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1

Self-assembly of carbon nanotubes into two-dimensional geometries using DNA origami templates

Maune, Hareem T., Han, Si-ping, Barish, Robert D., Bockrath, Marc, III, William A. Goddard, Rothemund, Paul W. K., Winfree, Erik

Journal:

Nature Nanotechnology

Année:

2009

Langue:

english

Fichier:

PDF, 846 KB

english, 2009

2

Diverse and robust molecular algorithms using reprogrammable DNA self-assembly

Woods, Damien, Doty, David, Myhrvold, Cameron, Hui, Joy, Zhou, Felix, Yin, Peng, Winfree, Erik

Journal:

Année:

2019

Langue:

english

Fichier:

PDF, 2.52 MB

english, 2019

3

A Sticker-Based Model for DNA Computation

ROWEIS, SAM, WINFREE, ERIK, BURGOYNE, RICHARD, CHELYAPOV, NICKOLAS V., GOODMAN, MYRON F., ROTHEMUND, PAUL W. K., ADLEMAN, LEONARD M.

Journal:

Journal of Computational Biology

Année:

1998

Langue:

english

Fichier:

PDF, 3.94 MB

english, 1998

4

A cargo-sorting DNA robot

Thubagere, Anupama J., Li, Wei, Johnson, Robert F., Chen, Zibo, Doroudi, Shayan, Lee, Yae Lim, Izatt, Gregory, Wittman, Sarah, Srinivas, Niranjan, Woods, Damien, Winfree, Erik, Qian, Lulu

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 2.20 MB

english, 2017

5

An autonomous polymerization motor powered by DNA hybridization

Venkataraman, Suvir, Dirks, Robert M., Rothemund, Paul W. K., Winfree, Erik, Pierce, Niles A.

Journal:

Nature Nanotechnology

Année:

2007

Langue:

english

Fichier:

PDF, 721 KB

english, 2007

6

Neural network computation with DNA strand displacement cascades

Qian, Lulu, Winfree, Erik, Bruck, Jehoshua

Journal:

Année:

2011

Langue:

english

Fichier:

PDF, 448 KB

english, 2011

7

Design and Characterization of Programmable DNA Nanotubes

Rothemund, Paul W. K., Ekani-Nkodo, Axel, Papadakis, Nick, Kumar, Ashish, Fygenson, Deborah Kuchnir, Winfree, Erik

Journal:

Journal of the American Chemical Society

Année:

2004

Langue:

english

Fichier:

PDF, 871 KB

english, 2004

8

Addendum: Diversity in the dynamical behaviour of a compartmentalized programmable biochemical oscillator

Weitz, Maximilian, Kim, Jongmin, Kapsner, Korbinian, Winfree, Erik, Franco, Elisa, Simmel, Friedrich C.

Journal:

Nature Chemistry

Année:

2014

Langue:

english

Fichier:

PDF, 739 KB

english, 2014

9

On Applying Molecular Computation to the Data Encryption Standard

ADLEMAN, LEONARD M., ROTHEMUND, PAUL W. K., ROWEIS, SAM, WINFREE, ERIK

Journal:

Journal of Computational Biology

Année:

1999

Langue:

english

Fichier:

PDF, 1.38 MB

english, 1999

10

Combining self-healing and proofreading in self-assembly

David Soloveichik, Matthew Cook, Erik Winfree

Journal:

Natural Computing

Année:

2008

Langue:

english

Fichier:

PDF, 462 KB

english, 2008

11

How crystals that sense and respond to their environments could evolve

Rebecca Schulman, Erik Winfree

Journal:

Natural Computing

Année:

2008

Langue:

english

Fichier:

PDF, 474 KB

english, 2008

12

Computation with finite stochastic chemical reaction networks

David Soloveichik, Matthew Cook, Erik Winfree, Jehoshua Bruck

Journal:

Natural Computing

Année:

2008

Langue:

english

Fichier:

