Domain Adapted Multi-task Learning For Segmenting Amoeboid Cells in Microscopy - Institut Pasteur Access content directly
Journal Articles IEEE Transactions on Medical Imaging Year : 2022

Domain Adapted Multi-task Learning For Segmenting Amoeboid Cells in Microscopy

Abstract

The method proposed in this paper is a robust combination of multi-task learning and unsupervised domain adaptation for segmenting amoeboid cells in microscopy. A highlight of this work is the manner in which the model’s hyperparameters are estimated. The detriments of ad-hoc parameter estimation are well known, but this issue remains largely unaddressed in the context of CNN-based segmentation. Using a novel min-max formulation of the segmentation cost function our proposed method analytically estimates the model’s hyperparameters, while simultaneously learning the CNN weights during training. This end-to-end framework provides a consolidated mechanism to harness the potential of multi-task learning to isolate and segment clustered cells from low contrast brightfield images, and it simultaneously leverages deep domain adaptation to segment fluorescent cells without explicit pixel-level re-annotation of the data. Experimental validations on multi-cellular images strongly suggest the effectiveness of the proposed technique, and our quantitative results show at least 15% and 10% improvement in cell segmentation on brightfield and fluorescence images respectively compared to contemporary supervised segmentation methods.
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Dates and versions

pasteur-03812027 , version 1 (12-10-2022)

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Cite

Suvadip Mukherjee, Rituparna Sarkar, Maria Manich, Elisabeth Labruyere, Jean-Christophe Olivo-Marin. Domain Adapted Multi-task Learning For Segmenting Amoeboid Cells in Microscopy. IEEE Transactions on Medical Imaging, 2022, pp.1-1. ⟨10.1109/TMI.2022.3203022⟩. ⟨pasteur-03812027⟩
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