Topology-based Clustering of Functional Brain Networks in an Alzheimer's Disease Cohort.

Alzheimer's disease is a progressive neurodegenerative disease with many identifying biomarkers for diagnosis. However, whole-brain phenomena, particularly in functional MRI modalities, are not fully understood nor characterized. Here we employ the novel application of topological data analysis (TDA)-based methods of persistent homology to functional brain networks from ADNI-3 cohort to perform a subtyping experiment using unsupervised clustering techniques. We then investigate variations in QT-PAD challenge features across the identified clusters. Using a Wasserstein distance kernel with a variety of clustering algorithms, we found that the 0th-homology Wasserstein distance kernel and spectral clustering yielded clusters with significant differences in whole brain and medial temporal lobe (MTL) volume, thus demonstrating an intrinsic link between whole brain functional topology and brain morphometric structure. These findings demonstrate the importance of MTL in functional connectivity and the efficacy of using TDA-based machine learning methods in network neuroscience and neurodegenerative disease subtyping.

Mining Correlation between Fluid Intelligence and Whole-brain Large Scale Structural Connectivity.

Exploring the neural basis of intelligence and the corresponding associations with brain network has been an active area of research in network neuroscience. Up to now, the majority of explorations mining human intelligence in brain connectomics leverages whole-brain functional connectivity patterns. In this study, structural connectivity patterns are instead used to explore relationships between brain connectivity and different behavioral/cognitive measures such as fluid intelligence. Specifically, we conduct a study using the 397 unrelated subjects from Human Connectome Project (Young Adults) dataset to estimate individual level structural connectivity matrices. We show that topological features, as quantified by our proposed measurements: Average Persistence (AP) and Persistent Entropy (PE), has statistically significant associations with different behavioral/cognitive measures. We also perform a parallel study using traditional graph-theoretical measures, provided by Brain Connectivity Toolbox, as benchmarks for our study. Our findings indicate that individual's structural connectivity indeed offers reliable predictive power of different behavioral/cognitive measures, including but not limited to fluid intelligence. Our results suggest that structural connectomes provide complementary insights (compared to using functional connectomes) in predicting human intelligence and warrants future studies on human intelligence and/or other behavioral/cognitive measures involving multi-modal approach.

Homological landscape of human brain functional sub-circuits.

Human whole-brain functional connectivity networks have been shown to exhibit both local/quasilocal (e.g., set of functional sub-circuits induced by node or edge attributes) and non-local (e.g., higher-order functional coordination patterns) properties. Nonetheless, the non-local properties of topological strata induced by local/quasilocal functional sub-circuits have yet to be addressed. To that end, we proposed a homological formalism that enables the quantification of higher-order characteristics of human brain functional sub-circuits. Our results indicated that each homological order uniquely unravels diverse, complementary properties of human brain functional sub-circuits. Noticeably, the H1 homological distance between rest and motor task were observed at both whole-brain and sub-circuit consolidated level which suggested the self-similarity property of human brain functional connectivity unraveled by homological kernel. Furthermore, at the whole-brain level, the rest-task differentiation was found to be most prominent between rest and different tasks at different homological orders: i) Emotion task H0, ii) Motor task H1, and iii) Working memory task H2. At the functional sub-circuit level, the rest-task functional dichotomy of default mode network is found to be mostly prominent at the first and second homological scaffolds. Also at such scale, we found that the limbic network plays a significant role in homological reconfiguration across both task- and subject- domain which sheds light to subsequent Investigations on the complex neuro-physiological role of such network. From a wider perspective, our formalism can be applied, beyond brain connectomics, to study non-localized coordination patterns of localized structures stretching across complex network fibers.

Consistency of Graph Theoretical Measurements of Alzheimer's Disease Fiber Density Connectomes Across Multiple Parcellation Scales.

Graph theoretical measures have frequently been used to study disrupted connectivity in Alzheimer's disease human brain connectomes. However, prior studies have noted that differences in graph creation methods are confounding factors that may alter the topological observations found in these measures. In this study, we conduct a novel investigation regarding the effect of parcellation scale on graph theoretical measures computed for fiber density networks derived from diffusion tensor imaging. We computed 4 network-wide graph theoretical measures of average clustering coefficient, transitivity, characteristic path length, and global efficiency, and we tested whether these measures are able to consistently identify group differences among healthy control (HC), mild cognitive impairment (MCI), and AD groups in the Alzheimer's Disease Neuroimaging Initiative (ADNI) cohort across 5 scales of the Lausanne parcellation. We found that the segregative measure of transtivity offered the greatest consistency across scales in distinguishing between healthy and diseased groups, while the other measures were impacted by the selection of scale to varying degrees. Global efficiency was the second most consistent measure that we tested, where the measure could distinguish between HC and MCI in all 5 scales and between HC and AD in 3 out of 5 scales. Characteristic path length was highly sensitive to the variation in scale, corroborating previous findings, and could not identify group differences in many of the scales. Average clustering coefficient was also greatly impacted by scale, as it consistently failed to identify group differences in the higher resolution parcellations. From these results, we conclude that many graph theoretical measures are sensitive to the selection of parcellation scale, and further development in methodology is needed to offer a more robust characterization of AD's relationship with disrupted connectivity.

iQCAR: A Demonstration of an Inter-Query Contention Analyzer for Cluster Computing Frameworks.

Unpredictability in query runtimes can arise in a shared cluster as a result of resource contentions caused by inter-query interactions. iQCAR - inter Query Contention AnalyzeR is a system that formally models these interferences between concurrent queries and provides a framework to attribute blame for contentions. iQCAR leverages a multi-level directed acyclic graph called iQC-Graph to diagnose the aberrations in query schedules that lead to these resource contentions. The demonstration will enable users to perform a step-wise deep exploration of such resource contentions faced by a query at various stages of its execution. The interface will allow users to identify top-k victims and sources of contentions, diagnose high-contention nodes and resources in the cluster, and rank their impacts on the performance of a query. Users will also be able to navigate through a set of rules recommended by iQCAR to compare how application of each rule by the cluster scheduler resolves the contentions in subsequent executions.

Transformative Nanomedicine of an Amphiphilic Camptothecin Prodrug for Long Circulation and High Tumor Uptake in Cancer Therapy.

We report a camptothecin (CPT) prodrug that was well formulated in solution and rapidly transformed into long-circulating nanocomplexes in vivo for highly efficient drug delivery and effective cancer therapy. Specifically, using a redox-responsive disulfide linker, CPT was conjugated with an albumin-binding Evans blue (EB) derivative; the resulting amphiphilic CPT-ss-EB prodrug self-assembled into nanostructures in aqueous solution, thus conferring high solubility and stability. By binding CPT-ss-EB to endogenous albumin, the 80 nm CPT-ss-EB nanoparticles rapidly transformed into 7 nm albumin/prodrug nanocomplexes. CPT-ss-EB was efficient at intracellular delivery into cancer cells, released intact CPT in a redox-responsive manner, and exhibited cytotoxicity as potent as CPT. In mice, the albumin/CPT-ss-EB nanocomplex exhibited remarkably long blood circulation (130-fold greater than CPT) and efficient tumor accumulation (30-fold of CPT), which consequently contributed to excellent therapeutic efficacy. Overall, this strategy of transformative nanomedicine is promising for efficient drug delivery.