Niazi M Khalid Khan, Beamer Gillian, Gurcan Metin N
Department of Biomedical Informatics, The Ohio State University, Columbus, Ohio, USA.
Department of Infectious Disease and Global Health, Tufts University, Grafton, Massachusetts, USA.
Proc SPIE Int Soc Opt Eng. 2017 Feb;10140. doi: 10.1117/12.2255627. Epub 2017 Mar 1.
Accurate detection and quantification of normal lung tissue in the context of infection is of interest from a biological perspective. The automatic detection and quantification of normal lung will allow the biologists to focus more intensely on regions of interest within normal and infected tissues. We present a computational framework to extract individual tissue sections from whole slide images having multiple tissue sections. It automatically detects the background, red blood cells and handwritten digits to bring efficiency as well as accuracy in quantification of tissue sections. For efficiency, we model our framework with logical and morphological operations as they can be performed in linear time. We further divide these individual tissue sections into normal and infected areas using deep neural network. The computational framework was trained on 60 whole slide images. The proposed computational framework resulted in an overall accuracy of 99.2% when extracting individual tissue sections from 120 whole slide images in the test dataset. The framework resulted in a relatively higher accuracy (99.7%) while classifying individual lung sections into normal and infected areas. Our preliminary findings suggest that the proposed framework has good agreement with biologists on how define normal and infected lung areas.
从生物学角度来看,在感染背景下准确检测和定量正常肺组织具有重要意义。正常肺组织的自动检测和定量将使生物学家能够更专注于正常组织和感染组织中的感兴趣区域。我们提出了一个计算框架,用于从具有多个组织切片的全切片图像中提取单个组织切片。它能自动检测背景、红细胞和手写数字,从而在组织切片定量方面提高效率和准确性。为了提高效率,我们用逻辑和形态学操作对框架进行建模,因为这些操作可以在线性时间内执行。我们进一步使用深度神经网络将这些单个组织切片划分为正常区域和感染区域。该计算框架在60张全切片图像上进行了训练。当从测试数据集中的120张全切片图像中提取单个组织切片时,所提出的计算框架总体准确率达到了99.2%。在将单个肺切片分类为正常区域和感染区域时,该框架的准确率相对较高(99.7%)。我们的初步研究结果表明,所提出的框架在如何定义正常和感染肺区域方面与生物学家的观点具有良好的一致性。
Proc SPIE Int Soc Opt Eng. 2017-2
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