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. 2012 May 30:6:52.
doi: 10.1186/1752-0509-6-52.

AlzPathway: a comprehensive map of signaling pathways of Alzheimer's disease

Satoshi Mizuno  1 , Risa Iijima, Soichi Ogishima, Masataka Kikuchi, Yukiko Matsuoka, Samik Ghosh, Tadashi Miyamoto, Akinori Miyashita, Ryozo Kuwano, Hiroshi Tanaka
Affiliations

AlzPathway: a comprehensive map of signaling pathways of Alzheimer's disease

Satoshi Mizuno et al. BMC Syst Biol. .

Abstract

Background: Alzheimer's disease (AD) is the most common cause of dementia among the elderly. To clarify pathogenesis of AD, thousands of reports have been accumulating. However, knowledge of signaling pathways in the field of AD has not been compiled as a database before.

Description: Here, we have constructed a publicly available pathway map called "AlzPathway" that comprehensively catalogs signaling pathways in the field of AD. We have collected and manually curated over 100 review articles related to AD, and have built an AD pathway map using CellDesigner. AlzPathway is currently composed of 1347 molecules and 1070 reactions in neuron, brain blood barrier, presynaptic, postsynaptic, astrocyte, and microglial cells and their cellular localizations. AlzPathway is available as both the SBML (Systems Biology Markup Language) map for CellDesigner and the high resolution image map. AlzPathway is also available as a web service (online map) based on Payao system, a community-based, collaborative web service platform for pathway model curation, enabling continuous updates by AD researchers.

Conclusions: AlzPathway is the first comprehensive map of intra, inter and extra cellular AD signaling pathways which can enable mechanistic deciphering of AD pathogenesis. The AlzPathway map is accessible at http://alzpathway.org/.

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Figures

Figure 1
Figure 1
Overview of AlzPathway overlaid with canonical pathway annotations for explanation of map. AlzPathway consists of 1347 molecules, 1070 reactions, and 129 phenotypes. Original and high resolution version of AlzPathway is available at http://alzpathway.org/ as both the SBML (Systems Biology Markup Language) map for CellDesigner and the high resolution image map without overlay of canonical pathway annotation. AlzPathway is also available as the web service (online map) implemented by using Payao system.
Figure 2
Figure 2
Detailed view of AlzPathway. (a) oligomeric amyloid β formation, (b) MAPT phosphorylation. Notations are based on SBGN (Systems Biology Graphical Notation). References to the reactions are represented in PubMed ID (PMID) using the MIRIAM scheme.
Figure 3
Figure 3
Binary-relation notation and key molecules of AlzPathway. (a) overview of AlzPathway in binary-relation notation, (b) top 50 high centrality relations as highlighted primary pathway of AlzPathway.
Figure 4
Figure 4
AlzPathway on Payao system. Payao system provide community-based, collaborative web service (online map) platform for pathway manual curation.
See this image and copyright information in PMC

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