FPGA-based biophysically-meaningful modeling of olivocerebellar neurons

Abstract

The Inferior-Olivary nucleus (ION) is a well-charted region of the brain, heavily associated with sensorimotor control of the body. It comprises ION cells with unique properties which facilitate sensory processing and motor-learning skills. Various simulation models of ION-cell networks have been written in an attempt to unravel their mysteries. However, simulations become rapidly intractable when biophysically plausible models and meaningful network sizes (>=100 cells) are modeled. To overcome this problem, in this work we port a highly detailed ION cell network model, originally coded in Matlab, onto an FPGA chip. It was first converted to ANSI C code and extensively profiled. It was, then, translated to HLS C code for the Xilinx Vivado toolflow and various algorithmic and arithmetic optimizations were applied. The design was implemented in a Virtex 7 (XC7VX485T) device and can simulate a 96-cell network at real-time speed, yielding a speedup of x700 compared to the original Matlab code and x12.5 compared to the reference C implementation running on a Intel Xeon 2.66GHz machine with 20GB RAM. For a 1,056-cell network (non-real-time), an FPGA speedup of x45 against the C code can be achieved, demonstrating the design's usefulness in accelerating neuroscience research. Limited by the available on-chip memory, the FPGA can maximally support a 14,400-cell network (non-real-time) with online parameter configurability for cell state and network size. The maximum throughput of the FPGA ION-network accelerator can reach 2.13 GFLOPS.