Application of neuroanatomical ontologies for neuroimaging data annotation - PubMed (original) (raw)
Application of neuroanatomical ontologies for neuroimaging data annotation
Jessica A Turner et al. Front Neuroinform. 2010.
Abstract
The annotation of functional neuroimaging results for data sharing and re-use is particularly challenging, due to the diversity of terminologies of neuroanatomical structures and cortical parcellation schemes. To address this challenge, we extended the Foundational Model of Anatomy Ontology (FMA) to include cytoarchitectural, Brodmann area labels, and a morphological cortical labeling scheme (e.g., the part of Brodmann area 6 in the left precentral gyrus). This representation was also used to augment the neuroanatomical axis of RadLex, the ontology for clinical imaging. The resulting neuroanatomical ontology contains explicit relationships indicating which brain regions are "part of" which other regions, across cytoarchitectural and morphological labeling schemas. We annotated a large functional neuroimaging dataset with terms from the ontology and applied a reasoning engine to analyze this dataset in conjunction with the ontology, and achieved successful inferences from the most specific level (e.g., how many subjects showed activation in a subpart of the middle frontal gyrus) to more general (how many activations were found in areas connected via a known white matter tract?). In summary, we have produced a neuroanatomical ontology that harmonizes several different terminologies of neuroanatomical structures and cortical parcellation schemes. This neuroanatomical ontology is publicly available as a view of FMA at the Bioportal website. The ontological encoding of anatomic knowledge can be exploited by computer reasoning engines to make inferences about neuroanatomical relationships described in imaging datasets using different terminologies. This approach could ultimately enable knowledge discovery from large, distributed fMRI studies or medical record mining.
Keywords: data mining; neuroanatomy; ontology.
Figures
Figure 1
Example of the ontological hierarchy within FMA, representing the subclass (is_a) hierarchy from Right precentral gyrus to the root node of the ontology. This does not reflect the partonomy (cf. Figure 2).
Figure 2
A new FMA class and a selection of its spatio-structural properties have been entered to accommodate the Talairach term. (A) A synopsis of the updated is_a hierarchy in FMA. (B) The updated part of hierarchy in FMA, indicating how it captures the implicit structure of the TD output.
Figure 3
(A) Significant BOLD signal activations from the sensorimotor task for a single subject overlaid on a standard atlas (corrected p value < 0. 05). (B) Example output from the Talairach Daemon for that subject's data, following transformation to Talairach coordinates (not shown), reformatted as a table.
Figure 4
On the left, the regional parts of the gray matter of precentral gyrus; on the left, regional parts of Brodmann area 6, both represented within FMA. Brodmann area 6 of precentral gyrus is explicitly a part of both the gray matter of the precentral gyrus and Brodmann area 6.
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- R01 HL087706/HL/NHLBI NIH HHS/United States
- U24 RR021992/RR/NCRR NIH HHS/United States
- U24 RR025736/RR/NCRR NIH HHS/United States
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