Preliminary Technical Program Technical Program.pdfSelf-assembled Photonic crystals from shear ordered block copolymers..... 5 Andrew Parnell, Patrick Fairclough and Oleksandr Mykhaylyk

FNANO12 Table of Contents

Table of Contents

Keynote: Top-down meets Bottom-up/Self-Assembly across Scales

Biomolecular Architectures and Systems for Nanoengineering Solid State Materials . . . . . . . 1

Jennifer Cha

Invited: Top-down meets Bottom-up/Self-Assembly across Scales

Nanoscale Origami . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2

Teena James, Si Young Park and David Gracias

Directed assembly of one-dimensional DNA nanostructures on lithographicallypatterned surface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3

Risheng Wang, Matteo Palma, Erika Penzo and Shalom Wind

Contributed: Top-down meets Bottom-up/Self-Assembly across Scales

Pattern transformation using a DNA-based amorphous computer . . . . . . . . . . . . . . . . . . . . . . . . . 4

Steven Chirieleison, Peter Allen, Andrew McIver, Andrew Ellington and Xi Chen

Posters: Top-down meets Bottom-up/Self-Assembly across Scales

Self-assembled Photonic crystals from shear ordered block copolymers . . . . . . . . . . . . . . . . . . . . 5

Andrew Parnell, Patrick Fairclough and Oleksandr Mykhaylyk

Electrokinetic Feedback Control of Colloidal Crystal Size . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6

Jaime Juarez, Pramod Mathai, James Alexander Liddle and Michael Bevan

Electrostatic Layer-by-Layer Self Assembly of Polymers from Organic Solvents –Physico-Chemical Peculiarities Encapsulation of Biomacromolecules . . . . . . . . . . . . . . . . . . . . . 7

Sebastian Beyer and Dieter Trau

Deposition of DNA origami on chemically modified graphene . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8

Marya Lieberman, Kyoung Nan Kim, Je Moon Yun, Ju Young Kim, Dong Ok Shin,Won Jun Lee, Sun Hwa Lee and Sang Ouk Kim

Keynote: Track on Computational Tools for Self-assembly

Exploring Hollywood’s Tools for Scientific Visualization . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9

Campbell Strong and Gael McGill

Invited: Track on Computational Tools for Self-assembly

Bioengineering at the Digital Laboratory Bench . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10

Ebbe Andersen, Rasmus Sørensen, Aurelien Tabard, Juan Hincapie-Ramos, JørgenKjems and Jakob Bardram

Software tools for automated design of dynamic nucleic acid systems . . . . . . . . . . . . . . . . . . . . . 11

Casey Grun, Justin Werfel, David Yu Zhang and Peng Yin

1

Preliminary Technical Program


In Silico Design, In Vitro Characterization and Ex-Vivo Studies of FunctionalRNA-based Nanoparticles . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12

Bruce Shapiro

Posters: Track on Computational Tools for Self-assembly

Kissing complexes and pulling simulations of a coarse-grained model for DNA . . . . . . . . . . . . 13

Flavio Romano, Thomas E. Ouldridge, Jonathan P. K. Doye and Ard A. Louis

Holliday Triangle Hunter (HolT Hunter): E!cient Software for Identifying Low StrainDNA Triangular Configurations . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 14

William Sherman

vHelix for Maya – Lattice Free DNA Nanostructure CAD . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15

Johan Gardell, Pavan Kumar Areddy and Bjorn Hogberg

A Numeric Secondary Structure Representation Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16

M. Leigh Fanning, Joanne Macdonald and Darko Stefanovic

Keynote: Track on Molecular Motors

Rotation of the rotor-less molecular motor protein . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 17

Hiroyuki Noji

Invited: Track on Molecular Motors

From molecular motors to propelled motion of a four-wheeled molecule . . . . . . . . . . . . . . . . . . . 18

Tibor Kudernac

Contributed: Track on Molecular Motors

Controlling motor direction in response to a chemical signal . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19

Richard Muscat, Jonathan Bath and Andrew Turberfield

Towards Collective Intelligence in Molecules: Two and three interacting molecular spiders 20

