@conference {1793, title = {Massively Parallel Causal Inference of Whole Brain Dynamics at Single Neuron Resolution}, booktitle = {2020 IEEE 26th International Conference on Parallel and Distributed Systems (ICPADS)}, year = {2020}, doi = {10.1109/ICPADS51040.2020.00035}, author = {Watanakeesuntorn, Wassapon and Takahashi, Keichi and Ichikawa, Kohei and Park, Joseph and Sugihara, George and Takano, Ryousei and Haga, Jason and Pao, Gerald M.} } @article {1806, title = {A modeling framework for adaptive lifelong learning with transfer and savings through gating in the prefrontal cortex}, journal = {Proceedings of the National Academy of Sciences}, volume = {117}, year = {2020}, pages = {29872{\textendash}29882}, abstract = {

The prefrontal cortex (PFC) enables humans{\textquoteright} ability to flexibly adapt to new environments and circumstances. Disruption of this ability is often a hallmark of prefrontal disease. Neural network models have provided tools to study how the PFC stores and uses information, yet the mechanisms underlying how the PFC is able to adapt and learn about new situations without disrupting preexisting knowledge remain unknown. We use a neural network architecture to show how hierarchical gating can naturally support adaptive learning while preserving memories from prior experience. Furthermore, we show how damage to our network model recapitulates disorders of the human PFC.The prefrontal cortex encodes and stores numerous, often disparate, schemas and flexibly switches between them. Recent research on artificial neural networks trained by reinforcement learning has made it possible to model fundamental processes underlying schema encoding and storage. Yet how the brain is able to create new schemas while preserving and utilizing old schemas remains unclear. Here we propose a simple neural network framework that incorporates hierarchical gating to model the prefrontal cortex{\textquoteright}s ability to flexibly encode and use multiple disparate schemas. We show how gating naturally leads to transfer learning and robust memory savings. We then show how neuropsychological impairments observed in patients with prefrontal damage are mimicked by lesions of our network. Our architecture, which we call DynaMoE, provides a fundamental framework for how the prefrontal cortex may handle the abundance of schemas necessary to navigate the real world.The code used to generate the data in this work is available at https://github.com/tsudacode/DynaMoE.

}, issn = {0027-8424}, doi = {10.1073/pnas.2009591117}, url = {https://www.pnas.org/content/117/47/29872}, author = {Tsuda, Ben and Tye, Kay M. and Siegelmann, Hava T. and Sejnowski, Terrence J.} } @article {1696, title = {Multiplexed oscillations and phase rate coding in the basal forebrain.}, journal = {Sci Adv}, volume = {4}, year = {2018}, month = {2018 08}, pages = {eaar3230}, abstract = {

Complex behaviors demand temporal coordination among functionally distinct brain regions. The basal forebrain{\textquoteright}s afferent and efferent structure suggests a capacity for mediating this coordination at a large scale. During performance of a spatial orientation task, synaptic activity in this region was dominated by four amplitude-independent oscillations temporally organized by the phase of the slowest, a theta-frequency rhythm. Oscillation amplitudes were also organized by task epoch and positively correlated to the task-related modulation of individual neuron firing rates. For many neurons, spiking was temporally organized through phase precession against theta band field potential oscillations. Theta phase precession advanced in parallel to task progression, rather than absolute spatial location or time. Together, the findings reveal a process by which associative brain regions can integrate independent oscillatory inputs and transform them into sequence-specific, rate-coded outputs that are adaptive to the pace with which organisms interact with their environment.

}, keywords = {Animals, Basal Forebrain, Male, Models, Neurological, Neurons, Rats, Rats, Long-Evans, Space Perception, Theta Rhythm}, issn = {2375-2548}, doi = {10.1126/sciadv.aar3230}, author = {Tingley, David and Alexander, Andrew S and Quinn, Laleh K and Chiba, Andrea A and Nitz, Douglas} } @article {1681, title = {Marmosets: A Neuroscientific Model of Human Social Behavior.}, journal = {Neuron}, volume = {90}, year = {2016}, month = {2016 04 20}, pages = {219-33}, abstract = {

