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Filtering by: Creator Scheven, Ulrich Remove constraint Creator: Scheven, Ulrich Keyword ex vivo tissue Remove constraint Keyword: ex vivo tissue

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  • Data for "Impact of Tissue Sample Preparation Methods on Myelin-Sensitive Quantitative MR Imaging"

    work
    Creator:
    Murguia, Amaya, Swanson, Scott D., Scheven, Ulrich, Jacobson, Andrea, Nielsen, Jon-Fredrik, Fessler, Jeffrey A., and Seraji-Bozorgzad, Navid
    Description:
    Validation of quantitative MRI (qMRI) parameters with histology is often done with ex vivo fixed tissue samples. Freezing is another common form of tissue preservation, but the effects of freezing and thawing tissue on myelin-sensitive qMRI parameters and their correlation with histology require further analysis. To study the effects of freezing vs. fixing tissue on myelin-sensitive parameters, we conducted myelin water imaging, off-resonance RF saturation magnetization transfer (MT), and selective inversion recovery MT MRI experiments on 14 fresh, thawed, and fixed sheep brain tissue samples to calculate various surrogate measures of myelin content. These measures were compared with luxol fast blue (LFB) histological stain results. 14 sheep brain tissue samples were scanned fresh. Half were frozen and subsequently thawed and scanned again. The second half were fixed and scanned again. Then all samples were fixed and sent for histological processing. This folder contains the MR and histology images collected for this study. All data are stored as mat files. The top level folder sheep_data_paper has subfolders: fresh_thawed: holds the data for the samples scanned fresh and thawed (S1-S7) fresh_fixed: holds the data for the samples scanned fresh and fresh_fixed (S8-S14) Each structure variable (data.mat) holds data for a specific sample and a specific tissue preparation (fresh, thawed, or fixed). The data variable has the following fields: gre: gradient echo scan data (128 x 128 x 5) fse: fast spin echo scan data (256 x 256 x 5) mese: multi-echo spin echo scan data for MWF mapping (128 x 128 x 5 x 104) b0data: gradient echo scan data for B0 mapping (128 x 128 x 5 x 4) b1data: EPI scan data for B1 mapping (32 x 32 x 5 x 9) t1data: EPI inversion recovery data for T1 mapping (64 x 64 x 5 x 21) mtdata: gradient echo data for quantitative MT analysis (128 x 128 x 4 x nf) hist: Luxol fast blue stain / Cresyl violet counterstain (LFB) histology image
    Keyword:
    myelin, magnetic resonance imaging, histology, quantitative MRI, ex vivo tissue, myelin water imaging, magnetization transfer, and luxol fast blue
    Citation to related publication:
    Murguia, A., Swanson, S. D., Scheven, U., Jacobson, A., Nielsen, J. F., Fessler, J. A., & Seraji-Bozorgzad, N. (2025). Impact of Tissue Sample Preparation Methods on Myelin-Sensitive Quantitative MR Imaging. bioRxiv, 2025-05.
    Discipline:
    Health Sciences and Engineering