Publications
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2020
163. C. Adami, On the Origin of Quantum Uncertainty. FQXi Essay Contest (2020), [arXiv] .
162. C. Adami, Neither Weak Nor Strong Entropic Leggett-Garg Inequalities Can be Violated.
[arXiv] in review.
161. C. Adami, Leggett-Garg Inequalities Cannot be Violated in Quantum Measurements.
[arXiv] in review.
160. A. Tehrani-Saleh, D. McAuley, and C. Adami, Mechanism of Perceived Event Duration in Artificial Brains Suggests Extended Model of Attentional Entrainment. [BioRxiv] in review.
159. J.R. Glick and C. Adami, Markovian and Non-Markovian Quantum Measurements. Found. Phys. 50 (2020) [Article].
158. D.K. Sydykova, T. LaBar, C. Adami, and C.O. Wilke, Moderate Amounts of Epistasis Are Not Evolutionarily Stable in Small Populations. J. Mol. Evol. 88 (2020) 435-444. [BioRxiv]. [Journal] [Commentary]
157. A. Tehrani-Saleh and C. Adami, Can Transfer Entropy Infer Information Flow in Neuronal Circuits for Cognitive Processing? Entropy 22 (2020) 385. [Journal].
156. J. Lehmann, et al. The Surprising Creativity of Digital Evolution: A Collection of Anecdotes from the Evolutionary Computation and Artificial Life Research Communities. Artificial Life 26 (2020) 274-306. [arXiv] [Journal]
155. T. LaBar and C. Adami, Genome Size and the Extinction of Small Populations. In “Evolution in Action – Past, Present, and Future: A Festschrift in Honor of Erik Goodman’s 75th Birthday” (Springer-Verlag, 2020) pp. 167-183 [BioRxiv].
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2019
154. A. Hintze, J.A. Edlund, R.S. Olson, D. B. Knoester, J. Schossau, L. Albantakis, A. Tehrani-Saleh, P. Kvam, L. Sheneman, H. Goldsby, C. Bohm, and C. Adami, Markov Brains: A Technical Introduction [arXiv]
153. A.C. Pontes, R.B. Mobley, C. Ofria, C. Adami, and F.C. Dyer, The Evolutionary Origin of Associative Learning. Am. Nat. 194 (2019) E1-E19. [Abstract]
152. J. Franklin, T. LaBar, and C. Adami, Mapping the Peaks: Local Fitness Landscapes of the Fittest and the Flattest. [BioRxiv] Artificial Life 25 250-262 (2019).
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2018
151. A. Tehrani-Saleh, T. LaBar, and C. Adami, Evolution Leads to a Diversity of Motion-Detection Neuronal Circuits In: Proceedings Artificial Life 16, T. Ikegami, N. Virgo, O. Witkowski, M. Oka, R. Suzuki and H. Iizuka, eds. (MIT Press, 2018), pp. 625-632. [Abstract].
150. A. Hintze, D. Kirkpatrick, and C. Adami, The Structure of Evolved Representations Across Different Substrates for Artificial Intelligence. In: Proceedings Artificial Life 16, T. Ikegami, N. Virgo, O. Witkowski, M. Oka, R. Suzuki and H. Iizuka, eds. (MIT Press, 2018), pp.388-395. [Abstract].
149. C. Adami and A. Hintze, Thermodynamics of Evolutionary Games. Phys. Rev. E 97 (2018) 062136 [Journal] [arXiv].
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2017
148. Nitash C G., T. LaBar, A. Hintze, and C. Adami, Origin of Life in a Digital Microcosm. Phil. Trans. Royal Soc. A 357 (2017) 20160350. [Article]
147. T. LaBar and C. Adami, Evolution of Drift Robustness in Small Populations. Nature Communications 8 (2017) 1012 [Article] [Press Release]
146. S. D. Chapman, C. Adami, C.O. Wilke, and Dukka B. KC, The Evolution of Logic Circuits for the Purpose of Protein Contact Map Prediction. PeerJ 5 (2017) e3139. [Article].
