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Noise Reduction in Arterial Spin Labeling Based Functional Connectivity Using Nuisance Variables

Kay Jann, Robert X. Smith, Edgar A. Rios Piedra, Mirella Dapretto, Danny J. J. Wang
2016 Frontiers in Neuroscience  
Furthermore, 3D BS GRASE pCASL shows much higher temporal SNR compared to dual-echo 2D-EPI pCASL and similar effects of noise reduction as those observed for BOLD.  ...  Arterial Spin Labeling (ASL) perfusion image series have recently been utilized for functional connectivity (FC) analysis in healthy volunteers and children with autism spectrum disorders (ASD).  ...  INTRODUCTION Functional connectivity (FC) analysis to compute functionally connected networks (FCNs) has become a major imaging approach to investigate the brain's organization and function.  ... 
doi:10.3389/fnins.2016.00371 pmid:27601973 pmcid:PMC4993769 fatcat:lkvd2zvd7rbjpivozmzujsuau4

Dual-Echo Arterial Spin Labeling for Brain Perfusion Quantification and Functional Analysis

André Monteiro Paschoal, Fernando Fernandes Paiva, Renata Ferranti Leoni
2019 Concepts in magnetic resonance. Part A, Bridging education and research  
An approach that provides both CBF and function information in a simultaneous acquisition is the use of a dual-echo ASL (DE-ASL) readout.  ...  Therefore, it was possible to use a dual-echo readout provided by a standard commercial ASL pulse sequence to obtain reliable quantitative CBF values and functional information simultaneously.  ...  Acknowledgments This study was supported by CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico).  ... 
doi:10.1155/2019/5040465 fatcat:nnr424rs5bcqhiml37mvo5mg7u

Removing motion and physiological artifacts from intrinsic BOLD fluctuations using short echo data

Molly G. Bright, Kevin Murphy
2013 NeuroImage  
In this study, we investigate the use of short echo time functional MRI data to correct for these noise sources in blood oxygenation level dependent (BOLD)-weighted time series.  ...  A dual-echo sequence was used to simultaneously acquire data at both a short (TE=3.3 ms) and a BOLD-weighted (TE=35 ms) echo time.  ...  Acknowledgments We would like to thank the anonymous reviewers for their contributions to the development of this manuscript. This work was funded by the Wellcome Trust.  ... 
doi:10.1016/j.neuroimage.2012.09.043 pmid:23006803 pmcid:PMC3518782 fatcat:ltzcxkrqqnbavlbtwcktl5afuy

Connectivity networks in gambling disorder: a resting-state fMRI study

Tim van Timmeren, Paul Zhutovsky, Ruth J. van Holst, Anna E. Goudriaan
2018 International Gambling Studies  
Studies examining resting-state functional connectivity in GD, although limited in number, have so far applied seed-based analysis approaches which revealed altered brain functioning.  ...  A more recent focus is on the development of interventions for dually diagnosed patients.  ...  In conclusion, in this study we used a data-driven approach to investigate resting-state connectivity in GD patients.  ... 
doi:10.1080/14459795.2018.1449884 fatcat:gpiijuk5yzg5hkugmebwt65fsi

Multiband multi-echo imaging of simultaneous oxygenation and flow timeseries for resting state connectivity

Alexander D. Cohen, Andrew S. Nencka, R. Marc Lebel, Yang Wang, Xi-Nian Zuo
2017 PLoS ONE  
Seed-based and dual-regression approaches were utilized to analyze functional connectivity.  ...  These studies have found functional connectivity to be positively correlated with CBF/ BOLD coupling within functional networks.  ...  Acknowledgments We thank Ajit Shankaranarayanan and Matt Middione from GE Healthcare for providing source code of the GE multiband sequence.  ... 
doi:10.1371/journal.pone.0169253 pmid:28253268 pmcid:PMC5333818 fatcat:2lwxxhawgzdetma3u6ffggtlpi

