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Related Concept Videos

Model Approaches for Pharmacokinetic Data: Physiological Models01:15

Model Approaches for Pharmacokinetic Data: Physiological Models

Physiological models in pharmacokinetics are instrumental in understanding the distribution and elimination of drugs within the body. These models describe the drug concentration within target organs, influenced by factors such as drug uptake, tissue volume, and blood flow. Drug uptake is governed by the partition coefficient, which signifies the drug concentration ratio in tissue to that in the blood. The blood flow rate to a specific tissue is expressed as Qt, and the rate of change in tissue...
Clearance Models: Physiological Models01:09

Clearance Models: Physiological Models

Drug clearance is a critical pharmacokinetic process involving the irreversible removal of drugs from the body through various organs over a specified time period. Physiological models are indispensable in determining organ-specific clearance, defined by the proportion of the drug eliminated per unit of time from the organ's blood volume.
The organ's clearance rate depends on the blood flow to the organ and the extraction ratio (E). The extraction ratio describes the organ's proficiency in drug...
Pharmacokinetic Models: Overview01:20

Pharmacokinetic Models: Overview

Pharmacokinetic models utilize mathematical analysis to achieve a detailed quantitative understanding of a drug's life cycle within the body. They are instrumental in simulating a drug's pharmacokinetic parameters, predicting drug concentrations over time, optimizing dosage regimens, linking concentrations with pharmacologic activity, and estimating potential toxicity.
There are three primary types of models: empirical, compartment, and physiological. Empirical models, with minimal assumptions,...
Mechanistic Models: Overview of Compartment Models01:21

Mechanistic Models: Overview of Compartment Models

Mechanistic models, a category encompassing both physiological and compartmental modeling, differ from empirical models' approaches to incorporating known factors about the systems being modeled. Empirical models describe data with minimal assumptions, while mechanistic models aim to provide a robust description of available data by specifying assumptions and integrating known factors about the system. Compartmental analysis is a key example of a mechanistic model in pharmacokinetics and...
Model Approaches for Pharmacokinetic Data: Compartment Models01:14

Model Approaches for Pharmacokinetic Data: Compartment Models

Compartmental analysis is a widely adopted approach to characterizing drug pharmacokinetics. It uses compartment models that conceptualize the body as a collection of reversibly communicating compartments, each representing a group of tissues exhibiting similar drug distribution characteristics. The movement rate of the drug between these compartments is typically described by first-order kinetics.
Two primary types of compartment models are recognized: mammillary and catenary. The more...
Physiological Pharmacokinetic Models: Assumption with Protein Binding01:13

Physiological Pharmacokinetic Models: Assumption with Protein Binding

Physiological models with protein binding in pharmacokinetics offer a sophisticated approach to understanding drug disposition. These models consider drug-protein interactions, enabling them to effectively predict drug concentrations in different organs and tissues. This precision aids in accurate drug dosing, providing a significant advantage over conventional models. A key process within these models is equilibration, which ensures that drug concentrations achieve a steady state within the...

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Updated: Jun 5, 2026

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information
09:37

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Published on: August 15, 2019

The Physiome Model Repository 2.

Tommy Yu1, Catherine M Lloyd, David P Nickerson

  • 1Auckland Bioengineering Institute, The University of Auckland, Auckland, New Zealand. tommy.yu@auckland.ac.nz

Bioinformatics (Oxford, England)
|January 11, 2011
PubMed
Summary
This summary is machine-generated.

The Physiome Model Repository 2 (PMR2) software facilitates model exchange and collaboration within the IUPS Physiome Project. This open-source tool provides a detailed change history for each CellML model.

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Last Updated: Jun 5, 2026

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information
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Published on: August 15, 2019

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gP2S, an Information Management System for CryoEM Experiments
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gP2S, an Information Management System for CryoEM Experiments

Published on: June 10, 2021

Area of Science:

  • Computational biology
  • Physiology modeling

Background:

  • The Physiome Model Repository 2 (PMR2) software originated from the IUPS Physiome Project.
  • PMR2 is foundational to the CellML model repository.
  • It is available under an open-source license.

Purpose of the Study:

  • To provide a robust platform for managing and sharing physiological models.
  • To enhance collaboration among researchers in the field of computational biology.
  • To ensure a transparent and traceable history of model development.

Main Methods:

  • Utilizing open-source software development principles.
  • Implementing version control for detailed change history.
  • Providing web-based access to the model repository.

Main Results:

  • PMR2 offers facilities for seamless model exchange.
  • Enhanced collaboration features are a key benefit for users.
  • Each model possesses a comprehensive and accessible change history.

Conclusions:

  • PMR2 significantly improves the management and accessibility of physiological models.
  • The software fosters a collaborative research environment.
  • Its open-source nature promotes widespread adoption and contribution.