Download Altogether Fun and Absolutely Understanding Rubik's Pocket by Bob Stat PDF

By Bob Stat

ISBN-10: 0440002370

ISBN-13: 9780440002376

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G. hasEnti ty-. R6 identifies a starting entity whose type is complex. In addition, R7 is defined for biological entities except for genes to be degraded. (hasEntitY-(Xl,X2) -> Input(x2)) 32 E. Jeong, M. Nagasaki €:f S. ((hasEntity-(xl,X2) R7: DEGRADINGENTITY(Xl) ~ -> Input(x2)) Protein(xl) V Complex(xl) V mRNA(Xl) The next three queries are generated from rules R5, R6, and R7, which will complement the given models by adding new instances (add-instance) and properties (add-property). g. {xd, denotes a new instance ID.

Simultaneously, we have investigated how logic-based rules can be used for the ontology to extend its expressiveness and to complement the ontology by reasoning, which aims at qualifying pathway knowledge. Finally, we show how the proposed approach helps exploring dynamic modeling and simulation tasks without prior knowledge. Keywords: Cell System Ontology; CSO; rule-based inference; pathway knowledge base; ontology validation 1. Introduction The Cell System Ontology (CSO) [5] has been developed as a unified framework for the representation of biological pathways, based on the notion of hybrid functional Petri net with extension [8].

Miyano event which has cardinality 1. On the other hand, it is optional in BioPAX and has different meaning [9] in TRANSPATH [21]. It is useful to formalize the definitions based on shared knowledge underlying biological processes. We define a biologically correct model as a model to correctly represent biological meaning of processes as a machine-readable format. In this paper, the three processes depicted in Fig. Ie are considered to represent rules. Translocation is a process which has a biological event as ME_Translocation.

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