Petr Šulc

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Assistant Professor

Arizona State University

United States

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About

Dr. Petr Šulc is an Assistant Professor at Arizona State University in the United States. His research areas include thermodynamics, nucleic acid diagnostics, and DNA nanostructures. Recent publications focus on topics such as controlling DNA-RNA kinetics and optimizing bioinformatics applications through evolutionary computation.

Recent Grants

Grant: Close

Rational design of self-assembled, three-dimensional DNA crystals

Open Date: 2020-07-01

Close Date: 2023-06-30

Grant: Close

Modeling-driven design and assembly of 3D DNA nanomaterials

Open Date: 2020-05-01

Close Date: 2023-04-30

Grant: Close

Elements: Models and tools for on-line design and simulations for DNA and RNA nanotechnology

Open Date: 2019-10-01

Close Date: 2022-09-30

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Collaborators (12)

Julián Valero Moreno

Tenure track Assistant Professor

Aarhus University

DENMARK

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Francesco Sciortino

ITALY

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sujay Ray

Assistant Professor

University of Mississippi

UNITED STATES

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Jonathan Doye

Professor in Theoretical Chemistry

University of Oxford

UNITED KINGDOM

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John Russo

Sapienza University of Rome

ITALY

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Nicholas Stephanopoulos

UNITED STATES

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Nils Walter

Francis S. Collins Collegiate Professor of Chemistry, Biophysics, and Biological Chemistry

University of Michigan

UNITED STATES

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Lorenzo Rovigatti

University of Oxford

UNITED KINGDOM

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Ard Louis

University of Oxford

UNITED KINGDOM

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Yonggang Ke

UNITED STATES

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Diogo Estevão Pereira Pinto

Assistant Professor

University of Lisbon

PORTUGAL

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Andrew Turberfield

University of Oxford

UNITED KINGDOM

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Petr Šulc

Research Interests

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About

Recent Grants

Articles (29)

Controlling DNA–RNA strand displacement kinetics with base distribution

Inverse Thermodynamics: Designing Interactions for Targeted Phase Behavior

Automating Blueprints for the Assembly of Colloidal Quasicrystal Clusters

Falsifiability Test for Classical Nucleation Theory

Mismatch-Assisted Toehold Exchange Cascades for Magnetic Nanoparticle-based Nucleic Acid Diagnostics

DNA-Templated Spatially Controlled Proteolysis Targeting Chimera for Cyclin D1–CDK4/6 Complex Protein Degradation

How We Simulate DNA Origami

Coarse-grained modeling of DNA–RNA hybrids

DNA-Nanostructure-Guided Assembly of Proteins into Programmable Shapes

A rhythmically pulsing leaf-spring DNA-origami nanoengine that drives a passive follower

Coarse-grained modeling of DNA-protein interactions helps elucidate DNA compaction

Single-molecule force spectroscopy of toehold-mediated strand displacement

ANNaMo: Coarse-grained modeling for folding and assembly of RNA and DNA systems

Inverse Design of Self-Folding 3D Shells

RNA-induced Allosteric Coupling Drives Viral Capsid Assembly

Designing 3D multicomponent self-assembling systems with signal-passing building blocks

Evolving to Find Optimizations Humans Miss: Using Evolutionary Computation to Improve GPU Code for Bioinformatics Applications

Hairygami: Analysis of DNA Nanostructures’ Conformational Change Driven by Functionalizable Overhangs

Designing the Self-Assembly of Arbitrary Shapes Using Minimal Complexity Building Blocks

DNA Origami Tessellations

Atomistic Picture of Opening–Closing Dynamics of DNA Holliday Junction Obtained by Molecular Simulations

Two-step nucleation in a binary mixture of patchy particles

Design strategies for the self-assembly of polyhedral shells

oxDNA: coarse-grained simulations of nucleic acids made simple

Engineering Azeotropy to Optimize the Self-Assembly of Colloidal Mixtures

Generative and interpretable machine learning for aptamer design and analysis of in vitro sequence selection

SAT-assembly: a new approach for designing self-assembling systems

Design and simulation of DNA, RNA and hybrid protein–nucleic acid nanostructures with oxView

The influence of Holliday junction sequence and dynamics on DNA crystal self-assembly

Collaborators (12)

Julián Valero Moreno

Francesco Sciortino

sujay Ray

Jonathan Doye

John Russo

Nicholas Stephanopoulos

Nils Walter

Lorenzo Rovigatti

Ard Louis

Yonggang Ke

Diogo Estevão Pereira Pinto

Andrew Turberfield

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