Identifying regions of interest in whole slide images of renal cell carcinoma

Objective: To evaluate the value of 2-dimensional (2D) and 3-dimensional (3D) computed tomography texture analysis (CTTA) models in distinguishing fat-poor angiomyolipoma (fpAML) from chromophobe renal cell carcinoma (chRCC). Methods: We retrospectively enrolled 32 fpAMLs and 24 chRCCs. Texture features were extracted from 2D and 3D regions of interest in triphasic CT images. The 2D and 3D CTTA models were constructed with the least absolute shrinkage and selection operator algorithm and texture scores were calculated. The diagnostic performance of the 2D and 3D CTTA models was evaluated with respect to calibration, discrimination, and clinical usefulness. Results: Of the 177 and 183 texture features extracted from 2D and 3D regions of interest, respectively, 5 2D features and 8 3D features were selected to build 2D and 3D CTTA models. The 2D CTTA model (area under the curve [AUC], 0.811; 95% confidence interval [CI], 0.695-0.927) and the 3D CTTA model (AUC, 0.915; 95% CI, 0.838-0.993) showed good discrimination and calibration ( P > .05). There was no significant difference in AUC between the 2 models ( P = .093). Decision curve analysis showed the 3D model outperformed the 2D model in terms of clinical usefulness. Conclusions: The CTTA models based on contrast-enhanced CT images had a high value in differentiating fpAML from chRCC.

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A pyramidal deep learning pipeline for kidney whole-slide histology images classification

Scientific Reports ◽

10.1038/s41598-021-99735-6 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

Hisham Abdeltawab ◽

Fahmi Khalifa ◽

Mohammed Mohammed ◽

Liang Cheng ◽

Dibson Gondim ◽

...

Keyword(s):

Renal Cell Carcinoma ◽

Deep Learning ◽

Cell Carcinoma ◽

Renal Cell ◽

Clear Cell ◽

Correct Diagnosis ◽

Papillary Renal Cell Carcinoma ◽

Automated Classification ◽

Cell Renal Cell Carcinoma ◽

Whole Slide Images

AbstractRenal cell carcinoma is the most common type of kidney cancer. There are several subtypes of renal cell carcinoma with distinct clinicopathologic features. Among the subtypes, clear cell renal cell carcinoma is the most common and tends to portend poor prognosis. In contrast, clear cell papillary renal cell carcinoma has an excellent prognosis. These two subtypes are primarily classified based on the histopathologic features. However, a subset of cases can a have a significant degree of histopathologic overlap. In cases with ambiguous histologic features, the correct diagnosis is dependent on the pathologist’s experience and usage of immunohistochemistry. We propose a new method to address this diagnostic task based on a deep learning pipeline for automated classification. The model can detect tumor and non-tumoral portions of kidney and classify the tumor as either clear cell renal cell carcinoma or clear cell papillary renal cell carcinoma. Our framework consists of three convolutional neural networks and the whole slide images of kidney which were divided into patches of three different sizes for input into the networks. Our approach can provide patchwise and pixelwise classification. The kidney histology images consist of 64 whole slide images. Our framework results in an image map that classifies the slide image on the pixel-level. Furthermore, we applied generalized Gauss-Markov random field smoothing to maintain consistency in the map. Our approach classified the four classes accurately and surpassed other state-of-the-art methods, such as ResNet (pixel accuracy: 0.89 Resnet18, 0.92 proposed). We conclude that deep learning has the potential to augment the pathologist’s capabilities by providing automated classification for histopathological images.

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