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Paper TitleAuthor(s)LinkKeywordsRemarks
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The Evolution of Multicellularity: A Minor Major Transition?Richard K. Grosberg
https://www.annualreviews.org/doi/full/10.1146/annurev.ecolsys.36.102403.114735
MulticellularityEvolution
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The information theory of individualityD. Krakauer
https://link.springer.com/content/pdf/10.1007/s12064-020-00313-7.pdf
Information theoryComplexity
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Multiscale Information Theory and the Marginal Utility of Information
Ben Allen, Bar-Yam et al.
https://www.mdpi.com/1099-4300/19/6/273
Information theoryMultiscale
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Developmental structuring of phenotypic variation: A case study with a cellular automata model of ontogeny
Hordijk et al.
https://onlinelibrary.wiley.com/doi/full/10.1111/ede.12315
DevelopmentArtificial lifeComputation
Skimmed through
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Digital protocells with dynamic size, position, and topologyAckley
https://www.mitpressjournals.org/doi/abs/10.1162/isal_a_00021
Artificial lifeOrigin of lifeDevelopment
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In silico transitions to multicellularitySolé et al.
https://arxiv.org/pdf/1403.3217.pdf
Artificial lifeDevelopmentEvolution
A well written review on previous work in in silico evolution of multicellularity (and even development)
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What makes a problem hard for a genetic algorithm?Forrester,Mitchell
http://web.cecs.pdx.edu/~mm/Forrest-Mitchell-ML.pdf
EvolutionComputation
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Timescales, Symmetry, and Uncertainty Reduction in the Origins of Hierarchy in Biological Systems
Flack et al.
http://c4.santafe.edu/resources/2013FlacketalUncertaintyMIT.pdf
EvolutionComplexity
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Darwinian demons, evolutionary complexity, and information maximizationD. Krakauer
https://aip.scitation.org/doi/pdf/10.1063/1.3643064
EvolutionComplexityThermodynamics
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Investigating the evolution and development of biological complexity under the framework of epigenetics
Duclos et al.
https://onlinelibrary.wiley.com/doi/pdf/10.1111/ede.12301
DevelopmentComplexityReviewRead in detail
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Evolution of biological complexityAdami
https://www.pnas.org/content/97/9/4463
EvolutionComplexityArtificial lifeTo read
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Metazoan Complexity and Evolution: Is There a Trend?McShea
https://www.jstor.org/stable/2410824
EvolutionComplexityDevelopment
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Multiscale Complexity / EntropyBar-Yam
https://necsi.edu/multiscale-complexityentropy
ComplexityMultiscale
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A complexity drain on cells in the evolution of multicellularityMcShea
https://onlinelibrary.wiley.com/doi/full/10.1111/j.0014-3820.2002.tb01357.x
ComplexityMulticellularityEvolution
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A hint of renormalizationDelamotte
https://arxiv.org/abs/hep-th/0212049
RenormalizationMultiscale
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Coevolution Drives the Emergence of Complex Traits and Promotes EvolvabilityZaman et al.
https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.1002023
EvolutionArtificial lifeHost-Parasite co-evolution
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On The Decrease of Entropy in a Thermodynamic System by the Intervention of Intelligent Beings
Szilard
http://fab.cba.mit.edu/classes/862.19/notes/computation/Szilard-1929.pdf
ThermodynamicsComputationComplexity
Might be useful in terms of the mathematical techniques used to calculate limits
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The Thermodynamics of Computation--a ReviewCharles Benett
https://link.springer.com/article/10.1007%2FBF02084158
ComputationThermodynamicsComplexity
Beautiful review on how computation, especially in biological systems is limited by thermodynamics
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Synthetic multicellularityMichel M. Maharbiz
https://www.sciencedirect.com/science/article/pii/S0962892412001675
Synthetic BiologyMulticellularityDevelopment
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The Emergence of Informative Higher Scales in Complex NetworksKlein et al.
http://downloads.hindawi.com/journals/complexity/2020/8932526.pdf
NetworksInformation theoryComplexity
An interesting measure of effective information of networks and network effectiveness. Low effectiveness might indicate presence of macroscale structures in the network.