Heritability estimates on resting state fMRI data using ENIGMA analysis pipeline

Bhim M. Adhikari, Neda Jahanshad, Dinesh Shukla, David C. Glahn, John Blangero, Richard C. Reynolds, Robert W. Cox, Els Fieremans, Jelle Veraart, Dmitry S. Novikov, Thomas E. Nichols, L. Elliot Hong (+2 others)
2017 Biocomputing 2018  
We used seedbased connectivity and dual-regression approaches to show that the rsfMRI signal is consistently heritable across twenty major functional network measures.  ...  We developed a multi-site rsfMRI analysis pipeline to allow research groups around the world to process rsfMRI scans in a harmonized way, to extract consistent and quantitative measurements of connectivity  ...  We are grateful to Human Connectome Project and the Center for High-Performance Computing at Washington University, University of Washington St.  ... 
doi:10.1142/9789813235533_0029 fatcat:6sr7azhcozdyjajax2koykwcv4

Heritability estimates on resting state fMRI data using ENIGMA analysis pipeline

Bhim M Adhikari, Neda Jahanshad, Dinesh Shukla, David C Glahn, John Blangero, Richard C Reynolds, Robert W Cox, Els Fieremans, Jelle Veraart, Dmitry S Novikov, Thomas E Nichols, L Elliot Hong (+2 others)
2018 Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing  
We used seed-based connectivity and dual-regression approaches to show that the rsfMRI signal is consistently heritable across twenty major functional network measures.  ...  We developed a multi-site rsfMRI analysis pipeline to allow research groups around the world to process rsfMRI scans in a harmonized way, to extract consistent and quantitative measurements of connectivity  ...  We are grateful to Human Connectome Project and the Center for High-Performance Computing at Washington University, University of Washington St.  ... 
pmid:29218892 pmcid:PMC5728672 fatcat:k43mab5eyresbiyuuivky73eje

Resting State BOLD Functional Connectivity at 3T: Spin Echo versus Gradient Echo EPI

Piero Chiacchiaretta, Antonio Ferretti, Emmanuel Andreas Stamatakis
2015 PLoS ONE  
However, there are no reports on the application of spin-echo fMRI for connectivity studies at low field.  ...  Main results showed that, within subject, the GE sensitivity is overall larger with respect to that of SE, but to a less extent than previously reported for activation studies.  ...  Regarding the functional connectivity analysis, a seed based approach was used in this study rather than independent component analysis (ICA).  ... 
doi:10.1371/journal.pone.0120398 pmid:25749359 pmcid:PMC4352074 fatcat:vopt7p43bnb5tav6fiaw277o5e

Heritability estimates on resting state fMRI data using the ENIGMA analysis pipeline [article]

Bhim M. Adhikari, Neda Jahanshad, Dinesh Shukla, Dinesh Shukla, Richard C. Reynolds, Robert W. Cox, Els Fieremans, Jelle Veraart, Dmitry S. Novikov, L. Elliot Hong, Paul M. Thompson, Peter Kochunov
2017 arXiv   pre-print
We used seed-based connectivity and dual-regression approaches to show that rsfMRI signal is consistently heritable across twenty major functional network measures.  ...  We developed a multi-site rsfMRI analysis pipeline to allow research groups around the world to process rsfMRI scans in a harmonized way, to extract consistent and quantitative measurements of connectivity  ...  Next, correction for head motion is performed by registering each functional volume to the first time point of the run.  ... 
arXiv:1709.08578v1 fatcat:czgl5evf4zagxeaou52ycerznm

Characterising resting-state functional connectivity in a large sample of adults with ADHD

Jeanette C. Mostert, Elena Shumskaya, Maarten Mennes, A. Marten H. Onnink, Martine Hoogman, Cornelis C. Kan, Alejandro Arias Vasquez, Jan Buitelaar, Barbara Franke, David G. Norris
2016 Progress in Neuro-psychopharmacology and Biological Psychiatry  
We therefore investigated aberrant functional connectivity in a large sample of adult patients with childhood-onset ADHD, using a data-driven, whole-brain approach.  ...  This study provides important insights for studies on the neurobiology of adult ADHD; it shows that resting-state functional connectivity differences between adult patients and controls exist, but have  ...  Acknowledgements This study was supported by grants from the Netherlands Organization for Scientific Research (NWO), i.e. the NWO Brain & Cognition Excellence Program (grant 433-09-229) and a Vici grant  ... 
doi:10.1016/j.pnpbp.2016.01.011 pmid:26825495 pmcid:PMC4788977 fatcat:nj6voe7syfcivpmps6khfvc6au

Effective artifact removal in resting state fMRI data improves detection of DMN functional connectivity alteration in Alzheimer's disease

