Supplementary Materials for "Ensemble dynamics and information flow deduction from whole-brain imaging data"

This dataset is materials for a paper entitled "Ensemble dynamics and information flow deduction from whole-brain imaging data" (now in press at PLoS Comp Biol, https://doi.org/10.1371/journal.pcbi.1011848)The preprint is on bioRxiv 2022.11.18.517011 (https://doi.org/10.1101/2022.11.18.517011) This dataset includes following materials:<br>S1 Note. Demonstration of typical temporal dynamics extracted by TDE-RICA.S2 Note. TDE-RICA to simple time series data with different time-delay stepsS1 Data. TDE-RICA to the whole-brain activity dataset with different time-delay stepsS1 Fig. Result of 4D imaging in 24 samples.S2 Fig. Results of TDE-RICA for 94 selected neurons of 10 selected samples.S3 Fig. Completing missing values by TDE-RICA by matrix factorization.S4 Fig. Results of TDE-RICA with matrix factorization for all 177 neurons of all 24 samples.S5 Fig. Changes in neural activity induced by NaCl stimulationS6 Fig. Cross-correlation functions of motif occurrences averaged across samples.S7 Fig. Determination of hyperparameters for gKDR-GMMS8 Fig. Simulation results of gKDR-GMMS9 Fig. Overview of simulation results of gKDR-GMMS10 Fig. Lagged cross-correlation of all combinations of neurons for all samplesS11 Fig. Activity profile of example neuron pairs with lagged correlationS12 Fig. Simulation results by gKDR-GMM, evaluated by TDE-RICAS13 Fig. Periodic mean of neuronal activities to visualize same periodicity as sensory inputS14 Fig. Probabilistic and deterministic modelsS15 Fig. Mean log likelihood values for each neuron in each sample.S16 Fig. Estimation of synaptic connection strength.S17 Fig. Mean synaptic weights from each sample are shown as graph representationS18 Fig. Results of virtual optogenetics experimentsS19 Fig. Number of “presynaptic neurons” used for the prediction modelsS20 Fig. Outline of gKDR-GMMS21 Fig. Simulation results by gKDR-GPThe code for TDE-RICA will be found in the github repository (https://github.com/YuToyoshima/TDE-RICA)The code for gKDR-GMM will be found in the github repository (https://github.com/yuichiiino1/gKDR-GMM).The dataset used in these analysis will be found in the figshare repository (https://doi.org/10.6084/m9.figshare.21968078)