Antinuclear Antibody (ANA) testing is pivotal to help diagnose patients with a suspected autoimmune disease. The Indirect Immunofluorescence (IIF) microscopy performed with human epithelial type 2 (HEp-2) cells as the substrate is the reference method for ANA screening. It allows for the detection of antibodies binding to specific intracellular targets, resulting in various staining patterns that should be identified for diagnosis purposes. In recent years, there has been an increasing interest in devising deep learning methods for automated cell segmentation and classification of staining patterns, as well as for other tasks related to this diagnostic technique (such as intensity classification). However, little attention has been devoted to architectures aimed at simultaneously managing multiple interrelated tasks, via a shared representation. In this paper, we propose a deep neural network model that extends U-Net in a Multi-Task Learning (MTL) fashion, thus offering an end-to-end approach to tackle three fundamental tasks of the diagnostic procedure, i.e., HEp-2 cell specimen intensity classification, specimen segmentation, and pattern classification. The experiments were conducted on one of the largest publicly available datasets of HEp-2 images. The results showed that the proposed approach significantly outperformed the competing state-of-the-art methods for all the considered tasks.
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