DPARSF: a MATLAB toolbox for “pipeline” data analysis of resting-state fMRI
Open accessAbstract
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 Digital Imaging and Communications in Medicine (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, regional homogeneity, amplitude of low-frequency fluctuation (ALFF), and fractional ALFF. 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.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
ReHo analysis was performed on nonsmoothed functional volumes and images were smoothed after the analysis, because smoothing prior to ReHo calculation would increase regional similarity.
“ReHo analysis was performed on nonsmoothed functional volumes and images were smoothed after the analysis, because smoothing prior to ReHo calculation would increase regional similarity [51].”
From State and training effects of mindfulness meditation on brain networks reflect neuronal mechanisms of its antidepressant effect (2016) · cites this paper as [51]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Two new Later Stone Age sites from the Final Pleistocene in the Falémé Valley, eastern Senegal
Ndiaye, M., Lespez, L., Tribolo, C., Rassé, M., Hadjas, I., Davidoux, S., Huysecom, É., & Douze, K. (2024) · Monash University Research Portal (Monash University) · doi:10.3929/ethz-b-000667478 · Cited by 24,015 · see citing works
A default mode of brain function
Raichle, M. E., MacLeod, A. M., Snyder, A. Z., Powers, W. J., Gusnard, D. A., & Shulman, G. L. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.98.2.676 · Cited by 12,190 · see citing works
AFNI: Software for analysis and visualization of functional magnetic resonance neuroimages
Cox, R. W. (1996) · Computers and Biomedical Research · doi:10.1006/cbmr.1996.0014 · Cited by 10,913 · see citing works
Functional connectivity in the motor cortex of resting human brain using echo‐planar mri
Biswal, B., Zerrin Yetkin, F., Haughton, V. M., & Hyde, J. S. (1995) · Magnetic Resonance in Medicine · doi:10.1002/mrm.1910340409 · Cited by 9,812 · see citing works
The human brain is intrinsically organized into dynamic, anticorrelated functional networks
Fox, M. D., Snyder, A. Z., Vincent, J. L., Corbetta, M., Van Essen, D. C., & Raichle, M. E. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0504136102 · Cited by 8,553 · see citing works
Ashburner, J., & Friston, K. J. (2005) · NeuroImage · doi:10.1016/j.neuroimage.2005.02.018 · Cited by 7,507 · see citing works
Spontaneous fluctuations in brain activity observed with functional magnetic resonance imaging
Fox, M. D., & Raichle, M. E. (2007) · Nature Reviews Neuroscience · doi:10.1038/nrn2201 · Cited by 6,700 · see citing works
Neuronal Oscillations in Cortical Networks
Buzsáki, G., & Draguhn, A. (2004) · Science · doi:10.1126/science.1099745 · Cited by 6,576 · see citing works
Functional connectivity in the resting brain: a network analysis of the default mode hypothesis
Greicius, M. D., Krasnow, B., Reiss, A. L., & Menon, V. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0135058100 · Cited by 6,358 · see citing works
Fundamentals of Biostatistics.
(1969) · Annals of Internal Medicine · doi:10.7326/0003-4819-70-4-873 · Cited by 4,573 · see citing works
Predicting human resting-state functional connectivity from structural connectivity
Honey, C. J., Sporns, O., Cammoun, L., Gigandet, X., Thiran, J. P., Meuli, R., & Hagmann, P. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0811168106 · Cited by 3,307 · see citing works
Altered baseline brain activity in children with ADHD revealed by resting-state functional MRI
Yu-Feng, Z., Yong, H., Chao-Zhe, Z., Qing-Jiu, C., Man-Qiu, S., Meng, L., Li-Xia, T., Tian-Zi, J., & Yu-Feng, W. (2007) · Brain and Development · doi:10.1016/j.braindev.2006.07.002 · Cited by 2,660 · see citing works
Regional homogeneity approach to fMRI data analysis.
Zang, Y., Jiang, T., Lu, Y., He, Y., & Tian, L. (2004) · NeuroImage · doi:10.1016/j.neuroimage.2003.12.030 · Cited by 2,614 · see citing works
Murphy, K., Birn, R. M., Handwerker, D. A., Jones, T. B., & Bandettini, P. A. (2009) · NeuroImage · doi:10.1016/j.neuroimage.2008.09.036 · Cited by 2,387 · see citing works
Zou, Q., Zhu, C.-Z., Yang, Y., Zuo, X., Long, X., Cao, Q., Wang, Y., & Zang, Y. (2008) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2008.04.012 · Cited by 2,169 · see citing works
Spontaneous neuronal activity distinguishes human dorsal and ventral attention systems
Fox, M. D., Corbetta, M., Snyder, A. Z., Vincent, J. L., & Raichle, M. E. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0604187103 · Cited by 2,101 · see citing works
Functional Connectivity: The Principal-Component Analysis of Large (PET) Data Sets
Friston, K. J., Frith, C., Liddle, P., & Frackowiak, R. (1993) · Journal of Cerebral Blood Flow and Metabolism · doi:10.1038/jcbfm.1993.4 · Cited by 2,094 · see citing works
Common blood flow changes across visual tasks: II. Decreases in cerebral cortex
Shulman, G. L., Fiez, J. A., Corbetta, M., Buckner, R. L., Miezin, F. M., Raichle, M. E., & Petersen, S. E. (1997) · Journal of Cognitive Neuroscience · doi:10.1162/jocn.1997.9.5.648 · Cited by 1,890 · see citing works
The oscillating brain: Complex and reliable
Zuo, X., Martino, A. D., Kelly, C. A. M., Shehzad, Z. E., Gee, D. G., Klein, D. F., Castellanos, F. X., Biswal, B. B., & Milham, M. P. (2009) · NeuroImage · doi:10.1016/j.neuroimage.2009.09.037 · Cited by 1,460 · see citing works
Frequencies contributing to functional connectivity in the cerebral cortex in "resting-state" data.
