SEED 2018: Software for Synthetic Biology Workflows Workshop

Workshop Description:

This workshop is a tutorial session intended to introduce participants to recent software tools and how they can be used to address common challenges in synthetic biology. The first half of the workshop will introduce a number of recent software tools and key underlying technologies, then show how these can be combined and incorporated into effective organism engineering workflows. In the second half, participants will work hands-on with the tools in groups, with the instructors assisting them in applying tools hands-on to address prototypical example problems and/or challenges from their own work. For the second half, participants are strongly encouraged to bring a laptop with network access.

This workshop will be free for attendees of SEED 2018. There will be a small fee if you wish to attend this workshop without attending SEED.

Important Information:

Date: Thursday, June 7, 2018,

Time: 2:00pm-5:30pm EDT

Location: SEED 2018 @ JW Marriott Scottsdale Camelback Inn Resort & Spa

Registration Page

Organizers:

  • Dr. Jacob Beal, Raytheon BBN Technologies
  • Dr. Kevin Clancy, ThermoFisher Scientific
  • Dr. Ernst Oberortner, DOE Joint Genome Institute

Agenda:

2:00PM – 3:30PM – Presentations to introduce the tools

●   Introduction to workflows [10min] Jacob Beal
●   SBOL, its libraries, converter, and validator [10min] Jacob Beal
●   JBEI ICE [10min] Nathan J. Hillson
●   SynBioHub/iBioSim/SBOLDesigner [20min] Tramy Nguyen
●   Cello [10min] Shuyi Zhang
●   Operon Calculator and RBS Library Calculator [10min] Howard Salis
●   BOOST [10min] Ernst Oberortner
●   TASBE [10min] Jacob Beal

3:30PM – 4:00PM Break

4:00PM – 5:30PM Hands-on work with the tools

●   Hands-on tools and workflows (Part 1)(Part 2) Kevin Clancy