PDF, 674 KB

english, 2008

13

Error suppression mechanisms for DNA tile self-assembly and their simulation

Kenichi Fujibayashi, David Yu Zhang, Erik Winfree, Satoshi Murata

Journal:

Natural Computing

Année:

2009

Langue:

english

Fichier:

PDF, 3.24 MB

english, 2009

14

The computational power of Benenson automata

David Soloveichik, Erik Winfree

Journal:

Theoretical Computer Science

Année:

2005

Langue:

english

Fichier:

PDF, 188 KB

english, 2005

15

10.1038/28998

Winfree, Erik, Liu, Furong, Wenzler, Lisa A., Seeman, Nadrian C.

Journal:

Année:

1998

Langue:

english

Fichier:

PDF, 734 KB

english, 1998

16

Simple evolution of complex crystal species

Rebecca Schulman, Erik Winfree

Journal:

Natural Computing

Année:

2012

Langue:

english

Fichier:

PDF, 587 KB

english, 2012

17

Erratum to “The computational power of Benenson automata” [Theoret. Comput. Sci. 344 (2005) 279–297]

David Soloveichik, Erik Winfree

Journal:

Theoretical Computer Science

Année:

2011

Langue:

english

Fichier:

PDF, 167 KB

english, 2011

18

Toward Reliable Algorithmic Self-Assembly of DNA Tiles: A Fixed-Width Cellular Automaton Pattern

Fujibayashi, Kenichi, Hariadi, Rizal, Park, Sung Ha, Winfree, Erik, Murata, Satoshi

Journal:

Année:

2008

Langue:

english

Fichier:

PDF, 884 KB

english, 2008

19

Complexity of Self‐Assembled Shapes

Soloveichik, David, Winfree, Erik

Journal:

SIAM Journal on Computing

Année:

2007

Langue:

english

Fichier:

PDF, 812 KB

english, 2007

20

Programmable Control of Nucleation for Algorithmic Self-Assembly

Schulman, Rebecca, Winfree, Erik

Journal:

SIAM Journal on Computing

Année:

2010

Langue:

english

Fichier:

PDF, 1.41 MB

english, 2010

21

Two Computational Primitives for Algorithmic Self-Assembly: Copying and Counting

Barish, Robert D., Rothemund, Paul W. K., Winfree, Erik

Journal:

Année:

2005

Langue:

english

Fichier:

PDF, 348 KB

english, 2005

22

Control of DNA Strand Displacement Kinetics Using Toehold Exchange

Zhang, David Yu, Winfree, Erik

Journal:

Journal of the American Chemical Society

Année:

2009

Langue:

english

Fichier:

PDF, 2.13 MB

english, 2009

23

[Natural Computing Series] Evolution as Computation || Toward in vivo Digital Circuits

Landweber, Laura F., Winfree, Erik

Année:

2002

Langue:

english

Fichier:

PDF, 1.17 MB

english, 2002

24

Diversity in the dynamical behaviour of a compartmentalized programmable biochemical oscillator

Weitz, Maximilian, Kim, Jongmin, Kapsner, Korbinian, Winfree, Erik, Franco, Elisa, Simmel, Friedrich C.

Journal:

Nature Chemistry

Année:

2014

Langue:

english

Fichier:

PDF, 7.01 MB

english, 2014

25

Toward De Novo Recapitulation of Cytoskeleton Dynamics with DNA Nanotubes

Hariadi, Rizal F., Yurke, Bernard, Winfree, Erik

Journal:

Biophysical Journal

Année:

2010

Langue:

english

Fichier:

PDF, 54 KB

english, 2010

26

Driving DNA Tweezers with an in vitro Transcriptional Oscillator

Friedrichs, Eike, Kim, Jongmin, Jungmann, Ralf, Franco, Elisa, Murray, Richard, Winfree, Erik, Simmel, Friedrich C.

