Automatic Nerve Tracing

3D Reconstruction of the Cornea

Automatic Endothelial Cell Count

Identification of Endothelial Cells

3D Reconstruction of the Cornea

F. Scarpa, D. Fiorin, and A. Ruggeri. In Vivo Three-Dimensional Reconstruction of the Cornea from Confocal Microscopy Images. Proc. 29th Annual International Conference of IEEE-EMBS, pp. 747-50, IEEE, New York, 2007.

The purpose is to get a 3D reconstruction of the cornea, starting from a confocal microscope sequence of images, from endothelium to epithelium. Confocal microscopy can provide sequences of images from all cornea layers in a rapid, in vivo and non invasive way. These images are useful to extract important clinical information on cornea state of health.



A registration procedure, based on normalized correlation, is applied to each image, because eye movements normally occured during acquisition of the sequence and shifts in X-Y plane take place in the sequence of images. Information on shifts along X and Y directions comes from registration process, shift along Z direction comes from the instrument itself. A 2D image stack is reconstructed by taking into account shift along X, Y and Z directions.




If data are missing, we reconstruct them by taking lines from adjacent images and interpolating them.




After reconstruction it is possible to display and analyze corneal structures in the 3D volume and obtain slices in the X, Y or Z direction. Images on X-Y plane are the original ones, images on X-Z plane and on Y-Z plane are reconstructed.




We can then estimate keratocyte volumetric density. A segmentation procedure is applied to each image to detect 2D centers of keratocytes and a clustering procedure is then applied to the images of the stack, so as to identify the 3D center of keratocytes.  Keratocytes centers are counted in the whole stroma or in some stromal layers, to estimate their volumetric density.





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