SD-Layer: Stain deconvolutional layer for CNNs in medical microscopic imaging

Abstract

Convolutional Neural Networks (CNNs) are typically trained in the RGB color space. However, in medical imaging, we believe that pixel stain quantities offer a fundamental view of the interaction between tissues and stain chemicals. Since the optical density (OD) colorspace allows to compute pixel stain quantities from pixel RGB intensities using the Beer-Lambert’s law, we propose a stain deconvolutional layer, hereby named as SD-Layer, affixed at the front of CNN that performs two functions: (1) it transforms the input RGB microscopic images to Optical Density (OD) space and (2) this layer deconvolves OD image with the stain basis learned through backpropagation and provides tissue-specific stain absorption quantities as input to the following CNN layers. With the introduction of only nine additional learnable parameters in the proposed SD-Layer, we obtain a considerably improved performance on two standard CNN architectures: AlexNet and T-CNN. Using the T-CNN architecture prefixed with the proposed SD-Layer, we obtain 5-fold cross-validation accuracy of 93.2% in the problem of differentiating malignant immature White Blood Cells (WBCs) from normal immature WBCs for cancer detection.