Model repositories | Synthetic biology
Systems Biology requires a tight integration of experimental data and detailed computer models to obtain a quantitative understanding of the system under study. To facilitate this integration a standardization of data and model representation and storage is important. Source…
FAIRDOMHub FAIRDOMHub

FAIRDOMHub

A repository for publishing FAIR (Findable, Accessible, Interoperable and…

A repository for publishing FAIR (Findable, Accessible, Interoperable and Reusable) Data, Operating procedures and Models for the Systems Biology community. FAIRDOMHub is a web-accessible repository…

WholeCellSimDB WholeCellSimDB

WholeCellSimDB

A database for organizing whole-cell simulations. WholeCellSimDB was designed…

A database for organizing whole-cell simulations. WholeCellSimDB was designed to enable researchers to search simulation metadata to identify simulations for further analysis, and quickly slice and…

Systems Science of… Systems Science of Biological Dynamics

SSBD Systems Science of Biological Dynamics

Stores and shares quantitative biological dynamics data. SSBD currently…

Stores and shares quantitative biological dynamics data. SSBD currently provides 311 sets of quantitative data for single molecules, nuclei, and whole organisms in a wide variety of model organisms…

Kinetic Models of… Kinetic Models of biological Systems

KiMoSys Kinetic Models of biological Systems

A user-friendly platform that includes a public data repository of published…

A user-friendly platform that includes a public data repository of published experimental data, containing concentration data of metabolites and enzymes and flux data. It was designed to ensure data…

Minimal Information… Minimal Information Required In the Annotation of…

MIRIAM Minimal Information Required In the Annotation of Models

Provides unique, perennial and location-independent identifiers for data used…

Provides unique, perennial and location-independent identifiers for data used in the biomedical domain. MIRIAM provides both an identifier scheme and resolution system. It enables users to (i) have…

WholeCellKB WholeCellKB

WholeCellKB

A collection of free, open-source model organism databases designed…

A collection of free, open-source model organism databases designed specifically to enable comprehensive, dynamic simulations of entire cells and organisms. WholeCellKB provides comprehensive,…

CellML Model… CellML Model Repository

CellML Model Repository

Provides free access to biological models. The vast majority of these models…

Provides free access to biological models. The vast majority of these models are derived from published, peer-reviewed papers. Model curation is an important and ongoing process to ensure the CellML…

Database Of… Database Of Quantitative Cellular Signaling

DOQCS Database Of Quantitative Cellular Signaling

A repository of models of signaling pathways. DOQCS is intended both to serve…

A repository of models of signaling pathways. DOQCS is intended both to serve the growing field of chemical-reaction level simulation of signaling networks, and to anticipate issues in large-scale…

Web app
JWS Online JWS Online

JWS Online

A systems biology tool for the construction, modification and simulation of…

A systems biology tool for the construction, modification and simulation of kinetic models and for the storage of curated models. You can build a model from scratch using a simple interface. Models…

CellCircuits CellCircuits

CellCircuits

An open-access database of molecular network models, designed to bridge the gap…

An open-access database of molecular network models, designed to bridge the gap between databases of individual pairwise molecular interactions and databases of validated pathways. CellCircuits…

BioModels Database BioModels Database

BioModels Database

A repository of computational models of biological processes. BioModels…

A repository of computational models of biological processes. BioModels Database hosts models described in peer-reviewed scientific literature and models generated automatically from pathway…

Macrophage Pathway… Deprecated Macrophage Pathway Knowledgebase

MACPAK Macrophage Pathway Knowledgebase

A computational system that allows biomedical researchers to query and study…

A computational system that allows biomedical researchers to query and study the dynamic behaviors of macrophage molecular pathways. MACPAK integrates the knowledge of 230 reviews that were carefully…

Advertisements
Join Omic Community

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.