B10NUMB3R5 - (BIONUMBERS) A database of useful biological numbers.

Bio/Spice - Bio/Spice is a biological data analysis and modeling workspace and database based loosely on SPICE tools used by Electrical Engineers for the design and analysis of their circuitry.

BioInformatics Services - BioInformatics Services is a biotechnology consulting firm specializing in using computational biology to solve complex biological and data analysis problems. Also see Practical Kinetic Modeling.

CellML - The CellML language is an open standard based on the XML markup language. CellML is being developed by the Bioengineering Institute at the University of Auckland and affiliated research groups with early support and input from Physiome Sciences Inc. in Princeton, New Jersey.

Computational Cell Biology - This textbook provides an introduction to dynamic modeling in cell biology.

CompCell Bio Web - Development site for teaching modules on quantitative cell biology.

DOQCS - The Dhttp://ntcnp.org/twiki/bin/view/CompCellBio/WebHomee of Quantitative Cellular Signaling (DOQCS) is a repository of models of signaling pathways.

E-Cell - A Multi-Algorithm, Multi-Timescale Simulation Software Environment.

Gepasi - Software package for modeling biochemical systems that includes a simulation and analysis environment.

Gfit - A program for global regression analysis of experimental data.

Kitware - Professional Visualization Solutions, Tools and Support.

MCell - General Monte Carlo Simulator of Cellular Microphysiology.

Minimotif Miner - Application to search for short sequence motifs in Proteins

Numerical Methods - Numerous links to centers, search engines, libraries, etc.

Practical Kinetic Modeling - Step by Step modeling by Robert Phair.

SBML - The Systems Biology Markup Language (SBML) is a computer-readable format for representing models of biochemical reaction networks.

SigPath Project - SigPath is a system for managing the biochemical information on signaling pathways and networks of the cell.

SyBil - Sybil is a stand-alone application designed for visualizing pathway data files in BioPAX format, such as imported from Reactome, and converting BioPAX files into SBML files.

sys-bio.org - Systems Biology Workbench, an open source framework connecting heterogenous software applications.

QuB - Kinetic Analysis made Easy. Programs for analyzing single-molecule kinetics, in particular single ion channels.