Biomimetic Computing & Related Bio-Inspired Research (Curated Papers)

A growing list of biomimetic / bio-inspired research with clear algorithmic or engineering use-cases.

Swarm Intelligence & Metaheuristic Optimization

Ant Colony Optimization / Ant Routing

• AntNet: Distributed Stigmergetic Control for Communications Networks — https://www.cs.cmu.edu/afs/cs/project/jair/pub/volume9/dicaro98a.pdf
• Ant Colony System: A Cooperative Learning Approach to the Traveling Salesman Problem — https://doi.org/10.1109/4235.585892
• Ant colonies for the travelling salesman problem — https://iridia.ulb.ac.be/~mdorigo/Published_papers/All_Dorigo_papers/DorGam1997bio.pdf

Particle Swarm Optimization

• Particle Swarm Optimization — https://www.cs.tufts.edu/comp/150GA/homeworks/hw3/_reading6%201995%20particle%20swarming.pdf

Bacterial / Bee / Other Bio-Inspired Optimizers

• Biomimicry of Bacterial Foraging for Distributed Optimization and Control — https://doi.org/10.1109/MCS.2002.1004010
• An Idea Based on Honey Bee Swarm for Numerical Optimization (TR06, 2005) — https://abc.erciyes.edu.tr/pub/tr06_2005.pdf
• An artificial bee colony approach for clustering — https://www.sciencedirect.com/science/article/abs/pii/S0957417409009452

More Metaheuristics (for exploration; often used as baselines in engineering optimization)

• Cuckoo Search via Lévy Flights — https://arxiv.org/abs/1003.1594
• Firefly Algorithms for Multimodal Optimization — https://arxiv.org/abs/1003.1466
• A New Metaheuristic Bat-Inspired Algorithm — https://arxiv.org/abs/1004.4170
• Grey Wolf Optimizer — https://www.sciencedirect.com/science/article/pii/S0965997813001853
• The Whale Optimization Algorithm — https://www.sciencedirect.com/science/article/pii/S0965997816300163
• Slime mould algorithm: A new method for stochastic optimization — https://www.sciencedirect.com/science/article/pii/S0167739X19320941
• Dragonfly algorithm: a new meta-heuristic optimization technique — https://link.springer.com/article/10.1007/s00521-015-1920-1
• Grasshopper Optimisation Algorithm: Theory and application — https://www.sciencedirect.com/science/article/pii/S0965997816305646
• Salp Swarm Algorithm: A bio-inspired optimizer for engineering design problems — https://www.sciencedirect.com/science/article/pii/S0965997816307736

Scheduling / Combinatorial Optimization (Applied)

• A genetic algorithm for job shop scheduling — a case study — https://www.sciencedirect.com/science/article/pii/0166361596000437
• A Hybrid Genetic Algorithm for the Job Shop Scheduling Problem — https://mauricio.resende.info/doc/hgajss.pdf

Bio-Inspired Graph/Network Computation

• Physarum Can Compute Shortest Paths — https://arxiv.org/pdf/1106.0423

Artificial Immune Systems (Security / Anomaly Detection)

• An Evaluation of Negative Selection in an Artificial Immune System for Network Intrusion Detection — https://people.scs.carleton.ca/~soma/id-2006w/readings/kim-bentley.pdf
• The Artificial Immune System for Network Intrusion Detection: An Investigation of Clonal Selection with a Negative Selection Operator — https://www.researchgate.net/profile/Peter-Bentley-4/publication/2527680_The_Artificial_Immune_System_for_Network_Intrusion_Detection_An_Investigation_of_Clonal_Selection_with_a_Negative_Selection_Operator/links/00b4953b534acd8cc9000000/The-Artificial-Immune-System-for-Network-Intrusion-Detection-An-Investigation-of-Clonal-Selection-with-a-Negative-Selection-Operator.pdf

Molecular / DNA Computing (Physical Substrate)

• Molecular Computation of Solutions to Combinatorial Problems — https://www.science.org/doi/10.1126/science.7973651

Reservoir Computing / Spiking / Neuromorphic

Reservoir computing

• Real-time computing without stable states: A new framework for neural computation based on perturbations — https://ieeexplore.ieee.org/abstract/document/6789852/
• The "echo state" approach to analysing and training recurrent neural networks — https://www.ai.rug.nl/minds/uploads/EchoStatesTechRep.pdf

Spiking neural networks

• Introduction to spiking neural networks: Information processing, learning and applications — https://pubmed.ncbi.nlm.nih.gov/22237491/

Neuromorphic benchmarking (applied)

• Benchmarking Keyword Spotting Efficiency on Neuromorphic Hardware — https://arxiv.org/pdf/1812.01739

Biomimetic Materials & Architecture (Non-computing, but useful inspiration)

• Bioinspired structural materials — https://www.nature.com/articles/nmat4089
• Application of bacteria as self-healing agent for the development of a self-healing concrete — https://www.sciencedirect.com/science/article/abs/pii/S0925857409000202
• Biomimicry in Architecture — https://www.taylorfrancis.com/books/mono/10.4324/9780429346774/biomimicry-architecture-michael-pawlyn

Bio-Inspired Sensing, Robotics, and Social Systems

Sensing

• A Review of Bioinspired Vision Sensors and Their Applications — https://pdfs.semanticscholar.org/0497/1645a842ee5c0bd57abbd7fc7cda53ad8bc0.pdf
• Echolocation with bat buzz emissions: Model and biomimetic sonar for elevation estimation — https://pubs.aip.org/asa/jasa/article/131/1/561/823964

Robotics / navigation

• Biomimetic robot navigation — https://www.societyofrobots.com/robottheory/Biomimetic_robot_navigation.pdf

Artificial life / cooperation

• Artificial Life — http://www.probehead.com/log/texts/Langton_al.pdf
• The Evolution of Cooperation — http://www-personal.umich.edu/~axe/research/Axelrod%20and%20Hamilton%20EC%201981.pdf