commons License

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Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
637441IMODE-CKD: Clinical and system-omics for the identification of the Molecular Determinants of established Chronic Kidney DiseaseHolger HusiEuropean Commission (EC)608332RI CARDIOVASCULAR & MEDICAL SCIENCES