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The spandrels of San MarcoSJ Gould
https://royalsocietypublishing.org/doi/pdf/10.1098/rspb.1979.0086
EvolutionComplexityDevelopment
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Pursue robust indefinite scalabilityD Ackley
https://www.usenix.org/legacy/event/hotos/tech/final_files/Ackley.pdf
ComputationArtificial life
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Artificial life needs a real epistemologyPattee
https://link.springer.com/chapter/10.1007/3-540-59496-5_286
Artificial lifeComputationEvolution
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Bespoke physics for living technologyD Ackley
https://ieeexplore.ieee.org/document/6792108
Artificial lifeComputation
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A Movable Architecture for Robust Spatial ComputingD Ackley
https://watermark.silverchair.com/bxs129.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAqgwggKkBgkqhkiG9w0BBwagggKVMIICkQIBADCCAooGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMqz44WSpipbqczVUMAgEQgIICW_jOprWpmbTY0N5fe2oGiDNJ62kXitceFa0GlNLi7o-sctB71UYTCIyB58u6TAEvHHFnM7OCJxwJhk7om7MNc27P7NzHcS4LPMBlDV9hVl_OWMDfm-y-YK_8MeJzo9eh5PmsMxKlMRA9nyVsgGdjcEsMAQM_8DtG8-xaO3PvNLxzo4UnLP7TDL7GRIvXKlmJcpWfR2eNS1kO75OH-c3SVLPUW8zQmFqBl-a_dNOuq_dwcum270iHhPQC4sE9LIPtlbD2KAzSjv9zTm7T5saAAdx-OxU9l51uSfRB1Bi2U3m8EHDPrDflCqh80hyrhywWoCdJJZn6MBHXfVKHMid96GXjT_f7i6qY5Pk9ms_RU0GyjL5Q0ZxuB9M3GhACO0dn6_VM6n19-GFIBNLRnHRvDfvXKuBPjji3uu6FBPNt1gzMAWsAjiUSYz907j4za7GtbwglFoRNwtpIbHpoUd-5CeVxbeJiJXbPGuwiAVuQn519KTd4Gt-6jn17EkRpHD_Sj2JXt7fSd5ijCaJEmNS9UEuoL1U0hfWUYrcSaEti0TcbJqnCtgKmkcSk6oQJX-K1Rl2LrvB2CwNK_VrjAsUV4b1Mkohwc-rg7bjm6wK8sI3VGPAeIk4QqXL3CRTCI1nfoHEWF9BzObBf9Lp9woSi1fK2Ump7C8kiB9Fn5k7y0AwwDYsoLb0ItJYClaonKSGg5JJZiQXLX4WhUkmdFVmk-kuqKThas7criqUYIJv4KEPP6SoVE4XJqt_WRiYYxWknOQOrkG0Eev_kuD7slslyB1oUap3UJPA87PpjqA
Computation
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Zipf’s Law, unbounded complexity and open-ended evolutionCorominas-Murta
https://royalsocietypublishing.org/doi/10.1098/rsif.2018.0395
EvolutionInformation Theory
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Information theory, predictability and the emergence of complex lifeSeoane, Sole
https://royalsocietypublishing.org/doi/10.1098/rsos.172221
EvolutionComplexityInformation Theory
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The genotype-phenotype map of an evolving digital organismFortuna, Zaman
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005414
EvolutionComplexityArtificial life
Very important review of the genotype-phenotype map as present in avida
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Model genotype–phenotype mappings and the algorithmic structure of evolutionNichol et al
https://royalsocietypublishing.org/doi/10.1098/rsif.2019.0332
Evolution
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