BST / UTC + 01:00
Monday 14 September
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Session 1
Co-chairs: Andrew Phillips, Microsoft Research, UK and Andrew Turberfield, University of Oxford, UK
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09:00
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Overview of online conference system
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09:15
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Keynote: Weakly Computing with Petri Nets
Jérôme Leroux, Université de Bordeaux, France |
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10:15
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Break
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10:25
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A domain-level DNA strand displacement reaction enumerator allowing arbitrary non-pseudoknotted secondary structures (Track B)
Stefan Badelt, Casey Grun, Karthik Sarma, Brian Wolfe, Seung Woo Shin, and Erik Winfree
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10:50
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Robust control of biochemical reaction networks via stochastic morphing (Track B)
Tomislav Plesa, Guy-Bart Stan, Thomas E. Ouldridge, and Wooli Bae
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11:15
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Break
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11:30
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CRNs exposed: A Method for the Systematic Exploration of Chemical Reaction Networks (Track A - Eligible for Prize)
Marko Vasic, David Soloveichik, and Sarfraz Khurshid
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11:55
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Implementing Non-Equilibrium Networks with Active Circuits of Duplex Catalysts (Track A - Eligible for Prize)
Antti Lankinen, Ismael Mullor Ruiz, and Thomas E. Ouldridge
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12:20
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Networking / social
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| 12:45 |
Break
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Session 2
Chair: Matthew Lakin, University of New Mexico, USA and Chris Thachuk, University of Washington, USA
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15:00
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Introduction
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15:10
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Algorithmic Design of 3D Wireframe RNA Polyhedra (Track C)
Antti Elonen, Ashwin K. Natarajan, Ibuki Kawamata, Lukas Oesinghaus, Abdulmelik Mohammed, Jani Seitsonen, Yuki Suzuki, Friedrich C. Simmel, and Anton Kuzyk, Pekka Orponen
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15:25
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The Topology of Scaffold Routings on Non-Spherical Mesh Wireframes (Track A)
Abdulmelik Mohammed, Nataša Jonoska, and Masahico
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15:50
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Break
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16:05
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New tools for online design, optimization, and simulation of large DNA, RNA and DNA-protein hybrid nanostructures (Track B)
Erik Poppleton, Michael Matthies, Joakim Bohlin, Roger Romero, Jonah Procyk, and Petr Sulc
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16:30
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scadnano: A browser-based, scriptable tool for designing DNA nanostructures (Track A - Eligible for Prize)
David Doty, Benjamin L. Lee, and Tristan Stérin
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16:55
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Break
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17:05
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Keynote: Bottom-up Construction of Cellular Functions using DNA Nanotechnology
Tom de Greef, Eindhoven Institute of Technology, The Netherlands
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18:05
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Networking / social
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18:30
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Close
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Tuesday 15 September
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Session 3
Chair: Luca Cardelli, University of Oxford, UK
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09:00
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Poster session A
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10:15
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Keynote: Probabilistic verification and synthesis for reliable molecular circuit designs
Marta Kwiatkowska, University of Oxford, UK
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11:15
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Break
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11:25
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DNA-templated heptameric α-helical barrel (Track B)
Juan Jin, Emily G. Baker, Jonathan Bath, Erik Benson, Derek N. Woolfson, and Andrew J. Turberfield
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11:50
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Turning Machines (Track A)
Irina Kostitsyna, Cai Wood, and Damien Woods
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12:20
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Networking / social
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12:45
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Break
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Session 4
Chair: David Soloveichik, University of Texas - Austin, USA
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15:00
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A biochemical DNA nanoscope that identifies and localizes over a hundred unique features with nanometer accuracy (Track B)
Nikhil Gopalkrishnan, Sukanya Punthambaker, Thomas Schaus, George Church, and Peng Yin
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15:25
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Supervised learning in a multi-layer, non-linear chemical neural network (Track C)
David Arredondo, and Matthew R. Lakin
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15:40
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Break
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15:50
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Keynote: 21 molecular algorithms using reprogrammable DNA self-assembly
Damien Woods, Maynooth University, Ireland
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16:50
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Poster session B
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18:05
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Networking / social
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18:30
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Close
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Wednesday 16 September
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Session 5
Chair: Damien Woods, Maynooth University, Ireland
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09:00
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Keynote: Simplicity bias in self assembly and deep learning
Ard Louis, University of Oxford, UK
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10:00
