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To support image synchronization across reference spaces, each space has been co-registered and scaled to every other space using a 12 parameter affine transform, allowing brains of different ages to be roughly compared. The image synchronization API methods automatically perform the cross-space transform when requesting to sync data from different reference spaces.
Usage of across reference space synchronization is demonstrated in the "Cross-Stage Image Synchronization" example application.
Examples:
Sync Ntng1 SectionDataSets over different timepoints to a location in the P4 SectionDataSet
No Format http://api.brain-map.org/api/v2/image_to_image/101121829.xml?x=5752&y=3312§ion_data_set_ids=100057390,100047075,100047197,100046840,100057243,100045273,100045230,71924185,70300595
Sync the P56 reference atlas to a location in the P4 Ntng1 SectionDataSet
No Format http://api.brain-map.org/api/v2/image_to_atlas/101121829.json?x=5752&y=3312&atlas_id=181276165
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Manual annotation results can be accessed through RMA and can be used to search data. The use of manual annotation data is also demonstrated in the "Manual Annotation" example application.
*Note:* the structural hierarchy associated with the manual annotation differs from the Ontology used for informatics processing of the ISH data.
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Download manual annotation for gene Tcf7l2 at E11.5
No Format http://api.brain-map.org/api/v2/data/query.xml?criteria=model::ManualAnnotation,rma::criteria,[section_data_set_id$eq100045897], rma::include,structure,rma::options[order$eq'structures.graph_order$asc']
Search for E13.5 SectionDataSets with high intensity, regional expression in the diencephalon
No Format http://api.brain-map.org/api/v2/annotated_section_data_sets.xml?structures=112765096 &intensity_values='High'&pattern_values='Regional'&age_names='E13.5'
Download the structure ontology used for manual annotation
No Format http://api.brain-map.org/api/v2/structure_graph_download/112755225.json
Figure: Screenshot of "Manual Annotation" example application showing the expression Expression intensity, density and pattern attributes for level 5 structures for gene Tcf7l2 at E11.5 (id=100045897)