55 lines
3.2 KiB
Markdown
55 lines
3.2 KiB
Markdown
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# Brain/MINDS Marmoset MRI age-specific averaged images
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Authors: Akiko Uematsu<sup>1</sup>, Junichi Hata<sup>2</sup>, Yuji Komaki<sup>3</sup>, Fumiko Seki<sup>1</sup>, Chihoko Yamada<sup>3</sup>, Norio Okahara<sup>3</sup>, Yoko Kurotaki<sup>3</sup>, Erika Sasaki<sup>1,2,3</sup>, Hideyuki Okano<sup>1,2,3</sup>*
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1. Department of Physiology (Okano Lab), Keio University School of Medicine, Keio University School of Medicine
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2. Laboratory for Marmoset Neural Architecture, RIKEN Brain Science Institute
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3. Central Institute for Experimental Animals
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*corresponding author: Hideyuki Okano (hidokano@a2.keio.jp)
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## DATASET DESCRIPTION
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The dataset includes gziped NIfTI files (.nii.gz) of MRI T2WI and DTI metrics (FA, MD, RD, and AD) in-vivo data; the ages of the data are 1,3,6,9,12,15,18 months old.
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The creation process of these averaged images is referred to the script of FSL software (https://fsl.fmrib.ox.ac.uk/), `fslvm_2_template`, partially modified; the non-linear registration process was replaced to the script of ANTs (http://stnava.github.io/ANTs/), `antsRegsitrationSyN.sh`. The details are described in the text “Dataset Description and Image Processing”.
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In addition, age-specific DWI templates (.mif files) are provided, which are created using the script of Mrtrix3 (http://www.mrtrix.org/), `population_template`.
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<br/>
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You may convert .mif file to NIFTI, extracting b-vector and b-value information by conducting the following Mrtrix3’s command:
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```
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# mrconvert dwi_input.mif dwi_output.nii -export_grad_fsl bvec bval
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```
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## CITATION
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Uematsu, Akiko; Hata, Junichi; Komaki, Yuji; Seki, Fumiko; Yamada, Chihoko; Okahara, Norio; Kurotaki, Yoko; Sasaki, Erika; Okano, Hideyuki.
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_Brain/MINDS Age-Specific Marmoset Averaged Image Dataset (DataID: 3236)_
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DOI: https://doi.org/10.24475/bminds.mri.kau.3236
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## RELATED PUBLICATION(S)
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Uematsu, A., Hata, J., Komaki, Y., Seki, F., Yamada, C., Okahara, N., Okahara., Kurotaki, Y., Sasaki E. & Okano, H. (2017).
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_Mapping orbitofrontal-limbic maturation in non-human primates: A longitudinal magnetic resonance imaging study_. NeuroImage 163, 55-67.
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DOI: https://doi.org/10.1016/j.neuroimage.2017.09.028
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## LICENSE
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This work is licensed under a [Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License](http://creativecommons.org/licenses/by-nc-nd/4.0/).
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## CONTENT
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| File name | Description |
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| ---- | ---- |
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|[`About_ImageProcessing.docx`](About_ImageProcessing.docx)|The details of Dataset Description and Image Processing (.docx)|
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|[`T2WI/`](T2WI/)|T2 weighted image at 1,3,6,9,12,15,18 months old. (.nii.gz)|
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|[`DTI/`](DTI/)||
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| [`FA/`](DTI/FA/)|Fractional Anisotropy images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
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| [`MD/`](DTI/MD/)|Mean Diffusivity images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
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| [`RD/`](DTI/RD/)|Radial Diffusivity images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
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| [`AD/`](DTI/AD/)|Axial Diffusivity images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
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|[`DWI/`](DWI/)|Study and age-specific template of DWI at 1,3,6,9,12,15,18 months old (30 axis with two b0) |
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|[`FOD/`](FOD/)|Fiber Orientation Distribution images determined by constrained spherical deconvolution at 1,3,6,9,12,15,18 months old.|
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