Semantic Systems Biology: Formal Knowledge Representation in Systems Biology for Model Construction, Retrieval, Validation and Discovery

2013 ◽  
pp. 355-373 ◽  
Author(s):  
Michel Dumontier ◽  
Leonid L. Chepelev ◽  
Robert Hoehndorf
2017 ◽  
Vol 17 (2) ◽  
pp. 79-84 ◽  
Author(s):  
G. Rojek ◽  
K. Regulski ◽  
D. Wilk-Kołodziejczyk ◽  
S. Kluska-Nawarecka ◽  
T. Wawrzaszek

Abstract The aim of this study is to design and implement a computer system, which will allow the semantic cataloging and data retrieval in the field of cast iron processing. The intention is to let the system architecture allow for consideration of data on various processing techniques based on the information available or searched by a potential user. This is achieved by separating the system code from the knowledge of the processing operations or from the chemical composition of the material being processed. This is made possible by the creation and subsequent use of formal knowledge representation in the form of ontology. So, any use of the system is associated with the use of ontologies, either as an aid for the cataloging of new data, or as an indication of restrictions imposed on the data which draw user attention. The use of formal knowledge representation also allows consideration of semantic meaning, a consequence of which may be, for example, returning all elements in subclasses of the searched process class or material grade.


Author(s):  
Yousheng Tian ◽  
Yingxu Wang ◽  
Marina L. Gavrilova ◽  
Guenther Ruhe

It is recognized that the generic form of machine learning is a knowledge acquisition and manipulation process mimicking the brain. Therefore, knowledge representation as a dynamic concept network is centric in the design and implementation of the intelligent knowledge base of a Cognitive Learning Engine (CLE). This paper presents a Formal Knowledge Representation System (FKRS) for autonomous concept formation and manipulation based on concept algebra. The Object-Attribute-Relation (OAR) model for knowledge representation is adopted in the design of FKRS. The conceptual model, architectural model, and behavioral models of the FKRS system is formally designed and specified in Real-Time Process Algebra (RTPA). The FKRS system is implemented in Java as a core component towards the development of the CLE and other knowledge-based systems in cognitive computing and computational intelligence.


Author(s):  
Yousheng Tian ◽  
Yingxu Wang ◽  
Marina L. Gavrilova ◽  
Guenther Ruhe

It is recognized that the generic form of machine learning is a knowledge acquisition and manipulation process mimicking the brain. Therefore, knowledge representation as a dynamic concept network is centric in the design and implementation of the intelligent knowledge base of a Cognitive Learning Engine (CLE). This paper presents a Formal Knowledge Representation System (FKRS) for autonomous concept formation and manipulation based on concept algebra. The Object-Attribute-Relation (OAR) model for knowledge representation is adopted in the design of FKRS. The conceptual model, architectural model, and behavioral models of the FKRS system is formally designed and specified in Real-Time Process Algebra (RTPA). The FKRS system is implemented in Java as a core component towards the development of the CLE and other knowledge-based systems in cognitive computing and computational intelligence.


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