Software for segmenting and quantifying calcium signals using multi-scale generative adversarial networks

• Published in: STAR protocols 2022-12, Vol.3 (4), p.101852-101852, Article 101852
• Main Authors: Moghnieh, Hussein, Kamran, Sharif Amit, Hossain, Khondker Fariha, Kuol, Nyanbol, Riar, Sarah, Bartlett, Allison, Tavakkoli, Alireza, Baker, Salah A.
• Format: Article
• Language: English
• Subjects: Calcium; Cell Biology; Computer sciences; Image Processing, Computer-Assisted - methods; Machine Learning; Microscopy; Neural Networks, Computer; Protocol; Software
• ISSN: 2666-1667; 2666-1667
• DOI: 10.1016/j.xpro.2022.101852

Cellular calcium fluorescence imaging utilized to study cellular behaviors typically results in large datasets and a profound need for standardized and accurate analysis methods. Here, we describe open-source software (4SM) to overcome these limitations using an automated machine learning pipeline for subcellular calcium signal segmentation of spatiotemporal maps. The primary use of 4SM is to analyze spatiotemporal maps of calcium activities within cells or across multiple cells. For complete details on the use and execution of this protocol, please refer to Kamran et al. (2022).1 [Display omitted] •Software tool for dynamic cellular fluorescence signal analysis•Utilizes machine learning pipeline for signal segmentation•Generates highly precise subcellular segmentation of images•Provides an interactive and user-friendly interface for statistical analysis Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. Cellular calcium fluorescence imaging utilized to study cellular behaviors typically results in large datasets and a profound need for standardized and accurate analysis methods. Here, we describe open-source software (4SM) to overcome these limitations using an automated machine learning pipeline for subcellular calcium signal segmentation of spatiotemporal maps. The primary use of 4SM is to analyze spatiotemporal maps of calcium activities within cells or across multiple cells.