Inter-subject correlation analysis for functional magnetic resonance imaging: Properties and validation: Dissertation

Research output: ThesisDissertation

Abstract

Inter-subject correlation (ISC) analysis for functional magnetic resonance imaging (fMRI)is a data driven approach to detect the brain activity during complex stimuli. TheISC measures are computed as a correlation between the fMRI time courses of thestudied group of subjects. The ISC analysis is developed especially for fMRI studies withnaturalistic stimuli, like movies, music, video games or annotated stories. The naturalisticstimuli are typically used to study the higher cognitive functions of a human brain suchas emotions or humor. This thesis investigates the properties of ISC analysis for fMRI. Three major aspects ofthe ISC analysis were studied: the accuracy of the analysis when compared with thegeneral linear model (GLM) based analysis, the effects of spatial smoothing and the effectof sample size on the results. In addition, the openly available implementation of ISCanalysis that was used in this study, ISCtoolbox for Matlab, was improved by developinga built-in support for cluster computing environments. The improvements were publishedwith the new version of the ISCtoolbox. These improvements were mandatory due to thehigh computational costs of ISC analysis and the high number of ISC analyses requiredfor the studies of this thesis. Four international journal publications are included in the thesis. The ?rst one describesthe properties of the ISC analysis and ISCtoolbox for Matlab implementation. The secondone investigates the accuracy of the ISC analysis with a block design fMRI data when compared with the GLM analysis. The third study investigates the effects of spatialsmoothing on the ISC analysis and uses the GLM analysis as a reference for the testing. The fourth study tests how the sample size affects the ISC analysis results. The ISC analysis was veri?ed to be an effcient non-parametric data analysis method forfMRI data especially in studies with naturalistic stimuli. In addition to this the studiesindicated that ISC can successfully be applied also to the traditional block design data,where it is able to detect activations with similar accuracy as the GLM analysis. Thespatial smoothing was found to be a mandatory pre-processing step for the ISC analysis.When the thresholds for ISC results were corrected with false discovery rate multiplecomparisons correction, the ISC analysis was able to tolerate slightly larger Gaussiansmoothing kernels than the GLM analysis. The sample size investigation veri?ed that theISC analysis can produce fairly stable results when the number of subjects included in thestudy was more than 20. At least 30 subjects were found to guarantee the high similarityof the results. The implementation of the ISC analysis as ISCtoolbox was found to behighly efficient in cluster computing environments.
Original languageEnglish
QualificationDoctor Degree
Awarding Institution
  • Tampere University of Technology (TUT)
Supervisors/Advisors
  • Tohka, Jussi, Supervisor, External person
  • Ruotsalainen, Ulla, Supervisor, External person
Award date22 Apr 2016
Place of PublicationTampere
Publisher
Print ISBNs978-952-15-3721-9
Electronic ISBNs978-952-15-3723-3
Publication statusPublished - 2016
MoE publication typeG5 Doctoral dissertation (article)

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Cluster computing
Brain
Chemical activation
Magnetic Resonance Imaging
Testing
Processing
Costs

Cite this

@phdthesis{4ec16409d42e44c782dd80d5ab209750,
title = "Inter-subject correlation analysis for functional magnetic resonance imaging: Properties and validation: Dissertation",
abstract = "Inter-subject correlation (ISC) analysis for functional magnetic resonance imaging (fMRI)is a data driven approach to detect the brain activity during complex stimuli. TheISC measures are computed as a correlation between the fMRI time courses of thestudied group of subjects. The ISC analysis is developed especially for fMRI studies withnaturalistic stimuli, like movies, music, video games or annotated stories. The naturalisticstimuli are typically used to study the higher cognitive functions of a human brain suchas emotions or humor. This thesis investigates the properties of ISC analysis for fMRI. Three major aspects ofthe ISC analysis were studied: the accuracy of the analysis when compared with thegeneral linear model (GLM) based analysis, the effects of spatial smoothing and the effectof sample size on the results. In addition, the openly available implementation of ISCanalysis that was used in this study, ISCtoolbox for Matlab, was improved by developinga built-in support for cluster computing environments. The improvements were publishedwith the new version of the ISCtoolbox. These improvements were mandatory due to thehigh computational costs of ISC analysis and the high number of ISC analyses requiredfor the studies of this thesis. Four international journal publications are included in the thesis. The ?rst one describesthe properties of the ISC analysis and ISCtoolbox for Matlab implementation. The secondone investigates the accuracy of the ISC analysis with a block design fMRI data when compared with the GLM analysis. The third study investigates the effects of spatialsmoothing on the ISC analysis and uses the GLM analysis as a reference for the testing. The fourth study tests how the sample size affects the ISC analysis results. The ISC analysis was veri?ed to be an effcient non-parametric data analysis method forfMRI data especially in studies with naturalistic stimuli. In addition to this the studiesindicated that ISC can successfully be applied also to the traditional block design data,where it is able to detect activations with similar accuracy as the GLM analysis. Thespatial smoothing was found to be a mandatory pre-processing step for the ISC analysis.When the thresholds for ISC results were corrected with false discovery rate multiplecomparisons correction, the ISC analysis was able to tolerate slightly larger Gaussiansmoothing kernels than the GLM analysis. The sample size investigation veri?ed that theISC analysis can produce fairly stable results when the number of subjects included in thestudy was more than 20. At least 30 subjects were found to guarantee the high similarityof the results. The implementation of the ISC analysis as ISCtoolbox was found to behighly efficient in cluster computing environments.",
author = "Juha Pajula",
note = "BA1163 54 p.",
year = "2016",
language = "English",
isbn = "978-952-15-3721-9",
series = "Tampere University of Technology. Publication",
publisher = "Tampere University of Technology",
address = "Finland",
school = "Tampere University of Technology (TUT)",

}

Inter-subject correlation analysis for functional magnetic resonance imaging : Properties and validation: Dissertation. / Pajula, Juha.

