TY - JOUR
T1 - Construction of a large scale integrated map of macrophage pathogen recognition and effector systems
AU - Raza, Sobia
AU - McDerment, Neil
AU - Lacaze, Paul A.
AU - Robertson, Kevin
AU - Watterson, Steven
AU - Chen, Ying
AU - Chisholm, Michael
AU - Eleftheriadis, George
AU - Monk, Stephanie
AU - O'Sullivan, Maire
AU - Turnbull, Arran
AU - Roy, Douglas
AU - Theocharidis, Athanasios
AU - Ghazal, Peter
AU - Freeman, Tom C.
PY - 2010/5/14
Y1 - 2010/5/14
N2 - Background: In an effort to better understand the molecular networks that underpin macrophage activation we have been assembling a map of relevant pathways. Manual curation of the published literature was carried out in order to define the components of these pathways and the interactions between them. This information has been assembled into a large integrated directional network and represented graphically using the modified Edinburgh Pathway Notation (mEPN) scheme.Results: The diagram includes detailed views of the toll-like receptor (TLR) pathways, other pathogen recognition systems, NF-kappa-B, apoptosis, interferon signalling, MAP-kinase cascades, MHC antigen presentation and proteasome assembly, as well as selected views of the transcriptional networks they regulate. The integrated pathway includes a total of 496 unique proteins, the complexes formed between them and the processes in which they are involved. This produces a network of 2,170 nodes connected by 2,553 edges.Conclusions: The pathway diagram is a navigable visual aid for displaying a consensus view of the pathway information available for these systems. It is also a valuable resource for computational modelling and aid in the interpretation of functional genomics data. We envisage that this work will be of value to those interested in macrophage biology and also contribute to the ongoing Systems Biology community effort to develop a standard notation scheme for the graphical representation of biological pathways.
AB - Background: In an effort to better understand the molecular networks that underpin macrophage activation we have been assembling a map of relevant pathways. Manual curation of the published literature was carried out in order to define the components of these pathways and the interactions between them. This information has been assembled into a large integrated directional network and represented graphically using the modified Edinburgh Pathway Notation (mEPN) scheme.Results: The diagram includes detailed views of the toll-like receptor (TLR) pathways, other pathogen recognition systems, NF-kappa-B, apoptosis, interferon signalling, MAP-kinase cascades, MHC antigen presentation and proteasome assembly, as well as selected views of the transcriptional networks they regulate. The integrated pathway includes a total of 496 unique proteins, the complexes formed between them and the processes in which they are involved. This produces a network of 2,170 nodes connected by 2,553 edges.Conclusions: The pathway diagram is a navigable visual aid for displaying a consensus view of the pathway information available for these systems. It is also a valuable resource for computational modelling and aid in the interpretation of functional genomics data. We envisage that this work will be of value to those interested in macrophage biology and also contribute to the ongoing Systems Biology community effort to develop a standard notation scheme for the graphical representation of biological pathways.
UR - http://www.scopus.com/inward/record.url?scp=77953915234&partnerID=8YFLogxK
U2 - 10.1186/1752-0509-4-63
DO - 10.1186/1752-0509-4-63
M3 - Article
C2 - 20470404
AN - SCOPUS:77953915234
VL - 4
JO - BMC Systems Biology
JF - BMC Systems Biology
SN - 1752-0509
M1 - 63
ER -