Erik Winfree

Computer Science
Computation and Neural Systems
Caltech, MS 136-93, Moore 204B
Pasadena, CA 91125 [USA]
Voice: (626) 395-6246
FAX: (626) 584-0630
Assistant: Lucinda Acosta, x5707

The Molecular Programming Project

Research Interests Group research on biomolecular computation
    - DNA computation, DNA nanotechnology, and Molecular Programming
    - Algorithmic self-assembly
    - In vitro biochemical circuits and systems
    - Enzyme-free DNA strand displacement circuits
    - DNA-based molecular robotics
    - Molecular self-replicating systems and evolution
    - Multistranded DNA and RNA interaction kinetics
    - Nucleic acid system specification and sequence design
    - Fault-tolerant molecular computing
DNA Group Research Publications. My publications on Google Scholar and on on ResearchID.
DNA Lab Wiki. The 2011 Caltech BIOMOD Team.
Teaching Office hours: Moore 204, 2-3pm Wednesdays, Winter Term 2015. (3-4pm Wed Jan 28 only)

CNS/Bi/Ph/CS 187: Neural Computation (Fall 2000- 2006, Fall 2007, Fall 2008)
(used to be CNS/Bi/Ph 185: Collective Computation).
CNS/CS/Bi 288: DNA and Molecular Computation (Winter 2001)
BE 168: Reading the Bioengineering Literature (Winter 2013)
BE/CS/CNS/Bi 191ab: Biomolecular Computation (Winter/Spring 2002, 2005, 2007, 2010, Winter/Spring 2011, Fall 2011, Winter/Spring 2014, Winter/Spring 2015)
CS/EE/Ma 129ab and/or c: Information and Complexity (Fall 2002, Fall 2003, Winter/Spring 2007, Winter/Spring 2008, Fall/Winter/Spring 2009-2010, Fall 2011)

Computing Beyond Silicon Summer School (June 17 - July 17, 2002; June 14 - July 9, 2004)
Collaborators, Past and Present Len Adleman's Group (USC CS).
Marc Bockrath's Group (University of California, Riverside).
Shuki Bruck's Group (Caltech EE).
Luca Cardelli (Microsoft Research Cambridge).
Anne Condon (U. British Columbia).
Matt Cook's Group (INI, ETH).
Deborah Fygenson's Group (UCSB Physics).
Peter Gacs (Boston University CS).
Bill Goddard's Group (Caltech).
Ashish Goel's Group (Stanford MSE).
Eric Klavins's Group (U. Washington-Seattle EE).
Hideo Mabuchi's Group (Stanford Applied Physics).
Satoshi Murata's Group (Tohoko University).
Richard Murray's Group (Caltech CDS).
Niles Pierce's Group (Caltech Bioengineering).
Lulu Qian's Group (Caltech Bioengineering).
John Reif's Group (Duke University).
Paul Rothemund (Caltech Bioengineering).
Grzegorz Rozenberg's Group (Leiden Center for Natural Computing).
Rebecca Schulman (Johns Hopkins).
Georg Seelig (U. Washington-Seattle EE).
Ned Seeman's Group (New York University).
Fritz Simmel's Group (Tech. U. Munich).
Milan Stojanovic (Columbia University).
Andrew Turberfield (Oxford Condensed Matter Physics).
Hao Yan's group (Arizona State University, Chemistry).
Peng Yin (Wyss Institute, Harvard).
Bernard Yurke (Boise State University).

An exceptional artist: Ann Erpino.
Awards and Recognition My C.V. (long form)
MIT's Technology Review Magazine's TR100 award (1999).
Tulip Award in DNA Computing (2000).
MacArthur Fellowship (2000).
NSF PECASE award (2001) and ONR YIP award (2001).
Foresight Nanotech Institute's Feynman Prize in Theory and Experiment, shared with Paul Rothemund (2006).
MIT's Technology Review Magazine has two issues where they describe my work: November/December 1999 (TR100 Award) and May/June 2000.
I was interviewed by Discover Magazine in the July-August 2009 issue.
I was also interviewed by Genetic Engineering & Biotechnology News in October, 2009.
Workshops and Conferences Organizer: 17th International Conference on DNA Computing and Molecular Programming, September 19 - 23, 2011.
Co-organizer: CBCD workshop on Self-Replicating Chemical Systems, August 27 - 28, 2007.
Co-organizer: Banff workshop on Stochasticity in Biochemical Reaction Networks, June 15 - 17, 2007.
Co-organizer: CBCD workshop on Engineering a DNA World, Jan 6 - 8, 2005.
Co-organizer: Banff workshop on dynamics, control and computation in biochemical networks August 21 - 26, 2004.
Co-organizer: 5th DNA-Based Computers Meeting, MIT, June 14-15, 1999.
Co-organizer: DIMACS Workshop on Evolution as Computation, Princeton, January 11 - 12, 1999.
Professional Societies ISNSCE ("Essence"): International Society for Nanoscale Science, Computation, and Engineering, which sponsors two annual conferences: FNANO and DNA Computing and Molecular Programming.
ACM: Association for Computing Machinery.
ACS: American Chemical Society.
MAA: Mathematical Association of America.
AMS: American Mathematical Society.
AAAS: American Association for the Advancement of Science.
Past Life As a Visiting Scientist in Tom Knight's Group at the MIT AI Lab.
As a Postdoctoral Scholar in Stan Leibler's group group (when he was at Princeton University).
As a graduate student in John Hopfield's Group (when he was at Caltech) and in Al Barr's Group at Caltech.
Hence: ---(old defunct molecular computation pages)--- and: ---(old SIRDS page)---

Working with Stephen Wolfram and Matthew Cook.
As an undergraduate at the University of Chicago, and for half a year doing math in Budapest.
I went to Evanston Township High School and the best math summer camp ever.
First science teacher: Dad. His 1964 essay on "The Scientist as Poet" A nice essay about going to grad school that quotes my dad at the end.
Family The love of my life, Lulu Qian. My sister, Rachael Winfree. My brother, Chris Woollcott. My mother, Trish Woollcott. My step-father, Phil Woollcott. My father, Art Winfree.

Information about my food allergies