IWBDA:2012

The Fourth International Workshop on Bio-Design Automation (IWBDA) at DAC will bring together researchers from the synthetic biology, systems biology, and design automation communities. The focus is on concepts, methodologies and software tools for the computational analysis of biological systems and the synthesis of biological systems.

Still in its early stages, the field of synthetic biology has been driven by experimental expertise; much of its success can be attributed to the skill of the researchers in specific domains of biology. There has been a concerted effort to assemble repositories of standardized components. However, creating and integrating synthetic components remains an ad hoc process. The field has now reached a stage where it calls for computer-aided design tools. The electronic design automation (EDA) community has unique expertise to contribute to this endeavor. This workshop offers a forum for cross-disciplinary discussion, with the aim of seeding collaboration between the research communities.

Topics of interest include:

• Design methodologies for synthetic biology.
• Standardization of biological components.
• Automated assembly techniques.
• Computer-aided modeling and abstraction techniques.
• Engineering methods inspired by biology.
• Domain specific languages for synthetic biology.
• Data exchange standards and models for synthetic biology.

Dates and Venue

Dates: **NEW DATE** Sunday-Monday, June 3-4

Venue: Moscone Center, San Francisco, CA

The workshop is part of the 49th ACM/EDAC/IEEE Design Automation Conference (DAC), the premier conference in the field of electronic design automation with over 10,000 attendees. This year DAC will be held June 3-7, 2012 at the Moscone Center, San Francisco, CA.

Sponsors

• Platinum Sponsor

• Gold Sponsors

Abstract Submission

Abstracts should be two pages long, following the ACM SIG Proceedings templates at http://www.acm.org/sigs/publications/proceedings-templates. Indicate whether you would like your abstract considered for a poster presentation, an oral presentation, or both. Include the full names, affiliations and contact information of all authors.

Abstracts will be reviewed by the Program Committee. Those that are selected for oral and poster presentations will distributed to workshop participants and posted on the workshop website.

Abstracts should be submitted by April 2nd at: http://www.easychair.org/conferences/?conf=iwbda2012

Registration, Travel, and Hotel Information

Registration will be through the DAC website.

Registration for DAC 2012 will be available at: DAC Registration.

Registration rates can be found here.

Also, see travel and hotel information on the DAC website.

Student Support

If you are a student planning on attending the workshop this year, support funds may be available. Please send the following to finances@biodesignautomation.org by April 2nd April 9th, but we will accept applications as long as funds are available:

• Your name
• Affiliation
• Year in school (if appropriate)
• 50-100 word statement detailing why you seek support and how you plan to participate in the workshop (oral presentation, poster, etc).

Requests for support will be evaluated according to the following criteria (in order of importance):

• Quality of abstract/contribution submitted
• Year in school
• Expected travel expenses

Call for Abstracts

Feel free to distribute!

Key Dates

Call for participation published: February 3rd, 2012

Abstract submission deadline: April 2nd, 2012 extended to April 9th, 2012

Abstract acceptance notification: May 7th, 2012

Workshop: **NEW DATE** June 3-4, 2012

Proceedings & Journal Publications

As in years past, we plan to have a special issue of a journal associated with IWBDA. Details will be posted on the workshop website when they become available.

Organizing Committee

Executive Committee:

• General Chair - Natasa Miskov-Zivanov (University of Pittsburgh)
• General Secretary - Laura Adam (Virginia Tech)
• Program Committee Chairs - Xiling Shen (Cornell), Deepak Chandran (University of Washington) and Leonidas Bleris (UTDallas)
• Publication Chair - Chris Myers (University of Utah)
• Industry Liaison Chair - Jonathan Babb (MIT)
• Finance Chair - Aaron Adler and Fusun Yaman (BBN Technologies)
• DAC Liaison - Smita Krishnaswamy (Columbia)

Steering Committee:

• Soha Hassoun (Tufts University)
• Ron Weiss (MIT)
• Marc Riedel (University of Minnesota)
• Douglas Densmore (Boston University)

Program Committee:

• J. Christopher Anderson, UC Berkeley
• Adam Arkin, UC Berkeley
• Jonathan Babb, MIT
• Jacob Beal, BBN Technologies
• Leonidas Bleris, UT Dallas
• Kevin Clancy, Life Technologies
• Douglas Densmore, Boston University
• Drew Endy, Stanford University
• Abishek Garg, Harvard University
• Soha Hassoun, Tufts University
• Mark Horowitz, Stanford University
• Alfonso Jaramillo, Ecole Polytechnique
• Yannis Kaznessis, University of Minnesota
• Eric Klavins, University of Washington
• Tanja Kortemme, UCSF
• Smita Krishnaswamy, Columbia
• Natasa Miskov-Zivanov, Univ. of Pittsburgh
• Kartik Mohanram, Rice
• Chris Myers, University of Utah
• Andrew Phillips, Microsoft Research
• Marc Riedel, University of Minnesota
• Herbert Sauro, University of Washington
• Xiling Shen, Cornell
• Ilias Tagkopoulos, UC Davis
• David Thorsley, University of Washington
• Christopher Voigt, UCSF
• Ron Weiss, MIT
• Erik Winfree, Caltech
• Chris Winstead, Utah State University