145. C. Adami and T. LaBar, From Entropy to Information: Biased Typewriters and the Origin of Life. In: “From Matter to Life: Information and Causality” (S.I. Walker, P.C.W. Davies, and G. Ellis, eds.) Cambridge University Press (2017), pp. 130-154. [arXiv]
144. B. Patra, Y. Kon, G. Yadav, A. Sevold, J. Frumkin, R.R. Vallabhajosyula, A. Hintze, B. Østman, J. Schossau, A. Bhan, B. Marzolf, J. Tamashiro, A. Kaur, N. Baliga, E. Grayhack, C. Adami, D. Galas, A. Raval, E. Phizicky, A. Ray. A Genome-wide Dosage-Rescue Network Reveals Genetic Robustness. Nucleic Acids Research 45 (2017) 255-270. [Article]
143. J.R. Glick and C. Adami, Quantum Information Theory of the Bell-State Quantum Eraser, Phys. Rev. A 95 (2017) 012105. [Article][arXiv]
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2016
142. A. Gupta and C. Adami, Shared Information Between Residues is Sufficient to Detect Epistasis in a Protein. PLoS Genetics 12 (2016) e1006471.[Article]
141. T. LaBar and C. Adami, Different Evolutionary Paths to Complexity for Small and Large Populations of Digital Organisms. PLoS Comp. Biol. 12 (2016) 1005066. [Article].
140.R.S Olson, J.H Moore, and C Adami, Evolution of Active Categorical Image Classification via Saccadic Eye Movement. Lecture Notes in Computer Science 9921 (2016) 581-590. [PDF]
139. C. Adami, J. Schossau, and A. Hintze, The Reasonable Effectiveness of Agent-based Simulations in Evolutionary Game Theory. Physics of Life Reviews 19 (2016). [Article][PDF]
138. C. Adami, J. Schossau, and A. Hintze, Evolutionary Game Theory Using Agent-based Methods. Physics of Life Reviews 19 (2016) [Article].
137. T. LaBar, A. Hintze, and C. Adami, Evolvability Tradeoffs in Emergent Digital Replicators. Artificial Life 22 (2016), [Abstract] [arXiv]
136. A. Tehrani-Saleh and C. Adami, Flies as Ship Captains? Digital Evolution Unravels Selective Pressures to Avoid Collision in Drosophila. In: Proceedings Artificial Life 15 (C. Gershenson, T. Froese, J.M. Sisqueiros, W. Aguilar, E.J. Izquierdo, H. Sayama, eds.) MIT Press (Cambridge, MA, 2016), pp. 554-561. [Proceedings] [arXiv]
135. R.S Olson, A. Hintze, F.C. Dyer, J.H. Moore, C. Adami, Exploring the Coevolution of Predator and Prey Morphology and Behavior. In: Proceedings Artificial Life 15 (C. Gershenson, T. Froese, J.M. Sisqueiros, W. Aguilar, E.J. Izquierdo, H. Sayama, eds.) MIT Press (Cambridge, MA, 2016), pp. 250-258. [Proceedings]. [arXiv]
134. R. S. Olson, D. B. Knoester, and C. Adami, Evolution of Swarming Behavior is Shaped By How Predators Attack. Artificial Life 22 (2016) 299-318. [Journal].
133. N. Chaumont and C. Adami, Evolution of Sustained Foraging in Three-Dimensional Environments with Physics. Genetic Programming and Evolvable Machines 17 (2016) 359-390. [Journal]
132. A. Gupta, T. LaBar, M. Miyagi, and C. Adami, Evolution of Genome Size in Asexual Populations of Digital Organisms. Scientific Reports 6 (2016) 25786. [Journal]
131. A. Gupta and C. Adami, Strong Selection Significantly Increases Epistatic Interactions in the Long-Term Evolution of a Protein. PLoS Genetics 12 (2016) e1005960. [Journal] [Press Release]
130. K. Brádler and C. Adami, One-shot Decoupling and Page Curves from a Dynamical Model for Black Hole Evaporation. Physical Review Letters 116 (2016) 101301. [Journal][PDF] [Press Release]
129. C. Adami, What is Information? Phil. Trans. Roy. Soc. A 374 (2016) 20150230. [Journal]
128. J. Schossau, C. Adami, and A. Hintze, Information-theoretic Neuro-correlates Boost Evolution of Cognitive Systems. Entropy 18 (2016) 6. [Journal]
2015
127. A. Gupta, C.T. Brown, Y. Zheng, and C. Adami, Differentially-Expressed Pseudogenes in HIV-1 Infection. Viruses 7 (2015) 5191-5205. [Journal] [PDF]
126. R.S. Olson, P.B. Haley, F.C. Dyer, and C. Adami, Exploring the Evolution of a Trade-off Between Vigilance and Foraging in Group-living Organisms. Royal Society Open Science 2 (2015) 150135. [Journal].