Journal:

Biophysical Journal

Année:

2010

Langue:

english

Fichier:

PDF, 54 KB

english, 2010

27

Single-Molecule Tracking of Nanorobots on Pseudo-One-Dimensional DNA Origami Tracks

Michelotti, Nicole, Manzo, Anthony J., Johnson-Buck, Alex, Lund, Kyle, Nangreave, Jeanette, Dabby, Nadine, Taylor, Steven, Pei, Renjun, Stojanovic, Milan N., Winfree, Erik, Yan, Hao, Walter, Nils G.

Journal:

Biophysical Journal

Année:

2010

Langue:

english

Fichier:

PDF, 51 KB

english, 2010

28

Thermodynamic Analysis of Interacting Nucleic Acid Strands

Robert M. Dirks, Justin S. Bois, Joseph M. Schaeffer, Erik Winfree and Niles A. Pierce

Journal:

Année:

2007

Langue:

english

Fichier:

PDF, 2.48 MB

english, 2007

29

Correction to “Design and Characterization of Programmable DNA Nanotubes”

Rothemund, Paul W. K., Ekani-Nkodo, Axel, Papadakis, Nick, Kumar, Ashish, Kuchnir Fygenson, Deborah, Winfree, Erik

Journal:

Journal of the American Chemical Society

Année:

2013

Langue:

english

Fichier:

PDF, 138 KB

english, 2013

30

Toward Reliable Algorithmic Self-Assembly of DNA Tiles: A Fixed-Width Cellular Automaton Pattern

Fujibayashi, Kenichi, Hariadi, Rizal, Park, Sung Ha, Winfree, Erik, Murata, Satoshi

Journal:

Année:

2008

Fichier:

PDF, 17 KB

2008

31

Reducing Facet Nucleation during Algorithmic Self-Assembly

Chen, Ho-Lin, Schulman, Rebecca, Goel, Ashish, Winfree, Erik

Journal:

Année:

2007

Langue:

english

Fichier:

PDF, 655 KB

english, 2007

32

Ensemble Bayesian Analysis of Bistability in a Synthetic Transcriptional Switch

Subsoontorn, Pakpoom, Kim, Jongmin, Winfree, Erik

Journal:

ACS Synthetic Biology

Année:

2012

Langue:

english

Fichier:

PDF, 4.01 MB

english, 2012

33

Catalyzed Relaxation of a Metastable DNA Fuel

Seelig, Georg, Yurke, Bernard, Winfree, Erik

Journal:

Journal of the American Chemical Society

Année:

2006

Langue:

english

Fichier:

PDF, 1.37 MB

english, 2006

34

Dynamic Allosteric Control of Noncovalent DNA Catalysis Reactions

Zhang, David Yu, Winfree, Erik

Journal:

Journal of the American Chemical Society

Année:

2008

Langue:

english

Fichier:

PDF, 847 KB

english, 2008

35

Direct Atomic Force Microscopy Observation of DNA Tile Crystal Growth at the Single-Molecule Level

Evans, Constantine G., Hariadi, Rizal F., Winfree, Erik

Journal:

Journal of the American Chemical Society

Année:

2012

Langue:

english

Fichier:

PDF, 4.97 MB

english, 2012

36

Construction, Analysis, Ligation, and Self-Assembly of DNA Triple Crossover Complexes

LaBean, Thomas H., Yan, Hao, Kopatsch, Jens, Liu, Furong, Winfree, Erik, Reif, John H., Seeman, Nadrian C.

Journal:

Journal of the American Chemical Society

Année:

2000

Langue:

english

Fichier:

PDF, 696 KB

english, 2000

37

[ACM Press the thirty-second annual ACM symposium - Portland, Oregon, United States (2000.05.21-2000.05.23)] Proceedings of the thirty-second annual ACM symposium on Theory of computing - STOC '00 - The program-size complexity of self-assembled squares (extended abstract)

Rothemund, Paul W. K., Winfree, Erik

Année:

2000

Langue:

english

Fichier:

PDF, 950 KB

english, 2000

38

Thermodynamic Analysis of Interacting Nucleic Acid Strands

Dirks, Robert M., Bois, Justin S., Schaeffer, Joseph M., Winfree, Erik, Pierce, Niles A.