Cordes, D., Haughton, V. M., Arfanakis, K., Carew, J. D., Turski, P. A., Moritz, C. H., Quigley, M., & Meyerand, M. E. (2001) · PubMed Central · Cited by 1,402 · see citing works
Functional connectivity in single and multislice echoplanar imaging using resting-state fluctuations
Lowe, M. J., Mock, B. J., & Sorenson, J. A. (1998) · NeuroImage · doi:10.1006/nimg.1997.0315 · Cited by 1,394 · see citing works
Fransson, P. (2005) · Human Brain Mapping · doi:10.1002/hbm.20113 · Cited by 1,388 · see citing works
Birn, R. M., Diamond, J. B., Smith, M. A., & Bandettini, P. A. (2006) · NeuroImage · doi:10.1016/j.neuroimage.2006.02.048 · Cited by 1,342 · see citing works
Competition between functional brain networks mediates behavioral variability
Kelly, A. M. C., Uddin, L. Q., Biswal, B. B., Castellanos, F. X., & Milham, M. P. (2008) · NeuroImage · doi:10.1016/j.neuroimage.2007.08.008 · Cited by 1,287 · see citing works
Functional Magnetic Resonance Imaging
Walsh, A. (2014) · Encyclopedia of Criminal Justice Ethics · doi:10.4135/9781452274102.n135 · Cited by 1,225 · see citing works
Conceptual Processing during the Conscious Resting State: A Functional MRI Study
Binder, J. R., Frost, J. A., Hammeke, T. A., Bellgowan, P. S. F., Rao, S. M., & Cox, R. W. (1999) · Journal of Cognitive Neuroscience · doi:10.1162/089892999563265 · Cited by 1,066 · see citing works
Sanjeev, B. (2006) · Jaypee Brothers Medical Publishers (P) Ltd. eBooks · doi:10.5005/jp/books/10313 · Cited by 1,005 · see citing works
Coherent spontaneous activity identifies a hippocampal-parietal memory network
Vincent, J. L., Snyder, A. Z., Fox, M. D., Shannon, B. J., Andrews, J. R., Raichle, M. E., & Buckner, R. L. (2006) · Journal of Neurophysiology · doi:10.1152/jn.00048.2006 · Cited by 959 · cited 2× · see citing works
“FC is widely used in resting-state fMRI (Biswal et al., 1995; Lowe et al., 1998; Xiong et al., 1999; Cordes et al., 2000; Greicius et al., 2003; Fox et al., 2005, 2006; Fransson, 2005; Vincent et al., 2006).”
MethodMapping functionally related regions of brain with functional connectivity MR imaging.
Cordes, D., Haughton, V. M., Arfanakis, K., Wendt, G. J., Turski, P. A., Moritz, C. H., Quigley, M., & Meyerand, M. E. (2000) · PubMed Central · Cited by 908 · see citing works
Mazoyer, B., Zago, L., Mellet, E., Bricogne, S., Etard, O., Houdé, O., Crivello, F., Joliot, M., Petit, L., & Tzourio-Mazoyer, N. (2001) · Brain Research Bulletin · doi:10.1016/s0361-9230(00)00437-8 · Cited by 906 · see citing works
The elusive concept of brain connectivity
Horwitz, B. (2003) · NeuroImage · doi:10.1016/s1053-8119(03)00112-5 · Cited by 779 · see citing works
Noise during Rest Enables the Exploration of the Brain's Dynamic Repertoire
Ghosh, A., Rho, Y.-A., McIntosh, A. R., Kötter, R., & Jirsa, V. (2008) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1000196 · Cited by 550 · see citing works
Yong He, A., Wang, L. Y., Zang, Y., Tian, L., Zhang, X., Li, K., & Jiang, T. (2007) · NeuroImage · doi:10.1016/j.neuroimage.2006.11.042 · Cited by 542 · see citing works
Amplitude of low-frequency oscillations in schizophrenia: A resting state fMRI study
Hoptman, M. J., Zuo, X., Butler, P. D., Javitt, D. C., D’Angelo, D., Mauro, C. J., & Milham, M. P. (2009) · Schizophrenia Research · doi:10.1016/j.schres.2009.09.030 · Cited by 463 · see citing works
Synchronized delta oscillations correlate with the resting-state functional MRI signal
Lu, H., Zuo, Y., Gu, H., Waltz, J. A., Wang, Z., Scholl, C. A., Rea, W. P., Yang, Y., & Stein, E. A. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0705791104 · Cited by 415 · see citing works
Natural logarithmic relationship between brain oscillators
Penttonen, M., & Buzsáki, G. (2003) · Thalamus & Related Systems · doi:10.1016/s1472-9288(03)00007-4 · Cited by 344 · see citing works
Investigation of Low Frequency Drift in fMRI Signal
Smith, A. M., Lewis, B. K., Ruttimann, U. E., Ye, F. Q., Sinnwell, T., Yang, Y., Duyn, J. H., & Frank, J. A. (1999) · NeuroImage · doi:10.1006/nimg.1999.0435 · Cited by 313 · see citing works
Yan, C., Liu, D., Yong He, A., Zou, Q., Zhu, C., Zuo, X., Long, X., & Zang, Y. (2009) · PLoS ONE · doi:10.1371/journal.pone.0005743 · Cited by 304 · see citing works
