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No time for drifting: Comparing performance and applicability of signal detrending algorithms for real-time fMRI

R. Kopel, R. Sladky, P. Laub, Y. Koush, F. Robineau, C. Hutton, N. Weiskopf, P. Vuilleumier, D. Van De Ville, F. Scharnowski
2019 NeuroImage  
These results may guide developers and users of real-time fMRI analyses tools to best account for the problem of signal drifts in real-time fMRI.  ...  To that aim, signal processing algorithms for real-time fMRI must reliably correct signal contaminations due to physiological noise, head motion, and scanner drift.  ...  Research in Science and the Humanities at the University of Zurich (STWF-17-012), the Baugarten Stiftung, the European Union, and the Wellcome Trust.  ... 
doi:10.1016/j.neuroimage.2019.02.058 pmid:30818024 pmcid:PMC6503944 fatcat:kzmfohzikfc3zjryas2mjdcjhi

Detrend-Free Hemodynamic Data Assimilation of Two-Stage Kalman Estimator [chapter]

Hu Zhenghui, Shi Pengcheng
2011 Lecture Notes in Computer Science  
The efficacy of this approach is demonstrated in synthetic and real fMRI experiments.  ...  Results show that the joint estimation strategy produces more accurate estimation of physiological states, fMRI response and drift than separate processing due to no assumption of structure of the drift  ...  This work is supported in part by the National Basic Research Program of China (2010CB732500) and in part by the National Natural Science Foundation of China (30800250).  ... 
doi:10.1007/978-3-642-23629-7_30 fatcat:rv347cn2iratnem7nc5wonnc7e

Initial-Dip Existence and Estimation in Relation to DPF and Data Drift

Muhammad A. Kamran, Malik M. Naeem Mannan, Myung-Yung Jeong
2018 Frontiers in Neuroinformatics  
An efficient algorithm for estimation of drift in fNIRS data is proposed. The results favor the shifting of the fNIRS signal to a transformed coordinate system to infer correct information.  ...  Four different cases of initial dip existence were treated, and the resultant characteristics of the hemodynamic response function (HRF) for DPF variation corresponding to particular near-infrared (NIR  ...  But still there is no such algorithm.  ... 
doi:10.3389/fninf.2018.00096 pmid:30618701 pmcid:PMC6297380 fatcat:ljkrfxtwnfbn5l2zvueg4vczsu

Real-Time Functional Magnetic Resonance Imaging

Robert W. Cox, Andrzej Jesmanowicz, James S. Hyde
1995 Magnetic Resonance in Medicine  
A statistical model for the FMRI signal is presented, and thresholds for the correlation coefficient are derived from it.  ...  A recursive algorithm suitable for functional magnetic resonance imaging (FMRI) calculations is presented.  ...  In the application to FMRI, the reference r is derived from the timing of the mental tasks being performed by the subject.  ... 
doi:10.1002/mrm.1910330213 pmid:7707914 fatcat:cjhortvejfcz7jx3kfeq5jxabi

Functional magnetic resonance imaging in real time (FIRE): Sliding-window correlation analysis and reference-vector optimization

Daniel Gembris, John G. Taylor, Stefan Schor, Wolfgang Frings, Dieter Suter, Stefan Posse
2000 Magnetic Resonance in Medicine  
They combine the computation of the correlation coefficients between measured fMRI time-series data and a reference vector with "detrending," a technique for the suppression of non-stimulus-related signal  ...  New algorithms for correlation analysis are presented that allow the mapping of brain activity from functional MRI (fMRI) data in real time during the ongoing scan.  ...  Real-time fMRI has the potential for improving efficiency in conceiving and performing neurophysiological and neuropsychological experiments.  ... 
doi:10.1002/(sici)1522-2594(200002)43:2<259::aid-mrm13>;2-p pmid:10680690 fatcat:25ek3onhhzekfo5cnumf7ctswm

