Single-participant structural similarity matrices lead to greater accuracy in classification of participants than function in autism in MRI.

BackgroundAutism has previously been characterized by both structural and functional differences in brain connectivity. However, while the literature on single-subject derivations of functional connectivity is extensively developed, similar methods of structural connectivity or similarity derivation from T1 MRI are less studied.MethodsWe introduce a technique of deriving symmetric similarity matrices from regional histograms of grey matter volumes estimated from T1-weighted MRIs. We then validated the technique by inputting the similarity matrices into a convolutional neural network (CNN) to classify between participants with autism and age-, motion-, and intracranial-volume-matched controls from six different databases (29,288 total connectomes, mean age = 30.72, range 0.42-78.00, including 1555 subjects with autism). We compared this method to similar classifications of the same participants using fMRI connectivity matrices as well as univariate estimates of grey matter volumes. We further applied graph-theoretical metrics on output class activation maps to identify areas of the matrices that the CNN preferentially used to make the classification, focusing particularly on hubs.LimitationsWhile this study used a large sample size, the majority of data was from a young age group; furthermore, to make a viable machine learning study, we treated autism, a highly heterogeneous condition, as a binary label. Thus, these results are not necessarily generalizable to all subtypes and age groups in autism.ResultsOur models gave AUROCs of 0.7298 (69.71% accuracy) when classifying by only structural similarity, 0.6964 (67.72% accuracy) when classifying by only functional connectivity, and 0.7037 (66.43% accuracy) when classifying by univariate grey matter volumes. Combining structural similarity and functional connectivity gave an AUROC of 0.7354 (69.40% accuracy). Analysis of classification performance across age revealed the greatest accuracy in adolescents, in which most data were present. Graph analysis of class activation maps revealed no distinguishable network patterns for functional inputs, but did reveal localized differences between groups in bilateral Heschl's gyrus and upper vermis for structural similarity.ConclusionThis study provides a simple means of feature extraction for inputting large numbers of structural MRIs into machine learning models. Our methods revealed a unique emphasis of the deep learning model on the structure of the bilateral Heschl's gyrus when characterizing autism

Single-participant structural similarity matrices lead to greater accuracy in classification of participants than function in autism in MRI.

BackgroundAutism has previously been characterized by both structural and functional differences in brain connectivity. However, while the literature on single-subject derivations of functional connectivity is extensively developed, similar methods of structural connectivity or similarity derivation from T1 MRI are less studied.MethodsWe introduce a technique of deriving symmetric similarity matrices from regional histograms of grey matter volumes estimated from T1-weighted MRIs. We then validated the technique by inputting the similarity matrices into a convolutional neural network (CNN) to classify between participants with autism and age-, motion-, and intracranial-volume-matched controls from six different databases (29,288 total connectomes, mean age = 30.72, range 0.42-78.00, including 1555 subjects with autism). We compared this method to similar classifications of the same participants using fMRI connectivity matrices as well as univariate estimates of grey matter volumes. We further applied graph-theoretical metrics on output class activation maps to identify areas of the matrices that the CNN preferentially used to make the classification, focusing particularly on hubs.LimitationsWhile this study used a large sample size, the majority of data was from a young age group; furthermore, to make a viable machine learning study, we treated autism, a highly heterogeneous condition, as a binary label. Thus, these results are not necessarily generalizable to all subtypes and age groups in autism.ResultsOur models gave AUROCs of 0.7298 (69.71% accuracy) when classifying by only structural similarity, 0.6964 (67.72% accuracy) when classifying by only functional connectivity, and 0.7037 (66.43% accuracy) when classifying by univariate grey matter volumes. Combining structural similarity and functional connectivity gave an AUROC of 0.7354 (69.40% accuracy). Analysis of classification performance across age revealed the greatest accuracy in adolescents, in which most data were present. Graph analysis of class activation maps revealed no distinguishable network patterns for functional inputs, but did reveal localized differences between groups in bilateral Heschl's gyrus and upper vermis for structural similarity.ConclusionThis study provides a simple means of feature extraction for inputting large numbers of structural MRIs into machine learning models. Our methods revealed a unique emphasis of the deep learning model on the structure of the bilateral Heschl's gyrus when characterizing autism

Applications of Data-driven Classification and Connectivity Quantification Methods in High-resolution Image Analysis

Microstructure of a material determines the transport, chemical and mechanical properties. Geological materials and geomaterials are imaged using microscopy tools. The microscopy images are analyzed to better understand the microstructural topology and morphology. Image segmentation is an essential step prior to the microstructural analysis. In this study, we trained a Random Forest classifier to relate certain features corresponding to each pixel and its neighboring pixels in a scanning electron microscopy (SEM) image of shale to a specific component type; thereby developing a methodology to segment SEM images of shale samples into 4 component types, namely, pore/crack, organic/kerogen, matrix and pyrite. We evaluate the generalization capability of the Machine Learning-assisted image-segmentation (MLIS) method by using SEM maps from Wolfcamp and Barnett shale formations. The two formations differ in topology, morphology and distribution of the four components. The MLIS method is also implemented to classify rock and different fluid phases in micro-CT scans of carbonate core sample undergoing water alternating gas injection with a goal to quantify the three-dimensional fluid connectivity. The three-dimensional connectivity of the fluid phases in porous media plays a crucial role in governing the fluid transport, displacement, and recovery. Accurate three-dimensional quantification of the fluid phase connectivity following each fluid injection stage will lead to better understanding of the efficacy and efficiency of the fluid injection strategies. Two metrics for measuring the connectivity in 3D show robust performance; one uses fast marching method to quantify average time required for a monotonically advancing wave to travel between any two pixels and the other uses two-point probability function to approximate the average distance between any two connected pixels belonging to the same fluid phase. The two connectivity metrics are applied on the three-dimensional (3D) CT scans of one water-wet Ketton whole-core sample subjected to WAG injection to quantify the evolution of the three-dimensional connectivity of the three fluid phases (oil, water, and gas)