Team:Newcastle/e Science

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Contents

E-Science Toolkit for Synthetic Biology (working title)

Aims

  1. Create a list of databases, services and software available for Synthetic Biology
  2. Create a set of work-flows for Synthetic Biology

Objectives

Create a web site/database of available databases, services and software

  1. Databases
    1. [http://partsregistry.org/Main_Page Registry of Standard Biological Parts]
    2. [http://www.oxfordjournals.org/nar/database/a/ 2010 NAR Database Summary Paper Alpha List]
    3. [http://128.240.147.145:8082/Biobricks/ Bacillus subtilis Parts]
  2. Web sites
    1. [http://www.synthetic-biology.info/ Synthetic Biology]
    2. [http://syntheticbiology.org/ syntheticbiology.org]
    3. [http://bioinformatics.ca/links_directory/ Bioinformatics Links Directory]
  3. Web Services
    1. [http://www.biocatalogue.org/ BioCatalogue.org]
  4. Publications
    1. [http://nar.oxfordjournals.org/content/vol37/suppl_2/index.dtl#EDITORIAL_______WEB_SERVER_ISSUE Nucleic Acids Research annual Web Server Issue in 2009]

Establish "life lines"

Documentation for open source software is sometimes limited, especially when the software is still quite new. Getting online help can be a real life saver but it takes time to find all the sources, register with them and be ready to ask questions when required. Find mailing lists and on-line forums for the following and start following them:

  1. Taverna
  2. myExperiment

Develop web services required that don't yet exist

Create Taverna work-flows

Project Timeline

  1. Project Proposal: 22 April 2010
  2. Presentation
  3. Project Submission
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