Searched for: school:SOM
Department/Unit:Neuroscience Institute
Clustering is semidefinitely not that hard: Nonnegative SDP for manifold disentangling
Tepper, Mariano; Sengupta, Anirvan M.; Chklovskii, Dmitri
In solving hard computational problems, semidefinite program (SDP) relaxations often play an important role because they come with a guarantee of optimality. Here, we focus on a popular semidefinite relaxation of K-means clustering which yields the same solution as the non-convex original formulation for well segregated datasets. We report an unexpected finding: when data contains (greater than zero-dimensional) manifolds, the SDP solution captures such geometrical structures. Unlike traditional manifold embedding techniques, our approach does not rely on manually defining a kernel but rather enforces locality via a nonnegativity constraint. We thus call our approach NOnnegative MAnifold Disentangling, or NOMAD. To build an intuitive understanding of its manifold learning capabilities, we develop a theoretical analysis of NOMAD on idealized datasets. While NOMAD is convex and the globally optimal solution can be found by generic SDP solvers with polynomial time complexity, they are too slow for modern datasets. To address this problem, we analyze a non-convex heuristic and present a new, convex and yet efficient, algorithm, based on the conditional gradient method. Our results render NOMAD a versatile, understandable, and powerful tool for manifold learning. ISI:000454480700001
ISSN: 1532-4435
CID: 3575242
NOVEL MUTATIONS IN TBCD ASSOCIATED WITH SECONDARY MICROCEPHALY [Meeting Abstract]
Cullen, Hayley D.; Edvardson, Shimon; Tian, Guoling; Vanyai, Hannah; Ngo, Linh; Bhat, Saiuj; Aran, Adi; Daana, Muhannad; Da'amseh, Naderah; Abu-Libdeh, Bassam; Elpeleg, Orly; Cowan, Nicholas J.; Heng, Julian Ik-Tsen
ISI:000426528300051
ISSN: 1099-498x
CID: 2996032
Manifold-tiling Localized Receptive Fields are Optimal in Similarity-preserving Neural Networks
Chapter by: Sengupta, Anirvan M.; Tepper, Mariano; Pehlevan, Cengiz; Genkin, Alexander; Chklovskii, Dmitri B.
in: by
pp. 7080-7090
ISBN:
CID: 3857842
Evaluation of SparseCT on patient data using realistic undersampling models
Chapter by: Chen, Baiyu; Muckley, Matthew; Sodickson, Aaron; O'Donnell, Thomas; Knoll, Florian; Sodickson, Daniel; Otazo, Ricardo
in: MEDICAL IMAGING 2018: PHYSICS OF MEDICAL IMAGING by ; Lo, JY; Schmidt, TG; Chen, GH
BELLINGHAM : SPIE-INT SOC OPTICAL ENGINEERING, 2018
pp. ?-?
ISBN: 978-1-5106-1636-3
CID: 3290392
Why Do Similarity Matching Objectives Lead to Hebbian/Anti-Hebbian Networks?
Pehlevan, Cengiz; Sengupta, Anirvan M; Chklovskii, Dmitri B
Modeling self-organization of neural networks for unsupervised learning using Hebbian and anti-Hebbian plasticity has a long history in neuroscience. Yet derivations of single-layer networks with such local learning rules from principled optimization objectives became possible only recently, with the introduction of similarity matching objectives. What explains the success of similarity matching objectives in deriving neural networks with local learning rules? Here, using dimensionality reduction as an example, we introduce several variable substitutions that illuminate the success of similarity matching. We show that the full network objective may be optimized separately for each synapse using local learning rules in both the offline and online settings. We formalize the long-standing intuition of the rivalry between Hebbian and anti-Hebbian rules by formulating a min-max optimization problem. We introduce a novel dimensionality reduction objective using fractional matrix exponents. To illustrate the generality of our approach, we apply it to a novel formulation of dimensionality reduction combined with whitening. We confirm numerically that the networks with learning rules derived from principled objectives perform better than those with heuristic learning rules.
