About SynBioHub

SynBioHub basically includes two projects:

1. Provides computational access for software and data integration, and a graphical user interface that enables users to search for, store, share, and publish designs in a Web browser.

2. A public instance of the aforementioned software project at synbiohub.org, allowing users to upload and share designs.

The SynBioHub repository is an open-source software project that facilitates the sharing of information about engineered biological systems. SynBioHub provides computational access for software and data integration, and a graphical user interface that enables users to search for and share designs in a Web browser. By connecting to relevant repositories (e.g., the iGEM repository, JBEI ICE, and other instances of SynBioHub), the software allows users to browse, upload, and download data in various standard formats, regardless of their location or representation. SynBioHub also provides a central reference point for other resources to link to, delivering design information in a standardized format using the Synthetic Biology Open Language (SBOL). The adoption and use of SynBioHub, a community-driven effort, has the potential to overcome the reproducibility challenge across laboratories by helping to address the current lack of information about published designs.

Also, SynBioHub can be used to publish a library of synthetic parts and designs as a service, to share designs with collaborators, and to store designs of biological systems locally. Data in SynBioHub can be accessed via the HTTP API, Java API, or Python API where it can then be integrated into CAD tools for building genetic designs. SynBioHub contains an interface for users to upload new biological data to the database, to visualize DNA parts, to perform queries to access desired parts, and to download SBOL, GenBank, FASTA, etc.

License

SynBioHub is released using the BSD-2-Clause License.

Citation

If you use SynBioHub, please cite the following paper:

«ADD SBH CITE HERE»

Additional references for SynBioHub are available here.

Contributors

• Dr. James Alastair McLaughlin (European Bioinformatics Institute)
• Prof. Chris J. Myers (University Of Colorado Boulder)
• Dr. Goksel Misirli (Keele University)
• Prof. Anil Wipat (Newcastle University)
• Zach Zundel (FaceBook)
• James Scholz (University of Utah)
• Prubhtej Singh (Guru Gobind Singh Indraprastha University)
• Jeanet Mante (University of Colorado Boulder)
• Eric Yu (University of Utah)
• Michael Zhang (Google)
• Benjamin Hatch (University of Utah)

An earlier version of SynBioHub known as SBOL Stack was developed by the following people:

• Dr. Curtis Madsen (Boston University)
• Dr. James Alastair McLaughlin (European Bioinformatics Institute)
• Dr. Goksel Misirli (Keele University)
• Dr. Matthew Pocock
• Dr. Keith Flanagan (Newcastle University)
• Dr. Jennifer Hallinan (Macquarie University)
• Prof. Anil Wipat (Newcastle University)