RESTplus - Resting state fMRI V1.21 Manual.pdf · 90 ROI 1 ROI 2 ROI 3 ROI 4 ROI 1 1 ROI2 and ROI1...

RESTplus Manual

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贾熙泽

杭州师范大学心理科学研究院杭州拾睿科技有限公司

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jiaxize@foxmail.com

RESTplus

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1. Download RESTplushttp://www.restfmri.net/forum/RESTplusV1.2

2. Install RESTplusMATLAB 2014a

SPM12(https://www.fil.ion.ucl.ac.uk/spm/software/spm12/)

3. NoticeDo not include any Chinese characters or specific symbol.

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Install RESTplus

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Install RESTplus

Data arrangement

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Data arrangement

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IMADCMnone

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Data arrangement

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…… ……control_001 patient_001

Work directory

(work_dir)

Functional data folder

(REST)

Structure data folder

(STRUC)

control_001 patient_001

DICOM files

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Example data

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Example data

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DICOM or NIFTI

Example data

01.Pipeline

ALFF calculation

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Pipeline

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Slice timing

(Poldrack, Mumford et al. 2011)

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Slice order could be Matlab formula ： [1:2:33 2:2:32]

Motion correction

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Normalization

Individual brains are highly variable in their size and

shape

Data be integrated across individuals (group analyses)

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Transform the brain images to reduce the variability between individuals and

allow meaningful group analyses.

Normalization

The Talairach atlasThe best-known brain atlas is the one created by Talairach (1967) and subsequently

updated by Talairach & Tournoux (1988).

The MNI templatesWithin the fMRI literature, the most common templates used for spatial normalization are those

developed at the Montreal Neurological Institute, known as the MNI templates.

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Spatial smoothing

The most common means of spatial smoothing is the

convolution of the three-dimensional image with a

three-dimensional Gaussian kernel.

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Filter (low-frequency)

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Before filter

After filter

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01b_Pipeline_Results

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02. Statistical analysis

Two sample t-test

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Head motion

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03. Viewer

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04. Summary

RESTplus

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05. pipeline

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06. Other metrics

Fractional ALFF (fALFF)

70Zou Q H, Zhu C Z, Yang Y, et al. An improved approach to detection of amplitude of low-frequency fluctuation (ALFF) for

resting-state fMRI: fractional ALFF[J]. Journal of neuroscience methods, 2008, 172(1): 137-141.

1 DICOM to NIFTI

2 Remove first n time points

3 Slice timing

4 Realign

5 Reorient

6 Normalize

7 Smooth

8 Detrend

9 fALFF

fALFF

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Functional connectivity

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Voxel wise functional connectivity

(Fox et al., PNAS, 2005)

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ROI wise functional connectivity

(Liao & Zhang et al., HBM, 2011)

Functional connectivity

1 DICOM to NIFTI

2 Remove first n time points

3 Slice timing

4 Realign

5 Reorient

6 Normalize

7 Smooth

8 Detrend

9 Nuisance covariates regression

10 Filter

11 Functional connectivity76

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ROI 1 ROI 2 ROI 3 ROI 4

ROI 1 1 ROI2 and ROI1 ROI3 and ROI1 ROI4 and ROI1

ROI 2 ROI1 and ROI2 1 ROI3 and ROI2 ROI4 and ROI2

ROI 3 ROI1 and ROI3 ROI2 and ROI3 1 ROI4 and ROI3

ROI 4 ROI1 and ROI4 ROI2 and ROI4 ROI3 and ROI4 1

ROI1 ROI2 ROI3 ROI4

Degree centrality (DC)

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(Salomon et al., JN, 2011)

√ Identify hubs in the human brain

√ Data-diven

√ Voxelwise

Degree centrality

1 DICOM to NIFTI

2 Remove first n time points

3 Slice timing

4 Realign

5 Reorient

6 Normalize

7 Detrend

8 Nuisance covariates regression

9 Filter

10 Degree centrality

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Error message

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http://www.restfmri.net/jiaxize@foxmail.com