ArticleJournal of pathology informatics2013
3D prostate histology image reconstruction: Quantifying the impact of tissue deformation and histology section location.
Article in Journal of pathology informatics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- An X-ray micro-CT protocol enables non-destructive 3D visualization of glandular architecture in archived paraffin-embedded prostate cancer tissue.The journal of pathology. Clinical research · 2026Article
- Improved Post-Processing Framework for Whole Slide Imaging and 3D Reconstruction.Microscopy research and technique · 2026Article
- Three-dimensional reconstruction of gigapixel whole-mount histopathology specimens with RAPID.Scientific reports · 2026Article
- A Proof-of-Concept Solution for Co-locating 2D Histology Images in 3D for Histology-to-CT and MR Image Registration: Closing the Loop for Bone Sarcoma Treatment Planning.Journal of imaging informatics in medicine · 2025Article
- Non-parametric prediction of brain MRI microstructure using transfer learning.Imaging neuroscience (Cambridge, Mass.) · 2025Article
- Imaging of prostate micro-architecture using three-dimensional wide-field optical coherence tomography.Biomedical optics express · 2024Article
- Three-dimensional histology reveals dissociable human hippocampal long-axis gradients of Alzheimer's pathology.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2024Article
- Three-dimensional histology reveals dissociable human hippocampal long axis gradients of Alzheimer's pathology.bioRxiv : the preprint server for biology · 2023Article
- Preoperative imaging accuracy in size determination of prostate cancer in men undergoing radical prostatectomy for clinically localised disease.Insights into imaging · 2023Article
- An integrative web-based software tool for multi-dimensional pathology whole-slide image analytics.Physics in medicine and biology · 2022Article
- Robust joint registration of multiple stains and MRI for multimodal 3D histology reconstruction: Application to the Allen human brain atlas.Medical image analysis · 2022Article
- Virtual reality for 3D histology: multi-scale visualization of organs with interactive feature exploration.BMC cancer · 2021Article
- Histology to 3D in vivo MR registration for volumetric evaluation of MRgFUS treatment assessment biomarkers.Scientific reports · 2021Article
- Elastic transformation of histological slices allows precise co-registration with microCT data sets for a refined virtual histology approach.Scientific reports · 2021Article
- Ex Vivo MR Histology and Cytometric Feature Mapping Connect Three-dimensional in Vivo MR Images to Two-dimensional Histopathologic Images of Murine Sarcomas.Radiology. Imaging cancer · 2021Article
- Prospective validation of craniocaudal tumour size on MR imaging compared to histoPAthology in patients with uterine cervical cancer: The MPAC study.Clinical and translational radiation oncology · 2019Article
- Multiparametric MRI and Coregistered Histology Identify Tumor Habitats in Breast Cancer Mouse Models.Cancer research · 2019Article
- Three-dimensional analysis reveals two major architectural subgroups of prostate cancer growth patterns.Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc · 2019Article
- Registration Accuracy of Patient-Specific, Three-Dimensional-Printed Prostate Molds for Correlating Pathology With Magnetic Resonance Imaging.IEEE transactions on bio-medical engineering · 2019Article
- Comparative analysis of tissue reconstruction algorithms for 3D histology.Bioinformatics (Oxford, England) · 2018Article
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10 authors.
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Abstract
backgroundGuidelines for localizing prostate cancer on imaging are ideally informed by registered post-prostatectomy histology. 3D histology reconstruction methods can support this by reintroducing 3D spatial information lost during histology processing. The need to register small, high-grade foci drives a need for high accuracy. Accurate 3D reconstruction method design is impacted by the answers to the following central questions of this work. (1) How does prostate tissue deform during histology processing? (2) What spatial misalignment of the tissue sections is induced by microtome cutting? (3) How does the choice of reconstruction model affect histology reconstruction accuracy? MATERIALS AND
methodsHistology, paraffin block face and magnetic resonance images were acquired for 18 whole mid-gland tissue slices from six prostates. 7-15 homologous landmarks were identified on each image. Tissue deformation due to histology processing was characterized using the target registration error (TRE) after landmark-based registration under four deformation models (rigid, similarity, affine and thin-plate-spline [TPS]). The misalignment of histology sections from the front faces of tissue slices was quantified using manually identified landmarks. The impact of reconstruction models on the TRE after landmark-based reconstruction was measured under eight reconstruction models comprising one of four deformation models with and without constraining histology images to the tissue slice front faces.
resultsIsotropic scaling improved the mean TRE by 0.8-1.0 mm (all results reported as 95% confidence intervals), while skew or TPS deformation improved the mean TRE by <0.1 mm. The mean misalignment was 1.1-1.9(°) (angle) and 0.9-1.3 mm (depth). Using isotropic scaling, the front face constraint raised the mean TRE by 0.6-0.8 mm.
conclusionsFor sub-millimeter accuracy, 3D reconstruction models should not constrain histology images to the tissue slice front faces and should be flexible enough to model isotropic scaling.
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