The purpose of this study was to investigate the predictive performance of 2D and 3D image features across multi-organ cancers using multi-modality images in radiomics studies.In this retrospective study, we included 619 patients with three different cancer types (intrahepatic cholangiocarcinoma (ICC), high-grade osteosarcoma (HOS), pancreatic neuroendocrine tumors (pNETs)) and four clinical end points (early recurrence (ER), lymph node metastasis (LNM), 5-year survival and histologic grade). The image features included fifty-eight 2D image features and fiftyeight 3D image features. The 3D image features were extracted based on the 3D tumor volumes. The 2D image features were extracted based on 2D tumor region, which was the layer with the maximum tumor diameter within the 3D tumor volume. The predictive performance of individual 2D and 3D image feature was measured using the area under the receiver operating characteristic curve (AUC) with univariate analysis. Radiomics signatures were further developed using multivariable analysis with 4-fold cross-validation method.Using univariate analysis, we found that more 3D image features showed the statistically predictive capabilities than 2D image features across all the included cancer types. By comparing the predictive performance of radiomics signatures developed by 2D and 3D image features, we observed better prediction performance in radiomics signatures based on 3D image features than those based on 2D image features for patients with ICC and HGO. Meanwhile, the signatures based on 2D and 3D image features performed closely in the pNETs dataset with the clinical end point of the histologic grade. The reason for this inconsistent result might be that the gross tumor volumes of pNETs were generally small. The tumor heterogeneity was mostly presented in the middle several layers within the tumor volume.Both 2D and 3D image features have certain predictive capacities. By contrast, the 3D image features show better or close predictive performance than 2D image features using both univariate analysis and multivariate analysis. In brief, 3D image features are recommended in radiomics studies.

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The embryonic mouse brain undergoes drastic changes in establishing basic anatomical compartments and laying out major axonal connections of the developing brain. Correlating anatomical changes with gene-expression patterns is an essential step toward understanding the mechanisms regulating brain development. Traditionally, this is done in a cross-sectional manner, but the dynamic nature of development calls for probing gene–neuroanatomy interactions in a combined spatiotemporal domain. Here, we present a four-dimensional (4D) spatiotemporal continuum of the embryonic mouse brain from E10.5 to E15.5 reconstructed from diffusion magnetic resonance microscopy (dMRM) data. This study achieved unprecedented high-definition dMRM at 30- to 35-µm isotropic resolution, and together with computational neuroanatomy techniques, we revealed both morphological and microscopic changes in the developing brain. We transformed selected gene-expression data to this continuum and correlated them with the dMRM-based neuroanatomical changes in embryonic brains. Within the continuum, we identified distinct developmental modes comprising regional clusters that shared developmental trajectories and similar gene-expression profiles. Our results demonstrate how this 4D continuum can be used to examine spatiotemporal gene–neuroanatomical interactions by connecting upstream genetic events with anatomical changes that emerge later in development. This approach would be useful for large-scale analysis of the cooperative roles of key genes in shaping the developing brain.

High‐resolution ex vivo diffusion MRI (dMRI) can provide exquisite mesoscopic details and microstructural information of the human brain. Microstructural pattern of the anterior part of human hippocampus, however, has not been well elucidated with ex vivo dMRI, either in normal or disease conditions. The present study collected high‐resolution (0.1 mm isotropic) dMRI of post‐mortem anterior hippocampal tissues from four Alzheimer's diseases (AD), three primary age‐related tauopathy (PART), and three healthy control (HC) brains on a 14.1 T spectrometer. We evaluated how AD affected dMRI‐based microstructural features in different layers and subfields of anterior hippocampus. In the HC samples, we found higher anisotropy, lower diffusivity, and more streamlines in the layers within cornu ammonis (CA) than those within dentate gyrus (DG). Comparisons between disease groups showed that (1) anisotropy measurements in the CA layers of AD, especially stratum lacunosum (SL) and stratum radiatum (SR), had higher regional variability than the other two groups; (2) streamline density in the DG layers showed a gradually increased variance from HC to PART to AD; (3) AD also showed the higher variability in terms of inter‐layer connectivity than HC or PART. Moreover, voxelwise correlation analysis between the coregistered dMRI and histopathology images revealed significant correlations between dMRI measurements and the contents of amyloid beta (Aβ)/tau protein in specific layers of AD samples. These findings may reflect layer‐specific microstructural characteristics in different hippocampal subfields at the mesoscopic resolution, which were associated with protein deposition in the anterior hippocampus of AD patients.