Semantic Scholar Open Access 2022 84 sitasi

FISH-quant v2: a scalable and modular tool for smFISH image analysis

Arthur Imbert Ouyang Wei Adham Safieddine Emeline Coleno C. Zimmer +3 lainnya

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Abstrak

Regulation of RNA abundance and localization is a key step in gene expression control. Single-molecule RNA fluorescence in situ hybridization (smFISH) is a widely used single-cell-single-molecule imaging technique enabling quantitative studies of gene expression and its regulatory mechanisms. Today, these methods are applicable at a large scale, which in turn come with a need for adequate tools for data analysis and exploration. Here, we present FISH-quant v2, a highly modular tool accessible for both experts and non-experts. Our user-friendly package allows the user to segment nuclei and cells, detect isolated RNAs, decompose dense RNA clusters, quantify RNA localization patterns and visualize these results both at the single-cell level and variations within the cell population. This tool was validated and applied on large-scale smFISH image data sets, revealing diverse subcellular RNA localization patterns and a surprisingly high degree of cell-to-cell heterogeneity.

Topik & Kata Kunci

Medicine

Penulis (8)

Arthur Imbert

Ouyang Wei

Adham Safieddine

Emeline Coleno

C. Zimmer

E. Bertrand

Thomas Walter

F. Mueller

Format Sitasi

APA MLA BibTeX

Imbert, A., Wei, O., Safieddine, A., Coleno, E., Zimmer, C., Bertrand, E. et al. (2022). FISH-quant v2: a scalable and modular tool for smFISH image analysis. https://doi.org/10.1261/rna.079073.121

Akses Cepat

Lihat di Sumber doi.org/10.1261/rna.079073.121

Informasi Jurnal

Tahun Terbit: 2022
Bahasa: en
Total Sitasi: 84×
Sumber Database: Semantic Scholar
DOI: 10.1261/rna.079073.121
Akses: Open Access ✓