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Adaptive Signal Recovery on Graphs via Harmonic Analysis for Experimental Design in Neuroimaging [chapter]

Won Hwa Kim, Seong Jae Hwang, Nagesh Adluru, Sterling C. Johnson, Vikas Singh
2016 Lecture Notes in Computer Science  
We show how this problem can be solved via harmonic analysis of a band-limited graph whose vertices correspond to participants and our goal is to fully recover a multi-variate signal on the nodes, given  ...  Consider an experimental design of a neuroimaging study, where we need to obtain p measurements for each participant in a setting where p′ (< p) are cheaper and easier to acquire while the remaining (p  ...  We propose a novel sampling and signal recovery strategy on a graph that is derived via harmonic analysis of the graph. ii.  ... 
doi:10.1007/978-3-319-46466-4_12 pmid:27807594 pmcid:PMC5088106 fatcat:i4wnvya7vbh73bukbhvqegotay

Online Graph Completion: Multivariate Signal Recovery in Computer Vision

Won Hwa Kim, Mona Jalal, Seongjae Hwang, Sterling C. Johnson, Vikas Singh
2017 2017 IEEE Conference on Computer Vision and Pattern Recognition (CVPR)  
We also show applications to an experimental design problem in neuroimaging.  ...  We design the optimization model in the Fourier domain of the graph describing how ideas based on adaptive submodularity provide algorithms that work well in practice.  ...  We show how recent work on submodular maximization can be adapted for analysis of measurements on a graph in this online manner utilizing the graph Fourier representation.  ... 
doi:10.1109/cvpr.2017.533 pmid:29416294 pmcid:PMC5798491 dblp:conf/cvpr/KimJHJS17 fatcat:tih5jhuykrhf3gzvogybqrozv4

ENIGMA HALFpipe: Interactive, reproducible, and efficient analysis for resting-state and task-based fMRI data [article]

Lea Waller, Susanne Erk, Elena Pozzi, Yara J. Toenders, Courtney C. Haswell, Marc Büttner, Paul M. Thompson, Lianne Schmaal, Rajendra A. Morey, Henrik Walter, Ilya M. Veer
2021 bioRxiv   pre-print
The reproducibility crisis in neuroimaging has led to an increased demand for standardized data processing workflows.  ...  one run.  ...  In this formalization of a neuroimaging pipeline as a graph, the fastest order for execution across multiple processor cores can be determined.  ... 
doi:10.1101/2021.05.07.442790 fatcat:6seux5ybkncl7dpdlhj2ccsnx4

2021 Index IEEE Transactions on Signal Processing Vol. 69

2021 IEEE Transactions on Signal Processing  
The Author Index contains the primary entry for each item, listed under the first author's name.  ...  -that appeared in this periodical during 2021, and items from previous years that were commented upon or corrected in 2021.  ...  ., +, TSP 2021 5175-5188 Network Topology Inference From Heterogeneous Incomplete Graph Signals. Yang, X., +, TSP 2021 314-327 Non-Bayesian Estimation Framework for Signal Recovery on Graphs.  ... 
doi:10.1109/tsp.2022.3162899 fatcat:kcubj566gzb4zkj7xb5r5we3ri

Multi-resolutional shape features via non-Euclidean wavelets: Applications to statistical analysis of cortical thickness

Won Hwa Kim, Vikas Singh, Moo K. Chung, Chris Hinrichs, Deepti Pachauri, Ozioma C. Okonkwo, Sterling C. Johnson
2014 NeuroImage  
Our goal in this paper is to make group analysis of signals on surfaces more sensitive.  ...  In order to define such a shape descriptor, we make use of recent results from harmonic analysis that extend traditional continuous wavelet theory from the Euclidean to a non-Euclidean setting (i.e., a  ...  Park for their help in processing the data and/or the preparation of this manuscript.  ... 
doi:10.1016/j.neuroimage.2014.02.028 pmid:24614060 pmcid:PMC4095794 fatcat:p3cbp4oiwff7vhooq5jdeoylie

Image-Label Recovery on Fashion Data Using Image Similarity from Triple Siamese Network

