Simon Jupp

Orcid: 0000-0002-0643-3144

According to our database1, Simon Jupp authored at least 46 papers between 2008 and 2023.

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Bibliography

2023
Features of a FAIR vocabulary.
J. Biomed. Semant., December, 2023

2022
ELIXIR biovalidator for semantic validation of life science metadata.
Bioinform., 2022

A Simple Standard for Sharing Ontological Mappings (SSSOM).
Database J. Biol. Databases Curation, 2022

2021
Open Targets Genetics: systematic identification of trait-associated genes using large-scale genetics and functional genomics.
Nucleic Acids Res., 2021

2020
The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.
Nucleic Acids Res., 2020

Expression Atlas update: from tissues to single cells.
Nucleic Acids Res., 2020

2019
BioHackathon series in 2013 and 2014: improvements of semantic interoperability in life science data and services.
F1000Research, 2019

Where Does an Ontology Start?
Proceedings of the 10th International Conference on Biomedical Ontology (ICBO 2019), Buffalo, New York, USA, July 30, 2019

2018
Human Cell Atlas Ontology.
Proceedings of the 9th International Conference on Biological Ontology (ICBO 2018), 2018

2017
Comparison, alignment, and synchronization of cell line information between CLO and EFO.
BMC Bioinform., 2017

OxO - A Gravy of Ontology Mapping Extracts.
Proceedings of the 8th International Conference on Biomedical Ontology (ICBO 2017), Newcastle-upon-Tyne, United Kingdom, September 13th, 2017

2016
Ten Simple Rules for Selecting a Bio-ontology.
PLoS Comput. Biol., 2016

Expression Atlas update - an integrated database of gene and protein expression in humans, animals and plants.
Nucleic Acids Res., 2016

Linking rare and common disease: mapping clinical disease-phenotypes to ontologies in therapeutic target validation.
J. Biomed. Semant., 2016

The cellular microscopy phenotype ontology.
J. Biomed. Semant., 2016

Webulous and the Webulous Google Add-On - a web service and application for ontology building from templates.
J. Biomed. Semant., 2016

Developing a web-based SKOS editor.
J. Biomed. Semant., 2016

Updates from the EMBL-EBI RDF platform.
Proceedings of the 9th International Conference Semantic Web Applications and Tools for Life Sciences, 2016

Biomedical Ontology Evolution in the EMBL-EBI Ontology Lookup Service.
Proceedings of the Workshops of the EDBT/ICDT 2016 Joint Conference, 2016

2015
Collaborative Ontology Development Using the Webulous Architecture and Google App.
Proceedings of the 8th Semantic Web Applications and Tools for Life Sciences International Conference, 2015

A new Ontology Lookup Service at EMBL-EBI.
Proceedings of the 8th Semantic Web Applications and Tools for Life Sciences International Conference, 2015

2014
Expression Atlas update - a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments.
Nucleic Acids Res., 2014

The EBI RDF platform: linked open data for the life sciences.
Bioinform., 2014

Capturing Provenance for a Linkset of Convenience.
Proceedings of the 4th Workshop on Linked Science 2014, 2014

2013
Stealthy annotation of experimental biology by spreadsheets.
Concurr. Comput. Pract. Exp., 2013

The KUPNetViz: a biological network viewer for multiple -omics datasets in kidney diseases.
BMC Bioinform., 2013

Putting OWL into Production at the European Bioinformatics Institute.
Proceedings of the 10th International Workshop on OWL: Experiences and Directions (OWLED 2013) co-located with 10th Extended Semantic Web Conference (ESWC 2013), 2013

2012
Designing superplastic forming process of a developmental AA5456 using pneumatic bulge test experiments and FE-simulation.
Prod. Eng., 2012

Populous: a tool for building OWL ontologies from templates.
BMC Bioinform., 2012

Logical Gene Ontology Annotations (GOAL): exploring gene ontology annotations with OWL.
J. Biomed. Semant., 2012

Semantic Web Atlas: Putting Gene Expression Data into Biological Context.
Proceedings of the 5th International Workshop on Semantic Web Applications and Tools for Life Sciences, 2012

Taking a view on bio-ontologies.
Proceedings of the 3rd International Conference on Biomedical Ontology (ICBO 2012), 2012

2011
Developing a kidney and urinary pathway knowledge base.
J. Biomed. Semant., 2011

Populous: A Tool for Populating an Ontology.
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011

Using semantic web technologies to manage complexity and change in biomedical data.
Proceedings of the 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2011

2010
Populous: A tool for populating ontology templates
CoRR, 2010

Populous: A Tool for Populating Templates for OWL Ontologies.
Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences, 2010

2009
A user-centred evaluation framework for the Sealife semantic web browsers.
BMC Bioinform., 2009

Issues in learning an ontology from text.
BMC Bioinform., 2009

Mining for Patterns of Semantic Link Usage: Do Domain Users Actually Like Semantic Browsing?
Proceedings of the 2009 IEEE/WIC/ACM International Conference on Web Intelligence and International Conference on Intelligent Agent Technology, 2009

A Flexible API and Editor for SKOS.
Proceedings of the Semantic Web: Research and Applications, 2009

2008
Using Ontologies and Vocabularies for Dynamic Linking.
IEEE Internet Comput., 2008

Knowledge Representation for Web Navigation.
Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences ( SWAT4LS ) Edinburgh, 2008

A User-Centred Evaluation Framework for the SeaLife Semantic Web Browsers.
Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences ( SWAT4LS ) Edinburgh, 2008

SKOS with OWL: Don't be Full-ish!
Proceedings of the Fifth OWLED Workshop on OWL: Experiences and Directions, 2008

Process of Building a Vocabulary for the Infection Domain.
Proceedings of the Twenty-First IEEE International Symposium on Computer-Based Medical Systems, 2008


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