MATLAB algorithm. A freely available MATLAB implemented to perform MG-PCC, t-SNE-SS, t-SNE-SG and draw the nearest sample(or gene) neighbors for a data set. (ZIP 6873 kb)

As the field of dynamic brain networks continues to expand, new methods are needed to allow for optimal handling and understanding of this explosion in data. We propose here a novel approach that embeds dynamic brain networks onto a two-dimensional (2D) manifold based on similarities and differences in network organization. Each brain network is represented as a single point on the low dimensional manifold with networks of similar topology being located in close proximity. The rich spatio-temporal information has great potential for visualization, analysis, and interpretation of dynamic brain networks. The fact that each network is represented by a single point makes it possible to switch between the low-dimensional space and the full connectivity of any given brain network. Thus, networks in a specific region of the low-dimensional space can be examined to identify network features, such as the location of brain network hubs or the interconnectivity between brain circuits. In this proof-of-concept manuscript, we show that these low dimensional manifolds contain meaningful information, as they were able to successfully discriminate between cognitive tasks and study populations. This work provides evidence that embedding dynamic brain networks onto low dimensional manifolds has the potential to help us better visualize and understand dynamic brain networks with the hope of gaining a deeper understanding of normal and abnormal brain dynamics.

Parameters for the t-distributed Stochastic Neighbor Embedding (t-SNE).

t-SNE map of twenty 1000 Genomes Project populations. Interactive t-SNE map of twenty 1000 Genomes Project populations. File name: 1000G_t-SNE_20populations.html. The file can be viewed in a web browser with internet access. (HTML 589 kb)