Published Output
Cognitive Systems
Publications associated with the PhaSiC project
Weber, R., Alicea, B., Huskey, R., and K. Mathiak (2018). Network Dynamics of Attention During a Naturalistic Behavioral Paradigm. Frontiers in Human Neuroscience, doi:10.3389/fnhum.2018.00182.
Alicea, B. (2016). Playing Games with Ideas: when epistemology pays off. Journal of Brief Ideas, doi:10.5281/zenodo.167647
Stone, R. and Alicea, B. (2016). The Foundations of Control and Cognition: the every good regulator theorem. Figshare, doi:10.6084/m9.figshare.1559095.
Alicea, B. (2014). Animal-oriented Virtual Environments: illusion, dilation, and discovery. F1000 Research, 3:202. doi:10.12688/ f1000research.3557.1 (2014).
Alicea, B. (2014). Contextual and Structural Representations of Market-mediated Economic Value. arXiv, 1403.7021 [q-fin.GN] Slides
Alicea, B. (2014). Perceptual time and the evolution of informational investment. Machines Like Us, http:// machineslikeus.com/news/ perceptual-time-and-evolution-informational-investment.
The Evolution of Value and Inequality. Grant proposal submitted to Washington Center for Equitable Growth (2014).
Evolution, Development, and Learning
Publications associated with the DevoWorm group
Stone, R., Portegys, T., Mikhailovsky, G., and Alicea, B. (2017). Origins of the Embryo: self-organization through cybernetic regulation. BioSystems, 173, 73-82.
Alicea, B. (2017). The Long Road to Theoretical Synthesis: Review of “Embryogenesis Explained". International Journal of Developmental Biology, 61, 113-114.
Alicea, B. (2016). On Braitenberg's Vehicles, Compound Polygons, and Evolutionary Developmental Structural Complexity. The Winnower, Paper 5893. doi:10.6084/m9.figshare.4497107.
Alicea, B. and Gordon, R. (2014). Toy Models for Macroevolutionary Patterns and Trends. Biosystems, 122, 25-37. Special Issue: Patterns of Evolution.
Alicea, B. (Originally written in 2014). From Worst to Most Variable? Only the worst performers may be the most informative. viXra, 1604.0302. Category: Statistics.
Alicea, B. (2014). Carnival of Evolution #70: the game of evolution. Synthetic Daisies Blog, http://syntheticdaisies.blogspot. com/2014/04/carnival-of-evolution-70-game-of.html doi: 10. 6084/m9.figshare.900957.
Cell, Molecular, and Systems Biology
Providing 4D Structure to the Human Cell Atlas via the Human Differentiation Tree. Chan-Zuckerberg Foundation grant proposal (2017).
Alicea, B. (2014). Modeling Cellular Information Processing Using a Dynamical Approximation of Cellular mRNA. bioRxiv, doi:10.1101/ 006775.
Alicea, B. with input from S.T. Suhr and J.B. Cibelli (2014). Using Polysome Isolation with Mechanism Alteration to Uncover Transcriptional and Translational Dynamics in Key Genes. bioRxiv, doi:10.1101/006213.
Open Science Theory
Alicea, B. (2017). How to find a scientific revolution: intellectual field formation and the analysis of terms. Psyarxiv, doi:10.17605/OSF.IO/RHS9G.
Alicea, B. (2016). Data Reuse as a Prisoner's Dilemma: the social capital of open science. bioRxiv, doi:10.1101/093518.
Publications associated with the PhaSiC project
Weber, R., Alicea, B., Huskey, R., and K. Mathiak (2018). Network Dynamics of Attention During a Naturalistic Behavioral Paradigm. Frontiers in Human Neuroscience, doi:10.3389/fnhum.2018.00182.
Alicea, B. (2016). Playing Games with Ideas: when epistemology pays off. Journal of Brief Ideas, doi:10.5281/zenodo.167647
Stone, R. and Alicea, B. (2016). The Foundations of Control and Cognition: the every good regulator theorem. Figshare, doi:10.6084/m9.figshare.1559095.
Alicea, B. (2014). Animal-oriented Virtual Environments: illusion, dilation, and discovery. F1000 Research, 3:202. doi:10.12688/ f1000research.3557.1 (2014).
Alicea, B. (2014). Contextual and Structural Representations of Market-mediated Economic Value. arXiv, 1403.7021 [q-fin.GN] Slides
Alicea, B. (2014). Perceptual time and the evolution of informational investment. Machines Like Us, http:// machineslikeus.com/news/ perceptual-time-and-evolution-informational-investment.
The Evolution of Value and Inequality. Grant proposal submitted to Washington Center for Equitable Growth (2014).
Evolution, Development, and Learning
Publications associated with the DevoWorm group
Stone, R., Portegys, T., Mikhailovsky, G., and Alicea, B. (2017). Origins of the Embryo: self-organization through cybernetic regulation. BioSystems, 173, 73-82.
Alicea, B. (2017). The Long Road to Theoretical Synthesis: Review of “Embryogenesis Explained". International Journal of Developmental Biology, 61, 113-114.
Alicea, B. (2016). On Braitenberg's Vehicles, Compound Polygons, and Evolutionary Developmental Structural Complexity. The Winnower, Paper 5893. doi:10.6084/m9.figshare.4497107.
Alicea, B. and Gordon, R. (2014). Toy Models for Macroevolutionary Patterns and Trends. Biosystems, 122, 25-37. Special Issue: Patterns of Evolution.
Alicea, B. (Originally written in 2014). From Worst to Most Variable? Only the worst performers may be the most informative. viXra, 1604.0302. Category: Statistics.
Alicea, B. (2014). Carnival of Evolution #70: the game of evolution. Synthetic Daisies Blog, http://syntheticdaisies.blogspot. com/2014/04/carnival-of-evolution-70-game-of.html doi: 10. 6084/m9.figshare.900957.
Cell, Molecular, and Systems Biology
Providing 4D Structure to the Human Cell Atlas via the Human Differentiation Tree. Chan-Zuckerberg Foundation grant proposal (2017).
Alicea, B. (2014). Modeling Cellular Information Processing Using a Dynamical Approximation of Cellular mRNA. bioRxiv, doi:10.1101/ 006775.
Alicea, B. with input from S.T. Suhr and J.B. Cibelli (2014). Using Polysome Isolation with Mechanism Alteration to Uncover Transcriptional and Translational Dynamics in Key Genes. bioRxiv, doi:10.1101/006213.
Open Science Theory
Alicea, B. (2017). How to find a scientific revolution: intellectual field formation and the analysis of terms. Psyarxiv, doi:10.17605/OSF.IO/RHS9G.
Alicea, B. (2016). Data Reuse as a Prisoner's Dilemma: the social capital of open science. bioRxiv, doi:10.1101/093518.