The common marmoset (Callithrix jacchus) has garnered interest recently as a powerful model for the future of neuroscience research. Much of this excitement has centered on the species{\textquoteright} reproductive biology and compatibility with gene editing techniques, which together have provided a path for transgenic marmosets to contribute to the study of disease as well as basic brain mechanisms. In step with technical advances is the need to establish experimental paradigms that optimally tap into the marmosets{\textquoteright} behavioral and cognitive capacities. While conditioned task performance of a marmoset can compare unfavorably with rhesus monkey performance on conventional testing paradigms, marmosets{\textquoteright} social behavior and cognition are more similar to that of humans. For example, marmosets are among only a handful of primates that, like humans, routinely pair bond and care cooperatively for their young. They are also notably pro-social and exhibit social cognitive abilities, such as imitation, that are rare outside of the Apes. In this Primer, we describe key facets of marmoset natural social behavior and demonstrate that emerging behavioral paradigms are well suited to isolate components of marmoset cognition that are highly relevant to humans. These approaches generally embrace natural behavior, which has been rare in conventional primate testing, and thus allow for a new consideration of neural mechanisms underlying primate social cognition and signaling. We anticipate that through parallel technical and paradigmatic advances, marmosets will\ become an essential model of human social behavior, including its dysfunction in neuropsychiatric disorders.

}, keywords = {Animals, Animals, Genetically Modified, Brain, Callithrix, Cognition, Disease Models, Animal, Eye Movements, Haplorhini, Humans, Models, Animal, Rodentia, Social Behavior, Social Behavior Disorders, Vocalization, Animal}, issn = {1097-4199}, doi = {10.1016/j.neuron.2016.03.018}, author = {Miller, Cory T and Freiwald, Winrich A and Leopold, David A and Mitchell, Jude F and Silva, Afonso C and Wang, Xiaoqin} } @article {1679, title = {The marmoset monkey as a model for visual neuroscience.}, journal = {Neurosci Res}, volume = {93}, year = {2015}, month = {2015 Apr}, pages = {20-46}, abstract = {

The common marmoset (Callithrix jacchus) has been valuable as a primate model in biomedical research. Interest in this species has grown recently, in part due to the successful demonstration of transgenic marmosets. Here we examine the prospects of the marmoset model for visual neuroscience research, adopting a comparative framework to place the marmoset within a broader evolutionary context. The marmoset{\textquoteright}s small brain bears most of the organizational features of other primates, and its smooth surface offers practical advantages over the macaque for areal mapping, laminar electrode penetration, and two-photon and optical imaging. Behaviorally, marmosets are more limited at performing regimented psychophysical tasks, but do readily accept the head restraint that is necessary for accurate eye tracking and neurophysiology, and can perform simple discriminations. Their natural gaze behavior closely resembles that of other primates, with a tendency to focus on objects of social interest including faces. Their immaturity at birth and routine twinning also makes them ideal for the study of postnatal visual development. These experimental factors, together with the theoretical advantages inherent in comparing anatomy, physiology, and behavior across related species, make the marmoset an excellent model for visual neuroscience.

}, keywords = {Animals, Biological Evolution, Brain, Callithrix, Color Perception, Color Vision, Exploratory Behavior, Macaca, Models, Animal, Social Behavior, Vision, Binocular, Vision, Ocular, Visual Perception}, issn = {1872-8111}, doi = {10.1016/j.neures.2015.01.008}, author = {Mitchell, Jude F and Leopold, David A} } @article {1682, title = {Mean signal and response time influences on multivoxel signals of contextual retrieval in the medial temporal lobe.}, journal = {Brain Behav}, volume = {5}, year = {2015}, month = {2015 Feb}, pages = {e00302}, abstract = {

INTRODUCTION: The medial temporal lobe supports integrating the "what," "where," and "when" of an experience into a unified memory. However, it remains unclear how representations of these contextual features are neurally encoded and distributed across medial temporal lobe subregions.

METHODS: This study conducted functional magnetic resonance imaging of the medial temporal lobe, while participants retrieved pair, spatial, and temporal source memories. Multivoxel classifiers were trained to distinguish between retrieval conditions before and after correction for mean signal and response times, to more thoroughly characterize the multivoxel signal associated with memory context.

