Dataset Open Access

Vascular Territory template and atlases in MNI space

Schirmer, Markus D; Giese, Anne-Katrin; Fotiadis, Panagiotis; Etherton, Mark R; Cloonan, Lisa; Viswanathan, Anand; Greenberg, Steven M; Wu, Ona; Rost, Natalia S


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  <identifier identifierType="DOI">10.5281/zenodo.3379848</identifier>
  <creators>
    <creator>
      <creatorName>Schirmer, Markus D</creatorName>
      <givenName>Markus D</givenName>
      <familyName>Schirmer</familyName>
      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0001-9561-0239</nameIdentifier>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Giese, Anne-Katrin</creatorName>
      <givenName>Anne-Katrin</givenName>
      <familyName>Giese</familyName>
      <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0002-8500-2376</nameIdentifier>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Fotiadis, Panagiotis</creatorName>
      <givenName>Panagiotis</givenName>
      <familyName>Fotiadis</familyName>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Etherton, Mark R</creatorName>
      <givenName>Mark R</givenName>
      <familyName>Etherton</familyName>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Cloonan, Lisa</creatorName>
      <givenName>Lisa</givenName>
      <familyName>Cloonan</familyName>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Viswanathan, Anand</creatorName>
      <givenName>Anand</givenName>
      <familyName>Viswanathan</familyName>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Greenberg, Steven M</creatorName>
      <givenName>Steven M</givenName>
      <familyName>Greenberg</familyName>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
    <creator>
      <creatorName>Wu, Ona</creatorName>
      <givenName>Ona</givenName>
      <familyName>Wu</familyName>
      <affiliation>Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital, Charlestown, MA</affiliation>
    </creator>
    <creator>
      <creatorName>Rost, Natalia S</creatorName>
      <givenName>Natalia S</givenName>
      <familyName>Rost</familyName>
      <affiliation>Department of Neurology, Massachusetts General Hospital, Harvard Medical School, Boston MA, USA</affiliation>
    </creator>
  </creators>
  <titles>
    <title>Vascular Territory template and atlases in MNI space</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2019</publicationYear>
  <subjects>
    <subject>Brain</subject>
    <subject>template</subject>
    <subject>vascular territories</subject>
    <subject>anterior</subject>
    <subject>posterior</subject>
    <subject>middle</subject>
    <subject>cerebral artery</subject>
    <subject>ACA</subject>
    <subject>PCA</subject>
    <subject>MCA</subject>
    <subject>MNI</subject>
    <subject>T1</subject>
    <subject>T2</subject>
    <subject>FLAIR</subject>
  </subjects>
  <dates>
    <date dateType="Issued">2019-03-19</date>
  </dates>
  <language>en</language>
  <resourceType resourceTypeGeneral="Dataset"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/3379848</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsSupplementTo">10.3389/fneur.2019.00208</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.3379847</relatedIdentifier>
  </relatedIdentifiers>
  <version>1.0.0</version>
  <rightsList>
    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/legalcode">Creative Commons Attribution 4.0 International</rights>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">&lt;p&gt;&lt;strong&gt;Data&lt;/strong&gt;&lt;/p&gt;

&lt;p&gt;Sixteen subjects (mean age (sd): 69.6 (8.2); 37.5% female) were recruited to generate a high-resolution template. The cohort consists of twelve stroke-free, non-demented patients with the sporadic form of cerebral amyloid angiopathy (CAA), and similarly-aged healthy controls (n=4). Each participant underwent high-resolution MRI&amp;nbsp;with a Siemens Magnetom Prisma 3T scanner (using a 32-channel head coil) as part of a separate study. The standardized protocol included a Multiecho T1-weighted (voxel size: 1x1x1 mm&lt;sup&gt;3&lt;/sup&gt;; Repetition Time [TR]: 2510 ms), a 3D-FLAIR (voxel size: 0.9x0.9x0.9 mm&lt;sup&gt;3&lt;/sup&gt;; TR: 5000 ms; TE: 356 ms), and a T2-weighted Turbo Spin Echo (voxel size: 0.5x0.5x2.0 mm&lt;sup&gt;3&lt;/sup&gt;; TR: 7500 ms; TE: 84 ms) sequence. Scans were manually assessed to ensure no gross pathology was present, such as hemorrhage or silent brain infarcts.&lt;/p&gt;

