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Synthetic biology tools

Synthetic biology aims to create functional devices, systems and organisms with novel and useful functions on the basis of catalogued and standardized biological building blocks. Although they were initially constructed to elucidate the dynamics of simple processes, designed devices now contribute to the understanding of disease mechanisms, provide novel diagnostic tools, enable economic production of therapeutics and allow the design of novel strategies for the treatment of cancer, immune diseases and metabolic disorders, such as diabetes and gout, as well as a range of infectious diseases (source: Weber and Fussenegger, 2012).

Eugene

OMIC_04730

Eugene

An ecosystem of human- and machine-readable languages developed to speed up and innovate…

An ecosystem of human- and machine-readable languages developed to speed up and innovate the design of novel biological DNA Sequences, Parts, Devices, and Systems.

GenBank Converter

OMIC_04791

GenBank Converter

Interconverts SBOL and Genbank format files.

Interconverts SBOL and Genbank format files.

GoSynthetic

OMIC_04778

GoSynthetic

Provides a simple and fast way to analyse biological processes applying a hierarchical…

Provides a simple and fast way to analyse biological processes applying a hierarchical database. Four different search modes are implemented. Furthermore, protein interaction data, cross-links to organism-specific databases (17 organisms including…

REACT

OMIC_04766

REACT

Contains a novel network inference algorithm within the algebraic framework of Boolean…

Contains a novel network inference algorithm within the algebraic framework of Boolean polynomial dynamical system (BPDS). The algorithm considers time series data, including that of perturbation experiments such as knock-out mutants and RNAi…

Standard Biological Parts knowledgebase

OMIC_04786

Standard Biological Parts knowledgebase
SBPkb

A publically accessible semantic web resource for synthetic biology. The SBPkb allows…

A publically accessible semantic web resource for synthetic biology. The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology.

Synthetic Biology Open Language

OMIC_04728

Synthetic Biology Open Language
SBOL

A data exchange standard for descriptions of genetic parts, devices, modules, and…

A data exchange standard for descriptions of genetic parts, devices, modules, and systems. SBOL represents synthetic biology designs in a community-driven, formalized format for exchange between software tools, research groups and commercial service…