NDLI: Classification of cell cycle phases in 3D confocal microscopy using PCNA and chromocenter features

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Classification of cell cycle phases in 3D confocal microscopy using PCNA and chromocenter features

Content Provider	ACM Digital Library
Author	Jaeger, Stefan Cardoso, M. Cristina Palaniappan, Kannappan Casas-Delucchi, Corella S.
Abstract	Cell cycle progression studies using subcellular markers offer important insight into cellular mechanisms of disease and therapeutic drug development. Due to the large volumes of microscopy data involved in such studies, a manual approach to extracting quantitative information is not only prohibitive but error prone. We present an automatic cell cycle phase identification algorithm applied to 3D spinning disk confocal microscopy imagery of mouse embryonic fibroblast cells. In our training dataset, each 3D image stack depicts a single cell in a manually identified cell phase, and is recorded via two channels showing the fluorescently marked protein PCNA and the chromocenters, respectively. We use a 3D k-means approach to segment each volume and extract a set of shape and curvature features to characterize the subcellular foci patterns associated with cell cycle phases for each channel. Radial features are used to describe the spatial distribution of PCNA over the course of the cell cycle. A support vector machine (SVM) classifier using 234 features was trained and achieved a recognition rate of 83% for the chromocenter and 86% for the PCNA channels separately on the testing data. A combined SVM classifier using both channels and 468 features further improved the accuracy to nearly 92% for five phases (G1, SE, SM, SL, G2) and shows promising scalability.
Starting Page	412
Ending Page	418
Page Count	7
File Format	PDF
ISBN	9781450300605
DOI	10.1145/1924559.1924614
Language	English
Publisher	Association for Computing Machinery (ACM)
Publisher Date	2010-12-12
Publisher Place	New York
Access Restriction	Subscribed
Subject Keyword	Blobbiness features Confocal microscopy Cell cycle analysis Cell cycle phase classification Fluorescence microscopy Cell segmentation
Content Type	Text
Resource Type	Article

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