Single-cell spatial explorer: easy exploration of spatial and multimodal transcriptomics

BACKGROUND: The development of single-cell technologies yields large datasets of information as diverse and multimodal as transcriptomes, immunophenotypes, and spatial position from tissue sections in the so-called ’spatial transcriptomics’. Currently however, user-friendly, powerful, and free algor...

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Detalles Bibliográficos
Autores principales: Pont, Frédéric, Cerapio, Juan Pablo, Gravelle, Pauline, Ligat, Laetitia, Valle, Carine, Sarot, Emeline, Perrier, Marion, Lopez, Frédéric, Laurent, Camille, Fournié, Jean Jacques, Tosolini, Marie
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9881287/
https://www.ncbi.nlm.nih.gov/pubmed/36707753
http://dx.doi.org/10.1186/s12859-023-05150-1
Descripción
Sumario:BACKGROUND: The development of single-cell technologies yields large datasets of information as diverse and multimodal as transcriptomes, immunophenotypes, and spatial position from tissue sections in the so-called ’spatial transcriptomics’. Currently however, user-friendly, powerful, and free algorithmic tools for straightforward analysis of spatial transcriptomic datasets are scarce. RESULTS: Here, we introduce Single-Cell Spatial Explorer, an open-source software for multimodal exploration of spatial transcriptomics, examplified with 9 human and murine tissues datasets from 4 different technologies. CONCLUSIONS: Single-Cell Spatial Explorer is a very powerful, versatile, and interoperable tool for spatial transcriptomics analysis.

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