Estimation of the Probabilities of 3D Clusters in Functional Brain Images
Ledberg, A., Åkerman, S., & Roland, P. E. (1998) · NeuroImage · doi:10.1006/nimg.1998.0336 · Cited by 253 · see citing works
Natural logarithmic relationship between brain oscillators
Penttonen, M., & Buzsáki, G. (2003) · Thalamus & Related Systems · doi:10.1017/s1472928803000074 · Cited by 220 · see citing works
Functional magnetic resonance imaging
(2018) · Physics Subject Headings (PhySH) · doi:10.29172/99ff0294e6af41679a7239d01dcd5dad · Cited by 210 · see citing works
fMRI study of mesial temporal lobe epilepsy using amplitude of low‐frequency fluctuation analysis
Zhang, Z., Lu, G., Zhong, Y., Tan, Q., Chen, H., Liao, W., Tian, L., Li, Z., Shi, J., & Liu, Y. (2010) · Human Brain Mapping · doi:10.1002/hbm.20982 · Cited by 194 · see citing works
Default mode network as revealed with multiple methods for resting-state functional MRI analysis
Long, X., Zuo, X., Kiviniemi, V. J., Yang, Y., Zou, Q., Zhu, C.-Z., Jiang, T., Yang, H., Gong, Q., Wang, L. Y., et al. (2008) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2008.03.021 · Cited by 156 · see citing works
Functional magnetic resonance imaging
Huettel, S. A. 1., Song, A. W. 1., & McCarthy, G. 1. (2004) · Cited by 143 · see citing works
Functional Magnetic Resonance Imaging
Zhong, J., & Bavelier, D. (2005) · Neurology · doi:10.1212/01.wnl.0000164847.45244.a1 · Cited by 130 · see citing works
Reproducibility of BOLD-based functional MRI obtained at 4 T
Tegeler, C., Strother, S. C., Anderson, J. R., & Kim, S. (1999) · Human Brain Mapping · doi:10.1002/(sici)1097-0193(1999)7:4 · Cited by 121 · see citing works
Treatment of Baseline Drifts in fMRI Time Series Analysis
Lowe, M. J., & Russell, D. P. (1999) · Journal of Computer Assisted Tomography · doi:10.1097/00004728-199905000-00025 · Cited by 101 · see citing works
Functional Magnetic Resonance Imaging
Zhong, J., & Bavelier, D. (2005) · Neurology · doi:10.1212/01.wnl.0000157470.95296.1c · Cited by 34 · see citing works
Functional Imaging with magnetic resonce
Turner, R., Howseman, A., Rees, G. E., & Josephs, O. (1997) · Max Planck Digital Library · Cited by 13 · see citing works
Functional imaging with magnetic resonance
Turner, R., Howseman, A., Rees, G. E., & Josephs, O. (1997) · UCL Discovery (University College London) · Cited by 2 · see citing works
Slow vasomotor fluctuation in fMRI of anesthetized child brain
Kiviniemi, V., Jauhiainen, J., Tervonen, O., P��kk�, E., Oikarinen, J., Vainionp��, V., Rantala, H., & Biswal, B. (2000) · Magnetic Resonance in Medicine · doi:10.1002/1522-2594(200009)44:3
Xiong (1999) · doi:10.1002/(sici)1097-0193(1999)8:2/3
Flagged first, then by citations
Research works printed but not linked: 1
- Kendall M. Gibbons J. D. R. (1990). Correlation Methods Oxford: Oxford University Press
Cited by
Sorted by citations
BrainNet Viewer: A Network Visualization Tool for Human Brain Connectomics
Xia, M., Wang, J., & He, Y. (2013) · PLoS ONE · doi:10.1371/journal.pone.0068910 · Cited by 4,106 · see citing works
DPABI: Data Processing & Analysis for (Resting-State) Brain Imaging
Yan, C., Wang, X., Zuo, X., & Zang, Y. (2016) · Neuroinformatics · doi:10.1007/s12021-016-9299-4 · Cited by 3,906 · see citing works
Di Martino, A., Yan, C.-G., Li, Q., Denio, E., Castellanos, F. X., Alaerts, K., Anderson, J. S., Assaf, M., Bookheimer, S. Y., Dapretto, M., et al. (2014) · Molecular Psychiatry · doi:10.1038/mp.2013.78 · Cited by 2,780 · see citing works
Automated anatomical labelling atlas 3
Rolls, E. T., Huang, C., Lin, C., Feng, J., & Joliot, M. (2019) · NeuroImage · doi:10.1016/j.neuroimage.2019.116189 · Cited by 2,035 · see citing works
REST: A Toolkit for Resting-State Functional Magnetic Resonance Imaging Data Processing
Song, X., Dong, Z.-Y., Long, X., Li, S., Zuo, X., Zhu, C.-Z., Yong He, A., Yan, C., & Zang, Y. (2011) · PLoS ONE · doi:10.1371/journal.pone.0025031 · Cited by 1,864 · see citing works
Yan, C.-G., Cheung, B., Kelly, C., Colcombe, S., Craddock, R. C., Di Martino, A., Li, Q., Zuo, X.-N., Castellanos, F. X., & Milham, M. P. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.03.004 · Cited by 1,461 · see citing works
