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SUMMARY:A Standard-Enabled Workflow for Synthetic Biology - Professor Chri
 s J. Myers University of Utah
DTSTART:20191010T150000Z
DTEND:20191010T160000Z
UID:TALK131065@talks.cam.ac.uk
CONTACT:Pietro Lio
DESCRIPTION:A synthetic biology workflow is composed of data repositories 
 that provide information about genetic parts\, sequence-level design tools
  to compose these\nparts into circuits\, visualization tools to depict the
 se designs\, genetic design tools to select parts to create systems\, and 
 modeling and simulation tools to evaluate alternative design choices.  Dat
 a standards enable the ready exchange of information within such a workflo
 w\, allowing repositories and tools to be connected from a diversity of so
 urces. This talk describes one such\nworkflow that utilizes the growing ec
 osystem of software tools that support the Synthetic Biology Open Language
  (SBOL) to describe genetic designs\, and the\nmature ecosystem of tools t
 hat support the Systems Biology Markup Language (SBML) to model these desi
 gns.   In particular\, this presentation will demonstrate a workflow using
  tools including SynBioHub\, SBOLDesigner\, and iBioSim.  SynBioHub (http:
 //synbiohub.org) is a database designed for storing synthetic biology desi
 gns captured using the SBOL data model\, and it provides\nboth a RESTful A
 PI for computational access and a user-friendly Web-based frontend.  SBOLD
 esigner is a sequence editor that allows the designer to fetch\nparts from
  a SynBioHub repository and compose them to construct larger designs.\nFin
 ally\, iBioSim is genetic modeling\, analysis\, and design tool that provi
 des a means to construct SBML models for these designs that can be simulat
 ed and\nanalyzed using a variety of techniques. Both SBOLDesigner and iBio
 Sim also\nsupport uploading these larger system designs back to the SynBio
 Hub repository.\nFinally\, this talk will demonstrate how this workflow ca
 n be utilized to produce a complete record of a genetic design facilitatin
 g reproducibility and\nreuse.\n\n\n==================================\n\nC
 hris J. Myers received the B.S. degree in Electrical Engineering and Chine
 se\nhistory in 1991 from the California Institute of Technology\, Pasadena
 \, CA\, and\nthe M.S.E.E. and Ph.D. degrees from Stanford University\, Sta
 nford\, CA\, in 1993\nand 1995\, respectively. He is a Professor and Assoc
 iate Chair in the Department\nof Electrical and Computer Engineering\, Uni
 versity of Utah\, Salt Lake City\, UT.\nDr. Myers is the author of over 17
 0 technical papers and the textbooks\nAsynchronous Circuit Design and Engi
 neering Genetic Circuits. He is also a\nco-inventor on 4 patents. His rese
 arch interests include asynchronous circuit\ndesign\, formal verification 
 of analog/mixed signal circuits and cyber-physical\nsystems\, and modeling
 \, analysis\, and design of genetic circuits. Dr. Myers\nreceived an NSF F
 ellowship in 1991\, an NSF CAREER award in 1996\, and best paper\nawards a
 t the 1999 and 2007 Symposiums on Asynchronous Circuits and Systems.\nDr. 
 Myers is a Fellow of the IEEE\, and he is a Member of the Editorial Board\
 nfor ACS Synthetic Biology\, Engineering Biology\, and Synthetic Biology\,
  and has\nserved on the Editorial Boards for the IEEE Transactions on VLSI
  Systems\, IEEE\nDesign & Test Magazine\, IEEE Life Sciences Letters\, and
  Formal Methods in\nSystem Design. Dr. Myers has also served as an editor 
 for the Systems Biology\nMarkup Language (SBML) standard and is the Chair 
 of the Synthetic Biology Open\nLanguage (SBOL) standard steering committee
 \, as well as the COMBINE standard\ncoordination board.\n\n
LOCATION:Department of Computer Science and technology\, Lecture Theatre 2
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