Journal:

Année:

2007

Langue:

english

Fichier:

PDF, 656 KB

english, 2007

39

On the Reduction of Errors in DNA Computation

ROWEIS, SAM, WINFREE, ERIK

Journal:

Journal of Computational Biology

Année:

1999

Langue:

english

Fichier:

PDF, 1.61 MB

english, 1999

40

Algorithmic Self-Assembly of DNA: Theoretical Motivations and 2D Assembly Experiments

Journal:

Journal of Biomolecular Structure and Dynamics

Année:

2000

Langue:

english

Fichier:

PDF, 729 KB

english, 2000

41

Construction of an in vitro bistable circuit from synthetic transcriptional switches

Kim, Jongmin, White, Kristin S, Winfree, Erik

Journal:

Molecular Systems Biology

Année:

2006

Langue:

english

Fichier:

PDF, 443 KB

english, 2006

42

[Natural Computing Series] Evolution as Computation || The Evolutionary Unfolding of Complexity

Landweber, Laura F., Winfree, Erik

Année:

2002

Langue:

english

Fichier:

PDF, 788 KB

english, 2002

43

Increasing Redundancy Exponentially Reduces Error Rates during Algorithmic Self-Assembly

Schulman, Rebecca, Wright, Christina, Winfree, Erik

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 4.86 MB

english, 2015

44

Integrating DNA strand-displacement circuitry with DNA tile self-assembly

Zhang, David Yu, Hariadi, Rizal F., Choi, Harry M.T., Winfree, Erik

Journal:

Nature Communications

Année:

2013

Langue:

english

Fichier:

PDF, 1.35 MB

english, 2013

45

Thermodynamics and kinetics of DNA nanotube polymerization from single-filament measurements

Hariadi, Rizal F., Yurke, Bernard, Winfree, Erik

Journal:

Chemical Science

Année:

2015

Langue:

english

Fichier:

PDF, 1.48 MB

english, 2015

46

[ACM Press the 4th conference - Berkeley, California, USA (2013.01.09-2013.01.12)] Proceedings of the 4th conference on Innovations in Theoretical Computer Science - ITCS '13 - Active self-assembly of algorithmic shapes and patterns in polylogarithmic time

Woods, Damien, Chen, Ho-Lin, Goodfriend, Scott, Dabby, Nadine, Winfree, Erik, Yin, Peng

Année:

2013

Langue:

english

Fichier:

PDF, 647 KB

english, 2013

47

[ACM Press the 48th Design Automation Conference - San Diego, California (2011.06.05-2011.06.10)] Proceedings of the 48th Design Automation Conference on - DAC '11 - Joint DAC/IWBDA special session design and synthesis of biological circuits

Densmore, Douglas, Horowitz, Mark, Krishnaswamy, Smita, Shen, Xiling, Arkin, Adam, Winfree, Erik, Voigt, Chris

Année:

2011

Langue:

english

Fichier:

PDF, 159 KB

english, 2011

48

Determining hydrodynamic forces in bursting bubbles using DNA nanotube mechanics

Hariadi, Rizal F., Winfree, Erik, Yurke, Bernard

Journal:

Proceedings of the National Academy of Sciences

Année:

2015

Langue:

english

Fichier:

PDF, 1.00 MB

english, 2015

49

Timing molecular motion and production with a synthetic transcriptional clock

Elisa Franco, Eike Friedrichs, Jongmin Kim, Ralf Jungmann, Richard Murray, Erik Winfree and Friedrich C. Simmel

Journal:

Proceedings of the National Academy of Sciences

Année:

2011

Langue:

english

Fichier:

PDF, 494 KB

english, 2011

50

Physical principles for DNA tile self-assembly

Evans, Constantine G., Winfree, Erik

Journal:

Chemical Society Reviews

Année:

2017

Langue:

english

Fichier:

PDF, 4.94 MB

english, 2017