fUNCTIONAL MRI PREPROCESSING AND ANALYSIS OPTIMIZATION
OPPNI-fMRI
OPPNI-fMRI (Optimization of Preprocessing Pipelines for NeuroImaging-fMRI) is a software package developed in the Strother lab, which does fast optimization of preprocessing pipelines for BOLD fMRI (Blood Oxygenation Level Dependent functional MRI). It identifies the set of preprocessing steps (“pipeline”) specific to each scanning session/run, which optimizes quality metrics of Prediction and Reproducibility for post-processing analysis results (Strother et al., 2002, 2004). This procedure has been shown to significantly improve signal detection, reliability of brain activations, and sensitivity to brain-behaviour correlations (Churchill et al., 2012a, 2012b). The package can also be used for simple automated batch-processing of fMRI datasets if no appropriate analysis model is currently available to do optimization (e.g. some resting-state connectivity studies).
The OPPNI package is currently being distributed and maintained via GitHub. If you would like to use or know more about OPPNI please contact one of the OPPNI developers (by emailing Pradeep at praamana@research.baycrest.org).
OPPNI-fMRI (Optimization of Preprocessing Pipelines for NeuroImaging-fMRI) is a software package developed in the Strother lab, which does fast optimization of preprocessing pipelines for BOLD fMRI (Blood Oxygenation Level Dependent functional MRI). It identifies the set of preprocessing steps (“pipeline”) specific to each scanning session/run, which optimizes quality metrics of Prediction and Reproducibility for post-processing analysis results (Strother et al., 2002, 2004). This procedure has been shown to significantly improve signal detection, reliability of brain activations, and sensitivity to brain-behaviour correlations (Churchill et al., 2012a, 2012b). The package can also be used for simple automated batch-processing of fMRI datasets if no appropriate analysis model is currently available to do optimization (e.g. some resting-state connectivity studies).
The OPPNI package is currently being distributed and maintained via GitHub. If you would like to use or know more about OPPNI please contact one of the OPPNI developers (by emailing Pradeep at praamana@research.baycrest.org).
Phantom QA Project
Resting-state fMRI quality assurance (QA)
In any longitudinal multi-site study it is crucial to ensure comparability of data collected at different sites and over different sessions. In this study we regularly scan a phantom at twelve sites across Canada to investigate between- and within-site MRI scanner instabilities. The phantom is a spherical plastic phantom filled with doped agar gel (the fBIRN phantom), which is scanned approximately monthly at each site using the resting-state fMRI (rs-fMRI) sequence of the Canadian Dementia Imaging Protocol. The goals of this are (1) to identify scanner variations within- and between-sites, (2) to identify sources of variability, (3) to identify preprocessing approaches to minimize the impact of variations, and (4) to translate findings on phantom data to human studies. This study is defined under the Ontario Neurodegeneration Research Initiative (ONDRI) and the Canadian Biomarker Integration Network in Depression (CAN-BIND).
Resting-state fMRI quality assurance (QA)
In any longitudinal multi-site study it is crucial to ensure comparability of data collected at different sites and over different sessions. In this study we regularly scan a phantom at twelve sites across Canada to investigate between- and within-site MRI scanner instabilities. The phantom is a spherical plastic phantom filled with doped agar gel (the fBIRN phantom), which is scanned approximately monthly at each site using the resting-state fMRI (rs-fMRI) sequence of the Canadian Dementia Imaging Protocol. The goals of this are (1) to identify scanner variations within- and between-sites, (2) to identify sources of variability, (3) to identify preprocessing approaches to minimize the impact of variations, and (4) to translate findings on phantom data to human studies. This study is defined under the Ontario Neurodegeneration Research Initiative (ONDRI) and the Canadian Biomarker Integration Network in Depression (CAN-BIND).
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Rotman Research Institute | Baycrest
3560 Bathurst Street, North York Ontario, Canada M6A 2E1 |
Stephen Strother
sstrother@research.baycrest.org 416-785-2500 x2956 |
