INOH: ontology-based highly structured database of signal transduction pathways
نویسندگان
چکیده
منابع مشابه
INOH: ontology-based highly structured database of signal transduction pathways
The Integrating Network Objects with Hierarchies (INOH) database is a highly structured, manually curated database of signal transduction pathways including Mammalia, Xenopus laevis, Drosophila melanogaster, Caenorhabditis elegans and canonical. Since most pathway knowledge resides in scientific articles, the database focuses on curating and encoding textual knowledge into a machine-processable...
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1 Institute for Bioinformatics Research and Development (BIRD), Japan Science and TechnologyAgency (JST), 3-14-4 Shirokane-dai, Minato-ku, Tokyo 108-0071, Japan 2 Graduate School of Frontier Sciences, University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8562, Japan 3 Computational Biology Research Center (CBRC), National Institute of Advanced IndustrialScience and Technology (AIST), 2...
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Cells respond to their environment by sensing signals and translating them into changes in gene expression. In recent years, synthetic networks have been designed in both prokaryotic and eukaryotic systems to create new functionalities and for specific applications. In this review, we discuss the challenges associated with engineering signal transduction pathways. Furthermore, we address advant...
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Signal transduction is about how molecular mechanisms in cells are used to receive, process and respond to signals from outside and inside of the cell. The term signal is defined in a dual way in this context: being the molecular state of a molecule, e.g. a protein, and at the same time an abstract logical state (active/inactive). This thesis focuses on intracellular signalling: i.e. receiving ...
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This review focusses on modelling of signal transduction pathways. It will introduce the general concepts of modelling and signal transduction, and then proceed with presenting the two most common approaches: Ordinary Di erential Equations (ODE) and Petri Nets (PN). Including an overview about some of the PN upgrades, such as Timed or Coloured Petri Nets, this review will show the major di eren...
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ژورنال
عنوان ژورنال: Database
سال: 2011
ISSN: 1758-0463
DOI: 10.1093/database/bar052