Iturria-Medina, Y., Sotero, R. C., Toussaint, P. J., Mateos-Pérez, J. M., Evans, A. C., Initiative, T. A. D. N., Weiner, M. W., Aisen, P., Petersen, R., Jack, C. R., et al. (2016) · Nature Communications · doi:10.1038/ncomms11934 · Cited by 1,202 · see citing works
Yan, C.-G., Chen, X., Li, L., Castellanos, F. X., Bai, T.-J., Bo, Q.-J., Cao, J., Chen, G.-M., Chen, N.-X., Chen, W., et al. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1900390116 · Cited by 895 · see citing works
Rolls, E. T., Joliot, M., & Tzourio‐Mazoyer, N. (2015) · NeuroImage · doi:10.1016/j.neuroimage.2015.07.075 · Cited by 686 · see citing works
Zuo, X., & Xing, X.-X. (2014) · Neuroscience & Biobehavioral Reviews · doi:10.1016/j.neubiorev.2014.05.009 · Cited by 657 · see citing works
Smitha, K. A., Raja, K. A., Arun, K., Rajesh, P. G., Thomas, B., Kapilamoorthy, T., & Kesavadas, C. (2017) · The Neuroradiology Journal · doi:10.1177/1971400917697342 · Cited by 643 · see citing works
Resting-State Functional MRI: Everything That Nonexperts Have Always Wanted to Know
Lv, H., Wang, Z., Tong, E., Williams, L. M., Zaharchuk, G., Zeineh, M., Goldstein‐Piekarski, A. N., Ball, T. M., Liao, C., & Wintermark, M. (2018) · American Journal of Neuroradiology · doi:10.3174/ajnr.a5527 · Cited by 561 · see citing works
Zuo, X., Xu, T., Jiang, L., Yang, Z., Cao, X., Yong He, A., Zang, Y., Castellanos, F. X., & Milham, M. P. (2012) · NeuroImage · doi:10.1016/j.neuroimage.2012.10.017 · Cited by 506 · see citing works
Subregions of the human superior frontal gyrus and their connections
Li, W., Qin, W., Liu, H., Fan, L., Wang, J., Jiang, T., & Yu, C. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.04.011 · Cited by 452 · see citing works
An open science resource for establishing reliability and reproducibility in functional connectomics
Zuo, X., Anderson, J. S., Bellec, P., Birn, R. M., Biswal, B. B., Blautzik, J., Breitner, J. C. S., Buckner, R. L., Calhoun, V. D., Castellanos, F. X., et al. (2014) · Scientific Data · doi:10.1038/sdata.2014.49 · Cited by 441 · see citing works
Reduction of motion-related artifacts in resting state fMRI using aCompCor
Muschelli, J., Nebel, M. B., Caffo, B. S., Barber, A. D., Pekar, J. J., & Mostofsky, S. H. (2014) · NeuroImage · doi:10.1016/j.neuroimage.2014.03.028 · Cited by 431 · see citing works
Yan, C.-G., Craddock, R. C., Zuo, X.-N., Zang, Y.-F., & Milham, M. P. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.04.081 · Cited by 440 · see citing works
Non-Stationarity in the “Resting Brain’s” Modular Architecture
Jones, D. T., Vemuri, P., Murphy, M. C., Gunter, J. L., Senjem, M. L., Machulda, M. M., Przybelski, S. A., Gregg, B. E., Kantarci, K., Knopman, D. S., et al. (2012) · PLoS ONE · doi:10.1371/journal.pone.0039731 · Cited by 439 · see citing works
Kanske, P., Böckler, A., Trautwein, F.-M., & Singer, T. (2015) · NeuroImage · doi:10.1016/j.neuroimage.2015.07.082 · Cited by 421 · see citing works
Leonardi, N., Richiardi, J., Gschwind, M., Simioni, S., Annoni, J., Schluep, M., Vuilleumier, P. O., & Ville, D. V. D. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.07.019 · Cited by 390 · see citing works
Jia, X., Wang, J., Sun, H., Zhang, H., Liao, W., Wang, Z., Yan, C., Song, X., & Zang, Y. (2019) · 中国科学通报：英文版 · doi:10.1016/j.scib.2019.05.008 · Cited by 383 · see citing works
Cui, Z., & Gong, G. (2018) · NeuroImage · doi:10.1016/j.neuroimage.2018.06.001 · Cited by 372 · see citing works
Age-related changes in the default mode network are more advanced in Alzheimer disease
Jones, D. T., Machulda, M. M., Vemuri, P., McDade, E. M., Zeng, G., Senjem, M. L., Gunter, J. L., Przybelski, S. A., Avula, R. T., Knopman, D. S., et al. (2011) · Neurology · doi:10.1212/wnl.0b013e318233b33d · Cited by 370 · see citing works
Deep learning in mental health outcome research: a scoping review
Su, C., Xu, Z., Pathak, J., & Wang, F. (2020) · Translational Psychiatry · doi:10.1038/s41398-020-0780-3 · Cited by 368 · see citing works
“40 , and fMRI Preprocessing Pipeline 41 to extract useful features before feeding to the DL models.”