Debapriya Banerjee, Maria Kyrarini, Won Hwa Kim
2021 Technologies  
The dataset is then converted into a graph signal, which is recovered using a recover algorithm (RA) in graph Fourier transform.  ...  The proposed approach was evaluated on a Fashion dataset for accuracy and precision and performed significantly better than graph neural networks and other state-of-the-art methods.  ...  [10] proposed adaptive signal recovery on graphs via harmonic analysis for experimental design in neuroimaging. Bronstein et al.  ... 
doi:10.3390/technologies9010010 fatcat:wreuiq735nft5hz55cuzu2hsam

A Review of Intrinsic Optical Imaging Serial Blockface Histology (ICI-SBH) for Whole Rodent Brain Imaging

Joël Lefebvre, Patrick Delafontaine-Martel, Frédéric Lesage
2019 Photonics  
The goal would be to offer the neuroscience community a single standardized open-source SBH solution, including optical design, acquisition automation, reconstruction algorithms, and analysis pipelines  ...  This review focuses on these efforts. First, the origin of optical contrast in brain tissue is discussed with emphasis on the various imaging modalities exploiting these contrast mechanisms.  ...  This leads to the generation of harmonics known as Second-Harmonic Generation (SHG) for signals with twice the frequency of the input or Third-Harmonic Generation (THG) for signals with three times the  ... 
doi:10.3390/photonics6020066 fatcat:qyfjrhymyndrzewigjrogxbbw4

Biomarkers, designs, and interpretations of resting-state fMRI in translational pharmacological research: A review of state-of-the-Art, challenges, and opportunities for studying brain chemistry

Najmeh Khalili-Mahani, Serge A.R.B. Rombouts, Matthias J.P. van Osch, Eugene P. Duff, Felix Carbonell, Lisa D. Nickerson, Lino Becerra, Albert Dahan, Alan C Evans, Jean-Paul Soucy, Richard Wise, Alex P. Zijdenbos (+1 others)
2017 Human Brain Mapping  
Currently, these issues are not well explored, and heterogeneities in experimental design, data acquisition and preprocessing make comparative or meta-analysis of existing reports impossible.  ...  Common biomarkers in these studies include functional connectivity, graph metrics, cerebral blood flow and the amplitude and spectrum of BOLD fluctuations.  ...  of experimental designs.  ... 
doi:10.1002/hbm.23516 pmid:28145075 fatcat:o6h7ahdzerbbngzx6vcfsvbn3q

Harmonizing brain magnetic resonance imaging methods for vascular contributions to neurodegeneration

Eric E. Smith, Geert Jan Biessels, François De Guio, Frank Erik de Leeuw, Simon Duchesne, Marco Düring, Richard Frayne, M. Arfan Ikram, Eric Jouvent, Bradley J. MacIntosh, Michael J. Thrippleton, Meike W. Vernooij (+37 others)
2019 Alzheimer's and Dementia: Diagnosis, Assessment and Disease Monitoring  
Surveys, teleconferences, and an in-person workshop were used to identify gaps in knowledge and to develop tools for harmonizing imaging and analysis.  ...  A framework for neuroimaging biomarker development was developed based on validating repeatability and reproducibility, biological principles, and feasibility of implementation.  ...  Global tractography in combination with graph theoretical network analysis allows assessment of the impact of cSVD on the level of brain networks.  ... 
doi:10.1016/j.dadm.2019.01.002 pmid:30859119 pmcid:PMC6396326 fatcat:fekvri5wq5gyvosbk4ozpa2d3a

Improved physiological noise regression in fNIRS: A multimodal extension of the General Linear Model using temporally embedded Canonical Correlation Analysis

Alexander von Lühmann, Xinge Li, Klaus-Robert Müller, David A. Boas, Meryem A. Yücel
2019 NeuroImage  
Its performance in the recovery of evoked HRFs is then evaluated using both simulated ground truth data and real experimental data and compared with the GLM with short separation regression.  ...  to Noise Ratio is of importance for single trial analysis.  ...  Experimental paradigm During the experiment, subjects were seated in a comfortable chair. Signal quality was checked for all devices.  ... 
doi:10.1016/j.neuroimage.2019.116472 pmid:31870944 pmcid:PMC7703677 fatcat:57enh7uxerdrljetoxwie6xtc4

