Simon Jupp

Simon Jupp

Ontologist/Bioinformatician - Parkinson team: Samples, Phenotypes and Ontologies

Simon Jupp is a Bioinformatician in EMBL-EBI's Samples, Phenotypes and Ontologies team with a special interest in the development of ontologies and linked open data for the life sciences. The resources he works on include the EMBL-EBI's RDF platform, Experimental Factory Ontology, Cellular Microscopy Phenotype Ontology, Zooma, and the Ontology Lookup Service. Prior to joining EMBL-EBI in 2011, Simon worked in research at the University of Manchester, AstraZeneca and the European Arabidopsis Stock Centre. His undergraduate degree is in biochemistry, and he holds an MSc in Computer Science from the University of Wales, Aberystwyth.

ORCID iD: 0000-0002-0643-3144

Tel:+ 44 (0) 1223 494 664 / Fax:+ 44 (0) 1223 49 4664



The KUPNetViz: a biological network viewer for multiple -omics datasets in kidney diseases.
Moulos P, Klein J, Jupp S, Stevens R, Bascands JL, Schanstra JP.
BMC Bioinformatics Volume 14 (2013) p.235
DOI: 10.1186/1471-2105-14-235


Logical Gene Ontology Annotations (GOAL): exploring gene ontology annotations with OWL.
Jupp S, Stevens R, Hoehndorf R.
J Biomed Semantics Volume 3 Suppl 1 (2012) p.s3
DOI: 10.1186/2041-1480-3-s1-s3

The KUPKB: a novel Web application to access multiomics data on kidney disease.
Klein J, Jupp S, Moulos P, Fernandez M, Buffin-Meyer B, Casemayou A, Chaaya R, Charonis A, Bascands JL, Stevens R, Schanstra JP.
FASEB J Volume 26 (2012) p.2145-2153
DOI: 10.1096/fj.11-194381

Populous: a tool for building OWL ontologies from templates.
Jupp S, Horridge M, Iannone L, Klein J, Owen S, Schanstra J, Wolstencroft K, Stevens R.
BMC Bioinformatics Volume 13 Suppl 1 (2012) p.s5
DOI: 10.1186/1471-2105-13-s1-s5


Developing a kidney and urinary pathway knowledge base.
Jupp S, Klein J, Schanstra J, Stevens R.
J Biomed Semantics Volume 2 Suppl 2 (2011) p.s7
DOI: 10.1186/2041-1480-2-s2-s7


Issues in learning an ontology from text.
Brewster C, Jupp S, Luciano J, Shotton D, Stevens RD, Zhang Z.
BMC Bioinformatics Volume 10 Suppl 5 (2009) p.s1
DOI: 10.1186/1471-2105-10-s5-s1

A user-centred evaluation framework for the Sealife semantic web browsers.
Oliver H, Diallo G, de Quincey E, Alexopoulou D, Habermann B, Kostkova P, Schroeder M, Jupp S, Khelif K, Stevens R, Jawaheer G, Madle G.
BMC Bioinformatics Volume 10 Suppl 10 (2009) p.s14
DOI: 10.1186/1471-2105-10-s10-s14