DPARSF: A MATLAB Toolbox for “Pipeline” Data Analysis of Resting-State fMRI
Yan Chao-Gan,Zang Yu-Feng +1 more
TLDR
A MATLAB toolbox called Data Processing Assistant for Resting-State fMRI (DPARSF) for "pipeline" data analysis of resting-state fMRI is developed and users can use DPARSF to extract time courses from regions of interest.Abstract:
Resting-state functional magnetic resonance imaging (fMRI) has attracted more and more attention because of its effectiveness, simplicity and non-invasiveness in exploration of the intrinsic functional architecture of the human brain. However, user-friendly toolbox for "pipeline" data analysis of resting-state fMRI is still lacking. Based on some functions in Statistical Parametric Mapping (SPM) and Resting-State fMRI Data Analysis Toolkit (REST), we have developed a MATLAB toolbox called Data Processing Assistant for Resting-State fMRI (DPARSF) for "pipeline" data analysis of resting-state fMRI. After the user arranges the DICOM files and click a few buttons to set parameters, DPARSF will then give all the preprocessed (slice timing, realign, normalize, smooth) data and results for functional connectivity (FC), regional homogeneity (ReHo), amplitude of low-frequency fluctuation (ALFF), and fractional ALFF (fALFF). DPARSF can also create a report for excluding subjects with excessive head motion and generate a set of pictures for easily checking the effect of normalization. In addition, users can also use DPARSF to extract time courses from regions of interest.read more
Citations
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BrainNet Viewer: a network visualization tool for human brain connectomics.
Mingrui Xia,Jinhui Wang,Yong He +2 more
TL;DR: This work has developed a graph-theoretical network visualization toolbox, called BrainNet Viewer, to illustrate human connectomes as ball-and-stick models, and helps researchers to visualize brain networks in an easy, flexible and quick manner.
Journal ArticleDOI
DPABI: Data Processing & Analysis for (Resting-State) Brain Imaging.
TL;DR: The newly developed toolbox, DPABI, which was evolved from REST and DPARSF is introduced, designed to make data analysis require fewer manual operations, be less time-consuming, have a lower skill requirement, a smaller risk of inadvertent mistakes, and be more comparable across studies.
Journal ArticleDOI
The autism brain imaging data exchange: towards a large-scale evaluation of the intrinsic brain architecture in autism
A Di Martino,C-G Yan,Qingyang Li,E Denio,Francisco X. Castellanos,Francisco X. Castellanos,Kaat Alaerts,Kaat Alaerts,Jeffrey S. Anderson,Michal Assaf,Susan Y. Bookheimer,Mirella Dapretto,Ben Deen,Ben Deen,Sonja Delmonte,Ilan Dinstein,Ilan Dinstein,Birgit Ertl-Wagner,Damien A. Fair,Louise Gallagher,Daniel P. Kennedy,Daniel P. Kennedy,Christopher L. Keown,Christian Keysers,Christian Keysers,Janet E. Lainhart,Catherine Lord,Beatriz Luna,Vinod Menon,Nancy J. Minshew,Christopher S. Monk,Sophia Mueller,R-A Müller,Mary Beth Nebel,Joel T. Nigg,Kirsten O'Hearn,Kevin A. Pelphrey,Scott Peltier,Jeffrey D. Rudie,Stefan Sunaert,Mark Thioux,Mark Thioux,J M Tyszka,Lucina Q. Uddin,Judith Verhoeven,Nicole Wenderoth,Jillian Lee Wiggins,Stewart H. Mostofsky,Stewart H. Mostofsky,Michael P. Milham,Michael P. Milham +50 more
TL;DR: W Whole-brain analyses reconciled seemingly disparate themes of both hypo- and hyperconnectivity in the ASD literature; both were detected, although hypoconnectivity dominated, particularly for corticocortical and interhemispheric functional connectivity.
Journal ArticleDOI
REST: A Toolkit for Resting-State Functional Magnetic Resonance Imaging Data Processing
Xiaowei Song,Zhang-Ye Dong,Xiangyu Long,Su-Fang Li,Xi-Nian Zuo,Chaozhe Zhu,Yong He,Chao-Gan Yan,Yu-Feng Zang,Yu-Feng Zang +9 more
TL;DR: A toolkit for the analysis of RS-fMRI data, namely the RESting-state fMRI data analysis Toolkit (REST), which was developed in MATLAB with graphical user interface (GUI).
Journal ArticleDOI
A Comprehensive Assessment of Regional Variation in the Impact of Head Micromovements on Functional Connectomics
Chao-Gan Yan,Brian Cheung,Clare Kelly,Stanley J. Colcombe,R. Cameron Craddock,R. Cameron Craddock,Adriana Di Martino,Qingyang Li,Xi-Nian Zuo,F. Xavier Castellanos,F. Xavier Castellanos,Michael P. Milham,Michael P. Milham +12 more
TL;DR: A comprehensive voxel-based examination of the impact of motion on the BOLD signal suggests that positive relationships may reflect neural origins of motion while negative relationships are likely to originate from motion artifact.
References
More filters
Journal ArticleDOI
A default mode of brain function.
Marcus E. Raichle,Ann Mary MacLeod,Abraham Z. Snyder,William J. Powers,Debra A. Gusnard,Gordon L. Shulman +5 more
TL;DR: A baseline state of the normal adult human brain in terms of the brain oxygen extraction fraction or OEF is identified, suggesting the existence of an organized, baseline default mode of brain function that is suspended during specific goal-directed behaviors.
Journal ArticleDOI
AFNI: software for analysis and visualization of functional magnetic resonance neuroimages
TL;DR: A package of computer programs for analysis and visualization of three-dimensional human brain functional magnetic resonance imaging (FMRI) results is described and techniques for automatically generating transformed functional data sets from manually labeled anatomical data sets are described.
Journal ArticleDOI
Functional connectivity in the motor cortex of resting human brain using echo-planar MRI.
TL;DR: It is concluded that correlation of low frequency fluctuations, which may arise from fluctuations in blood oxygenation or flow, is a manifestation of functional connectivity of the brain.
Journal ArticleDOI
The human brain is intrinsically organized into dynamic, anticorrelated functional networks
Michael D. Fox,Abraham Z. Snyder,Justin L. Vincent,Maurizio Corbetta,David C. Van Essen,Marcus E. Raichle +5 more
TL;DR: It is suggested that both task-driven neuronal responses and behavior are reflections of this dynamic, ongoing, functional organization of the brain, featuring the presence of anticorrelated networks in the absence of overt task performance.
Journal ArticleDOI
Spontaneous fluctuations in brain activity observed with functional magnetic resonance imaging.
Michael D. Fox,Marcus E. Raichle +1 more
TL;DR: Recent studies examining spontaneous fluctuations in the blood oxygen level dependent (BOLD) signal of functional magnetic resonance imaging as a potentially important and revealing manifestation of spontaneous neuronal activity are reviewed.