Oleg Semenov, Darko Stefanovic and Milan Stojanovic

Posters: Track on Molecular Motors

Rotary catalysis mechanism of motor protein; F1-ATPase . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 21

Rikiya Watanabe, Mizue Tanigawara, Hidenobu Arai, Kazuma Koyasu and HiroyukiNoji

Phase-Field Model of Self-Polarization and Cell Movement . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22

Igor Aronson, Falko Ziebert and Sumanth Swaminathan

Coarse-Grained Modelling of a Burnt Bridges DNA Motor. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 23

Petr Sulc, Alex Lucas, Thomas Ouldridge, Flavio Romano, Ard Louis, JonathanDoye, Jonathan Bath and Andrew Turberfield

Super-Resolution Tracking of DNA Nanomachines Using Quantum Dots . . . . . . . . . . . . . . . . . . 24

Robert Machinek, Jon Bath and Andrew Turberfield

2



Tau Protein Detection in a Molecular Motor System. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 25M. C. Tarhan, H. Qiu, R. Yokokawa, S. L. Karsten and H. Fujita

Keynote: Track on DNA Nanostructures I (Tuesday)

Molecular DNA Devices in Living Systems . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26Yamuna Krishnan

Invited: Track on DNA Nanostructures I (Tuesday)

Single-stranded DNA nanotubes: The structure formation mechanisms . . . . . . . . . . . . . . . . . . . 27Michael Mertig, Philipp Fuchsenberger, Anja Henning, Ofer Wilner and Itamar Willner

A Preliminary Study on Colloidal Crystallization of DNA Motifs . . . . . . . . . . . . . . . . . . . . . . . . . 28Shogo Hamada and Satoshi Murata

Modular Self-assembly of Molecular Shapes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 29Bryan Wei, Mingjie Dai and Peng Yin

Parallel enzymatic production of thousands of high quality oligonucleotides forstructural DNA nanotechnology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30Thorsten L Schmidt and William M Shih

Direct visualization of single transcription on the designed DNA nanosca"old . . . . . . . . . . . . . 31Masayuki Endo, Koich Tatsumi, Kosuke Terushima, Yousuke Katsuda, Kumi Hidaka,Yoshie Harada and Hiroshi Sugiyama

Posters: Track on DNA Nanostructures I (Tuesday)

Molecular lithography through DNA-mediated etching of SiO2 . . . . . . . . . . . . . . . . . . . . . . . . . . . 32Haitao Liu

Strand displacement reaction (SDR) optimization on the solid phase. . . . . . . . . . . . . . . . . . . . . . 33Hamid Ramezani and D. Jed Harrison

Exploring the assembly of DNA origami nanostructures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 34Jean-Philippe J. Sobczak, Thomas G. Martin, Thomas Gerling and Hendrik Dietz

A DNA-Based Nanomechanical Device Used to Characterize the Distortion of DNA byApo-SoxR Protein . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35Chunhua Liu, Eunsuk Kim, Bruce Demple and Nadrian C. Seeman

DNA nanostructures for biological physics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 36Hendrik Dietz, Fabian Kilchherr, Christian Wachauf, Emanuel Pfitzner, Jonas Funke,Matthias Schickinger and Evi Stahl

Kinetics of Quantum Dot-DNA Origami Binding:A Single Particle, 3D Real-TimeTracking Study . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 37Kan Du, Seung Hyeon Ko, J. Alexander Liddle and Andrew Berglund

Modelling the folding of DNA origami . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38Jean Michel Arbona, Elezgaray Juan and Jean Pierre Aime

Silver atom and strand numbers in fluorescent and dark Ag:DNAs . . . . . . . . . . . . . . . . . . . . . . . 39Danielle Schultz and Elisabeth Gwinn

3



Global surface functionalization of DNA origami structures with PAMAM dendrimers . . . . 40

Anne Louise Bank Kodal, Rasmus Scholer Sorensen, Katerina Busuttil, FlemmingBesenbacher, Jørgen Kjems and Kurt Gothelf

Manipulating aptamer architectures at the nanoscale . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 41

Chunhua Liu, Michelle Byrom, Peng Yin and Andrew D. Ellington

Shaping Light with DNA-based Self-Assembly . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 42

