Brett Kagan

Dr. Brett Kagan


Research Focus & Metrics

Academic Career Length

7Years (2020-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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12 October 2022 in Neuron
Verified
Journal Article
Open access
BKBrett Kagan
Brett Kagan
AKAndy C. Kitchen
Andy C. Kitchen
NTNhi T. Tran
Nhi T. Tran
FHForough Habibollahi
Forough Habibollahi
MKMoein Khajehnejad
Moein Khajehnejad
KFKarl Friston Friston
Karl Friston Friston
Integrating neurons into digital systems may enable performance infeasible with silicon alone. Here, we develop DishBrain, a system that harnesses the inherent adaptive computation of neurons in a structured environment. In vitro neural networks from human or rodent origins are integrated with in silico computing via a high-density multielectrode array. Through electrophysiological stimulation and recording, cultures are embedded in a simulated game-world, mimicking the arcade game “Pong.” Applying implications from the theory of active inference via the free energy principle, we find apparent learning within five minutes of real-time gameplay not observed in control conditions. Further experiments demonstrate the importance of closed-loop structured feedback in eliciting learning over time. Cultures display the ability to self-organize activity in a goal-directed manner in response to sparse sensory information about the consequences of their actions, which we term synthetic biological intelligence. Future applications may provide further insights into the cellular correlates of intelligence.

30 August 2023 in Nature Communications
Verified
Journal Article
Open access
PDF file
FHForough Habibollahi
Forough Habibollahi
BKBrett Kagan
Brett Kagan
ABAnthony N. Burkitt
Anthony N. Burkitt
CFChris French
Chris French
Understanding how brains process information is an incredibly difficult task. Amongst the metrics characterising information processing in the brain, observations of dynamic near-critical states have generated significant interest. However, theoretical and experimental limitations associated with human and animal models have precluded a definite answer about when and why neural criticality arises with links from attention, to cognition, and even to consciousness. To explore this topic, we used an in vitro neural network of cortical neurons that was trained to play a simplified game of ‘Pong’ to demonstrate Synthetic Biological Intelligence (SBI). We demonstrate that critical dynamics emerge when neural networks receive task-related structured sensory input, reorganizing the system to a near-critical state. Additionally, better task performance correlated with proximity to critical dynamics. However, criticality alone is insufficient for a neuronal network to demonstrate learning in the absence of additional information regarding the consequences of previous actions. These findings offer compelling support that neural criticality arises as a base feature of incoming structured information processing without the need for higher order cognition.

7 August 2023 in Biotechnology Advances
Verified
Journal Article
Open access
BKBrett Kagan
Brett Kagan
CGChristopher Gyngell
Christopher Gyngell
TLTamra Lysaght
Tamra Lysaght
VCVictor M. Cole
Victor M. Cole
TSTsutomu Sawai
Tsutomu Sawai
JSJulian Savulescu
Julian Savulescu
Integrating neural cultures developed through synthetic biology methods with digital computing has enabled the early development of Synthetic Biological Intelligence (SBI). Recently, key studies have emphasized the advantages of biological neural systems in some information processing tasks. However, neither the technology behind this early development, nor the potential ethical opportunities or challenges, have been explored in detail yet. Here, we review the key aspects that facilitate the development of SBI and explore potential applications. Considering these foreseeable use cases, various ethical implications are proposed. Ultimately, this work aims to provide a robust framework to structure ethical considerations to ensure that SBI technology can be both researched and applied responsibly.

