Engineering Modeling of Biological Systems Overview

Dr. Johansen presented an introductory video on modeling biological systems using engineering tools, specifically focusing on SysML (Systems Modeling Language). The presentation outlined an approach for reverse engineering biological systems using object-oriented system engineering methods, emphasizing the importance of clearly defining a model's purpose.Dr. Johansen discussed four key SysML pillars: requirements, structure, behavior, and parametrics, along with various diagram types that can be used for modeling. The video covered available tools, highlighting Magic Systems of Systems Architect and Cameo Systems Modeler as primary options, while also mentioning Visual Paradigms as a more accessible alternative with a community edition. Several example models were briefly mentioned, including work on chemotaxis, Mexican cavefish, and neuromorphic computing applications. The presentation concluded with a discussion of a theory of biological design framework developed by colleagues, which incorporates concepts like intentional action, adaptive capability, and design properties. Visual Paradigms Community Edition https://www.visual-paradigm.com/downl... Free, but watermark appears when exporting figures Visual Paradigm Online https://online.visual-paradigm.com/di... Can utilize online version to create models “No Magic” Reader for Magic Systems of Systems Architect Projects https://software.3ds.com Project reader only – cannot create projects Magic and Cameo SysML v2 Community Edition https://discover.3ds.com/free-catia-s... Model size limit, SysML v2 only, defaults to textual operation only