The traditional histochemical staining of autopsy tissue samples usually suffers from staining artifacts due to autolysis caused by delayed fixation of cadaver tissues. Here, we introduce an autopsy virtual staining technique to digitally convert autofluorescence images of unlabeled autopsy tissue sections into their hematoxylin and eosin (H&E) stained counterparts through a trained neural network. This technique was demonstrated to effectively mitigate autolysis-induced artifacts inherent in histochemical staining, such as weak nuclear contrast and color fading in the cytoplasmic-extracellular matrix. As a rapid, reagent-efficient, and high-quality histological staining approach, the presented technique holds great potential for widespread application in the future.
Clear cell renal cell carcinoma (ccRCC) is a common cancer and could result in poor prognosis. Understanding individual tumor immune microenvironment (TIME) in ccRCC patients may predict prognosis and response to therapy. In this work, we explore the concept of using radiomic features extracted from computer tomography (CT) imaging to correlate the TIME measurements from multiplex immunohistochemistry (mIHC) analysis. Since CT imaging has long been the standard for evaluation of RCCs, it has the potential to provide noninvasive approximations of the tissue-based mIHC biomarkers. We selected two biomarkers that were grounded by clinical research: PD-L1 expression and CD8+PD-1+ T cell to CD8+ T cell ratio of the tumor epithelium. Then we extracted these two markers from a preliminary set of 52 patients using automated mIHC analysis. We used Random Forest, AdaBoost and ElasticNet to classify each sample as either expressing high or low levels of these markers. We found the radiomic features can correlate tumor epithelium PD-L1 >5%, PD-L1 >10%, and CD8+PD1+/CD8+ >37% with AUROC 0.75, 0.85 and 0.71, respectively.
We present a supervised learning approach to train a deep neural network which can transform images of H&E stained tissue sections into special stains (e.g., PAS, Jones silver stain and Masson’s Trichrome). We performed a diagnostic study using tissue sections from 58 subjects covering a variety of non-neoplastic kidney diseases to show that when the pathologists performed their diagnoses using the three virtually-created special stains in addition to H&E, a statistically significant diagnostic improvement was made over the use of H&E only. This virtual staining technique can be used to improve preliminary diagnoses while saving time and reducing costs.
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