MethodTian, L., Wang, J., Yan, C., & Yong He, A. (2010) · NeuroImage · doi:10.1016/j.neuroimage.2010.07.066 · Cited by 367 · see citing works
Chen, X., Lu, B., & Yan, C. (2018) · Human Brain Mapping · doi:10.1002/hbm.23843 · Cited by 340 · see citing works
Finding the self by losing the self: neural correlates of ego-dissolution under psilocybin
Lebedev, A. V., Lövdén, M., Rosenthal, G., Feilding, A., Nutt, D. J., & Carhart-Harris, R. L. (2015) · Human Brain Mapping · doi:10.1002/hbm.22833 · Cited by 339 · see citing works
Zou, L., Zheng, J., Miao, C., McKeown, M. J., & Wang, Z. J. (2017) · IEEE Access · doi:10.1109/access.2017.2762703 · Cited by 313 · see citing works
DynamicBC : A MATLAB Toolbox for Dynamic Brain Connectome Analysis
Liao, W., Wu, G., Xu, Q., Ji, G., Zhang, Z., Zang, Y., & Lu, G. (2014) · Brain Connectivity · doi:10.1089/brain.2014.0253 · Cited by 304 · see citing works
Neural Primacy of the Salience Processing System in Schizophrenia
Palaniyappan, L. K., Simmonite, M., White, T. P., Liddle, E. B., & Liddle, P. F. (2013) · Neuron · doi:10.1016/j.neuron.2013.06.027 · Cited by 297 · see citing works
Identifying and Mapping Connectivity Patterns of Brain Network Hubs in Alzheimer's Disease
Dai, Z., Yan, C., Li, K., Wang, Z., Wang, J., Cao, M., Lin, Q., Shu, N., Xia, M., Bi, Y., et al. (2014) · Cerebral Cortex · doi:10.1093/cercor/bhu246 · Cited by 297 · see citing works
Cheng, W., Rolls, E. T., Qiu, J., Liu, W., Tang, Y., Huang, C.-C., Wang, X., Zhang, J., Lin, W., Zheng, L., et al. (2016) · Brain · doi:10.1093/brain/aww255 · Cited by 294 · see citing works
NIRS-KIT: a MATLAB toolbox for both resting-state and task fNIRS data analysis
Hou, X., Zong, Z., Zhao, C., Duan, L. F., Gong, Y., Li, Z., & Zhu, C. (2021) · Neurophotonics · doi:10.1117/1.nph.8.1.010802 · Cited by 294 · see citing works
Dai, Z., Yan, C., Wang, Z., Wang, J., Xia, M., Li, K., & Yong He, A. (2011) · NeuroImage · doi:10.1016/j.neuroimage.2011.10.003 · Cited by 291 · see citing works
Chen, S., Deng, Z., Xu, Y., Long, Q., Yang, J., & Yuan, J. (2017) · Frontiers in Psychology · doi:10.3389/fpsyg.2017.00001 · Cited by 288 · see citing works
Khodatars, M., Shoeibi, A., Sadeghi, D., Ghaasemi, N., Jafari, M., Moridian, P., Khadem, A. A., Alizadehsani, R., Zare, A., Kong, Y., et al. (2021) · Computers in Biology and Medicine · doi:10.1016/j.compbiomed.2021.104949 · Cited by 294 · see citing works
Yang, C.-C., Barrós-Loscertales, A., Pinazo, D., Ventura-Campos, N., Borchardt, V., Bustamante, J.-C., Rodríguez-Pujadas, A., Fuentes-Claramonte, P., Balaguer, R., Ávila, C., et al. (2016) · Neural Plasticity · doi:10.1155/2016/9504642 · Cited by 284 · see citing works
Scheidegger, M., Walter, M., Lehmann, M., Metzger, C., Grimm, S., Boeker, H., Boesiger, P., Henning, A., & Seifritz, E. (2012) · PLoS ONE · doi:10.1371/journal.pone.0044799 · Cited by 282 · see citing works
Horn (2010) · Frontiers in Systems Neuroscience · doi:10.3389/fnsys.2010.00033 · Cited by 276 · see citing works
A Hitchhiker's Guide to Functional Magnetic Resonance Imaging
Soares, J. M., Magalhães, R. J. D. S., Moreira, P. S., Sousa, A., Ganz, E., Sampaio, A., Alves, V., Marques, P., & Sousa, N. (2016) · Frontiers in Neuroscience · doi:10.3389/fnins.2016.00515 · Cited by 270 · see citing works
Abdelnour, F., Voss, H. U., & Raj, A. (2014) · NeuroImage · doi:10.1016/j.neuroimage.2013.12.039 · Cited by 260 · see citing works
LSD‐induced entropic brain activity predicts subsequent personality change
Lebedev, A. V., Kaelen, M., Lövdén, M., Nilsson, J., Feilding, A., Nutt, D. J., & Carhart‐Harris, R. L. (2016) · Human Brain Mapping · doi:10.1002/hbm.23234 · Cited by 303 · see citing works
Wang, Z., Yan, C., Zhao, C., Qi, Z., Zhou, W., Lu, J., Yong He, A., & Li, K. (2010) · Human Brain Mapping · doi:10.1002/hbm.21140 · Cited by 260 · see citing works
Brain Structure and Functional Connectivity Associated With Pornography Consumption
Kühn, S., & Gallinat, J. (2014) · JAMA Psychiatry · doi:10.1001/jamapsychiatry.2014.93 · Cited by 255 · see citing works
Early Diagnosis of Alzheimer's Disease Based on Resting-State Brain Networks and Deep Learning
Ju, R., Hu, C., Zhou, P., & Li, Q. (2017) · IEEE Transactions on Computational Biology and Bioinformatics · doi:10.1109/tcbb.2017.2776910 · Cited by 254 · see citing works
