Journal: BMC Neurology

Article Title: Translational Connectomics: overview of machine learning in macroscale Connectomics for clinical insights

doi: 10.1186/s12883-024-03864-0

Figure Lengend Snippet: Types of ML models explored in the review and their occurrence. From the illustration, it is evident that SVM is a popularly used classifier in connectomics research. (The number in the square bracket represents the count of papers using themodel)

Article Snippet: Mesoscale connectomics investigates the organization and connectivity of neuronal groups or populations.

Techniques:

Journal: BMC Neurology

Article Title: Translational Connectomics: overview of machine learning in macroscale Connectomics for clinical insights

doi: 10.1186/s12883-024-03864-0

Figure Lengend Snippet: Applications of ML in connectomics addressed in this review [Number of papers reviewed]

Article Snippet: Mesoscale connectomics investigates the organization and connectivity of neuronal groups or populations.

Techniques:

Journal: Brain Connectivity

Article Title: Cross-Species Evidence of Interplay Between Neural Connectivity at the Micro- and Macroscale of Connectome Organization in Human, Mouse, and Rat Brain

doi: 10.1089/brain.2018.0622

Figure Lengend Snippet: (A) Cortical areas reported in the NeuroMorpho.org data mapped to regions of the adopted human (DK-57 atlas), rat [Swanson atlas (Swanson, 1992)], and mouse (Allen Mouse Brain Atlas) brain atlases. Figures highlight the regions for which neuronal morphological data could be extracted from the NeuroMorpho.org database, approximate location of medial regions depicted with a dotted outline. From left to right: human, rat, and mouse data. Included regions in the rat are AId, rostral agranular insular cortex; AON, anterior olfactory nucleus; AUDp, primary auditory cortex; CA1 and CA2 of the hippocampus; MOp, primary motor cortex; MOs, secondary motor cortex; peri, perirhinal cortex; PL, prelimbic cortex; SSp, primary sensory cortex. Included mouse regions are AON, anterior olfactory nucleus; BLA, basolateral amygdala, CA1 and CA3 of the hippocampus; MOs, secondary motor cortex; SSP-bfd, barrel field of the primary sensory cortex; VISp, primary visual cortex. (B) Extracted connectivity matrices of the human [as derived from in vivo DWI data from the Human Connectome Project (Van Essen et al., 2013)], rat [as derived from the BAMS-II rat connectome database (Bota and Swanson, 2007)], and mouse [as derived from the Allen Mouse Brain Connectivity Atlas (Oh et al., 2014)] connectome. DWI, diffusion weighted imaging. Color images available online at www.liebertpub.com/brain

Article Snippet: Mouse connectome Data on macroscale connectivity of the mouse brain were taken from the recently mapped mesoscale mouse connectome from the Allen Institute for Brain Science [as published by http://connectivity.brain-map.org (Oh et al., 2014 )].

Techniques: Derivative Assay, In Vivo, Diffusion-based Assay, Imaging

Journal: Network Neuroscience

Article Title: Network topology of the marmoset connectome

doi: 10.1162/netn_a_00159

Figure Lengend Snippet: Global topological and geometric attributes. (A) The FLNe-labeled marmoset cortico-cortical connectome. Nodes are n = 55 cortical regions with complete input and output projections, giving a sparse weighted directed network (rows = source areas, columns = target areas) with k = 1,861 edges. The weights are log-transformed. (B) Connection weight (y-axis) versus spatial separation (x-axis). Each point represents a projection. (C) Global topological attributes of the network, including reciprocity (tendency for nodes to be mutually linked), assortativity (tendency for nodes to link with similar nodes), clustering (proportion of completed triangles around a node), and path length (mean shortest set of edges connecting all pairs of nodes in the network). Network measures are shown in red; distributions from 1,000 in-degree and out-degree preserving rewired null networks are shown in gray.

Article Snippet: Marmoset connectome data were downloaded from the Marmoset Brain Architecture Project.

Techniques: Labeling, Transformation Assay, Preserving

Journal: Network Neuroscience

Article Title: Network topology of the marmoset connectome

doi: 10.1162/netn_a_00159

Figure Lengend Snippet: Motif composition. The prevalence of 13 distinct three-node motif arrangements is quantified in the empirical network (purple) and in a population of 100 degree-preserving randomly rewired networks (black boxplots). Two-tailed tests indicate that some motifs are significantly more frequent in the empirical network (motifs 4, 9, 12, 13; pink asterisk) and some are significantly less frequent (motifs 1, 2, 3, 5, 7, 8, 10, 11; blue asterisk), suggesting that the topology of the marmoset connectome possesses a unique motif fingerprint, promoting specific nonrandom circuit configurations. Boxplot whiskers represent the most extreme, non-outlier data points (≤ 1.5 × inter-quartile range).

Article Snippet: Marmoset connectome data were downloaded from the Marmoset Brain Architecture Project.

Techniques: Preserving, Two Tailed Test