Anton Kuzyk, Robert Schreiber, Zhiyuan Fan, Gunther Pardatscher, Eva-MariaRoller, Alexander Hogele, Friedrich C. Simmel, Alexander O. Govorov and Tim Liedl

Crystallization analysis of DNA crystals grown by substrate-assisted growth . . . . . . . . . . . . . . 43

Junwye Lee, Shogo Hamada, Si Un Hwang, Junyoung Son, Rashid Amin, SatoshiMurata and Sung Ha Park

Yield of Nanoparticle Attachment to DNA Origami as a Function of Binding SiteDesign and Periodicity . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 44

Elton Graugnard, Craig Onodera, Sadao Takabayashi, Nathan Robinson, Hieu Bui,Jeunghoon Lee, Wan Kuang, William Knowlton, Bernard Yurke and William Hughes

pH-responsive non-canonical base pairs for the construction of 3D DNA crystals . . . . . . . . . . 45

Paul Paukstelis

Programmability of Quadruplex DNA Folding . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 46

Mateus Webba Da Silva and Ioannis Karsisiotis

Keynote: Track on Synthetic Biology

Orthogonal riboswitches as tools for controlling gene expression in bacteria . . . . . . . . . . . . . . . 47

Jason Micklefield

Invited: Track on Synthetic Biology

Using Small Molecules to Engineer and Explore Human Immunity . . . . . . . . . . . . . . . . . . . . . . . . 48

David Spiegel

Contributed: Track on Synthetic Biology

Template-Guided Size-Selective Sorting and Assembly of Mammalian Cells . . . . . . . . . . . . . . . 49

Gunjan Agarwal and Carol Livermore

Posters: Track on Synthetic Biology

Molecular programming with a transcription and translation cell-free system: syntheticcoliphages and artificial cell. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 50

Jonghyeon Shin and Vincent Noireaux

Light-Regulation of DNA Logic Gates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 51

Alex Prokup, James Hemphill and Alex Deiters

Building Enhancers from the Ground Up . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 52

Roee Amit

4



Functional Microtubule Arrays using DNA-Kinesin Hybrids . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 53

Adam Wollman, Carlos Sanchez-Cano, Helen Carstairs, Robert Cross and AndrewTurberfield

Reconstructing synthetic cellular compartments on a surface. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54

Roy Bar-Ziv

Retroactivity Reduction in Doubly Phosphorylated Competing Cascades . . . . . . . . . . . . . . . . . 55

Vishwesh Kulkarni, Pulkit Grover, Marc Riedel and Andrea Goldsmith

Keynote: Track on Biomedical Nanotechnology

Smart Nanoreservoirs of therapeutics can Regenerate Tissue . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56

Nadia Benkirane-Jessel

Invited: Track on Biomedical Nanotechnology

Scalable Combinatorial DNA Barcodes for Multiplexed Bio-Analytics . . . . . . . . . . . . . . . . . . . . . 57

Ishan Gupta and Daniel Lubrich

Cellular uptake, biodistribution and toxicity of geometrically defined silica and goldnanoparticles . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 58

Hamid Ghandehari, Tian Yu, Heather Herd, Adam Gormley and Nate Larson

Contributed: Track on Biomedical Nanotechnology

Bacterial Backpacking. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59

Teena James, Mert Karakoy, Chih-Chieh Chan and David Gracias

Posters: Track on Biomedical Nanotechnology

Targeting Inaccessible Tumors in the Brain with Viral Nanoparticles . . . . . . . . . . . . . . . . . . . . . 60

Stephanie Chung, Amy Wen, Christine Debaz, Sourav Dey, Nicole Steinmetz andAnn-Marie Brooome

Synthetic Running and Tumbling: An Autonomous Navigation Strategy forSelf-Assembled Catalytic Nanoswimmers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61

Stephen Ebbens, Gavin Buxton, Alexander Alexeev, Alireza Sadeghi and Jonathan Howse

Chemically Self-Assembled Nanostructures (CSAN’s) for cellular delivery of proteinsand nucleic acids . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 62