Kernel methods for fMRI pattern prediction

Yizhao Ni, Carlton Chu, Craig J. Saunders, John Ashburner
2008 2008 IEEE International Joint Conference on Neural Networks (IEEE World Congress on Computational Intelligence)  
In this paper, we present an effective computational approach for learning patterns of brain activity from the fMRI data.  ...  Two novel techniques are applied: one utilizes the Cosine Transform to remove low-frequency drifts over time and the other involves using prior knowledge about the spatial contribution of different brain  ...  , and this movement should not be considered informative about the task. • Series of fMRI scans contain low frequency drifts over time.  ... 
doi:10.1109/ijcnn.2008.4633870 dblp:conf/ijcnn/NiCSA08 fatcat:5t5bykhx7jhhzk4t4z4cvh2sqm

Real-time fMRI using brain-state classification

Stephen M. LaConte, Scott J. Peltier, Xiaoping P. Hu
2007 Human Brain Mapping  
Thus this approach provides the capability for a new class of experimental designs in which real-time feedback control of the stimulus is possible-rather than using a fixed paradigm, experiments can adaptively  ...  V V C 2006 Wiley-Liss, Inc. r Human Brain Mapping 28:1033-1044 (2007) r r Real-Time fMRI Using Brain-State Classification r r 1035 r  ...  Simmons, and S.C. Strother for their helpful advice.  ... 
doi:10.1002/hbm.20326 pmid:17133383 fatcat:i4hyscofifd6zfrvkznpwe5yjq

Selective detrending method for reducing task-correlated motion artifact during speech in event-related FMRI

Kaundinya Gopinath, Bruce Crosson, Keith McGregor, Kyung K. Peck, Yu-Ling Chang, Anna Moore, Megan Sherod, Christy Cavanagh, Ashley Wabnitz, Christina Wierenga, Keith White, Sergey Cheshkov (+2 others)
2009 Human Brain Mapping  
The performance of this new method is compared with that of three existing methods for reducing artifacts because of TCM: (1) motion parameter regression, (2) ignoring images during speech, and (3) detrending  ...  time course datasets of signal components related to TCM (deduced from artifact corrupted voxels).  ...  Tim Conway (University of Florida) and Dr. Bill Schucany (Department of Statistics, Southern Methodist University, Dallas, Texas) for useful discussions.  ... 
doi:10.1002/hbm.20572 pmid:18465746 pmcid:PMC3010868 fatcat:kzbznxgbvbdtzcxn24sjrf67li

Wavelet minimum description length detrending for near-infrared spectroscopy

Kwang Eun Jang, Sungho Tak, Jinwook Jung, Jaeduck Jang, Yong Jeong, Jong Chul Ye
2009 Journal of Biomedical Optics  
Recently, the general linear model ͑GLM͒, which is a standard method for functional MRI ͑fMRI͒ analysis, has been employed for quantitative analysis of NIRS data.  ...  We propose a wavelet minimum description length ͑Wavelet-MDL͒ detrending algorithm to overcome this problem.  ...  Jang is currently at Samsung Advanced Institute of Technology.  ... 
doi:10.1117/1.3127204 pmid:19566297 fatcat:qlwj4fcy4ndexkbklck5e3baam

Using Real-Time fMRI to Control a Dynamical System by Brain Activity Classification [chapter]

Anders Eklund, Henrik Ohlsson, Mats Andersson, Joakim Rydell, Anders Ynnerman, Hans Knutsson
2009 Lecture Notes in Computer Science  
We present a method for controlling a dynamical system using real-time fMRI.  ...  Another future potential application can be to serve as a tool for stroke and Parkinson patients to be able to train the damaged brain area and get real-time feedback for more efficient training.  ...  This work was supported by the Strategic Research Center MOVIII, funded by the Swedish Foundation for Strategic Research, SSF.  ... 
doi:10.1007/978-3-642-04268-3_123 fatcat:mwpwn4hcu5dwvelehm7bswh2ge