16 August 2025 in Communications Biology
Verified
Journal Article
Open access
DDDowlette-Mary Alam El Din
Dowlette-Mary Alam El Din
Leah Susanne MönkemöllerLeah Susanne Mönkemöller
Leah Susanne Mönkemöller
ALAlon Loeffler
Alon Loeffler
FHForough Habibollahi
Forough Habibollahi
JSJack Schenkman
Jack Schenkman
LSLena Smirnova
Lena Smirnova
Brain Microphysiological Systems, including neural organoids derived from human induced pluripotent stem cells, offer a unique lens to study the intricate workings of the human brain. This paper investigates the foundational elements of learning and memory in neural organoids by quantifying immediate early gene expression in response to chemical modulation, input-specific short- and long-term synaptic plasticity, neuronal network dynamics, connectivity, and criticality to demonstrate the utility of these organoids in basic science research. Neural organoids showed synapse formation, glutamatergic and GABAergic receptor expression, immediate early gene expression basally and evoked, functional connectivity, criticality, and synaptic plasticity in response to theta-burst stimulation. In addition, pharmacological interventions on GABAergic and glutamatergic receptors and input-specific theta-burst stimulation further shed light on the capacity of neural organoids to mirror synaptic modulation, specifically short- and long-term potentiation and depression, demonstrating their potential as tools for studying neurophysiological and neurological processes and informing therapeutic strategies for diseases.

18 March 2025 in Neural Computation
Verified
Journal Article
Open access
KFKarl Friston Friston
Karl Friston Friston
TSTommaso Salvatori
Tommaso Salvatori
TITakuya Isomura
Takuya Isomura
ATAlexander Tschantz
Alexander Tschantz
AKAlex Kiefer
Alex Kiefer
MRMaxwell J. D. Ramstead
Maxwell J. D. Ramstead
Recent advances in theoretical biology suggest that key definitions of basal cognition and sentient behavior may arise as emergent properties of in vitro cell cultures and neuronal networks. Such neuronal networks reorganize activity to demonstrate structured behaviors when embodied in structured information landscapes. In this article, we characterize this kind of self-organization through the lens of the free energy principle, that is, as self-evidencing. We do this by first discussing the definitions of reactive and sentient behavior in the setting of active inference, which describes the behavior of agents that model the consequences of their actions. We then introduce a formal account of intentional behavior that describes agents as driven by a preferred end point or goal in latent state-spaces. We then investigate these forms of (reactive, sentient, and intentional) behavior using simulations. First, we simulate the in vitro experiments, in which neuronal cultures modulated activity to improve gameplay in a simplified version of Pong by implementing nested, free energy minimizing processes. The simulations are then used to deconstruct the ensuing predictive behavior, leading to the distinction between merely reactive, sentient, and intentional behavior with the latter formalized in terms of inductive inference. This distinction is further studied using simple machine learning benchmarks (navigation in a grid world and the Tower of Hanoi problem) that show how quickly and efficiently adaptive behavior emerges under an inductive form of active inference.

1 January 2025 in Cyborg and Bionic Systems
Verified
Journal Article
Open access
MKMoein Khajehnejad
Moein Khajehnejad
FHForough Habibollahi
Forough Habibollahi
ALAlon Loeffler
Alon Loeffler
APAswin Paul
Aswin Paul
Razi AdeelRazi Adeel
Razi Adeel
BKBrett Kagan
Brett Kagan
In this study, we investigate the complex network dynamics of in vitro neural systems using DishBrain, which integrates live neural cultures with high-density multi-electrode arrays in real-time, closed-loop game environments. By embedding spiking activity into lower-dimensional spaces, we distinguish between spontaneous activity (Rest) and Gameplay conditions, revealing underlying patterns crucial for real-time monitoring and manipulation. Our analysis highlights dynamic changes in connectivity during Gameplay, underscoring the highly sample efficient plasticity of these networks in response to stimuli. To explore whether this was meaningful in a broader context, we compared the learning efficiency of these biological systems with state-of-the-art deep reinforcement learning (RL) algorithms (Deep Q Network, Advantage Actor-Critic, and Proximal Policy Optimization) in a simplified Pong simulation. Through this, we introduce a meaningful comparison between biological neural systems and deep RL. We find that when samples are limited to a real-world time course, even these very simple biological cultures outperformed deep RL algorithms across various game performance characteristics, implying a higher sample efficiency.