RESULTS: Activity in perirhinal and parahippocampal cortex dissociated between memory for associated items and memory for their spatiotemporal context, and hippocampal activity was linked to memory for spatial context. However, perirhinal and hippocampal classifiers were, respectively, driven by effects of mean signal amplitude and task difficulty, whereas the parahippocampal classifier survived correction for these effects.

CONCLUSION: These findings demonstrate dissociable coding mechanisms for episodic memory context across the medial temporal lobe, and further highlight a critical distinction between multivoxel representations driven by spatially distributed activity patterns, and those driven by the regional signal.

}, keywords = {Adult, Brain Mapping, Female, Humans, Magnetic Resonance Imaging, Male, Memory, Photic Stimulation, Temporal Lobe, Young Adult}, issn = {2162-3279}, doi = {10.1002/brb3.302}, author = {Reas, Emilie T and Brewer, James B} } @article {1678, title = {Motion dependence of smooth pursuit eye movements in the marmoset.}, journal = {J Neurophysiol}, volume = {113}, year = {2015}, month = {2015 Jun 01}, pages = {3954-60}, abstract = {

Smooth pursuit eye movements stabilize slow-moving objects on the retina by matching eye velocity with target velocity. Two critical components are required to generate smooth pursuit: first, because it is a voluntary eye movement, the subject must select a target to pursue to engage the tracking system; and second, generating smooth pursuit requires a moving stimulus. We examined whether this behavior also exists in the common marmoset, a New World primate that is increasingly attracting attention as a genetic model for mental disease and systems neuroscience. We measured smooth pursuit in two marmosets, previously trained to perform fixation tasks, using the standard Rashbass step-ramp pursuit paradigm. We first measured the aspects of visual motion that drive pursuit eye movements. Smooth eye movements were in the same direction as target motion, indicating that pursuit was driven by target movement rather than by displacement. Both the open-loop acceleration and closed-loop eye velocity exhibited a linear relationship with target velocity for slow-moving targets, but this relationship declined for higher speeds. We next examined whether marmoset pursuit eye movements depend on an active engagement of the pursuit system by measuring smooth eye movements evoked by small perturbations of motion from fixation or during pursuit. Pursuit eye movements were much larger during pursuit than from fixation, indicating that pursuit is actively gated. Several practical advantages of the marmoset brain, including the accessibility of the middle temporal (MT) area and frontal eye fields at the cortical surface, merit its utilization for studying pursuit movements.

}, keywords = {Acceleration, Animals, Callithrix, Motion, Motion Perception, Photic Stimulation, Pursuit, Smooth, Retina, Visual Fields}, issn = {1522-1598}, doi = {10.1152/jn.00197.2015}, author = {Mitchell, Jude F and Priebe, Nicholas J and Miller, Cory T} } @article {145, title = {Molecular analysis of flies selected for aggressive behavior.}, journal = {Nat Genet}, volume = {38}, year = {2006}, month = {2006 Sep}, pages = {1023-31}, abstract = {

Aggressive behavior is pervasive throughout the animal kingdom, and yet very little is known about its molecular underpinnings. To address this problem, we have developed a population-based selection procedure to increase aggression in Drosophila melanogaster. We measured changes in aggressive behavior in the selected subpopulations with a new two-male arena assay. In only ten generations of selection, the aggressive lines became markedly more aggressive than the neutral lines. After 21 generations, the fighting index increased more than 30-fold. Using microarray analysis, we identified genes with differing expression levels in the aggressive and neutral lines as candidates for this strong behavioral selection response. We tested a small set of these genes through mutant analysis and found that one significantly increased fighting frequency. These results suggest that selection for increases in aggression can be used to molecularly dissect this behavior.

}, keywords = {Aggression, Agonistic Behavior, Animals, Behavior, Animal, DNA Mutational Analysis, Drosophila melanogaster, Male, Oligonucleotide Array Sequence Analysis, RNA, Selection, Genetic}, issn = {1061-4036}, doi = {10.1038/ng1864}, author = {Dierick, Herman A and Greenspan, Ralph J} }