Quality and denoising in real‐time functional magnetic resonance imaging neurofeedback: A methods review

Stephan Heunis, Rolf Lamerichs, Svitlana Zinger, Cesar Caballero‐Gaudes, Jacobus F. A. Jansen, Bert Aldenkamp, Marcel Breeuwer
2020 Human Brain Mapping  
for methodological studies quantifying and comparing the contribution of denoising steps to the neurofeedback signal quality.  ...  We found: (a) that less than a third of the studies reported implementing standard real-time fMRI denoising steps, (b) significant room for improvement with regards to methods reporting and (c) the need  ...  In a recent study, Kopel et al. (2019) compared the performance of commonly used online detrending algorithms with regardsto their ability to eliminate drift components and artefacts without distorting  ... 
doi:10.1002/hbm.25010 pmid:32333624 pmcid:PMC7375116 fatcat:xddngwjzyvea3pobc5i6q6ddp4

Spatio-temporal activity in real time (STAR): Optimization of regional fMRI feedback

Jeremy F. Magland, Christopher W. Tjoa, Anna Rose Childress
2011 NeuroImage  
The STAR approach offers an appealing optimization for real-time fMRI applications requiring an anatomically-localized feedback signal.  ...  The use of real-time feedback has expanded fMRI from a brain probe to include potential brain interventions with significant therapeutic promise.  ...  Acknowledgments This work was supported by National Institutes of Health research grants K25-EB007646, R33-DA026114, P50-DA12756, and P60-DA005186, and by VISN 4 MIRECC.  ... 
doi:10.1016/j.neuroimage.2010.12.085 pmid:21232612 pmcid:PMC3057229 fatcat:66ftxkqrr5elnlo7fg244kaiqi

Evaluating the impact of spatio-temporal smoothness constraints on the BOLD hemodynamic response function estimation: an analysis based on Tikhonov regularization

R Casanova, L Yang, W D Hairston, P J Laurienti, J A Maldjian
2009 Physiological Measurement  
We focus our attention on quantifying the influence of the Gaussian data smoothing and the presence of edges on the performance of these techniques.  ...  Using one-dimensional simulations, we previously found this method to produce reliable estimates of the HRF time course, especially its time to peak (TTP), being at the same time fast and robust to over-sampling  ...  We are grateful to the anonymous reviewers for their suggestions and comments that helped to improve this work significantly.  ... 
doi:10.1088/0967-3334/30/5/n01 pmid:19417238 pmcid:PMC4428311 fatcat:xg2ig6ra3vb6rolx2kzfsojrnu

Evaluation and comparison of GLM- and CVA-based fMRI processing pipelines with Java-based fMRI processing pipeline evaluation system

Jing Zhang, Lichen Liang, Jon R. Anderson, Lael Gatewood, David A. Rottenberg, Stephen C. Strother
2008 NeuroImage  
filtering or temporal detrending significantly increases pipeline performance and thus are essential for robust fMRI statistical analysis; (2) combined optimization of spatial smoothing and temporal detrending  ...  of such fMRI processing pipelines on real fMRI data is rare.  ...  Acknowledgments We thank James Ashe, M.D. and Suraj Muley, M.D. for providing the static-force data.  ... 
doi:10.1016/j.neuroimage.2008.03.034 pmid:18482849 pmcid:PMC4277234 fatcat:2zv6gz5v5zhh5ol2wblrfl23ne

High-pass filtering artifacts in multivariate classification of neural time series data [article]

Joram van Driel, Christian N.L Olivers, Johannes Jacobus Fahrenfort
2019 bioRxiv   pre-print
The application of time-resolved multivariate pattern classification analyses (MVPA) to EEG and MEG data has become increasingly popular.  ...  However, we conclude that for sufficiently clean data sets, no filtering or detrending at all may work sufficiently well.  ...  signals compares against decoding a known raw signal.  ... 
doi:10.1101/530220 fatcat:z5svwjcvl5b6xj23y5inkfo5oq
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