&lt;p&gt;&lt;strong&gt;Template and territorial map creation&lt;/strong&gt;&lt;/p&gt;

&lt;p&gt;We employed Advanced Normalization Tools (ANTs) for image processing (Avants et al., 2010, 2011) for creating a brain template based on multimodal information using T1, T2 and 3D-FLAIR sequences. After template creation, we smoothed the resulting templates (FSL; Gaussian smoothing, sigma = 1) and registered the resulting templates into MNI space, again using ANTs (Avants et al., 2011).&lt;/p&gt;

&lt;p&gt;Vascular territories were outlined on the right hemisphere in the T1-weighted atlas image and contain anatomically validated ACA, MCA, and PCA territories supratentorially. The right hemispheric map was then mirrored onto the left hemisphere to create a full-brain vascular territory map, which was manually assessed and corrected where necessary.&lt;/p&gt;

&lt;p&gt;&amp;nbsp;&lt;/p&gt;

&lt;p&gt;For more details, please see the original publication that utilized the template. If you utilize this template, please also cite&lt;/p&gt;

&lt;p&gt;Schirmer, Markus D., et al. &amp;quot;Spatial signature of white matter hyperintensities in stroke patients.&amp;quot; &lt;em&gt;Frontiers in neurology&lt;/em&gt; 10 (2019): 208.&lt;/p&gt;

&lt;p&gt;&lt;a href="https://doi.org/10.3389/fneur.2019.00208"&gt;https://doi.org/10.3389/fneur.2019.00208&lt;/a&gt;&lt;/p&gt;

&lt;p&gt;&amp;nbsp;&lt;/p&gt;

&lt;p&gt;&lt;strong&gt;Files&lt;/strong&gt;&lt;/p&gt;

&lt;p&gt;&lt;strong&gt;FLAIR template&lt;/strong&gt;: caa_flair_in_mni_template_smooth.nii.gz&lt;br&gt;
&lt;br&gt;
&lt;strong&gt;FLAIR template after brain extraction and intensity normalization&lt;/strong&gt;: caa_flair_in_mni_template_smooth_brain_intres.nii.gz&lt;br&gt;
&lt;br&gt;
&lt;strong&gt;T1 template&lt;/strong&gt;: caa_t1_in_mni_template_smooth.nii.gz 27.7 Mb&lt;br&gt;
&lt;br&gt;
&lt;strong&gt;T2 template&lt;/strong&gt;: caa_t2_in_mni_template_smooth.nii.gz 27.7 Mb&lt;br&gt;
&lt;br&gt;
&lt;strong&gt;Vascular territory map&lt;/strong&gt;: mni_vascular_territories.nii.gz&lt;/p&gt;</description>
    <description descriptionType="Other">This project has received funding from the European Union's Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 753896 (M.D. Schirmer). This study was supported by the NIH-National Institute of Neurological Disorders and Stroke (K23NS064052, R01NS082285, and R01NS086905), American Heart Association/Bugher Foundation Centers for Stroke Prevention Research, and Deane Institute for Integrative Study of Atrial Fibrillation and Stroke.</description>
  </descriptions>
  <fundingReferences>
    <fundingReference>
      <funderName>European Commission</funderName>
      <funderIdentifier funderIdentifierType="Crossref Funder ID">10.13039/501100000780</funderIdentifier>
      <awardNumber awardURI="info:eu-repo/grantAgreement/EC/H2020/753896/">753896</awardNumber>
      <awardTitle>Assessment of Reserve: Translational Evaluation of Medical Images and Statistics-Prediction models for outcomes of brain health</awardTitle>
    </fundingReference>
  </fundingReferences>
</resource>
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