Amit Gangar, Adrian Fegan, Sidath C. Kumarapperuma and Carston R. Wagner

DNA Origami Nanostructures as biocompatible immunostimmulative carrier system forCpG Oligonucleotides . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 63

Verena Schuller, Simon Heidegger, Nadja Sandholzer, Philipp Nickels, Nina Suhartha,Stefan Endres, Carole Bourquin and Tim Liedl

DNA Templated Protein Modification . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 64

Thomas Tørring, Niels V. Voigt, Christian B. Rosen, Anne Louise B. Kodal, KasperJahn, Jørgen Kjems and Kurt V. Gothelf

5



Operation of a DNA-Based Nanomachine in Human Serum and Blood . . . . . . . . . . . . . . . . . . . . 65Elton Graugnard, Sara Goltry, Jessica Minick, Tyler Clark, Jeunghoon Lee, BernardYurke and William Hughes

DNA/polymer hybrid nanostructures for drug delivery and diagnostics . . . . . . . . . . . . . . . . . . . 66Andreas Herrmann

Enzymatic DNA oligonucleotide production . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 67Cosimo Ducani, Corinna Kaul, Shawn Douglas, William Shih and Bjorn Hogberg

Activation of RNAi with auto-recognizing therapeutic R/DNA chimeric hybrids: Anovel approach for biomedical RNA nanotechnology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 68Kirill Afonin, Mathias Viard, Stephen Lockett, Luc Jaeger, Robert Blumenthal andBruce Shapiro

Engineering parameters in synthesis of branched gold nanoparticles . . . . . . . . . . . . . . . . . . . . . . . 69Jaeseung Hahn, Daniel Thorek and Jan Grimm

Keynote: Track on Self-assembling Circuit and Device Architectures

Nanomagnet Logic: A New Paradigm in Low-Power Computing Systems . . . . . . . . . . . . . . . . . 70Gary Bernstein, Peng Li, Faisal Shah and Mohammad Siddiq

Invited: Track on Self-assembling Circuit and Device Architectures

Programming matter(s): from Turing to Kilby and back to E.Coli. . . . . . . . . . . . . . . . . . . . . . . . 71Anthony Genot, Jon Bath, Teruo Fujii, Yannick Rondelez and Andrew Turberfield

Plasmid-derived DNA Gates for Implementing Chemical Reaction Networks . . . . . . . . . . . . . . 72Georg Seelig

Contributed: Track on Self-assembling Circuit and Device Architectures

Excitonic Waveguides Switchable by DNA Strand Invasion . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 73Elton Graugnard, Donald Kellis, Hieu Bui, Stephanie Barnes, Wan Kuang,Jeunghoon Lee, William Hughes, William Knowlton and Bernard Yurke

Posters: Track on Self-assembling Circuit and Device Architectures

Laser Remote Sensing enabled by DNA Self-assembly and Resonance Energy Transfer . . . . 74Siyang Wang and Chris Dwyer

3Input Majority Logic Gate and Complex Gate Implementations Based on DNA StrandDisplacement . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 75Wei Li, Yan Liu and Hao Yan

Multilogic Algorithmic Self-Assembly. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 76Jihoon Shin, Junghoon Kim, Seungjae Kim, Young Hun Kwon and Sung Ha Park

Controlling deoxyribozyme activity by strand displacement reactions . . . . . . . . . . . . . . . . . . . . . 77Carl W. Brown Iii, Matthew R. Lakin, Steven Graves and Darko Stefanovic

Keynote: Track on Carbon Nanostructures

6



Controlled Fabrication and Self-assembling of Carbon Nanomaterials for MultifunctionalApplications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 78

Liming Dai

Invited: Track on Carbon Nanostructures

Unique Thermal Properties of Graphene: Applications in Thermal Management ofAdvanced Electronics and Optoelectronics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 79

Alexander Balandin

Selective Growth of Enriched Semiconducting Single Walled Carbon Nanotubes . . . . . . . . . . 80

Weiwei Zhou, Shutong Zhan, Lei Ding and Jie Liu

THE MECHANISM OF INTERACTION OF Li+ WITH GRAPHITE,SINGLE-LAYER AND MULTI-LAYER GRAPHENE . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 81