Agenda

Invited Speakers:

• Jasmin Fisher, Microsoft, UK
• William Shih, Harvard
• Milan Stojanovic, Columbia

Tentative

Sunday – June 3rd

• 9am – 9:15am: Opening Remarks: Natasa Miskov-Zivanov (General Chair).
• 9:15am – 10:15am: Invited Talk: William Shih, Harvard
• 10:15am – 10:30: Coffee Break
• 10:30 - 12pm: Tech. Talks Session 1 – Topic: Gene Network Reconstruction(TBD)
  • 1BDA.1 Title
    • Authors
  • 1BDA.2 Title
    • Authors
  • 1BDA.3 Title
    • Authors
  • 1BDA.4 Title
    • Authors
• 12pm- 1:45pm: Lunch and Poster Session
• 1:45pm – 2:00pm: Coffee Break
• 2:00pm – 3:00pm: Tech. Talks Session 2 – Topic: CAD Tools for Synthetic Biology(TBD)
  • 2BDA.1 Title
    • Authors
  • 2BDA.2 Title
    • Authors
  • 2BDA.3 Title
    • Authors
• 3:00 – 4:00pm: Invited Talk: Milan Stojanovic, Columbia
• 4:00pm - 5:00pm: Tech. Talks Session 3 – Topic: Biological Circuit Design(TBD)
  • 3BDA.1 Title
    • Authors
  • 3BDA.2 Title
    • Authors
  • 3BDA.3 Title
    • Authors
• 7:00pm - 10:00pm: Dinner
  • Address: tba
  • Phone: tba

Dinner currently is limited to those who registered by 5/18.

Monday – June 4th

• 8:30am - 10:15am: General DAC Keynote
• 10:15am – 10:30: Coffee Break
• 10:30am - 12:00pm: Tech. Talks Session 4 – Topic: Biological Circuit Simulators (TBD)
  • 4BDA.1 Title
    • Authors
  • 4BDA.2 Title
    • Authors
  • 4BDA.3 Title
    • Authors
  • 4BDA.4 Title
    • Authors
• 12:00pm – 1:45pm: Lunch and Poster Session
• 1:45pm – 2:00pm: Coffee Break
• 2:00pm - 3:00pm: Invited Talk: Jasmin Fisher, Columbia
• 3:00pm – 4:00pm: Tech Talks Session 5 - Parts and Standardization(TBD)
  • 5BDA.1 Title
    • Authors
  • 5BDA.2 Title
    • Authors
  • 5BDA.3 Title
    • Authors
• 4:00pm – 4:15pm: Coffee Break
• 4:15pm – 5:00pm: Industrial Panel Session
• 5:15pm – 6:15pm: Invited Talk: TBA
• 6:15pm – 6:30pm: Closing remarks and post-workshop future planning

  Posters

• Title
• Authors

Mailing List

To add yourself to the IWBDA mailing list, please send an email to listserv@lists.umn.edu with a blank subject line, consisting of a single line of text: SUBSCRIBE IWBDA-list Joe Nobody (where Joe Nobody is your name).

This is a moderated list: only postings approved by the owners will be distributed. Only material directly related to IWBDA will be sent.

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Contact

• General Information: info@biodesignautomation.org
• Program: program@biodesignautomation.org
• Publication: publication@biodesignautomation.org
• Industry Liaison: industry@biodesignautomation.org
• Finances: finances@biodesignautomation.org

Related Meetings

• Biological Systems Design (BSD-SIG) 2012 @ ISMB 2012 - July 13, 2012 - Long Beach, CA USA
• Critical Assessment of Genetically Engineered Networks
• SynBioCCC
• FutureLabCamp
• Hacteria
• International Bio-Molecular Design Competition
• International Symposium on Nanoscale Architectures (NANOARCH 2012)
• International Workshop on Logic and Synthesis (IWLS 2012) @DAC - June 1 - 3, 2012

Past Years

• 3rd International Workshop on Bio-Design Automation (IWBDA 2011)
• 2nd International Workshop on Bio-Design Automation (IWBDA 2010)
• 1st International Workshop on Bio-Design Automation (IWBDA 2009)

Miscellaneous

• Iowa Wholesale Beer Distributors Association (the other IWBDA!)