Table 2. Some useful online research consortia and resources of relevance to urinary and renal proteomics
(Useful tools and links for proteomics generally can be found in the listings at http://www.expasy.org/links.html and
http://www.swissproteomicsociety.org/links.html)
Name
Human Kidney and Urine
Proteome Project (HKUPP)
Features
A Human Proteome (HUPO) initiative focussing on improving and standardising techniques for
proteomic analysis of urine and renal tissues. Contains datasets from LC-MS and 2D-PAGE based
proteomic characterization of major kidney tissues such as human glomerulus and links to other
databases. Main focus is on chronic kidney disease.
URL
http://www.hupo.org/research/urine/
http://hkupp.org/
European Kidney and Urine
Proteomics (EuroKUP)
European Union funded consortium with a focus on proteomic analysis of renal tissues and urine
including standardisation, bioinformatics and methodology workflows, with a focus on chronic
kidney diseases
http://eurokup.org/
World 2D-PAGE List
Index and links to 2D-gel maps and sequenced proteins for many species and fluids/cell types
including several urinary and kidney maps
http://www.expasy.ch/ch2d/2d-index.html
Sys-Body Fluid database
Body fluid proteomic databases including urine – compiled from 9 published studies of urine
proteomics containing 1941 proteins (as at August 2009)
http://www.biosino.org/bodyfluid/
Urinary Proteome database
Database of >1500 proteins found in urine from healthy donors by SDS-PAGE and LTQ-FT/LTQOrbitrap (highly specialised mass spectrometry) analysis. Part of the Max Planck Unified Proteome
Database
http://mapuproteome.com
http://141.61.102.16/urine/
National Institute of Diabetes and
Digestive and Kidney Diseases
(NIDDK) Repository for
Biosamples and Data
Human Protein Atlas
List of available samples and associated data from patient groups including several with either
primary renal disease or disease-related renal complications
http://www.niddkrepository.org/
Characterisation and reactivity of antibodies against a large number of proteins across all tissue
types including kidney, with Western blotting, immunohistochemistry and immunoflouresence
confocal microscopy images
http://www.proteinatlas.org/
Inner Medullary Collecting Duct
Protein Database (IMCD)
Collecting Duct Phosphoprotein
Database (CDPD)
Membrane Proteins Database
(IMP)
Urinary Exosome Protein Database
Database Homepage of the NHLBI Laboratory of Kidney and Electrolyte Metabolism, NIH containing
links to databases of rat and mice inner medullary collecting duct proteins, rat inner medullary
collecting duct phopshoproteins, rat inner medullary collecting duct integral and GPI-anchored
membrane proteins, and healthy human urinary exosome proteins. Links to the lab’s range of renal
transcriptome databases are also listed.
http://dir.nhlbi.nih.gov/labs/lkem/rm/
proteomics_db.asp
Kidney Development Database
Database compiled from studies of protein/gene expression in the kidney during organogenesis.
Includes listing of proteins specific for the various regions/cell types and summarises all mutations
affecting kidney development.
http://golgi.ana.ed.ac.uk/kidhome.html
European Renal Genome Project
(EuReGene)
European Union funded functional genomics consotrium focussing on genes responsible for renal
development and disease. Kidney Atlas contains images/data from gene expression and protein
localisation studies and mouse mutant phenotype data. Resources available include various cell
lines and knockout mouse lines
http://www.euregene.org
European Network for the Study of
Orphan Nephropathies
(EUNEFRON)
European Union funded consortium focussing on the natural history and pathophysiology of rare
inherited diseases of the kidney. Planned resource developments include in vitro and in vivo model
systems, tools (antibodies and probes), creation of a European registry and biobanking.
http://www.eunefron.org