Granger causality analysis implementation on MATLAB: A graphic user interface toolkit for fMRI data processing

Zang, Zhenxiang; Yan, Chao‐Gan; Dong, Zhang-Ye; Huang, Jian; Zang, Yu‐Feng

doi:10.1016/j.jneumeth.2011.10.006

Cited by 141 publications

(103 citation statements)

References 35 publications

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“…We used signed-path coefficients method (Hamilton et al, 2011) implemented in REST-GCA toolkit (Zang et al, 2012) with a time lag order of 1 (1 TR, 2 second) to determine the probable strength and sign (inhibitory versus excitatory) of causal effect. Similar to the FC analysis, a 5 mm radius sphere centered on (20 -25 2) coordinate was generated as the pulvinar seed for measuring GCA based seed-to-voxel and voxel-to-seed effective connectivity.…”

Section: Methodsmentioning

confidence: 99%

Pharmacological modulation of pulvinar resting-state regional oscillations and network dynamics in major depression

Tadayonnejad

Ajilore

Mickey

et al. 2016

Psychiatry Research: Neuroimaging

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The pulvinar, the largest thalamus nucleus, has rich anatomical connections with several different cortical and subcortical regions suggesting its important involvement in high-level cognitive and emotional functions. Unfortunately, pulvinar dysfunction in psychiatric disorders particularly major depression disorder has not been thoroughly examined to date. In this study we explored the alterations in the baseline regional and network activities of the pulvinar in MDD by applying spectral analysis of resting-state oscillatory activity, functional connectivity and directed (effective) connectivity on resting-state fMRI data acquired from 20 healthy controls and 19 participants with MDD. Furthermore, we tested how pharmacological treatment with duloxetine can modulate the measured local and network variables in ten participants who completed treatment. Our results revealed a frequency-band dependent modulation of power spectrum characteristics of pulvinar regional oscillatory activity. At the network level, we found MDD is associated with aberrant causal interactions between pulvinar and several systems including default-mode and posterior insular networks. It was also shown that duloxetine treatment can correct or overcompensate the pathologic network behavior of the pulvinar. In conclusion, we suggest that pulvinar regional baseline oscillatory activity and its resting-state network dynamics are compromised in MDD and can be modulated therapeutically by pharmacological treatment.

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Section: Methodsmentioning

confidence: 99%

Pharmacological modulation of pulvinar resting-state regional oscillations and network dynamics in major depression

Tadayonnejad

Ajilore

Mickey

et al. 2016

Psychiatry Research: Neuroimaging

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“…Effective connectivity was analyzed by Granger causality as described previously (Qi et al, 2013) using REST-GCA in the REST toolbox (Zang et al, 2012). Based on the results of the degree centrality analysis we selected the seed regions, which showed significant differences between AN patients and the control groups (left and right inferior frontal gyrus; MNI coordinates (x, y, z) ±48, 9, 24).…”

Section: Methodsmentioning

confidence: 99%

“…The direct influence of x on y ( F x?y ) and y on x ( F y?x ) was calculated voxel by voxel across the whole brain. The residual-based F was normalized ( F' ) and standardized to Z scores for each voxel ( Z x?y and Z y?x , subtracting the global mean F' values, divided by the standard deviation) (Zang et al, 2011). …”

Section: Methodsmentioning

confidence: 99%

Aberrant network integrity of the inferior frontal cortex in women with anorexia nervosa

Kullmann

Giel

Teufel

et al. 2014

NeuroImage: Clinical

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Neuroimaging studies investigating the neural profile of anorexia nervosa (AN) have revealed a predominant imbalance between the reward and inhibition systems of the brain, which are also hallmark characteristics of the disorder. However, little is known whether these changes can also be determined independent of task condition, using resting-state functional magnetic resonance imaging, in currently ill AN patients.Therefore the aim of our study was to investigate resting-state connectivity in AN patients (n = 12) compared to healthy athlete (n = 12) and non-athlete (n = 14) controls. For this purpose, we used degree centrality to investigate functional connectivity of the whole-brain network and then Granger causality to analyze effective connectivity (EC), to understand directional aspects of potential alterations.We were able to show that the bilateral inferior frontal gyrus (IFG) is a region of special functional importance within the whole-brain network, in AN patients, revealing reduced functional connectivity compared to both healthy control groups. Furthermore, we found decreased EC from the right IFG to the midcingulum and increased EC from the bilateral orbitofrontal gyrus to the right IFG. For the left IFG, we only observed increased EC from the bilateral insula to the left IFG.These results suggest that AN patients have reduced connectivity within the cognitive control system of the brain and increased connectivity within regions important for salience processing. Due to its fundamental role in inhibitory behavior, including motor response, altered integrity of the inferior frontal cortex could contribute to hyperactivity in AN.

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“…Their GCA results showed that the epileptic locus in the somatosensory cortex had a causal influence on the striatum and thalamus in terms of both the electrophysiological and BOLD-fMRI signals, suggesting the value of applying RS-fMRI with GCA to epilepsy studies [64] . One concern for fMRI GCA studies is the slow sampling rate (e.g., 2 or 3 s) [65] . A recent study used fast scanning with a repetition time of 500 ms and measured the GCA laterality between left and right hippocampi in mTLE patients [66] .…”

Section: Granger Causality Analysis (Gca) While Linear Correlation Anmentioning

confidence: 99%

Resting-state fMRI studies in epilepsy

2012

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Abstract:Epilepsy is a disease characterized by abnormal spontaneous activity in the brain. Resting-state functional magnetic resonance imaging (RS-fMRI) is a powerful technique for exploring this activity. With good spatial and temporal resolution, RS-fMRI is a promising approach for accurate localization of the focus of seizure activity. Although simultaneous electroencephalogram-fMRI has been performed with patients in the resting state, most studies focused on activation.This mini-review focuses on RS-fMRI alone, including its computational methods and its application to epilepsy.

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Granger causality analysis implementation on MATLAB: A graphic user interface toolkit for fMRI data processing

Cited by 141 publications

References 35 publications

Pharmacological modulation of pulvinar resting-state regional oscillations and network dynamics in major depression

Pharmacological modulation of pulvinar resting-state regional oscillations and network dynamics in major depression

Aberrant network integrity of the inferior frontal cortex in women with anorexia nervosa

Resting-state fMRI studies in epilepsy

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