Centre for Applied Philosophy of Science (CAPS) NMBU bis
Projects Open Science

Author: Gianpiero Pescarmona
Date: 17/08/2020

Description

Centre for Applied Philosophy of Science / CAPS

Elena Rocca scholar.google

Elena Rocca Site

Books

Rethinking Causality, Complexity and Evidence for the Unique Patient, 2020

pdf

Ontologies

Robert Hoehndorf

Representing Physiological Processes and Their Participants With PhysioMaps 2013

Idem convegno con altri 2012

Abstract
Background: As the number and size of biological knowledge resources for physiology grows, researchers need improved tools for searching and integrating knowledge and physiological models. Unfortunately, current resources-databases, simulation models, and knowledge bases, for example-are only occasionally and idiosyncratically explicit about the semantics of the biological entities and processes that they describe.

Results: We present a formal approach, based on the semantics of biophysics as represented in the Ontology of Physics for Biology, that divides physiological knowledge into three partitions: structural knowledge, process knowledge and biophysical knowledge. We then computationally integrate these partitions across multiple structural and biophysical domains as computable ontologies by which such knowledge can be archived, reused, and displayed. Our key result is the semi-automatic parsing of biosimulation model code into PhysioMaps that can be displayed and interrogated for qualitative responses to hypothetical perturbations.

Conclusions: Strong, explicit semantics of biophysics can provide a formal, computational basis for integrating physiological knowledge in a manner that supports visualization of the physiological content of biosimulation models across spatial scales and biophysical domains.

Varie

Tacitly Loaded Concepts / Multiverse Prior to Cognition

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