D. Stefanovic

Kathryn S. McKinley, Darko Stefanovic, J. Eliot B. Moss, 2000, International Symposium on Mathematical Morphology and Its Application to Signal and Image Processing.

The Triton Branch Predictor

S. Forrest, Josh Karlin, D. Stefanovic, 2004 .

Effect of polyvalency on tethered molecular walkers on independent one-dimensional tracks.

D. Stefanovic, David Arredondo, 2020, Physical review. E.

Feedforward Chemical Neural Network : An In Silico Chemical System

Christof Teuscher, Darko Stefanovic, Drew Blount, 2018 .

Robust heterochiral strand displacement using leakless translators.

Matthew R. Lakin, D. Stefanovic, M. Stojanović, 2020, ACS synthetic biology.

Computing with Nucleic Acids

Hao Yan, Darko Stefanovic, Milan N. Stojanovic, 2005 .

Reservoir Computing with Random Chemical Systems

Christof Teuscher, Hoang Nguyen, Darko Stefanovic, 2020, ALIFE.

Emerging Models of Computation: Directions in Molecular Computing

Darko Stefanovic, D. Stefanovic, 2008, Software-Intensive Systems and New Computing Paradigms.

Building a community to engineer synthetic cells and organelles from the bottom-up

Matthew R. Lakin, Katarzyna P. Adamala, D. Stefanovic, 2021, eLife.

Deoxyribozyme-based logic gates.

Darko Stefanovic, Milan N Stojanovic, D. Stefanovic, 2002, Journal of the American Chemical Society.

ISO: numeric representation of nucleic acid form

Darko Stefanovic, M. Leigh Fanning, Joanne Macdonald, 2011, BCB '11.

Preface

A. Turberfield, D. Stefanovic, 2014, Natural Computing.

Characterization of object behaviour in Standard ML of New Jersey

Darko Stefanovic, J. Eliot B. Moss, J. Moss, 1994, LFP '94.

Visual displays that directly interface and provide read-outs of molecular states via molecular graphics processing units.

Darko Stefanovic, Joanne Macdonald, Julia E Poje, 2014, Angewandte Chemie.

The Effects of Multivalency and Kinetics in Nanoscale Search by Molecular Spiders

Darko Stefanovic, Oleg Semenov, Milan N. Stojanovic, 2014, Evolution, Complexity and Artificial Life.

Maze Exploration with Molecular-Scale Walkers

Darko Stefanovic, D. Stefanovic, 2012, TPNC.

A deoxyribozyme-based molecular automaton

Darko Stefanovic, Milan N Stojanovic, D. Stefanovic, 2003, Nature Biotechnology.

Diverse Applications of DNAzymes in Computing and Nanotechnology

Matthew R. Lakin, Darko Stefanovic, Milan N. Stojanovic, 2021, Ribozymes.

Implementing Molecular Logic Gates, Circuits, and Cascades Using DNAzymes

Matthew R. Lakin, Darko Stefanovic, Milan N. Stojanovic, 2017 .

Biophysically Inspired Rational Design of Structured Chimeric Substrates for DNAzyme Cascade Engineering

Matthew R. Lakin, Darko Stefanovic, Steven W. Graves, 2014, PloS one.

Catalytic Molecular Logic Devices by DNAzyme Displacement

Matthew R. Lakin, Darko Stefanovic, Carl W. Brown, 2014, Chembiochem : a European journal of chemical biology.

Modular verification of chemical reaction network encodings via serializability analysis

Matthew R. Lakin, Darko Stefanovic, Andrew Phillips, 2016, Theor. Comput. Sci..

Repeated reuse of deoxyribozyme-based logic gates.

Darko Stefanovic, Joanne Macdonald, Bradley Ian Harding, 2019, Nano letters.

A Comparative Study of Reservoir Computing for Temporal Signal Processing pdf

Christof Teuscher, Alireza Goudarzi, Matthew R. Lakin, 2014, ArXiv.

Supervised Learning in Adaptive DNA Strand Displacement Networks.

Matthew R. Lakin, Darko Stefanovic, Matthew R Lakin, 2016, ACS synthetic biology.

Memory and Information Processing in Recurrent Neural Networks pdf

Christof Teuscher, Guy Feldman, Alireza Goudarzi, 2016, ArXiv.

A Principled Approach to HPC Event Monitoring

Guy Feldman, Alireza Goudarzi, Darko Stefanovic, 2015, FTXS@HPDC.

Adaptive Compilation for Complex Uniprocessor Hardware

Darko Stefanovic, Katja Daumueller, D. Stefanovic, 1994 .

Wake up and smell the coffee: evaluation methodology for the 21st century

Amer Diwan, Kathryn S. McKinley, Darko Stefanovic, 2008, CACM.

Complexing deoxyribozymes with RNA aptamers for detection of the small molecule theophylline.

Bradley I. Harding, J. Macdonald, D. Stefanovic, 2021, Biosensors & bioelectronics.

