Related Experiment Video
Updated: Aug 7, 2026

A Web Tool for Generating High Quality Machine-readable Biological Pathways
Published on: February 8, 2017
Constructing explanatory process models from biological data and knowledge
Pat Langley1, Oren Shiran, Jeff Shrager
1Computational Learning Laboratory, Center for the Study of Language and Information, Stanford University, Stanford, CA 94305, USA. langley@csli.stanford.edu
Objective:
We address the task of inducing explanatory models from observations and knowledge about candidate biological processes, using the illustrative problem of modeling photosynthesis regulation.
Methods:
We cast both models and background knowledge in terms of processes that interact to account for behavior. We also describe IPM, an algorithm for inducing quantitative process models from such input.
Results:
We demonstrate IPM's use both on photosynthesis and on a second domain, biochemical kinetics, reporting the models induced and their fit to observations.
Conclusion:
We consider the generality of our approach, discuss related research on biological modeling, and suggest directions for future work.
More Related Videos
07:35A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
Published on: October 13, 2023
05:47Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems
Published on: June 13, 2025
Related Concept Videos
Mechanistic Models: Overview of Compartment Models
Pharmacokinetic Models: Overview
There are three primary types of models: empirical, compartment, and physiological. Empirical models, with minimal assumptions,...
Mechanistic Models: Compartment Models in Individual and Population Analysis
Pharmacokinetic Models: Comparison and Selection Criterion
Physiological models take a detailed approach by considering specific molecular processes. They can predict drug distribution, metabolism, and elimination changes, providing a comprehensive understanding of how drugs interact with the body.
Steps in the Modeling Process
Attention is the first necessary component for observational learning. It involves focusing on what the model is doing and saying. For example, if you decide to take a drawing class to enhance your skills, you need to pay close attention to the instructor's words and hand movements. The characteristics of the model significantly...
Concepts and Prototypes
The brain organizes this information using concepts, which are mental categories grouping linguistic data,...