Comparative analysis of tissue reconstruction algorithms for 3D histology | Zendy

Kimmo Kartasalo | Zendy; Leena Latonen | Zendy; Jorma Vihinen | Zendy; Tapio Visakorpi | Zendy; Matti Nykter | Zendy; Pekka Ruusuvuori | Zendy

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Comparative analysis of tissue reconstruction algorithms for 3D histology

Author(s) -

Kimmo Kartasalo,

Leena Latonen,

Jorma Vihinen,

Tapio Visakorpi,

Matti Nykter,

Pekka Ruusuvuori

Publication year - 2018

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bty210

Subject(s) - computer science , context (archaeology) , visualization , benchmarking , digital pathology , 3d reconstruction , artificial intelligence , high resolution , algorithm , source code , pattern recognition (psychology) , data mining , computer vision , biology , paleontology , remote sensing , marketing , business , geology , operating system

Digital pathology enables new approaches that expand beyond storage, visualization or analysis of histological samples in digital format. One novel opportunity is 3D histology, where a three-dimensional reconstruction of the sample is formed computationally based on serial tissue sections. This allows examining tissue architecture in 3D, for example, for diagnostic purposes. Importantly, 3D histology enables joint mapping of cellular morphology with spatially resolved omics data in the true 3D context of the tissue at microscopic resolution. Several algorithms have been proposed for the reconstruction task, but a quantitative comparison of their accuracy is lacking.

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