Deep learning-based transformation of H&E stained tissues into special stains

Kevin Haan, Yijie Zhang, Jonathan E. Zuckerman, Tairan Liu, Anthony E. Sisk, Miguel F. P. Diaz, Kuang-Yu Jen, Alexander Nobori, Sofia Liou, Sarah Zhang, Rana Riahi, Yair Rivenson (), W. Dean Wallace () and Aydogan Ozcan ()
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Kevin Haan: University of California
Yijie Zhang: University of California
Jonathan E. Zuckerman: University of California, Los Angeles
Tairan Liu: University of California
Anthony E. Sisk: University of California, Los Angeles
Miguel F. P. Diaz: Department of Pathology
Kuang-Yu Jen: University of California at Davis
Alexander Nobori: University of California, Los Angeles
Sofia Liou: University of California, Los Angeles
Sarah Zhang: University of California, Los Angeles
Rana Riahi: University of California, Los Angeles
Yair Rivenson: University of California
W. Dean Wallace: Keck School of Medicine of USC
Aydogan Ozcan: University of California

Nature Communications, 2021, vol. 12, issue 1, 1-13

Abstract: Abstract Pathology is practiced by visual inspection of histochemically stained tissue slides. While the hematoxylin and eosin (H&E) stain is most commonly used, special stains can provide additional contrast to different tissue components. Here, we demonstrate the utility of supervised learning-based computational stain transformation from H&E to special stains (Masson’s Trichrome, periodic acid-Schiff and Jones silver stain) using kidney needle core biopsy tissue sections. Based on the evaluation by three renal pathologists, followed by adjudication by a fourth pathologist, we show that the generation of virtual special stains from existing H&E images improves the diagnosis of several non-neoplastic kidney diseases, sampled from 58 unique subjects (P = 0.0095). A second study found that the quality of the computationally generated special stains was statistically equivalent to those which were histochemically stained. This stain-to-stain transformation framework can improve preliminary diagnoses when additional special stains are needed, also providing significant savings in time and cost.

Date: 2021
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Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-25221-2

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DOI: 10.1038/s41467-021-25221-2

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