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. Author manuscript; available in PMC: 2017 Oct 5.
Published in final edited form as: Neuron. 2016 Sep 22;92(1):202–213. doi: 10.1016/j.neuron.2016.08.037

Figure 2. Cluster Analysis Revealed Spatially Compact Neural Clusters Within Dorsal Striatal D1- and D2- MSNs.

Figure 2

A. A representative standard deviation projection of 3000 GCaMP6 images of dorsal striatum from a representative D2-Cre mouse, scale bar 100 µm. B. Spatial distribution of clusters identified from all imaging sessions of a representative D2-Cre mouse. A total of 11 colored enclosed areas indicated 11 different neural clusters (C1 to C11), each containing more than 7 neurons (neurons within each cluster were labeled with the same color). Neurons in clusters containing less than 7 neurons were labeled in gray (OC), and un-clustered neurons were labeled in black (NC). Colored contour indicates the estimated boundary for each cluster. Scale bar 100 µm. Orientation of the map for both A and B: M, medial; L, Lateral; R, Rostral; C, Caudal. C. Individual neural calcium transient traces and mean cluster activity traces from four representative clusters (C1 to C4, colored); and individual calcium transient traces from un-clustered neurons (NC) and the averaged calcium trace from all the NC neurons (Black). D. Quantification of neural cluster numbers identified from each mouse dorsal striatum. Each dot on the plot represented the averaged result from one mouse, histogram bar represented the mean value for all D1- or D2- mice, with error bars representing sem (same for E through I histogram plots). E. Cumulative plot of cell numbers per cluster for both D1- and D2-MSN. Inset histogram bars were quantification of averaged cluster numbers. F. Quantification of the averaged cell distance within a cluster. G. Quantification of pair-wise neuron correlation coefficient within a cluster (Intra-cluster) or between neighboring clusters (Inter-cluster). H. Quantification of calcium activity synchrony within a cluster (Intra-cluster) or between clusters (Inter-cluster). In both G and H, gray lines connected the “Intra-” and “Inter-” cluster values from each mouse. I. Left panel was representative matrix of Rand index from a representative mouse showing clustering was consistent over five days. Each square in the matrix indicated the Rand index value calculated for the two days specified by the corresponding row and column. The range indicator below the matrix indicated the value of Rand index in the matrix. Right histogram bar plot quantified the average Rand index for D1- and D2- MSN clusters over five days. Asterisk (*) represents statistical significance.