Depression uncouples brain hate circuit
Tao, H., Guo, S., Ge, T., Kendrick, K. M., Xue, Z., Liu, Z., & Feng, J. (2011) · Molecular Psychiatry · doi:10.1038/mp.2011.127 · Cited by 254 · see citing works
Evidence for Functional Networks within the Human Brain's White Matter
Peer, M., Nitzan, M., Bick, A. S., Levin, N., & Arzy, S. (2017) · Journal of Neuroscience · doi:10.1523/jneurosci.3872-16.2017 · Cited by 253 · see citing works
Disrupted intrinsic functional brain topology in patients with major depressive disorder
Yang, H., Chen, X., Chen, Z.-B., Li, L., Li, X.-Y., Castellanos, F. X., Bai, T., Bo, Q.-J., Cao, J., Chang, Z.-K., et al. (2021) · Molecular Psychiatry · doi:10.1038/s41380-021-01247-2 · Cited by 257 · see citing works
Davey, J., Cornelissen, P. L., Thompson, H. E., Sonkusare, S., Hallam, G., Smallwood, J., & Jefferies, E. (2015) · Journal of Neuroscience · doi:10.1523/jneurosci.4705-14.2015 · Cited by 240 · see citing works
Wang, L., Dai, Z., Peng, H., Tan, L., Ding, Y., He, Z., Zhang, Y., Xia, M., Li, Z., Li, W., et al. (2014) · Human Brain Mapping · doi:10.1002/hbm.22241 · Cited by 236 · see citing works
Identifying patients with Alzheimer’s disease using resting-state fMRI and graph theory
Khazaee, A., Ebrahimzadeh, A., & Babajani-Feremi, A. (2015) · Clinical Neurophysiology · doi:10.1016/j.clinph.2015.02.060 · Cited by 234 · see citing works
Cao, H., Plichta, M. M., Schäfer, A., Haddad, L., Grimm, O., Schneider, M., Esslinger, C., Kirsch, P., Meyer-Lindenberg, A., & Tost, H. (2014) · NeuroImage · doi:10.1016/j.neuroimage.2013.09.013 · Cited by 227 · see citing works
Jensen, K. B., Srinivasan, P., Spaeth, R. B., Tan, Y. H. V., Kosek, E., Petzke, F. W., Carville, S. F., Fransson, P., Marcus, H. E., Williams, S., et al. (2013) · Arthritis & Rheumatism · doi:10.1002/art.38170 · Cited by 225 · see citing works
Yousaf, T., Dervenoulas, G., & Politis, M. (2018) · International review of neurobiology · doi:10.1016/bs.irn.2018.08.008 · Cited by 230 · see citing works
Effect of APOE ε4 Status on Intrinsic Network Connectivity in Cognitively Normal Elderly Subjects
Machulda, M. M., Jones, D. T., Vemuri, P., McDade, E., Avula, R. T. V., Przybelski, S. A., Boeve, B. F., Knopman, D. S., Petersen, R. C., & Jack, C. R. (2011) · Archives of Neurology · doi:10.1001/archneurol.2011.108 · Cited by 223 · see citing works
Disrupted structural and functional brain networks in Alzheimer's disease
Dai, Z., Lin, Q., Li, T., Wang, X., Yuan, H., Yu, X., Yong He, A., & Wang, H. (2018) · Neurobiology of Aging · doi:10.1016/j.neurobiolaging.2018.11.005 · Cited by 220 · see citing works
Hallquist, M. N., & Hillary, F. G. (2018) · Network Neuroscience · doi:10.1162/netn_a_00054 · Cited by 219 · see citing works
Modular preprocessing pipelines can reintroduce artifacts into fMRI data
Lindquist, M. A., Geuter, S., Wager, T. D., & Caffo, B. S. (2019) · Human Brain Mapping · doi:10.1002/hbm.24528 · Cited by 218 · see citing works
Liu, J., Liao, X., Xia, M., & Yong He, A. (2017) · Human Brain Mapping · doi:10.1002/hbm.23890 · Cited by 205 · see citing works
He, X., Qin, W., Liu, Y., Zhang, X., Duan, Y., Song, J., Li, K., Jiang, T., & Yu, C. (2013) · Human Brain Mapping · doi:10.1002/hbm.22414 · Cited by 212 · see citing works
Nie, D., Lu, J., Zhang, H., Adeli, E., Wang, J., Yu, Z., Liu, L., Wang, Q., Wu, J., & Shen, D. (2019) · Scientific Reports · doi:10.1038/s41598-018-37387-9 · Cited by 213 · see citing works
Khazaee, A., Ebrahimzadeh, A., & Abbas Babajani-feremi, A. (2015) · Brain Imaging and Behavior · doi:10.1007/s11682-015-9448-7 · Cited by 213 · see citing works
Regional brain stiffness changes across the Alzheimer's disease spectrum
Murphy, M. C., Jones, D. T., Jack, C. R., Glaser, K. J., Senjem, M. L., Manduca, A., Felmlee, J. P., Carter, R. E., Ehman, R. L., & Huston, J. (2015) · NeuroImage Clinical · doi:10.1016/j.nicl.2015.12.007 · Cited by 210 · see citing works
Kanske, P., Böckler, A., Trautwein, F.-M., Parianen Lesemann, F. H., & Singer, T. (2016) · Social Cognitive and Affective Neuroscience · doi:10.1093/scan/nsw052 · Cited by 209 · see citing works
“SPM8 and DPARSF were applied to analyse the resting state data (Chao-Gan and Yu-Feng, 2010).”
