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Separating slow BOLD from non-BOLD baseline drifts using multi-echo fMRI

Jennifer W. Evans, Prantik Kundu, Silvina G. Horovitz, Peter A. Bandettini
2015 NeuroImage  
Here, we show that it is possible to separate the slow BOLD and non-BOLD drifts automatically using multi-echo fMRI and multiecho independent components analysis (ME-ICA) denoising by demonstrating the  ...  These ultraslow fMRI fluctuations are inseparable from blood oxygenation level dependent (BOLD) changes in standard single echo fMRI and they are therefore typically removed before further analysis in  ...  Discussion We have shown that ME-ICA denoising of multi-echo fMRI data can directly separate ultraslow BOLD from non-BOLD drifts based on an analysis of TE-dependence.  ... 
doi:10.1016/j.neuroimage.2014.10.051 pmid:25449746 pmcid:PMC4262662 fatcat:xids3crrvnbm7djj3raqxeayta

Multi-echo fMRI: A review of applications in fMRI denoising and analysis of BOLD signals

Prantik Kundu, Valerie Voon, Priti Balchandani, Michael V. Lombardo, Benedikt A. Poser, Peter A. Bandettini
2017 NeuroImage  
A focus is on the use of ME-fMRI data to extract and classify components from spatial ICA, called multi-echo ICA (ME-ICA).  ...  The review culminates with evidence from recent studies of major boosts in statistical power from using multi-echo fMRI for detecting activation and connectivity in healthy individuals and patients with  ...  Ed Bullmore and Souheil Inati for many important discussions on statistical and biophysical modelling of multi-echo fMRI signals.  ... 
doi:10.1016/j.neuroimage.2017.03.033 pmid:28363836 fatcat:n6mkrdv535gqfnf6nuu2nfzaxy

The effect of echo time and post-processing procedure on blood oxygenation level-dependent (BOLD) functional connectivity analysis

Swati Rane, Emily Mason, Erin Hussey, John Gore, Brandon A. Ally, Manus J. Donahue
2014 NeuroImage  
Similar to evoked BOLD fMRI responses, spontaneous BOLD signal is expected to vary with echo time (TE) and corresponding intra/extravascular sensitivity.  ...  While spontaneous BOLD fMRI signal is a common tool to map functional connectivity, unexplained inter-and intra-subject variability frequently complicates interpretation.  ...  ICA analysis: spatial features Seed-voxel correlation analysis DISCUSSION This work utilizes multi-echo BOLD fMRI to evaluate how baseline BOLD signals at different echo times (TEs) and the quantified  ... 
doi:10.1016/j.neuroimage.2014.03.055 pmid:24675648 pmcid:PMC4066393 fatcat:qoa4m6qlmjcfzmr3xcklre4lom

Data collection and analysis strategies for phMRI

Joseph B. Mandeville, Christina H. Liu, Wim Vanduffel, John J.A. Marota, Bruce G. Jenkins
2014 Neuropharmacology  
As an example application, statistically efficient data-driven regressors were used to describe the biphasic response to the mu-opioid agonist remifentanil, and antagonism using dopaminergic and GABAergic  ...  The proliferation of higher magnetic field strengths and the use of exogenous contrast agent have boosted detection power, a critical factor for successful phMRI due to the restricted ability to average  ...  The development and future of perfusion fMRI for dynamic imaging of human  ... 
doi:10.1016/j.neuropharm.2014.02.018 pmid:24613447 pmcid:PMC4058391 fatcat:rhbojtszwze73cjhhsn6q7bos4

Evaluation of multi-echo ICA denoising for task based fMRI studies: Block designs, rapid event-related designs, and cardiac-gated fMRI

Javier Gonzalez-Castillo, Puja Panwar, Laura C. Buchanan, Cesar Caballero-Gaudes, Daniel A. Handwerker, David C. Jangraw, Valentinos Zachariou, Souheil Inati, Vinai Roopchansingh, John A. Derbyshire, Peter A. Bandettini
2016 NeuroImage  
16 Multi-echo fMRI, particularly the multi-echo independent component analysis (ME-17 ICA) algorithm, has previously proven useful for increasing the sensitivity and 18 reducing false positives for functional  ...  This work, which focuses exclusively on individual subject results, 21 compares ME-ICA to single-echo fMRI and a voxel-wise T2 * weighted combination of 22  ...  These, combined with experimental demonstration of its ability 900 to separate BOLD-like (as in ultra-slow block designs) from non-BOLD (scanner 901 related) slow signal fluctuations (Evans et al., 2015  ... 
doi:10.1016/j.neuroimage.2016.07.049 pmid:27475290 pmcid:PMC5026969 fatcat:e72kqfmldrcy3db5fpwm5c2ozm

