A high-resolution computational atlas of the human hippocampus from postmortem magnetic resonance imaging at 9.4 T

Penn Image Computing and Science Laboratory (PICSL), Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA.
NeuroImage (Impact Factor: 6.36). 10/2008; 44(2):385-98. DOI: 10.1016/j.neuroimage.2008.08.042
Source: PubMed


This paper describes the construction of a computational anatomical atlas of the human hippocampus. The atlas is derived from high-resolution 9.4 Tesla MRI of postmortem samples. The main subfields of the hippocampus (cornu ammonis fields CA1, CA2/3; the dentate gyrus; and the vestigial hippocampal sulcus) are labeled in the images manually using a combination of distinguishable image features and geometrical features. A synthetic average image is derived from the MRI of the samples using shape and intensity averaging in the diffeomorphic non-linear registration framework, and a consensus labeling of the template is generated. The agreement of the consensus labeling with manual labeling of each sample is measured, and the effect of aiding registration with landmarks and manually generated mask images is evaluated. The atlas is provided as an online resource with the aim of supporting subfield segmentation in emerging hippocampus imaging and image analysis techniques. An example application examining subfield-level hippocampal atrophy in temporal lobe epilepsy demonstrates the application of the atlas to in vivo studies.

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    • "The final reconstructed and aligned bSSFP volumes were visualized using ITK-SNAP (www.itksnap.org). Segmentation of hippocampal subregions was performed manually according to anatomic atlases and our prior work (Duvernoy, 2005; Insausti and Amaral, 2008; Yushkevich et al., 2009; Zeineh et al., 2012). Detailed hippocampal subfield segmentation was performed of the hippocampal body only, not the tail or head. "
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