PMID: 28957017
ISSN: 1530-888x
CID: 2717542
The Healthy Hearts and Kidneys (HHK) study: Design of a 2x2 RCT of technology-supported self-monitoring and social cognitive theory-based counseling to engage overweight people with diabetes and chronic kidney disease in multiple lifestyle changes
Sevick, Mary Ann; Woolf, Kathleen; Mattoo, Aditya; Katz, Stuart D; Li, Huilin; St-Jules, David E; Jagannathan, Ram; Hu, Lu; Pompeii, Mary Lou; Ganguzza, Lisa; Li, Zhi; Sierra, Alex; Williams, Stephen K; Goldfarb, David S
Patients with complex chronic diseases usually must make multiple lifestyle changes to limit and manage their conditions. Numerous studies have shown that education alone is insufficient for engaging people in lifestyle behavior change, and that theory-based behavioral approaches also are necessary. However, even the most motivated individual may have difficulty with making lifestyle changes because of the information complexity associated with multiple behavior changes. The goal of the current Healthy Hearts and Kidneys study was to evaluate, different mobile health (mHealth)-delivered intervention approaches for engaging individuals with type 2 diabetes (T2D) and concurrent chronic kidney disease (CKD) in behavior changes. Participants were randomized to 1 of 4 groups, receiving: (1) a behavioral counseling, (2) technology-based self-monitoring to reduce information complexity, (3) combined behavioral counseling and technology-based self-monitoring, or (4) baseline advice. We will determine the impact of randomization assignment on weight loss success and 24-hour urinary excretion of sodium and phosphorus. With this report we describe the study design, methods, and approaches used to assure information security for this ongoing clinical trial. Clinical Trials.gov Identifier: NCT02276742.
PMCID:6007843
PMID: 28867396
ISSN: 1559-2030
CID: 2688792
Effects of anterior cingulate cortex lesions on a continuous performance task for mice
Hvoslef-Eide, Martha; Nilsson, Simon Ro; Hailwood, Jonathan M; Robbins, Trevor W; Saksida, Lisa M; Mar, Adam C; Bussey, Timothy J
Important tools in the study of prefrontal cortical-dependent executive functions are cross-species behavioural tasks with translational validity. A widely used test of executive function and attention in humans is the continuous performance task (CPT). Optimal performance in variations of this task is associated with activity along the medial wall of the prefrontal cortex, including the anterior cingulate cortex (ACC), for its essential components such as response control, target detection and processing of false alarm errors. We assess the validity of a recently developed rodent touchscreen continuous performance task (rCPT) that is analogous to typical human CPT procedures. Here we evaluate the performance of mice with quinolinic acid-induced lesions centred on the ACC in the rCPT following a range of task parameter manipulations designed to challenge attention and impulse control. Lesioned mice showed a disinhibited response profile expressed as a decreased response criterion and increased false alarm rates. ACC lesions also resulted in a milder increase in inter-trial interval responses ('ITI touches') and hit rate. Lesions did not affect discriminative sensitivity d'. The disinhibited behaviour of ACC lesioned animals was stable and not affected by the manipulation of variable task parameter manipulations designed to increase task difficulty. The results are in general agreement with human studies implicating the ACC in the processing of inappropriate responses. We conclude that the rCPT may be useful for studying prefrontal cortex function in mice and has the capability of providing meaningful links between animal and human cognitive tasks.
PMCID:6546594
PMID: 31168482
ISSN: 2398-2128
CID: 3917952
Low rank alternating direction method of multipliers reconstruction for MR fingerprinting
Asslander, Jakob; Cloos, Martijn A; Knoll, Florian; Sodickson, Daniel K; Hennig, Jurgen; Lattanzi, Riccardo
PURPOSE: The proposed reconstruction framework addresses the reconstruction accuracy, noise propagation and computation time for magnetic resonance fingerprinting. METHODS: Based on a singular value decomposition of the signal evolution, magnetic resonance fingerprinting is formulated as a low rank (LR) inverse problem in which one image is reconstructed for each singular value under consideration. This LR approximation of the signal evolution reduces the computational burden by reducing the number of Fourier transformations. Also, the LR approximation improves the conditioning of the problem, which is further improved by extending the LR inverse problem to an augmented Lagrangian that is solved by the alternating direction method of multipliers. The root mean square error and the noise propagation are analyzed in simulations. For verification, in vivo examples are provided. RESULTS: The proposed LR alternating direction method of multipliers approach shows a reduced root mean square error compared to the original fingerprinting reconstruction, to a LR approximation alone and to an alternating direction method of multipliers approach without a LR approximation. Incorporating sensitivity encoding allows for further artifact reduction. CONCLUSION: The proposed reconstruction provides robust convergence, reduced computational burden and improved image quality compared to other magnetic resonance fingerprinting reconstruction approaches evaluated in this study. Magn Reson Med, 2017. (c) 2017 International Society for Magnetic Resonance in Medicine.