MethodJackson, R. L., Hoffman, P., Pobric, G., & Ralph, M. A. L. (2016) · Journal of Neuroscience · doi:10.1523/jneurosci.2999-15.2016 · Cited by 201 · see citing works
Functional brain networks related to individual differences in human intelligence at rest
Hearne, L. J., Mattingley, J. B., & Cocchi, L. (2016) · Scientific Reports · doi:10.1038/srep32328 · Cited by 206 · see citing works
Liang, H., Zhang, F., & Niu, X. (2019) · Human Brain Mapping · doi:10.1002/hbm.24588 · Cited by 207 · see citing works
Default mode network dissociation in depressive and anxiety states
Coutinho, J. F., Fernandesl, S. V., Soares, J. M., Maia, L., Gonçalves, Ó. F., & Sampaio, A. (2016) · Brain Imaging and Behavior · doi:10.1007/s11682-015-9375-7 · Cited by 203 · see citing works
Petersen, N., Kilpatrick, L., Goharzad, A., & Cahill, L. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.12.016 · Cited by 198 · see citing works
Konishi, M., McLaren, D. G., Engen, H., & Smallwood, J. (2015) · PLOS ONE · doi:10.1371/journal.pone.0132209 · Cited by 194 · see citing works
Addressing head motion dependencies for small-world topologies in functional connectomics
Yan, C., Craddock, R. C., Yong He, A., & Milham, M. P. (2013) · Frontiers in Human Neuroscience · doi:10.3389/fnhum.2013.00910 · Cited by 191 · see citing works
Dong, G., Lin, X., & Potenza, M. N. (2014) · Progress in Neuro-Psychopharmacology and Biological Psychiatry · doi:10.1016/j.pnpbp.2014.10.012 · Cited by 193 · see citing works
Predicting conversion from MCI to AD using resting-state fMRI, graph theoretical approach and SVM
Hojjati, S. H., Ebrahimzadeh, A., Khazaee, A., & Abbas Babajani-feremi, A. (2017) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2017.03.006 · Cited by 190 · see citing works
Abnormal network connectivity in frontotemporal dementia: Evidence for prefrontal isolation
Farb, N. A. S., Grady, C. L., Strother, S. C., Tang‐Wai, D. F., Masellis, M., Black, S. E., Freedman, M., Pollock, B. G., Campbell, K. L., Hasher, L., et al. (2012) · Cortex · doi:10.1016/j.cortex.2012.09.008 · Cited by 191 · see citing works
Structural and functional correlates of smartphone addiction
Horvath, J., Mundinger, C., Schmitgen, M. M., Wolf, N. D., Sambataro, F., Hirjak, D., Kubera, K. M., Koenig, J., & Christian Wolf, R. (2020) · Addictive Behaviors · doi:10.1016/j.addbeh.2020.106334 · Cited by 190 · see citing works
Liao, X., Xia, M., Xu, T., Dai, Z., Cao, X., Niu, H., Zuo, X., Zang, Y., & Yong He, A. (2013) · NeuroImage · doi:10.1016/j.neuroimage.2013.07.058 · Cited by 188 · see citing works
Riedl, V., Kurcyus, K., Strobel, C., Tahmasian, M., Grimmer, T., Förster, S., Friston, K. J., Sorg, C., & Drzezga, A. E. (2014) · Journal of Neuroscience · doi:10.1523/jneurosci.0492-14.2014 · Cited by 188 · see citing works
Dyrba, M., Grothe, M. J., Kirste, T., & Teipel, S. J. (2015) · Human Brain Mapping · doi:10.1002/hbm.22759 · Cited by 185 · see citing works
Wei, T., Liang, X., Yong He, A., Zang, Y., Han, Z., Caramazza, A., & Bi, Y. (2012) · Journal of Neuroscience · doi:10.1523/jneurosci.1953-11.2012 · Cited by 182 · see citing works
Hippocampal volume and functional connectivity changes during the female menstrual cycle
Lisofsky, N., Mårtensson, J., Eckert, A., Lindenberger, U., Gallinat, J., & Kühn, S. (2015) · NeuroImage · doi:10.1016/j.neuroimage.2015.06.012 · Cited by 185 · see citing works
Yang, A. C., Huang, C., Yeh, H., Liu, M., Hong, C., Tu, P., Chen, J.-F., Huang, N. E., Peng, C., Lin, C., et al. (2012) · Neurobiology of Aging · doi:10.1016/j.neurobiolaging.2012.05.004 · Cited by 184 · see citing works
Vaisvaser, S., Lin, T., Admon, R., Podlipsky, I., Greenman, Y., Stern, N., Fruchter, E., Wald, I., Pine, D., Tarrasch, R., et al. (2013) · Frontiers in Human Neuroscience · doi:10.3389/fnhum.2013.00313 · Cited by 184 · see citing works
Hearne, L. J., Cocchi, L., Zalesky, A., & Mattingley, J. B. (2017) · Journal of Neuroscience · doi:10.1523/jneurosci.0485-17.2017 · Cited by 178 · see citing works
Resting state functional magnetic resonance imaging and neural network classified autism and control
Iidaka, T. (2014) · Cortex · doi:10.1016/j.cortex.2014.08.011 · Cited by 176 · see citing works
Wang, L., Dai, W., Su, Y., Wang, G., Tan, Y., Jin, Z. H., Zeng, Y., Yu, X., Chen, W., Wang, X., et al. (2012) · PLoS ONE · doi:10.1371/journal.pone.0048658 · Cited by 178 · see citing works
Cao, M., Yong He, A., Dai, Z., Liao, X., Jeon, T., Ouyang, M., Chalak, L. F., Bi, Y., Rollins, N. K., Dong, Q., et al. (2016) · Cerebral Cortex · doi:10.1093/cercor/bhw038 · Cited by 177 · see citing works