Efficient Context-Sensitive Shape Analysis with Graph Based Heap Models

Deepak Kapur, Manuel V. Hermenegildo, Darko Stefanovic, 2008, CC.

Heap analysis in the presence of collection libraries

Deepak Kapur, Manuel V. Hermenegildo, Darko Stefanovic, 2007, PASTE '07.

A Static Heap Analysis for Shape and Connectivity: Unified Memory Analysis: The Base Framework

Deepak Kapur, Manuel V. Hermenegildo, Darko Stefanovic, 2006, LCPC.

Randomized instruction set emulation

David H. Ackley, Stephanie Forrest, Darko Stefanovic, 2005, TSEC.

Catalytic Molecular Walkers: Aspects of Product Release

Darko Stefanovic, Oleg Semenov, Milan N. Stojanovic, 2013, ECAL.

Exploring transfer function nonlinearity in echo state networks

Alireza Goudarzi, Darko Stefanovic, Alireza Shabani, 2015, 2015 IEEE Symposium on Computational Intelligence for Security and Defense Applications (CISDA).

Product Echo State Networks: Time-Series Computation with Multiplicative Neurons pdf

Alireza Goudarzi, Darko Stefanovic, Alireza Shabani, 2015, ArXiv.

Product reservoir computing: Time-series computation with multiplicative neurons

Alireza Goudarzi, Darko Stefanovic, Alireza Shabani, 2015, 2015 International Joint Conference on Neural Networks (IJCNN).

Towards a Calculus of Echo State Networks pdf

Alireza Goudarzi, Darko Stefanovic, D. Stefanovic, 2014, BICA.

Deoxyribozyme-based half-adder.

D. Stefanovic, M. Stojanović, Milan N Stojanović, 2003, Journal of the American Chemical Society.

SIND: A Framework for Binary Translation

Darko Stefanovic, Todd S. Palmer, Dino A. Dai Zovi, 2001 .

Superdiffusive transport by multivalent molecular walkers moving under load.

Darko Stefanovic, Mark J. Olah, D. Stefanovic, 2012, Physical review. E, Statistical, nonlinear, and soft matter physics.

Stella: a python-based domain-specific language for simulations

David Mohr, Darko Stefanovic, D. Stefanovic, 2016, SAC.

Designing Nucleotide Sequences for Computation: A Survey of Constraints

Darko Stefanovic, Jennifer A. Sager, D. Stefanovic, 2005, DNA.

A Unified Sensor Architecture for Isothermal Detection of Double‐Stranded DNA, Oligonucleotides, and Small Molecules

Matthew R. Lakin, Darko Stefanovic, Matthew R Lakin, 2015, Chembiochem : a European journal of chemical biology.

DNA Computing and Molecular Programming

Darko Stefanovic, Andrew J. Turberfield, A. Turberfield, 2012, Lecture Notes in Computer Science.

Molecular Automata

Darko Stefanovic, Milan N. Stojanovic, Joanne Macdonald, 2009, Encyclopedia of Complexity and Systems Science.

A rational approach to minimal high-resolution cross-reactive arrays.

Mark J. Olah, D. Stefanovic, M. Stojanović, 2006, Journal of the American Chemical Society.

Chemistry at a Higher Level of Abstraction

Darko Stefanovic, Milan N. Stojanovic, D. Stefanovic, 2011 .

Signal propagation in multi-layer DNAzyme cascades using structured chimeric substrates.

Matthew R. Lakin, Darko Stefanovic, Matthew R Lakin, 2014, Angewandte Chemie.

Solution-phase molecular-scale computation with deoxyribozyme-based logic gates and fluorescent readouts.

Darko Stefanovic, Joanne Macdonald, Milan N Stojanovic, 2006, Methods in molecular biology.

Identification of Heap-Carried Data Dependence Via Explicit Store Heap Models

Deepak Kapur, Manuel V. Hermenegildo, Darko Stefanovic, 2008, LCPC.

Sharing analysis of arrays, collections, and recursive structures

Deepak Kapur, Manuel V. Hermenegildo, Darko Stefanovic, 2008, PASTE '08.

DNA Reservoir Computing: A Novel Molecular Computing Approach

Alireza Goudarzi, Matthew R. Lakin, Darko Stefanovic, 2013, DNA.

Towards Practical Biomolecular Computers Using Microfluidic Deoxyribozyme Logic Gate Networks

Darko Stefanovic, Joseph Farfel, D. Stefanovic, 2005, DNA.

Computational Capacity and Energy Consumption of Complex Resistive Switch Networks pdf

Jens Bürger, Christof Teuscher, Alireza Goudarzi, 2015, ArXiv.

Training an asymmetric signal perceptron through reinforcement in an artificial chemistry

Christof Teuscher, Darko Stefanovic, Peter Banda, 2014, Journal of The Royal Society Interface.