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Break
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10:10
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Coarse-Grained Simulation of DNA Hydrogel Structures (Track C)
Oliver Henrich, Yair Augusto, Gutierrez Fosado, Zhongyang Xing, Magdalena, and Erika Eiser
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10:25
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Characterising DNA T-motifs by Simulation and Experiment (Track B - Eligible for Prize)
Behnam Najafi, Katherine G Young, Jonathan Bath, Ard Louis, Jonathan Doye, and Andrew Turberfield
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10:50
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Poster session C
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12:05
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Networking / social
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12:30
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Break
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Session 6
Co-chairs: David Doty, University of California - Davis, USA and Constantine Evans, Maynooth University, Ireland
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15:00
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ALCH: An Imperative Language for Chemical Reaction Network-Controlled Tile Assembly (Track A - Eligible for Prize)
Titus H. Klinge, James I. Lathrop, Sonia Moreno, Hugh D. Potter, Narun K. Raman, and Matthew R. Riley
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15:25
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Robust heterochiral strand displacement using leakless translators (Track B - Eligible for Prize)
Tracy L. Mallette, Milan N. Stojanovic, Darko Stefanovic, and Matthew R. Lakin
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15:50
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Break
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16:05
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Composable Computation in Leaderless, Discrete Chemical Reaction Networks (Track A - Eligible for Prize)
Hooman Hashemi, Ben Chugg and Anne Condon
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16:30
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Programming and Simulating Chemical Reaction Networks on a Surface (Track B - Eligible for Prize)
Samuel Clamons, Lulu Qian, and Erik Winfree
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16:55
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Poster session D
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18:10
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Networking / Social
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18:30
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Close
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Thursday 17 September
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Session 7
Chair: Pekka Orponen, Aalto University, Finland and Shelley Wickham, University of Sydney, Australia
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09:00
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DNA origami bricks: A programmable monomer for hierarchical assembly in 3D (Track B - Eligible for Prize)
Minh Tri Luu, Ali Abbas, and Shelley F. Wickham |
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09:25
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Design automation of Polyomino Set that Self-Assembles into a Desired Shape (Track A - Eligible for Prize)
Yuta Matsumura, Ibuki Kawamata, and Satoshi Murata
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09:50
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Break
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10:05
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Strategies for constructing and operating DNA origami linear actuators (Track B - Eligible for Prize)
Rafael Carrascosa Marzo, Erik Benson, Jonathan Bath, and Andrew Turberfield |
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10:30
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Handhold-mediated strand displacement: a nucleic acid-based reaction to implement far-from-equilibrium templating (Track C)
Javier Cabello Garcia, Wooli Bae, Guy-Bart Stan, and Thomas E. Ouldridge
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10:45
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Break
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10:55
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Engineering an active extracellular medium with DNA programs (Track B)
Marc Van Der Hofstadt, Jean-Christophe Galas, and Andre Estevez-Torres
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11:20
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Reconstruction Algorithms for DNA-Storage Systems (Track C)
Omer Sabary, Alexander Yucovich, Guy Shapira, and Eitan Yaakobi
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11:35
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Conference Awards and Presentations
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12:05
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Networking / social
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12:30
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Break
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Session 8
Co-chairs: Anne Condon, University of British Columbia, Canada and Friedrich Simmel, Technical University of Munich, Germany
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15:00
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Verification and Computation in Restricted Tile Automata (Track A)
David Caballero, Timothy Gomez, Robert Schweller, and Tim Wylie
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15:25
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Population-Induced Phase Transitions and the Verification of Chemical Reaction Networks (Track A - Eligible for Prize)
James I. Lathrop, Jack H. Lutz, Robyn R. Lutz, Hugh D. Potter, and Matthew R. Riley
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15:50
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Break
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16:05
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Biomimetic Transmembrane signal transducing DNA nanosensors for intact membrane enclosed biomarker detections (Track C)
Swarup Dey, Alonzo Beatty V, Fei Zhang, Rizal Hariadi, Yan Liu, and Hao Yan
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16:20
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Simplifying Chemical Reaction Network implementations with two-stranded DNA building blocks (Track A)
Robert F. Johnson, and Lulu Qian
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16:45
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Break
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16:55
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Winner of the Rozenberg Tulip Award in DNA Computing : Programming Dynamic Molecular Function in a Biological Context
Niles Pierce, California Institute of Technology, USA
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17:55
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Conference Awards and Presentations
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18:15
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Conference Social
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19:00
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Close
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