Analyzing neural data at huge scale

Reconstructing Neural Activity and Kinematics Using a Systems-Level Model of Sensorimotor Control

There are two popular and largely independent approaches to study the sensorimotor control system (SCS). One is to construct systems-level models of the SCS that characterize dynamics of motor regions in the brain, alpha motor neurons, and the musculoskeletal system to reconstruct motor behavior. These models view the brain as a feedforward and feedback controller that actuates the musculoskeletal system, and have been useful in understanding how the SCS generates movements. Another approach is to measure neural activity and movements simultaneously in primate and human subjects,and the nanalyze the data tounder standhow the brain encodes and controls movement. In this paper, we combine these two approaches by fitting parameters of a systems-level model of the SCS to neural activity and behavior measured from a nonhuman primate executing four types of reach-tograsp tasks. We applied a nonlinear least squares estimation to fit parameters of the model components that characterize cerebrocerebellar processing of movement error and muscles that are actuated by alpha motor neurons receiving commands from primary motor cortex (M1). Our fitted SCS model accurately reconstructs firing rate activity of six populations of M1 neurons and associated reaching trajectories. This study paves the way for the validation of systems-level models of the SCS using experimental data.

Visualization of cortical, subcortical and deep brain neural circuit dynamics during naturalistic mammalian behavior with head-mounted microscopes and chronically implanted lenses

Genetically encoded calcium indicators for visualizing dynamic cellular activity have greatly expanded our understanding of the brain. However, owing to the light-scattering properties of the brain, as well as the size and rigidity of traditional imaging technology, in vivo calcium imaging has been limited to superficial brain structures during head-fixed behavioral tasks. These limitations can now be circumvented by using miniature, integrated microscopes in conjunction with an implantable microendoscopic lens to guide light into and out of the brain, thus permitting optical access to deep brain (or superficial) neural ensembles during naturalistic behaviors. Here we describe steps to conduct such imaging studies using mice. However, we anticipate that the protocol can be easily adapted for use in other small vertebrates. Successful completion of this protocol will permit cellular imaging of neuronal activity and the generation of data sets with sufficient statistical power to correlate neural activity with stimulus presentation, physiological state and other aspects of complex behavioral tasks. This protocol takes 6-11 weeks to complete.