Tampere : Tampere University of Technology, 2016. 122 p.

Research output: ThesisDissertation

TY - THES

T1 - Inter-subject correlation analysis for functional magnetic resonance imaging

T2 - Properties and validation: Dissertation

AU - Pajula, Juha

N1 - BA1163 54 p.

PY - 2016

Y1 - 2016

N2 - Inter-subject correlation (ISC) analysis for functional magnetic resonance imaging (fMRI)is a data driven approach to detect the brain activity during complex stimuli. TheISC measures are computed as a correlation between the fMRI time courses of thestudied group of subjects. The ISC analysis is developed especially for fMRI studies withnaturalistic stimuli, like movies, music, video games or annotated stories. The naturalisticstimuli are typically used to study the higher cognitive functions of a human brain suchas emotions or humor. This thesis investigates the properties of ISC analysis for fMRI. Three major aspects ofthe ISC analysis were studied: the accuracy of the analysis when compared with thegeneral linear model (GLM) based analysis, the effects of spatial smoothing and the effectof sample size on the results. In addition, the openly available implementation of ISCanalysis that was used in this study, ISCtoolbox for Matlab, was improved by developinga built-in support for cluster computing environments. The improvements were publishedwith the new version of the ISCtoolbox. These improvements were mandatory due to thehigh computational costs of ISC analysis and the high number of ISC analyses requiredfor the studies of this thesis. Four international journal publications are included in the thesis. The ?rst one describesthe properties of the ISC analysis and ISCtoolbox for Matlab implementation. The secondone investigates the accuracy of the ISC analysis with a block design fMRI data when compared with the GLM analysis. The third study investigates the effects of spatialsmoothing on the ISC analysis and uses the GLM analysis as a reference for the testing. The fourth study tests how the sample size affects the ISC analysis results. The ISC analysis was veri?ed to be an effcient non-parametric data analysis method forfMRI data especially in studies with naturalistic stimuli. In addition to this the studiesindicated that ISC can successfully be applied also to the traditional block design data,where it is able to detect activations with similar accuracy as the GLM analysis. Thespatial smoothing was found to be a mandatory pre-processing step for the ISC analysis.When the thresholds for ISC results were corrected with false discovery rate multiplecomparisons correction, the ISC analysis was able to tolerate slightly larger Gaussiansmoothing kernels than the GLM analysis. The sample size investigation veri?ed that theISC analysis can produce fairly stable results when the number of subjects included in thestudy was more than 20. At least 30 subjects were found to guarantee the high similarityof the results. The implementation of the ISC analysis as ISCtoolbox was found to behighly efficient in cluster computing environments.

AB - Inter-subject correlation (ISC) analysis for functional magnetic resonance imaging (fMRI)is a data driven approach to detect the brain activity during complex stimuli. TheISC measures are computed as a correlation between the fMRI time courses of thestudied group of subjects. The ISC analysis is developed especially for fMRI studies withnaturalistic stimuli, like movies, music, video games or annotated stories. The naturalisticstimuli are typically used to study the higher cognitive functions of a human brain suchas emotions or humor. This thesis investigates the properties of ISC analysis for fMRI. Three major aspects ofthe ISC analysis were studied: the accuracy of the analysis when compared with thegeneral linear model (GLM) based analysis, the effects of spatial smoothing and the effectof sample size on the results. In addition, the openly available implementation of ISCanalysis that was used in this study, ISCtoolbox for Matlab, was improved by developinga built-in support for cluster computing environments. The improvements were publishedwith the new version of the ISCtoolbox. These improvements were mandatory due to thehigh computational costs of ISC analysis and the high number of ISC analyses requiredfor the studies of this thesis. Four international journal publications are included in the thesis. The ?rst one describesthe properties of the ISC analysis and ISCtoolbox for Matlab implementation. The secondone investigates the accuracy of the ISC analysis with a block design fMRI data when compared with the GLM analysis. The third study investigates the effects of spatialsmoothing on the ISC analysis and uses the GLM analysis as a reference for the testing. The fourth study tests how the sample size affects the ISC analysis results. The ISC analysis was veri?ed to be an effcient non-parametric data analysis method forfMRI data especially in studies with naturalistic stimuli. In addition to this the studiesindicated that ISC can successfully be applied also to the traditional block design data,where it is able to detect activations with similar accuracy as the GLM analysis. Thespatial smoothing was found to be a mandatory pre-processing step for the ISC analysis.When the thresholds for ISC results were corrected with false discovery rate multiplecomparisons correction, the ISC analysis was able to tolerate slightly larger Gaussiansmoothing kernels than the GLM analysis. The sample size investigation veri?ed that theISC analysis can produce fairly stable results when the number of subjects included in thestudy was more than 20. At least 30 subjects were found to guarantee the high similarityof the results. The implementation of the ISC analysis as ISCtoolbox was found to behighly efficient in cluster computing environments.

M3 - Dissertation

SN - 978-952-15-3721-9

T3 - Tampere University of Technology. Publication

PB - Tampere University of Technology

CY - Tampere

ER -