{
"title": "Brain\/MINDS 3D Marmoset Reference Brain Atlas 2019",
"description": "This atlas is composed of a population average ex-vivo MRI T2WI contrast mapped with the [BMA 2017 Ex Vivo](https:\/\/dataportal.brainminds.jp\/reference-atlas-data\/) (published by Woodward et al. _[The Brain\/MINDS 3D digital marmoset brain atlas](https:\/\/www.nature.com\/articles\/sdata20189)_).\r\n
The population average MRI was constructed based on scans of 25 individual brains. The 25 brains were aligned with one another by iteratively applying linear and non-linear registration and averaging the transformation files until convergence. Data of individual brains were then resampled with an isotropic spatial resolution of 100\u00d7100\u00d7100\u00b5m3 and averaged across brain. The registration procedure gave a brain shape with a high signal-to-noise ratio compared to an individual MRI scan. The average MRI was then AC-PC aligned within an RAS (Right-Anterior-Superior) coordinate system.\r\n
Cortical flat map and mid-thickness surfaces for the left and right hemispheres are now provided in the common GIFTI format (*. gii) for surface data. These are compatible with [Connectome Workbench](https:\/\/www.humanconnectome.org\/software\/connectome-workbench) (version 1.5.0 and higher) and a Scene file is also provided for easy viewing of the data.",
"extraProperties": [
{
"category": "CONP_status",
"values": {
"value": "external"
}
},
{
"category": "origin_institution",
"values": {
"value": "RIKEN Center for Brain Science"
}
}
],
"version": 1.1,
"identifier": {
"identifier": "https:\/\/doi.org\/10.24475\/bma.4520",
"identifierSource": "DOI"
},
"keywords": [
{
"value": "digital atlas"
},
{
"value": "marmoset"
},
{
"value": "Callithrix jacchus"
},
{
"value": "brain"
},
{
"value": "reference atlas"
},
{
"value": "3D"
},
{
"value": "NIfTI"
},
{
"value": "brain atlas"
},
{
"value": "3D Slicer"
},
{
"value": "flat map"
},
{
"value": "GIfTI"
},
{
"value": "Connectome Workbench"
}
],
"types": {
"method": {
"value": "Atlas"
}
},
"dates": [
{
"type": {
"value": "Creation Date"
},
"date": "2020-04-22"
},
{
"type": {
"value": "Publication Date"
},
"date": "2020-04-22"
}
],
"license": "Creative Commons Attribution 4.0 International (CC BY 4.0)",
"creators": [
{
"firstName": "Alexander",
"lastName": "Woodward",
"fullName": "Alexander Woodward",
"roles": [
{
"value": "Principal Creator"
},
{
"value": "Corresponding Creator"
}
],
"email": "alexander.woodward@riken.jp",
"affiliations": [
{
"name": "Connectome Analysis Unit, Integrative Computational Brain Science Collaboration Division, RIKEN Center for Brain Science"
}
]
},
{
"firstName": "Rui",
"lastName": "Gong",
"fullName": "Rui Gong",
"roles": [
{
"value": "Creator"
}
],
"affiliations": [
{
"name": "Connectome Analysis Unit, Integrative Computational Brain Science Collaboration Division, RIKEN Center for Brain Science"
}
]
},
{
"firstName": "Ken",
"lastName": "Nakae",
"fullName": "Ken Nakae",
"roles": [
{
"value": "Creator"
}
],
"affiliations": [
{
"name": "Integrated Systems Biology Laboratory (Ishii Laboratory), Division of Systems Informatics, Department of Systems Science, Graduate School of Informatics, Kyoto University"
}
]
},
{
"firstName": "Junichi",
"lastName": "Hata",
"fullName": "Junichi Hata",
"roles": [
{
"value": "Creator"
}
],
"affiliations": [
{
"name": "Laboratory for Marmoset Neural Architecture, RIKEN Center for Brain Science"
},
{
"name": "Department of Physiology (Okano Lab), Keio University School of Medicine, Keio University School of Medicine"
},
{
"name": "Division of Regenerative Medicine, Jikei University School of Medicine"
}
]
},
{
"firstName": "Hideyuki",
"lastName": "Okano",
"fullName": "Hideyuki Okano",
"roles": [
{
"value": "Creator"
}
],
"affiliations": [
{
"name": "Laboratory for Marmoset Neural Architecture, RIKEN Center for Brain Science"
},
{
"name": "Department of Physiology (Okano Lab), Keio University School of Medicine, Keio University School of Medicine"
}
]
},
{
"firstName": "Shin",
"lastName": "Ishii",
"fullName": "Shin Ishii",
"roles": [
{
"value": "Creator"
}
],
"affiliations": [
{
"name": "Integrated Systems Biology Laboratory (Ishii Laboratory), Division of Systems Informatics, Department of Systems Science, Graduate School of Informatics, Kyoto University"
}
]
},
{
"firstName": "Yoko",
"lastName": "Yamaguchi",
"fullName": "Yoko Yamaguchi",
"roles": [
{
"value": "Creator"
}
],
"affiliations": [
{
"name": "Applied Electronics Laboratory, Kanazawa Institute of Technology"
},
{
"name": "Graduate School of Information Science and Technology, The University Tokyo"
},
{
"name": "Laboratory for Cognitive Brain Mapping, RIKEN Center for Brain Science"
}
]
}
],
"distributions": [
{
"access": {
"landingPage": "https:\/\/dataportal.brainminds.jp\/atlas-package-download-main-page\/bma-2019-ex-vivo"
},
"version": 1,
"formats": [
"NIfTI-1"
],
"size": "580.52",
"unit": {
"value": "MB"
},
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},
{
"access": {
"landingPage": "https:\/\/dataportal.brainminds.jp\/atlas-package-download-main-page\/bma-2019-ex-vivo"
},
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"acknowledges": {
"funders": [
{
"@id": "https:\/\/doi.org\/10.13039\/100009619",
"name": "Japan Agency for Medical Research and Development (AMED)"
}
]
}
}