125. K. Brádler and C. Adami, Black Holes as Bosonic Gaussian Channels. Physical Review D 92 (2015) 025030[Journal]. [PDF]
124. J. Clifford and C. Adami, Discovery and Information-theoretic Characterization of Transcription Factor Binding Sites that Act Cooperatively. Physical Biology 12 (2015) 056004. [Journal] [PDF]
123. C. Adami, Information-theoretic Considerations Concerning the Origin of Life. Origins of Life and Evolution of Biospheres 45 (2015) 9439. [Journal] [PDF]
122. A. Hintze and C. Adami, Punishment in Public Goods Games Leads to Meta-Stable Phase Transitions and Hysteresis. Physical Biology 12 (2015) 046005. [Journal]
121. C. Adami, Robots with Instincts. Nature 521 (2015) 426-427. [Journal] [PDF]
120. C. Adami and G. Ver Steeg. Black Holes Are Almost Optimal Quantum Cloners. J. Phys. A 48 (2015) 23FT01.[Journal] [Press Release]
119. A. Hintze, R. S. Olson, C. Adami, and R. Hertwig. Risk Sensitivity as an Evolutionary Adaptation. Sci. Rep. 5 (2015) 8242. [Journal] [Press Release]
2014
118. L. Albantakis, A. Hintze, C. Koch, C. Adami, and G. Tononi, Evolution of Integrated Causal Structures in Animats Exposed to Environments of Increasing Complexity. PLoS Comp. Biol. 10 (2014) e1003966. [Journal][Press Release]
117. P.B. Haley, R.S. Olson, F.C. Dyer, and C. Adami. Exploring Conditions that Select for the Evolution of Cooperative Group Foraging. Proceedings of Artificial Life 14 (H. Sayama, J. Rieffel, S. Risi, R. Doursat and H. Lipson, eds.) MIT Press, Cambridge, MA (2014) pp.310-311.[Proceedings]
116. A. E. Johnson, E. Strauss, R. Pickett, C. Adami, I. Dworkin, and H. J. Goldsby. More Bang For Your Buck: Quorum-Sensing Capabilities Improve the Efficacy of Suicidal Altruism. Proceedings of Artificial Life 14 (H. Sayama, J. Rieffel, S. Risi, R. Doursat and H. Lipson, eds.) MIT Press, Cambridge, MA (2014) pp. 25-32. [Proceedings]
115. B. Østman, R. Lin, and C. Adami. Trade-offs Drive Resource Specialization and the Gradual Establishment of Ecotypes. BMC Evol. Biol. 14 (2014) 113. [Journal] [Press Release]
114. K. Brádler and C. Adami. The Capacity of Black Holes to Transmit Quantum Information. J. High Energy Phys. 1405(2014) 095. [Journal] [arXiv]
113. C. Adami and G. Ver Steeg, Classical Information Transmission Capacity of Quantum Black Holes. Class. Quantum Grav. 31 (2014) 075015. [Journal][Press Release]
2013
111. R. S. Olson, M. Mirmomeni, T. Brom, E. Bruger, A. Hintze, D. B. Knoester, and C. Adami. Evolved Digital Ecosystems: Dynamic Steady State, not Optimal Fixed Point. In: “Advances in Artificial Life (ECAL 2013)” (P. Liò, O. Miglino, G. Nicosia, S. Nolfi and M. Pavone, eds.) MIT Press (2013) pp. 126-133. [Proceedings] [PDF]
110. S. D. Chapman, D. B. Knoester, A. Hintze, and C. Adami. Evolution of an Artificial Visual Cortex for Image Recognition. In: “Advances in Artificial Life (ECAL 2013)” (P. Liò, O. Miglino, G. Nicosia, S. Nolfi and M. Pavone, eds.) MIT Press (2013) pp. 1067-1074. [Proceeedings] [PDF]
