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This article is part of the supplement: EADGENE and SABRE Post-analyses Workshop

Open Access Research

Use of GenMAPP and MAPPFinder to analyse pathways involved in chickens infected with the protozoan parasite Eimeria

Dennis Prickett* and Michael Watson

Author Affiliations

Bioinformatics Group, Institute for Animal Health (IAH), Compton, Newbury, RG20 7NN, UK

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BMC Proceedings 2009, 3(Suppl 4):S7  doi:10.1186/1753-6561-3-S4-S7

Published: 16 July 2009



Microarrays allow genome-wide assays of gene expression. There is a need for user-friendly software to visualise and analyse these data. Analysing microarray data in the context of biological pathways is now common, and several tools exist.


We describe the use of MAPPFinder, a component of GenMAPP to characterise the biological pathways affected in chickens infected with the protozoan parasite Eimeria. Several pathways were significantly affected based on the unadjusted p-value, including several immune-system pathways.


GenMAPP/MAPPFinder provides a means to rapidly visualise pathways affected in microarray studies. However, it relies on good genome annotation and having genes reliably linked to pathway objects. We show that GenMAPP/MAPPFinder can produce useful results, and as the annotation of the chicken genome improves, so will the level of information gained.