Article

Object-oriented wound healing in the liver: a class-structured view of fibrogenesis and a glimpse of its evolution

Authors:

Jacqueline Signorini,

Patrick GreussayAuthors Info & Claims

SAC '05: Proceedings of the 2005 ACM symposium on Applied computing

Pages 165 - 171

https://doi.org/10.1145/1066677.1066717

Published: 13 March 2005 Publication History

Abstract

We describe a very intricate case of highly correlated bio-processes: the liver fibrogenic cascade, by using a set of tools from object-oriented design (OOD). OOD methods were designed for the abstract specification of complex software prior to programming. It appears that OOD methods can be a fruitful tool for the abstract description of biological processes apparently quite far away from software engineering. We give a detailed view of the fibrogenic cascade within the liver using the now standard tool of OOD: Unified Modeling Language (UML) and one extension: Real-Time UML.OOD methods enforce the important role of concepts such as modularity, classes, methods and their inheritance hierarchies as well as primitives for concurrent process synchronization and cooperation. These concepts are surprisingly quite relevant for specifying bio-processes, and unexpectedly, they suggest an extension of the strict evolutionary explanation of the processes involved. As well as describing bio-structures and their interactions, we could consider evolutionary description of classes and processes. In particular, the OOD inheritance concept seems to be significant as an extension to gradualism. It suggests that DNA could encode, in Universal-Turing-Machine like fashion, the hierarchies of classes of molecular structures and perhaps the process templates associated with methods.

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Cited By

Signorini JGreussay P(2007)Silent Killing: an Object-Oriented View of Hypertension and Kidney Failures Part I2007 IEEE 7th International Symposium on BioInformatics and BioEngineering10.1109/BIBE.2007.4375627(635-640)Online publication date: Oct-2007
https://doi.org/10.1109/BIBE.2007.4375627

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Published In

cover image ACM Conferences

SAC '05: Proceedings of the 2005 ACM symposium on Applied computing

March 2005

1814 pages

ISBN:1581139640

DOI:10.1145/1066677

Conference Chair:
Hisham M. Haddad
Kennesaw State University
,
Editor:
Lorie M. Liebrock
New Mexico Institute of Mining and Technology, Socorro, NM
,
Program Chairs:
Andrea Omicini
Alma Mater Studiorum, Universita di Bologna, Italy
,
Roger L. Wainwright
Univerity of Tulsa, OK

Copyright © 2005 ACM.

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Published: 13 March 2005

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SAC05: The 2005 ACM Symposium on Applied Computing

March 13 - 17, 2005

New Mexico, Santa Fe

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Cited By

Signorini JGreussay P(2007)Silent Killing: an Object-Oriented View of Hypertension and Kidney Failures Part I2007 IEEE 7th International Symposium on BioInformatics and BioEngineering10.1109/BIBE.2007.4375627(635-640)Online publication date: Oct-2007
https://doi.org/10.1109/BIBE.2007.4375627

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