Weaving Knowledge into Biological Pathways in a Collaborative Manner View Full Text


Ontology type: schema:Chapter     


Chapter Info

DATE

2015

AUTHORS

Yukiko Matsuoka , Kazuhiro Fujita , Samik Ghosh , Hiroaki Kitano

ABSTRACT

Toxicity pathway modeling is an effective approach to understanding how biological systems function under chemical perturbations. Many efforts have been made to construct pathways by data-driven or literature-based approaches to elucidate the mechanisms of action of toxicity. In this chapter, we explain how to build a literature-based pathway map in a collaborative manner using in silico platforms such as CellDesigner to draw pathways and networks, Payao as the curation platform, iPathways+ as the publishing platform, and Garuda to integrate curated pathways while adopting model-descriptive standards such as Systems Biology Markup Language as a file format and Systems Biology Graphical Notation as the graphical representation. More... »

PAGES

181-208

Book

TITLE

Computational Systems Toxicology

ISBN

978-1-4939-2777-7
978-1-4939-2778-4

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/978-1-4939-2778-4_8

DOI

http://dx.doi.org/10.1007/978-1-4939-2778-4_8

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1015489099


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