Choose wisely: Network, ontology and annotation resources for the analysis of Staphylococcus aureus omics data

Journal article


Broadbent, James A., Sampson, D. L., Broszczak, Daniel A., Upton, Z. and Huygens, Flavia 2015. Choose wisely: Network, ontology and annotation resources for the analysis of Staphylococcus aureus omics data. International Journal of Medical Microbiology. 305 (3), pp. 339 - 347. https://doi.org/10.1016/j.ijmm.2015.02.001
AuthorsBroadbent, James A., Sampson, D. L., Broszczak, Daniel A., Upton, Z. and Huygens, Flavia
Abstract

Staphylococcus aureus (S. aureus) is a prominent human and livestock pathogen investigated widely using omic technologies. Critically, due to availability, low visibility or scattered resources, robust network and statistical contextualisation of the resulting data is generally under-represented. Here, we present novel meta-analyses of freely-accessible molecular network and gene ontology annotation information resources for S. aureus omics data interpretation. Furthermore, through the application of the gene ontology annotation resources we demonstrate their value and ability (or lack-there-of) to summarise and statistically interpret the emergent properties of gene expression and protein abundance changes using publically available data. This analysis provides simple metrics for network selection and demonstrates the availability and impact that gene ontology annotation selection can have on the contextualisation of bacterial omics data.

KeywordsStaphylococcus aureus; MRSA; Omics; Molecular network; Gene ontology; Gene ontology annotation; Systems biology; Non-model organism; Bioinformatics
Year2015
JournalInternational Journal of Medical Microbiology
Journal citation305 (3), pp. 339 - 347
PublisherElsevier GmbH
ISSN1438-4221
Digital Object Identifier (DOI)https://doi.org/10.1016/j.ijmm.2015.02.001
Scopus EID2-s2.0-84955749466
Page range339 - 347
Research GroupSchool of Behavioural and Health Sciences
Place of publicationGermany
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