Revealing Ensemble State Transition Patterns in Multi-Electrode Neuronal Recordings Using Hidden Markov Models

Abstract

In order to harness the computational capacity of dissociated cultured neuronal networks, it is necessary to understand neuronal dynamics and connectivity on a mesoscopic scale. To this end, this paper uncovers dynamic spatiotemporal patterns emerging from electrically stimulated neuronal cultures using hidden Markov models (HMMs) to characterize multi-channel spike trains as a progression of patterns of underlying states of neuronal activity. However, experimentation aimed at optimal choice of parameters for such models is essential and results are reported in detail. Results derived from ensemble neuronal data revealed highly repeatable patterns of state transitions in the order of milliseconds in response to probing stimuli.

Endogenous cholinergic tone modulates spontaneous network level neuronal activity in primary cortical cultures grown on multi-electrode arrays

“…The criteria used for global burst identification were ≥4 spikes within 100 ms on ≥4 individual channels which overlapped within in a 250 ms window (see [48] for a review of burst detection methods). Positive-going spikes of ≤50 μV amplitude were taken as representative of the rectification phase of a previous negative-going spike and so were not considered as events in any recordings [49]. The definitions of analysis measures used to quantify changes to spike firing features are shown in Table  1.…”

Abrupt changes in the patterns and complexity of anterior cingulate cortex activity when food is introduced into an environment

“…However, more states will typically lead to continuously increasing likelihoods. Two goodness of fit analysis that have been successfully performed on neural data (Xydas et al, 2011) are the Akaike Information Criteria (AIC) and the Bayesian Information Criteria (BIC). In the present study, the BIC was used to find the best trade off.…”

Simulation of Spontaneous Activity in Neuronal Cultures with Long-Term Plasticity

“…В современных работах по изучению электрофизиологической активности нейрональных культур in vitro особое внимание уделяется феномену спонтанной пачечной активности [1][2][3][4][5][6][7][8][9][10]. Популяционной пачкой (или просто пачкой) активности культуры называется явление резкого возрастания активности групп нейронов в течение короткого промежутка времени.…”

“…Для каждого из методов анализа обсуждается его наилучшая область применения. Также интересный подход для анализа последовательностей вызванных пачек, основанный на использовании скрытых марковских моделей, был предложен авторами [7].…”