Automated delineation of nuclei for three dimensional (3-D) high content screening
In various embodiments, the invention teaches systems and methods for analyzing an image of cells, including an image obtained by confocal microscopy, and delineating cell nuclei in the image. In some embodiments, the systems and methods apply a three-dimensional (3-D) radial symmetry transform followed by adaptive post processing of symmetry images to arrive at a mask of seeds that can guide watershed-based segmentation.
1. A method, comprising:
receiving 3D image stacks output from an imaging device comprising an image of one or more cells;
processing the 3D image stacks with a 3D radial symmetry transform to output radial symmetry images; and
processing the radial symmetry images to output images with segmented nuclei.
2. The method of claim 1 , further comprising processing the radial symmetry images with adaptive seed placement to output a single seed for each nuclei.
3. The method of claim 2 , wherein the radial symmetry images are a weighted sum of orientation projection and magnitude projection images derived from local image gradients.
4. The method of claim 3 , further comprising applying watershed-based segmentation in which the positions of two or more seeds is considered during segmentation.
5. The method of claim 1 , wherein one or more of the one or more cells has been stained with one or more markers.
6. The method of claim 5 , wherein one or more of the markers are fluorescent biomarkers.
7. The method of claim 6 , wherein one or more of the fluorescent biomarkers are immunofluorescent biomarkers.
8. The method of claim 1 , wherein at least one cell in the image has been immunolabeled with a 5-methylcytosine antibody and/or 4′6-diamidino-2-phenylindole (DAPI).
9. The method of claim 1 , wherein the image is acquired by confocal microscopy.
10. The method of claim 1 , wherein the image comprises cells from a preparation of a tissue mounted on a slide.
11. The method of claim 1 , wherein at least one cell in the image is a cancer cell or a pre-cancerous cell.
12. The method of claim 1 , wherein at least one cell in the image has been treated with a drug.
13. The method of claim 12 , wherein the drug is a chemotherapeutic drug.