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

被引：4
|
作者：
Pont, Frederic [1 ,2 ,3 ]
Cerapio, Juan Pablo [1 ,2 ,3 ]
Gravelle, Pauline [1 ,2 ,3 ]
Ligat, Laetitia [1 ,2 ,3 ]
Valle, Carine [1 ,2 ,3 ]
Sarot, Emeline [1 ,2 ,3 ]
Perrier, Marion [1 ,2 ,3 ]
Lopez, Frederic [1 ,2 ,3 ]
Laurent, Camille [1 ,2 ,3 ]
Fournie, Jean Jacques [1 ,2 ,3 ]
Tosolini, Marie [1 ,2 ,3 ]
机构：
[1] Univ Toulouse III Paul Sabatier, Univ Toulouse, Ctr Rech Cancerol Toulouse, CRCT,CNRS,INSERM, Toulouse, France
[2] IUCT Oncopole, Toulouse, France
[3] TOUCAN, Lab Excellence Toulouse Canc, Toulouse, France
来源：
BMC BIOINFORMATICS | 2023年 / 24卷 / 01期
关键词：
Spatial transcriptomics; Single-cell; Multimodal analysis; Visualization; Open-source; Freeware; BOP GENE-CLUSTER; PROTEIN; PREDICTION; EXPRESSION; DIVERSITY;
D O I：
10.1186/s12859-023-05150-1
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
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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收藏
页数：12
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