YOUPI: Your powerful and intelligent tool for segmenting cells from imaging mass cytometry data

Frontiers in Immunology

Immunology

Patrice Hemon¹  Marion Le Rochais¹  Nathan Foulquier¹  Yvonne Scuiller¹  Jacques-Olivier Pers²  Christophe Jamin² 

[1] LBAI, UMR 1227, Univ Brest, Inserm, Brest, France;LBAI, UMR 1227, Univ Brest, Inserm, Brest, France;CHU de Brest, Brest, France;

关键词: imaging mass cytometry;    cell segmentation;    images;    U-NET;    new algorithm;   

DOI  :  10.3389/fimmu.2023.1072118

 received in 2022-10-18, accepted in 2023-02-13,  发布年份 2023

来源: Frontiers

【 摘 要 】

The recent emergence of imaging mass cytometry technology has led to the generation of an increasing amount of high-dimensional data and, with it, the need for suitable performant bioinformatics tools dedicated to specific multiparametric studies. The first and most important step in treating the acquired images is the ability to perform highly efficient cell segmentation for subsequent analyses. In this context, we developed YOUPI (Your Powerful and Intelligent tool) software. It combines advanced segmentation techniques based on deep learning algorithms with a friendly graphical user interface for non-bioinformatics users. In this article, we present the segmentation algorithm developed for YOUPI. We have set a benchmark with mathematics-based segmentation approaches to estimate its robustness in segmenting different tissue biopsies.

【 授权许可】

Unknown   
Copyright © 2023 Scuiller, Hemon, Le Rochais, Pers, Jamin and Foulquier