Multi-echo acquisition

Stefan Posse
2012 NeuroImage  
This review describes the evolution of multi-echo acquisition from high-speed MRSI to multi-echo EPI and beyond.  ...  the BOLD effect using analytical biophysical modeling and interleaved multiregion shimming.  ...  Markus Barth later demonstrated that large vessel contributions could be separated from small vessel contributions using high-resolution multi gradient echo fMRI and a fuzzy cluster analysis across echo  ... 
doi:10.1016/j.neuroimage.2011.10.057 pmid:22056458 pmcid:PMC3309060 fatcat:jwrsaj24jzcknhflol7g5gxhw4

Current trends and challenges in MRI acquisitions to investigate brain function

Bradley P. Sutton, Cheng Ouyang, Dimitrios C. Karampinos, Gregory A. Miller
2009 International Journal of Psychophysiology  
Functional magnetic resonance imaging (fMRI) studies using the blood oxygenation level dependent (BOLD) response have become a widely used tool for noninvasive assessment of functional organization of  ...  Functional MRI (fMRI) using the blood oxygenation-level dependent (BOLD) response is by far the most commonly employed method for noninvasive localization of activity in the brain in cognitive psychology  ...  Insensitivity to baseline drift In fMRI studies, baseline drift can mask low-frequency neural activations and can result from both physiological and non-physiological changes induced by effects such as  ... 
doi:10.1016/j.ijpsycho.2008.12.020 pmid:19236896 pmcid:PMC2707999 fatcat:gwofknkyyzfkpn4k7rp5qlj7tu

Improving effect size estimation and statistical power with multi-echo fMRI and its impact on understanding the neural systems supporting mentalizing

Michael V. Lombardo, Bonnie Auyeung, Rosemary J. Holt, Jack Waldman, Amber N.V. Ruigrok, Natasha Mooney, Edward T. Bullmore, Simon Baron-Cohen, Prantik Kundu
2016 NeuroImage  
Non-BOLD variability identification and removal is achieved in a biophysical and statistically principled manner by combining multi-echo fMRI acquisition and independent components analysis (ME-ICA).  ...  Thus, ME-ICA allows for principled design-agnostic non-BOLD artifact removal that can substantially improve effect size estimates and statistical power in task-fMRI contexts.  ...  With regard to novel task-designs such as temporally extended tasks, we have previously shown that ME-ICA also has the ability to separate ultra-slow BOLD effects from slow non-BOLD effects (Evans et  ... 
doi:10.1016/j.neuroimage.2016.07.022 pmid:27417345 pmcid:PMC5102698 fatcat:r6ttgaldxzhs7flhjo7zr2lneu

TE-dependent spatial and spectral specificity of functional connectivity

Changwei W. Wu, Hong Gu, Qihong Zou, Hanbing Lu, Elliot A. Stein, Yihong Yang
2012 NeuroImage  
In this study, spatial and spectral characteristics of functional connectivity on sensorimotor, default-mode, dorsal attention, and primary visual systems were examined using a multiple gradient-echo sequence  ...  Using the S 0 spectrum as a reference, we propose two indices to measure spectral signal change (SSC) and spectral contrast-to-noise ratio (SCNR), respectively, for quantifying the RS-fMRI signal.  ...  We used a multi-echo, gradient-echo sequence at 3T to investigate the spatial patterns and frequency distributions with TEs ranging from 7.7 ms to 60 ms.  ... 
doi:10.1016/j.neuroimage.2011.11.030 pmid:22119650 pmcid:PMC3408660 fatcat:g4gy5fodcfhhlokwjwcwtpcvse

Investigation of BOLD fMRI resonance frequency shifts and quantitative susceptibility changes at 7 T