An Optimized Registration Workflow and Standard Geometric Space for Small Animal Brain Imaging

Horea-Ioan Ioanas, Markus Marks, Valerio Zerbi, Mehmet Fatih Yanik, Markus Rudin
2021 NeuroImage  
In this fully reproducible article we showcase a generic workflow optimized for the mouse brain, alongside a standard reference space suited to harmonize data between analysis and operation.  ...  In small animal MRI this is not adequately provided by currently used processing workflows, which utilize high-level scripts optimized for human data, and adapt animal data to fit the scripts, rather than  ...  As a consequence of this peripheral positioning in the data evaluation sequence, and of the independence from experimental designs and hypotheses, registration is often relegated to default values and  ... 
doi:10.1016/j.neuroimage.2021.118386 pmid:34280528 fatcat:qismogbz4zfqpjbabfwccx3vta

2014 Index IEEE Transactions on Medical Imaging Vol. 33

2014 IEEE Transactions on Medical Imaging  
., +, TMI Jan. 2014 1-10 SCoRS-A Method Based on Stability for Feature Selection and Mapping in Neuroimaging. Rondina, J.  ...  Chen, S., +, TMI Feb. 2014 246-257 Neuroimaging Correction to "SCoRS-A Method Based on Stability for Feature Selection and Mapping in Neuroimaging" [Jan 14 85-98]. Rondina, J.  ...  ., 1969 -1985 Numerical Surrogates for Human Observers in Myocardial Motion Evaluation From SPECT Images.  ... 
doi:10.1109/tmi.2014.2386278 fatcat:poarfhfto5bm5mhfl7ugwtw4xy

An Optimized Registration Workflow and Standard Geometric Space for Small Animal Brain Imaging [article]

Horea-Ioan Ioanas, Markus Marks, Mehmet Fatih Yanik, Markus Rudin
2019 biorxiv/medrxiv   pre-print
In this fully reproducible article we showcase a novel mouse-brain-optimized workflow (accessible via Bash and Python), and a standard space suited to harmonize data between analysis and operation.  ...  Present small animal MRI workflows fall short in terms of quality and reliability, commonly utilizing high-level scripts optimized for human data (adapting data to the scripts rather than vice-versa),  ...  As a consequence of this peripheral positioning in the preprocessing sequence, and of its general independence from experimental designs and hypotheses, registration is often relegated to default values  ... 
doi:10.1101/619650 fatcat:sw463gknkrhrnndh5sqk4qpd7u

Coupled Harmonic Bases for Longitudinal Characterization of Brain Networks

Seong Jae Hwang, Nagesh Adluru, Maxwell D. Collins, Sathya N. Ravi, Barbara B. Bendlin, Sterling C. Johnson, Vikas Singh
2016 2016 IEEE Conference on Computer Vision and Pattern Recognition (CVPR)  
To do so, one typically performs so-called tractography procedures on diffusion MR brain images and derives measures of brain connectivity expressed as graphs.  ...  coupling the harmonic bases of a full set of Laplacians.  ...  We expect that estimating the longitudinal change process in connectivity accurately via the coupled harmonic bases model will enable identifying a disease signal even in the pool of healthy (but at-risk  ... 
doi:10.1109/cvpr.2016.276 dblp:conf/cvpr/HwangACRBJS16 fatcat:g65toqv2ajhfniaa22bonzb6gm

Design of large polyphase filters in the Quadratic Residue Number System

Gian Carlo Cardarilli, Alberto Nannarelli, Yann Oster, Massimo Petricca, Marco Re
2010 2010 Conference Record of the Forty Fourth Asilomar Conference on Signals, Systems and Computers  
Recovery of missing dominant structures is done via tensor voting, regression analysis or a combination of both.  ...  We report the results of this analysis on 313 subjects from the Mild Cognitive Impairment group in the Alzheimer's Disease Neuroimaging Initiative (ADNI).  ... 
doi:10.1109/acssc.2010.5757589 fatcat:ccxnu5owr5fyrcjcqukumerueq
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