Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI

Abstract A “carpet plot” is a 2-dimensional plot (time vs. voxel) of scaled fMRI voxel intensity values. Low frequency oscillations (LFOs) can be successfully identified from BOLD fMRI and used to study characteristics of neuronal and physiological activity. Here, we evaluate the use of carpet plots...

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Autores principales:	Bradley Fitzgerald, Jinxia Fiona Yao, Thomas M. Talavage, Lia M. Hocke, Blaise deB Frederick, Yunjie Tong
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/3906f3fb85ac497eb323a69891717500
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spelling	oai:doaj.org-article:3906f3fb85ac497eb323a698917175002021-12-02T13:24:26ZUsing carpet plots to analyze transit times of low frequency oscillations in resting state fMRI10.1038/s41598-021-86402-z2045-2322https://doaj.org/article/3906f3fb85ac497eb323a698917175002021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-86402-zhttps://doaj.org/toc/2045-2322Abstract A “carpet plot” is a 2-dimensional plot (time vs. voxel) of scaled fMRI voxel intensity values. Low frequency oscillations (LFOs) can be successfully identified from BOLD fMRI and used to study characteristics of neuronal and physiological activity. Here, we evaluate the use of carpet plots paired with a developed slope-detection algorithm as a means to study LFOs in resting state fMRI (rs-fMRI) data with the help of dynamic susceptibility contrast (DSC) MRI data. Carpet plots were constructed by ordering voxels according to signal delay time for each voxel. The slope-detection algorithm was used to identify and calculate propagation times, or “transit times”, of tilted vertical edges across which a sudden signal change was observed. We aim to show that this metric has applications in understanding LFOs in fMRI data, possibly reflecting changes in blood flow speed during the scan, and for evaluating alternative blood-tracking contrast agents such as inhaled CO2. We demonstrate that the propagations of LFOs can be visualized and automatically identified in a carpet plot as tilted lines of sudden intensity change. Resting state carpet plots produce edges with transit times similar to those of DSC carpet plots. Additionally, resting state carpet plots indicate that edge transit times vary at different time points during the scan.Bradley FitzgeraldJinxia Fiona YaoThomas M. TalavageLia M. HockeBlaise deB FrederickYunjie TongNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Bradley Fitzgerald Jinxia Fiona Yao Thomas M. Talavage Lia M. Hocke Blaise deB Frederick Yunjie Tong Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI
description	Abstract A “carpet plot” is a 2-dimensional plot (time vs. voxel) of scaled fMRI voxel intensity values. Low frequency oscillations (LFOs) can be successfully identified from BOLD fMRI and used to study characteristics of neuronal and physiological activity. Here, we evaluate the use of carpet plots paired with a developed slope-detection algorithm as a means to study LFOs in resting state fMRI (rs-fMRI) data with the help of dynamic susceptibility contrast (DSC) MRI data. Carpet plots were constructed by ordering voxels according to signal delay time for each voxel. The slope-detection algorithm was used to identify and calculate propagation times, or “transit times”, of tilted vertical edges across which a sudden signal change was observed. We aim to show that this metric has applications in understanding LFOs in fMRI data, possibly reflecting changes in blood flow speed during the scan, and for evaluating alternative blood-tracking contrast agents such as inhaled CO2. We demonstrate that the propagations of LFOs can be visualized and automatically identified in a carpet plot as tilted lines of sudden intensity change. Resting state carpet plots produce edges with transit times similar to those of DSC carpet plots. Additionally, resting state carpet plots indicate that edge transit times vary at different time points during the scan.
format	article
author	Bradley Fitzgerald Jinxia Fiona Yao Thomas M. Talavage Lia M. Hocke Blaise deB Frederick Yunjie Tong
author_facet	Bradley Fitzgerald Jinxia Fiona Yao Thomas M. Talavage Lia M. Hocke Blaise deB Frederick Yunjie Tong
author_sort	Bradley Fitzgerald
title	Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI
title_short	Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI
title_full	Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI
title_fullStr	Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI
title_full_unstemmed	Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI
title_sort	using carpet plots to analyze transit times of low frequency oscillations in resting state fmri
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/3906f3fb85ac497eb323a69891717500
work_keys_str_mv	AT bradleyfitzgerald usingcarpetplotstoanalyzetransittimesoflowfrequencyoscillationsinrestingstatefmri AT jinxiafionayao usingcarpetplotstoanalyzetransittimesoflowfrequencyoscillationsinrestingstatefmri AT thomasmtalavage usingcarpetplotstoanalyzetransittimesoflowfrequencyoscillationsinrestingstatefmri AT liamhocke usingcarpetplotstoanalyzetransittimesoflowfrequencyoscillationsinrestingstatefmri AT blaisedebfrederick usingcarpetplotstoanalyzetransittimesoflowfrequencyoscillationsinrestingstatefmri AT yunjietong usingcarpetplotstoanalyzetransittimesoflowfrequencyoscillationsinrestingstatefmri
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Using carpet plots to analyze transit times of low frequency oscillations in resting state fMRI

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