Robert Kostecki, Jordi Cabana, Ulrike Boesenberg and Elad Pollak

Posters: Track on Carbon Nanostructures

Biocompatibilization of Diamond Nanoparticles by Controlled Growth of Polymers . . . . . . . 82

Ivan Rehor, Jitka Slegerova, Miroslav Ledvina, Martin Hruby, Hana Mackova, JanKucka, Sergey Filippov, Vladimir Proks and Petr Cigler

Boosting the luminiscence of nanodiamonds . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 83

Jan Havlik, Ivan Rehor, Miroslav Ledvina, Vladimira Petrakova, Vaclav Petrak, MilosNesladek, Jan Kucka, Jan Ralis, Jan Stursa and Petr Cigler

The pathway to biocompatible fluorescent diamond nanoparticles . . . . . . . . . . . . . . . . . . . . . . . . . 84

Ivan Rehor, Jana Lokajova, Jan Havlik, Jitka Slegerova, Miroslav Ledvina, SourabhShukla, Amy Wen, Nicole Steinmetz and Petr Cigler

Pt-NPs/MWNT Nanohybrid as a Robust and Low-cost Counter Electrode Material forDye-sensitized Solar Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 85

Van-Duong Dao, Seung Hyeon Ko and Ho-Suk Choi

The Interplay of Temperature and Density in the Synthesis of Carbon Nanotube Forestby Injection Chemical Vapor Deposition . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 86

Robert Call, Carlos Read, Cody Mart and T-C Shen

Assembly of a graphene-DNA junction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 87

Alfredo Bobadilla and Jorge Seminario

Graphene Nanoribbon Crossbar Array. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88

Roger Lake and K. M. Masum Habib

Graphene-on-Diamond Devices with Strongly Enhanced Current-Carrying Capacity:Carbon-on-Carbon Technology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 89

Jie Yu, Guanxiong Liu, Anirudha Sumant and Alexander Balandin

7



Disassembly of Self-Assembled DNA-SWNT Hybrids by Interaction withComplementary Biomolecules . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90

Seungwon Jung, Misun Cha, Jayanti Das, Hanyung Jung, Sangwoong Baek andJunghoon Lee

Invited: Track on DNA Nanostructures II (Wednesday)

Structural DNA Nanotechnology for Nanophotonic Applications . . . . . . . . . . . . . . . . . . . . . . . . . . 91

Anirban Samanta, Palash Dutta, Suchetan Pal, Zhengtao Deng and Yan Liu

PEGylation of DNA Nanostructures: Synthesis and Characterization . . . . . . . . . . . . . . . . . . . . . 92

Rasmus Schøler Sørensen, Kasper Jahn and Jørgen Kjems

DNA Sudare: a Relaxed DNA Origami Assembly. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 93

Akinori Kuzuya, Shinya Minamida, Mirai Hashizume and Yuichi Ohya

Enzymatically Produced DNA Nanostructures and Scale-Up Origami . . . . . . . . . . . . . . . . . . . . . 94

Cosimo Ducani, Corinna Kaul, Alan Shaw, Pavan Kumar Areddy, Philipp Nickels,Tim Liedl, William Shih and Bjorn Hogberg

Posters: Track on DNA Nanostructures II (Wednesday)

Immunostimulatory Properties of Dynamically Stabilized Oligonucleotide Micelles . . . . . . . . 95

Haipeng Liu and Darrell Irvine

DNA nanostructures for electrophysiology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 96

Thomas G. Martin, Ruoshan Wei, Martin Langecker, Vera Arnaut, Ulrich Rant,Friedrich Simmel and Hendrik Dietz

Encapsulation of 3D DNA Nanostructures in Lipid Bilayers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 97

Steven Perrault and William Shih

A-motif mediated pH toggled DNA architectures reveal intramolecular conformationaldynamics of A-motifs. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 98

Sonali Saha, Yamuna Krishnan, Dhiraj Bhatia and Kasturi Chakraborty

Sub-micrometer Geometrically Encoded Fluorescent Barcodes Self-Assembled from DNA . 99