109. R. S. Olson, D. B. Knoester, and C. Adami. Critical Interplay Between Density-dependent Predation and Evolution of the Selfish Herd. Proceedings of GECCO 2013, pp. 247-254. Best paper award in Artificial Life track. [Proceedings][PDF] BibTeX
108. B. Østman and C. Adami. Predicting Evolution and Visualizing High-dimensional Fitness Landscapes . In “Recent Advances in the Theory and Application of Fitness Landscapes” (A. Engelbrecht and H. Richter, eds.). Springer Series in Emergence, Complexity, and Computation, 2013, pp. 493-510. [SpringerLink] [PDF]
107. C. Adami and A. Hintze. Evolutionary Instability of Zero-Determinant Strategies Demonstrates That Winning is Not Everything. Nature Communications 4 (2013) 2193. [Journal] [arXiv] [Press release]
106. R. S. Olson, A. Hintze, F. C. Dyer, D. B. Knoester, C. Adami. Predator Confusion is Sufficient to Evolve Swarming Behavior, Journal of the Royal Society Interface 10: 20130305 (2013) [Journal] [PDF] BibTeX
105. L. Marstaller, A. Hintze, and C. Adami, The Evolution of Representation in Simple Cognitive Networks. Neural Computation 25 (2013) 2079-2107. [Journal] [PDF]
2012
104. C. Adami. Boldly Going Beyond Mathematics. Science 338 (2012) 1421-1422.[Journal] [PDF]
103. C. Adami. Adaptive Walks on the Fitness Landscape of Music. Proc. Natl. Acad. Sci. U.S.A 109 (2012) 11898-11899. [Journal] [PDF]
102. J. Qian, T. Ferguson, D. Shinde, A. Ramirez-Borrero, A. Hintze, C. Adami, and A. Niemz. Sequence Dependence of Isothermal DNA Amplification via EXPAR. Nucleic Acids Research 40 (2012) e87 [Journal] [PDF].
101. C. Adami. The Use of Information Theory in Evolutionary Biology, Annals NY Acad. Sciences 1256 (2012) 49-65.[Journal] [PDF]
100. C. Adami, J. Schossau, and A. Hintze. Evolution and Stability of Altruist Strategies in Microbial Games. Physical Review E 85 (2012) 011914 [Journal] [PDF]
99. B. Østman, A. Hintze and C. Adami. Impact of Epistasis and Pleiotropy on Evolutionary Adaptation. Proc. Roy. Soc.279 (2012) 247-256. [Journal] [PDF]
2011
98. J. Edlund, N. Chaumont, A. Hintze, C. Koch, G. Tononi, and C. Adami. Integrated Information Increases with Fitness in the Evolution of Animats. PLoS Comp. Biol. 7 (2011) e1002236. [Journal] [PDF]
97. E.D. Dorn and C. Adami. Robust Monomer Distribution Biosignatures in Evolving Digital Biota. Astrobiology 11(2011) 959-968. [Journal] [PDF]
96. C. Adami, J.Qian, M. Rupp, and A. Hintze. Information content of colored motifs in complex networks. Artificial Life17 (2011) 375-390. [Journal] [PDF]
95. C. Adami. Toward a Fully Relativistic Theory of Quantum Information. In: From Nuclei to Stars: Festschrift in Honor of Gerald E. Brown, edited by S. Lee (World Scientific, Singapore, 2011). Pp. 71-102. [PDF]
94. J. Qian, A. Hintze, and C. Adami. Colored Motifs Reveal Computational Building Blocks in the C. elegans Brain.PLoS ONE 6 (2011) e17013. [Journal] [PDF]
93. E. Dorn, K. H. Nealson, and C. Adami. Monomer Abundance Distribution Patterns as a Universal Biosignature: Examples from Terrestrial and Digital Life. J. Mol. Evol 72 (2011) 283-295. [Abstract] [PDF]
Publications prior to 2011 are available on Chris Adami's curriculum vitae.
