All You Need is Color: Image Based Spatial Gene Expression Prediction Using Neural Stain Learning

نویسندگان

چکیده

“Is it possible to predict expression levels of different genes at a given spatial location in the routine histology image tumor section by modeling its stain absorption characteristics?” In this work, we propose “stain-aware” machine learning approach for prediction transcriptomic gene profiles using digital pathology Hematoxylin & Eosin (H&E) section. Unlike recent deep methods which are used prediction, our proposed termed Neural Stain Learning (NSL) explicitly models association characteristics tissue with patterns transcriptomics problem-specific deconvolution matrix an end-to-end manner. The method only 11 trainable weight parameters outperforms both classical regression cellular composition and morphological features as well methods. We have found that predictions from show higher correlations true values obtained through sequencing larger set comparison other approaches.

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ژورنال

عنوان ژورنال: Communications in computer and information science

سال: 2021

ISSN: ['1865-0937', '1865-0929']

DOI: https://doi.org/10.1007/978-3-030-93733-1_32