Chenxiang Lin, Ralf Jungmann, Andrew Leifer, Chao Li, Daniel Levner, WilliamShih and Peng Yin

DNA-based assembly of plasmonic structures with tailored optical response . . . . . . . . . . . . . . . 100

Anton Kuzyk, Robert Schreiber, Alexander Hoegele, Friedrich C. Simmel, AlexanderO. Govorov and Tim Liedl

DNA Origami Nanopores . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 101

Nicholas Bell, Silvia Hernandez-Ainsa, Christian Engst, Tim Liedl and Ulrich Keyser

DNA Gridiron . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 102

Dongran Han, Yan Liu and Hao Yan

Two-Dimensional Self-Assembly and Photo-Cross-Linking InducedThermal-Stabilization of DNA Origami Structures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 103

Arivazhagan Rajendran, Masayuki Endo, Kumi Hidaka and Hiroshi Sugiyama

8



Model of DNA Adsorption for Substrate-Assisted Self-Assembly of DNA Nanostructure. . . 104

Shogo Kudo, Shogo Hamada and Satoshi Murata

Deconstructing DNA Origami: Eliminating the Sca"old . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 105

Divita Mathur and Eric Henderson

Light-controlled Catalytic DNA Circuits. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 106

Luvena Ong, David Zhang and Peng Ying

Heterogeneous assembly of quantum dots and gold nanoparticles on DNA origamitemplates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 107

Risheng Wang, Colin Nuckolls and Shalom Wind

2D and 3D DNA Lattices Via Staggered Assembly of the Double-Decker Tile . . . . . . . . . . . . . 108

Nikhil Gopalkrishnan, Harish Chandran and John Reif

Activatable Tiles: Demonstration of Linear and Directed Self Assembly. . . . . . . . . . . . . . . . . . . 109

Harish Chandran, Sudhanshu Garg, Nikhil Gopalkrishnan and John H Reif

Study of the ParMRC plasmid partitioning system using DNA origami . . . . . . . . . . . . . . . . . . . 110

Sungwook Woo, Christopher R. Rivera, R. Dyche Mullins and Paul W. K. Rothemund

Di"erent fabrication methods and device applications by DNA lattices . . . . . . . . . . . . . . . . . . . 111

Sung Ha Park, Sreekantha Reddy Dugasani, Rashid Amin, Junghoon Kim, JihoonShin, Junwye Lee, Byeonghoon Kim, Sieun Hwang, Junyoung Son, Seungjae Kim andSaima Bashar

Keynote: Track on Principles and Theory of Self-assembly

Emerging temporal patterns from DNA networks . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 112

Yannick Rondelez

Invited: Track on Principles and Theory of Self-assembly

Justifying the toehold-length dependence of DNA strand displacement rates . . . . . . . . . . . . . . 113

Thomas Ouldridge, Petr Sulc, Niranjan Srinivas, Ard Louis, Jonathan Doye, ErikWinfree, Joseph Schae!er and Bernard Yurke

Geometric principles for self-folding polyhedra: theory and experiment . . . . . . . . . . . . . . . . . . . 114

Shivendra Pandey, David Gracias and Govind Menon

Posters: Track on Principles and Theory of Self-assembly

Clathrin Self-Assembly is Driven by Membrane Forces . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 115

Nicholas Cordella, Thomas Lampo, Shafigh Mehraeen and Andrew Spakowitz

Implementing arbitrary chemical reaction networks with DNA: a case study . . . . . . . . . . . . . . 116

Niranjan Srinivas, David Soloveichik, Erik Winfree and Georg Seelig

Spin Glasses and Tile Self-Assembly . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 117

Russell Deaton and Tyler Moore

Keynote: Track on Integrated Chemical Systems

9



Self-assembled Molecular Spheres as Sca"olds for Molecular Integration. . . . . . . . . . . . . . . . . . . 118

Makoto Fujita

Invited: Track on Integrated Chemical Systems

Developing Self-Assembled Films of Porphyrins and Ruthenium Complexes forApplication in Molecular Devices . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 119

Henrique Toma, Sergio Toma, Jonnatan Santos and Koiti Araki

Programmable One-Pot Multistep Organic Synthesis Using DNA Junctions . . . . . . . . . . . . . . . 120