Ludovica Griffanti, Ottavia Dipasquale, Maria M. Laganà, Raffaello Nemni, Mario Clerici, Stephen M. Smith, Giuseppe Baselli, Francesca Baglio
2015 Frontiers in Human Neuroscience  
Artifact removal from resting state fMRI data is an essential step for a better identification of the resting state networks and the evaluation of their functional connectivity (FC), especially in pathological  ...  The aim of this study was to compare four different data-driven cleaning procedures (regression of motion parameters; regression of motion parameters, mean white matter and cerebrospinal fluid signal;  ...  The well-known FC alteration in the DMN was chosen as ground truth for "correct" functional connectivity estimation to compare the cleaning methods.  ... 
doi:10.3389/fnhum.2015.00449 pmid:26321937 pmcid:PMC4531245 fatcat:tvy6idphdjhsrk6fyd3ybksd5m

Effects of Field-Map Distortion Correction on Resting State Functional Connectivity MRI

Hiroki Togo, Jaroslav Rokicki, Kenji Yoshinaga, Tatsuhiro Hisatsune, Hiroshi Matsuda, Nobuhiko Haga, Takashi Hanakawa
2017 Frontiers in Neuroscience  
Independent component analysis followed by the dual regression approach was used for evaluation of resting-state functional connectivity networks (RSN).  ...  Magnetic field inhomogeneities cause geometric distortions of echo planar images used for functional magnetic resonance imaging (fMRI).  ...  and Fishery (MAFF), the government of Japan, to HM and THi, and a Grant-in-Aid for Scientific Research on Innovative Areas (Memory Dynamism), from the Japan Society for the Promotion of Science, to THi  ... 
doi:10.3389/fnins.2017.00656 pmid:29249930 pmcid:PMC5717028 fatcat:h3h3md5rg5h5lcucxzjgg5ausm

Largely Typical Patterns of Resting-State Functional Connectivity in High-Functioning Adults with Autism

J. M. Tyszka, D. P. Kennedy, L. K. Paul, R. Adolphs
2013 Cerebral Cortex  
A leading hypothesis for the neural basis of autism postulates globally abnormal brain connectivity, yet the majority of studies report effects that are either very weak, inconsistent across studies, or  ...  Here we apply multiple analytical approaches to resting-state BOLD-fMRI data at the whole-brain level.  ...  Notes The authors wish to thank Catherine Holcomb for all her administrative efforts in support of this project. Conflict of interest: none declared.  ... 
doi:10.1093/cercor/bht040 pmid:23425893 pmcid:PMC4051895 fatcat:35yklrc3hvcrzhrnlov2ppegda

Effects of Gradient Coil Noise and Gradient Coil Replacement on the Reproducibility of Resting State Networks

Epifanio Bagarinao, Erina Tsuzuki, Yukina Yoshida, Yohei Ozawa, Maki Kuzuya, Takashi Otani, Shuji Koyama, Haruo Isoda, Hirohisa Watanabe, Satoshi Maesawa, Shinji Naganawa, Gen Sobue
2018 Frontiers in Human Neuroscience  
We also introduced a method to detect and minimize the effect of the noise associated with a faulty gradient coil.  ...  The stability of the MRI scanner throughout a given study is critical in minimizing hardware-induced variability in the acquired imaging data set.  ...  We performed three dual regression analyses to examine the contribution of head motion and gradient coil noise in the observed differences in functional connectivity.  ... 
doi:10.3389/fnhum.2018.00148 pmid:29725294 pmcid:PMC5917444 fatcat:ldtmojrw45es5dumemr53wc6tq

Comparing resting state fMRI de-noising approaches using multi- and single-echo acquisitions

Ottavia Dipasquale, Arjun Sethi, Maria Marcella Laganà, Francesca Baglio, Giuseppe Baselli, Prantik Kundu, Neil A. Harrison, Mara Cercignani, Alessandro Gozzi
2017 PLoS ONE  
Comparing resting state fMRI de-noising approaches using multi-and single-echo acquisitions. PLOS One.  ...  Introduction Resting state functional MRI (rfMRI) is a powerful method for investigating functional connectivity (FC) in the healthy brain and neuropsychiatric disorders.  ...  Motion artifact removal in ROI-based functional connectivity analysis (160 ROIs).  ... 
doi:10.1371/journal.pone.0173289 pmid:28323821 pmcid:PMC5360253 fatcat:dswponx6jndr7jnzx7naqirkbi
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