PMCID:5585028
PMID: 28261851
ISSN: 1522-2594
CID: 2476912
A novel role for ceramide synthase 6 in mouse and human alcoholic steatosis
Williams, Bianca; Correnti, Jason; Oranu, Amanke; Lin, Annie; Scott, Victoria; Annoh, Maxine; Beck, James; Furth, Emma; Mitchell, Victoria; Senkal, Can E; Obeid, Lina; Carr, Rotonya M
Perilipin 2 (PLIN2) is a lipid-droplet protein that is up-regulated in alcoholic steatosis and associated with hepatic accumulation of ceramides, bioactive lipids implicated in alcoholic liver disease pathogenesis. The specific role of ceramide synthetic enzymes in the regulation of PLIN2 and promotion of hepatocellular lipid accumulation is not well understood. We examined the effects of pharmacologic ceramide synthesis inhibition on hepatic PLIN2 expression, steatosis, and glucose and lipid homeostasis in mice with alcoholic steatosis and in ethanol-incubated human hepatoma VL17A cells. In cells, pharmacologic inhibition of ceramide synthase reduced lipid accumulation by reducing PLIN2 RNA stability. The subtype ceramide synthase (CerS)6 was specifically up-regulated in experimental alcoholic steatosis in vivo and in vitro and was up-regulated in zone 3 hepatocytes in human alcoholic steatosis. In vivo ceramide reduction by inhibition of de novo ceramide synthesis reduced PLIN2 and hepatic steatosis in alcohol-fed mice, but only de novo synthesis inhibition, not sphingomyelin hydrolysis, improved glucose tolerance and dyslipidemia. These findings implicate CerS6 as a novel regulator of PLIN2 and suggest that ceramide synthetic enzymes may promote the earliest stage of alcoholic liver disease, alcoholic steatosis.-Williams, B., Correnti, J., Oranu, A., Lin, A., Scott, V., Annoh, M., Beck, J., Furth, E., Mitchell, V., Senkal, C. E., Obeid, L., Carr, R. M. A novel role for ceramide synthase 6 in mouse and human alcoholic steatosis.
PMCID:5731793
PMID: 28864659
ISSN: 1530-6860
CID: 3743352
Epilepsy as a Network Disorder (2): What can we learn from other network disorders such as dementia and schizophrenia, and what are the implications for translational research?
Scharfman, Helen E; Kanner, Andres M; Friedman, Alon; Blumcke, Ingmar; Crocker, Candice E; Cendes, Fernando; Diaz-Arrastia, Ramon; Forstl, Hans; Fenton, Andre A; Grace, Anthony A; Palop, Jorge; Morrison, Jason; Nehlig, Astrid; Prasad, Asuri; Wilcox, Karen S; Jette, Nathalie; Pohlmann-Eden, Bernd
There is common agreement that many disorders of the central nervous system are 'complex', that is, there are many potential factors that influence the development of the disease, underlying mechanisms, and successful treatment. Most of these disorders, unfortunately, have no cure at the present time, and therapeutic strategies often have debilitating side effects. Interestingly, some of the 'complexities' of one disorder are found in another, and the similarities are often network defects. It seems likely that more discussions of these commonalities could advance our understanding and, therefore, have clinical implications or translational impact. With this in mind, the Fourth International Halifax Epilepsy Conference and Retreat was held as described in the prior paper, and this companion paper focuses on the second half of the meeting. Leaders in various subspecialties of epilepsy research were asked to address aging and dementia or psychosis in people with epilepsy (PWE). Commonalities between autism, depression, aging and dementia, psychosis, and epilepsy were the focus of the presentations and discussion. In the last session, additional experts commented on new conceptualization of translational epilepsy research efforts. Here, the presentations are reviewed, and salient points are highlighted.
PMCID:5756681
PMID: 29097123
ISSN: 1525-5069
CID: 2765792