Mireya Mckee, Phillip J. Milnes, Jonathan Bath, Eugen Stulz, Rachel K. O’reilly andAndrew J. Turberfield

Switching and Cooperative Behaviour of Molecules and Supramolecules at AtomicallyClean Surfaces . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 121

Thomas Jung

Keynote: Track on Peptide and Protein Self-assembly

Using Viral Capsids to Build Integrated Photocatalytic Systems . . . . . . . . . . . . . . . . . . . . . . . . . . 122

Matthew Francis

Invited: Track on Peptide and Protein Self-assembly

Reconfigurable self-assembly through chiral control of interfacial tension . . . . . . . . . . . . . . . . . . 123

Zvonimir Dogic

Contributed: Track on Peptide and Protein Self-assembly

Functional Polymer-Protein Nanoparticles by Atom Transfer Radical Polymerizationfrom the Surface of Bacteriophage Qeta . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 124

Jonathan Pokorski, Kurt Breitenkamp and M.G. Finn

Recent advances and new challenges in S-layer protein self-assembly . . . . . . . . . . . . . . . . . . . . . . 125

Dietmar Pum, David Schuster and Uwe B. Sleytr

Posters: Track on Peptide and Protein Self-assembly

A novel platform technology based on flexible filaments from plant viruses . . . . . . . . . . . . . . . 126

Sourabh Shukla and Nicole Steinmetz

Chemical Engineering of Brome Mosaic Virus for Biomedical Applications . . . . . . . . . . . . . . . . 127

Ibrahim Yildiz, Irina Tvestkova, Amy Wen, Sourabh Shukla, Bodgan Dragnea andNicole Steinmetz

Engineering Viral Nanoparticles for Applications in Medicine: Bio-orthogonalChemistries to Load the Interior Cavity of VNPs with Drugs and Imaging Moieties . . . . . . 128

Amy Wen, George Lomonosso! and Nicole Steinmetz

Keynote: Track on Self-assembled Surface chemistry

10



Nanomembranes for Time-of-Flight Mass Spectrometry of Proteins . . . . . . . . . . . . . . . . . . . . . . . 129Jonghoo Park, Hyun-Cheol Shin, Hyunseok Kim, Lloyd Smith and Robert Blick

Invited: Track on Self-assembled Surface chemistry

RNA-Mediated Gene Assembly from DNA Arrays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 130Cheng-Hsien Wu, Matthew R. Lockett and Lloyd M. Smith

Origami Meets Graphene: Prospects and Perils . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 131Masudur Rahman, David Ne! and Michael Norton

Posters: Track on Self-assembled Surface chemistry

Phase separation and vertical stratification in organic polymer photovoltaics . . . . . . . . . . . . . . 132Andrew Parnell, Alan Dunbar and Richard Jones

Self Assembly of Zinc Oxide Nanoparticle Synthesis at Low Temperature with Co,Ni,and Mn Dopants . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 133Jared Hancock and Roger Harrison

Adsorbing, Desorbing, and Jamming DNA origami on SAMs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 134Valerie Goss and Marya Lieberman

Assembly of Nanoparticles Synthesized Inside a Polyurethane Microreactor by Using aMicropatterned Polymer Template . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 135E. Yegan Erdem, Mike T. Demko, Jim C. Cheng, Fiona M. Doyle and Albert P. Pisano

A New Approach to Immobilize Single-Walled Carbon Nanotubes (SWCNTs) on GoldSubstrate . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 136Jayanti Das and Junghoon Lee

Enhancing DNA Origami Binding to Graphene via - Interactions . . . . . . . . . . . . . . . . . . . . . . . . . 137Masudur Rahman and Michael L. Norton

Imaging Hybridization on Multiplexed, Single-Molecule DNA Nano-arrays . . . . . . . . . . . . . . . 138Eric Josephs, Gary Abel and Tao Ye

11


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Documents

Preliminary Technical Program Technical Program.pdfSelf-assembled Photonic crystals from shear ordered block copolymers..... 5 Andrew Parnell, Patrick Fairclough and Oleksandr Mykhaylyk