Marta Bianciardi, Peter van Gelderen, Jeff H. Duyn
2013 Human Brain Mapping  
Keywords BOLD fMRI phase signal changes; BOLD fMRI resonance frequency shifts; BOLD fMRI quantitative susceptibility changes; fractional oxygen saturation  ...  Together, these findings demonstrate that valuable information can be derived from fMRI imaging of BOLD frequency shifts and quantitative susceptibility changes.  ...  Image Acquisition In Experiment 1, multi gradient-echo (GRE) echo-planar imaging (EPI) BOLD-fMRI was performed on a 7 T General Electric Signa MRI scanner (GE-Medical-Systems, Waukesha, WI), using a 32  ... 
doi:10.1002/hbm.22320 pmid:23897623 pmcid:PMC4280841 fatcat:varkuuodinb4hhtmamsrgkxz2y

Perfusion Based Functional MRI [chapter]

Luis Hernandez-Garcia, Hesamoddin Jahanian
2014 Advanced Brain Neuroimaging Topics in Health and Disease - Methods and Applications  
Author details Luis Hernandez-Garcia and Hesamoddin Jahanian University of Michigan, FMRI Laboratory, USA  ...  The same reasons prevent BOLD FMRI studies from answering questions about baseline conditions.  ...  Due to the drift in the BOLD signal, study of slow changes in neural activity using BOLD is quit challenging. FASL is a suitable tool for these studies as well.  ... 
doi:10.5772/58259 fatcat:ep36ddgqnrd6hlptp42mvm7lsi

Application of ICA and Dynamic Mixture Model to Identify Microvasculature Activation in fMRI [chapter]

Yongxia Zhou
2019 Neuroimaging - Structure, Function and Mind  
This mixture effect provides a way to separate microvasculature from macrovasculature in fMRI.  ...  A multi-component model representing a mixture of many reference functions is used to fit the time course of pixels in fMRI.  ...  However, because of the slow-brain hemodynamics and the draining effects of vessels and veins, the BOLD activation detected in fMRI is temporally delayed and spatially blurred from the actual site of neuronal  ... 
doi:10.5772/intechopen.79222 fatcat:74g3xmpkgvcmblh3szu3iojgi4

Improving effect size estimation and statistical power with multi-echo fMRI and its impact on understanding the neural systems supporting mentalizing [article]

Michael V. Lombardo, Bonnie Auyeung, Rosemary J Holt, Jack Waldman, Amber N. V. Ruigrok, Natasha Mooney, Edward T Bullmore, Simon Baron-Cohen, Prantik Kundu
2015 bioRxiv   pre-print
Non-BOLD variability identification and removal is achieved in a biophysical and statistically principled manner by combining multi-echo fMRI acquisition and independent components analysis (ME-ICA).  ...  Thus, ME-ICA allows for principled design-agnostic non-BOLD artifact removal that can substantially improve effect size estimates and statistical power in task-fMRI contexts.  ...  non-BOLD signals from fMRI data.  ... 
doi:10.1101/017350 fatcat:k556qhmtyvb63l4zbz7lxp2u7e

Cortical layer-dependent dynamic blood oxygenation, cerebral blood flow and cerebral blood volume responses during visual stimulation

Tao Jin, Seong-Gi Kim
2008 NeuroImage  
For this, cortical layer-dependent BOLD, CBV and CBF responses were measured at the cat visual cortex using fMRI.  ...  Major findings are: (i) the time-dependent fMRI cortical profile is dependent on imaging modality.  ...  Jicheng Wang for acquiring part of the fMRI data, and Dr. Fuqiang Zhao of Merck & Co., Inc for helpful discussions. This work was supported by NIH grants EB003324, EB003375, and NS44589.  ... 
doi:10.1016/j.neuroimage.2008.06.029 pmid:18655837 pmcid:PMC2579763 fatcat:fjrctvb3ivborhty2r5da6s3wy

Beyond BOLD: in search of genuine diffusion fMRI contrast in human brain [article]

Wiktor Olszowy, Yujian Diao, Ileana O Jelescu
2021 bioRxiv   pre-print
Functional Magnetic Resonance Imaging (fMRI) is an essential method to measure brain activity non-invasively.  ...  (RS) fMRI.  ...  We are grateful for the provision of simultaneous multi-slice (multiband) pulse sequence and reconstruction algorithms from the Center for Magnetic Resonance Research, University of Minnesota.  ... 
doi:10.1101/2021.05.16.444253 fatcat:nrquvnd4knel7d5weuobkal7be
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