Selected Papers

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exclusive academic use of students enrolled in this offering (Winter 2022) of CS898.
Accordingly, these materials should not be distributed.

P (Presentation & Reading) Papers

R (Reading) Papers

P Papers

• P1 - "Molecular computation of solutions to combinatorial problems"

• P2 - "A reaction-diffusion wave on the skin of the marine angelfish Pomacanthus"

• P3 - "Particle swarm optimization"

• P4 - "Ant colony system: a cooperative learning approach to the traveling salesman problem"

• P5 - "Rules for biologically inspired adaptive network design"

• P6 - "A biological solution to a fundamental distributed computing problem"

• P7 - "CompuCell, a multi-model framework for the simulation of morphogenesis"

• P8 - "Biomimicry of bacterial foraging for distributed optimization and control"

• P9 - "A neural algorithm for a fundamental computing problem"

• P10 - "Cuckoo search via Levy flights"

• P11 - "Reaction-diffusion model as a framework for understanding biological pattern formation"

• P12 - "Biologically based computational models of high-level cognition"

• P13 - "OpenLH: Open Liquid-Handling System for Creative Experimentation with Biology"

• P14 - "An integrated systems biology approach to understanding the rules of keratinocyte colony formation"

• P15 - "Biophysical experiments and biomolecular simulations: A perfect match?"

• P16 - "A large-scale model of the functioning brain"

• P17 - "Traffic optimization in railroad networks using an algorithm mimicking an amoeba-like organism, Physarum plasmodium"

• P18 - "Living Bits : Opportunities and Challenges for Integrating Living Microorganisms in Human-Computer Interaction"

• P19 - "A molecular cryptosystem for images by DNA computing"

• P20 - "Computational approaches to developmental patterning"

• P21 - "Optimal localization by pointing off axis"

• P22 - "Living media interfaces: a multi-perspective analysis of biological materials for interaction"

• P23 - "From evolutionary computation to the evolution of things"

• P24 - "Image segmentation using social agents"

• P25 - "Understanding the melanocyte distribution in human epidermis: and agent-based computational model approach"

• P26 - "On the solutions to the travelling salesman problem using nature inspired computing techniques"

• P27 - "BSwarm: biologically-plausible dynamics model of insect swarms"

• P28 - "A DNA-Based Archival Storage System"

• P29 - "Computational microscopy of cellular membranes"

• P30 - "A scalable pipeline for designing reconfigurable organisms"

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R Papers

• R1 - "Toward nature-inspired computing"

• R2 - "From in vivo to in silico biology and back"

• R3 - "Algorithmic Systems Biology"

• R4 - "Algorithms in nature: the convergence of systems biology and computational thinking"

• R5 - "... ERROR ... why scientific programming does not compute"

• R6 - "The hard road to reproducibility"

• R7 - "Reproducible research in computer science"

• R8 - "Enhancing reproducibility for computational methods"

• R9 - "Team science"

• R10 - "Interdisciplinary research by the numbers"

• R11 - "Taking the experiment to cyberspace"

• R12 - "Modeling, post COVID-19"

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