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Database (Oxford). 2016 Sep 1;2016. pii: baw128. doi: 10.1093/database/baw128. Print 2016.

PeptiCKDdb-peptide- and protein-centric database for the investigation of genesis and progression of chronic kidney disease.

Author information

1
Biomedical Research Foundation Academy of Athens, Center of Basic Research, Athens, Greece University Hospital RWTH Aachen University, Institute for Molecular Cardiovascular Research, Aachen, Germany jjankowski@ukaachen.de.
2
University of Glasgow, BHF Glasgow Cardiovascular Research Centre, Glasgow, United Kingdom.
3
Biomedical Research Foundation Academy of Athens, Center of Basic Research, Athens, Greece Experimental Nephrology and Hypertension, Charité-Universitätsmedizin Berlin, Berlin, Germany.
4
Experimental Nephrology and Hypertension, Charité-Universitätsmedizin Berlin, Berlin, Germany Mosaiques Diagnostics GmbH, Hannover, Germany.
5
Biomedical Research Foundation Academy of Athens, Center of Basic Research, Athens, Greece.
6
Mosaiques Diagnostics GmbH, Hannover, Germany University of Glasgow, Institute of Cardiovascular and Medical Sciences, Glasgow, United Kingdom.
7
University Hospital RWTH Aachen University, Institute for Molecular Cardiovascular Research, Aachen, Germany University of Maastricht, CARIM School for Cardiovascular Diseases, Maastricht, The Netherlands jjankowski@ukaachen.de.

Abstract

The peptiCKDdb is a publicly available database platform dedicated to support research in the field of chronic kidney disease (CKD) through identification of novel biomarkers and molecular features of this complex pathology. PeptiCKDdb collects peptidomics and proteomics datasets manually extracted from published studies related to CKD. Datasets from peptidomics or proteomics, human case/control studies on CKD and kidney or urine profiling were included. Data from 114 publications (studies of body fluids and kidney tissue: 26 peptidomics and 76 proteomics manuscripts on human CKD, and 12 focusing on healthy proteome profiling) are currently deposited and the content is quarterly updated. Extracted datasets include information about the experimental setup, clinical study design, discovery-validation sample sizes and list of differentially expressed proteins (P-value < 0.05). A dedicated interactive web interface, equipped with multiparametric search engine, data export and visualization tools, enables easy browsing of the data and comprehensive analysis. In conclusion, this repository might serve as a source of data for integrative analysis or a knowledgebase for scientists seeking confirmation of their findings and as such, is expected to facilitate the modeling of molecular mechanisms underlying CKD and identification of biologically relevant biomarkers.Database URL: www.peptickddb.com.

PMID:
27589965
PMCID:
PMC5009324
DOI:
10.1093/database/baw128
[Indexed for MEDLINE]
Free PMC Article

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