Generating object lifetime traces with Merlin

Kathryn S. McKinley, Darko Stefanovic, Stephen M. Blackburn, 2006, TOPL.

Age-based garbage collection

Kathryn S. McKinley, Darko Stefanovic, J. Eliot B. Moss, 1999, OOPSLA '99.

Oldest-first garbage collection

Kathryn S. McKinley, Darko Stefanovic, J. Eliot B. Moss, 2007 .

A comparative performance evaluation of write barrier implementation

Darko Stefanovic, Antony L. Hosking, J. Eliot B. Moss, 1992, OOPSLA.

Error-free garbage collection traces: how to cheat and not get caught

Kathryn S. McKinley, Darko Stefanovic, Stephen M. Blackburn, 2002, SIGMETRICS '02.

Shape Analysis with Reference Set Relations

Rupak Majumdar, Deepak Kapur, Darko Stefanovic, 2010, VMCAI.

Shape Analysis with Reference Set Dominance

D. Kapur, R. Majumdar, D. Stefanovic, 2008 .

Reservoir Computing Approach to Robust Computation Using Unreliable Nanoscale Networks pdf

Alireza Goudarzi, Matthew R. Lakin, Darko Stefanovic, 2014, UCNC.

Logic circuits based on molecular spider systems

Matthew R. Lakin, Darko Stefanovic, Dandan Mo, 2016, Biosyst..

Scalable Design of Logic Circuits Using an Active Molecular Spider System

Matthew R. Lakin, Darko Stefanovic, Dandan Mo, 2015, IPCAT.

Limits and Graph Structure of Available Instruction-Level Parallelism (Research Note)

Margaret Martonosi, Darko Stefanovic, M. Martonosi, 2000, Euro-Par.

First-passage properties of molecular spiders.

David Mohr, Darko Stefanovic, Oleg Semenov, 2013, Physical review. E, Statistical, nonlinear, and soft matter physics.

Abstract models of molecular walkers

Darko Stefanovic, Oleg Semenov, D. Stefanovic, 2013 .

Microcompartments for Protection and Isolation of Nanoscale DNA Computing Elements.

Matthew R. Lakin, D. Stefanovic, M. Stojanović, 2019, ACS applied materials & interfaces.

Signal propagation in multi-layer DNAzyme cascades using structured chimeric substrates.

Matthew R. Lakin, Carl W. Brown, D. Stefanovic, 2014, Angewandte Chemie.

Towards Temporal Logic Computation Using DNA Strand Displacement Reactions

Matthew R. Lakin, Darko Stefanovic, D. Stefanovic, 2017, UCNC.

Supervised Learning in an Adaptive DNA Strand Displacement Circuit

Matthew R. Lakin, Darko Stefanovic, D. Stefanovic, 2015, DNA.

Modular Verification of DNA Strand Displacement Networks via Serializability Analysis

Matthew R. Lakin, Darko Stefanovic, Andrew Phillips, 2013, DNA.

Biomolecular computing: Molecules that reason.

Darko Stefanovic, D. Stefanovic, 2009, Nature nanotechnology.

Computing Game Strategies

Darko Stefanovic, Milan N. Stojanovic, D. Stefanovic, 2013, CiE.

Towards a Biomolecular Learning Machine

Matthew R. Lakin, Darko Stefanovic, Terran Lane, 2012, UCNC.

Object-level tracing toolkit: design, implementation, and purpose

Darko Stefanovic, D. Stefanovic, 1995 .

Multivalent Random Walkers - A Model for Deoxyribozyme Walkers

Darko Stefanovic, Mark J. Olah, D. Stefanovic, 2011, DNA.

Generational copying garbage collection for Standard ML: a quantitative study

Darko Stefanovic, D. Stefanovic, 1993 .

Memo: Implementing a small imperative language with safe dynamic allocation

Darko Stefanovic, D. Stefanovic, 1993 .

Development and Application of Catalytic DNA in Nanoscale Robotics

Matthew R. Lakin, Darko Stefanovic, Milan N. Stojanovic, 2021 .

Event Correlation and Failure Prediction in HPC clusters.

Guy Feldman, Alireza Goudarzi, Darko Stefanovic, 2013 .

On models for object lifetime distributions

Kathryn S. McKinley, Darko Stefanovic, J. Eliot B. Moss, 2000, ISMM '00.

Optimizing cross-reactivity with evolutionary search for sensors.

D. Stefanovic, M. Stojanović, R. Pei, 2012, Journal of the American Chemical Society.

High-resolution cross-reactive array for alkaloids.

Darko Stefanovic, Renjun Pei, Milan N Stojanovic, 2009, Chemical communications.

Building a community to engineer synthetic cells and organelles from the bottom-up

Matthew R. Lakin, Katarzyna P. Adamala, D. Stefanovic, 2021, eLife.

Feedforward Chemical Neural Network: An In Silico Chemical System That Learns xor

C. Teuscher, D. Stefanovic, Drew Blount, 2017, Artificial Life.