Networks of tau distribution in Alzheimer’s disease
Hoenig, M. C., Bischof, G. N., Seemiller, J., Hammes, J., Kukolja, J., Onur, O. A., Jessen, F., Fließbach, K., Neumaier, B., Fink, G. R., et al. (2017) · Brain · doi:10.1093/brain/awx353 · Cited by 174 · see citing works
Asymmetric development of dorsal and ventral attention networks in the human brain
Farrant, K., & Uddin, L. Q. (2015) · Developmental Cognitive Neuroscience · doi:10.1016/j.dcn.2015.02.001 · Cited by 177 · see citing works
Decreased Functional Brain Connectivity in Adolescents with Internet Addiction
Hong, S.-B., Zalesky, A., Cocchi, L., Fornito, A., Choi, E.-J., Kim, H.-H., Suh, J.-E., Kim, C.-D., Kim, J.-W., & Yi, S.-H. (2013) · PLoS ONE · doi:10.1371/journal.pone.0057831 · Cited by 175 · see citing works
Wu, K., Taki, Y., Sato, K., Hashizume, H., Sassa, Y., Takeuchi, H., Thyreau, B., Yong He, A., Evans, A. C., Li, X., et al. (2013) · PLoS ONE · doi:10.1371/journal.pone.0055347 · Cited by 176 · see citing works
Changes in Community Structure of Resting State Functional Connectivity in Unipolar Depression
Lord, A., Horn, D., Breakspear, M., & Walter, M. (2012) · PLoS ONE · doi:10.1371/journal.pone.0041282 · Cited by 174 · see citing works
Automatic Classification of Early Parkinson's Disease with Multi-Modal MR Imaging
Long, D., Wang, J., Xuan, M., Gu, Q., Xu, X., Kong, D.-X., & Zhang, M. (2012) · PLoS ONE · doi:10.1371/journal.pone.0047714 · Cited by 173 · see citing works
Hippocampal plasticity underpins long-term cognitive gains from resistance exercise in MCI
Broadhouse, K. M., Singh, M. F., Suo, C., Gates, N., Wen, W., Brodaty, H., Jain, N., Wilson, G. C., Meiklejohn, J., Singh, N., et al. (2020) · NeuroImage: Clinical · doi:10.1016/j.nicl.2020.102182 · Cited by 172 · see citing works
Xu, P., Huang, R., Wang, J., Dam, N. T. V., Xie, T., Dong, Z.-Y., Chen, C., Gu, R., Zang, Y., Yong He, A., et al. (2014) · NeuroImage · doi:10.1016/j.neuroimage.2013.12.060 · Cited by 172 · see citing works
Zang, Z., Yan, C., Dong, Z.-Y., Huang, J., & Zang, Y. (2011) · Journal of Neuroscience Methods · doi:10.1016/j.jneumeth.2011.10.006 · Cited by 170 · see citing works
Wang, L., Xia, M., Li, K., Zeng, Y., Su, Y., Dai, W., Zhang, Q., Jin, Z., Mitchell, P. B., Yu, X., et al. (2015) · Human Brain Mapping · doi:10.1002/hbm.22663 · Cited by 166 · see citing works
Ma, C., Ding, J., Li, J., Guo, W., Long, Z., Liu, F., Gao, Q. C., Zeng, L., Zhao, J., & Chen, H. (2012) · PLoS ONE · doi:10.1371/journal.pone.0045263 · Cited by 165 · see citing works
The spectrum of structural and functional imaging abnormalities in temporal lobe epilepsy
Bernhardt, B. C., Bernasconi, A., Liu, M., Hong, S., Caldairou, B., Goubran, M., Guiot, M. C., Hall, J., & Bernasconi, N. (2016) · Annals of Neurology · doi:10.1002/ana.24691 · Cited by 156 · see citing works
Wei, D., Yang, J., Li, W., Wang, K., Zhang, Q., & Qiu, J. (2014) · Cortex · doi:10.1016/j.cortex.2013.09.004 · Cited by 164 · see citing works
Association between abnormal default mode network activity and suicidality in depressed adolescents
Zhang, S., Chen, J.-M., Kuang, L., Cao, J., Zhang, H., Ai, M., Wang, W., Zhang, S.-D., Wang, S.-Y., Liu, S.-J., et al. (2016) · BMC Psychiatry · doi:10.1186/s12888-016-1047-7 · Cited by 163 · see citing works
- Authors
- Yan
- Venue
- Frontiers in System Neuroscience
- Publisher
- Frontiers Media SA
- Published
- 2010
- Volume
- 4
- Pages
- 13-13
- ISSN
- 1662-5137 (ISSN-L)
- PMC
- PMC2889691
- OpenAlex
- W2057550180
- Cited by
- 3,475
- References
- 51
- Citations by year
- 2026: 78 · 2025: 227 · 2024: 250 · 2023: 268 · 2022: 333 · 2021: 300 · 2020: 296 · 2019: 289 · 2018: 269 · 2017: 320 · 2016: 277 · 2015: 256 · 2014: 151 · 2013: 86 · 2012: 50
- FWCI
- 30.02
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- cc-by
- Locations
- Frontiers in Systems Neuroscience (publishedVersion, cc-by)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Funders
- National Natural Science Foundation of China (30621130074, 30770594)
- Beijing Normal University
- Program for Changjiang Scholars and Innovative Research Team in University
- Topics
- Life Sciences › Neuroscience › Cognitive Neuroscience › Functional Brain Connectivity Studies
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced MRI Techniques and Applications
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced Neuroimaging Techniques and Applications
- Keywords
- resting-state fMRI, MATLAB toolbox, functional connectivity, regional homogeneity, amplitude of low-frequency fluctuation, fractional ALFF, image preprocessing, SPM
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
