TORC：基于靶标导向的参考构建在scRNA-seq中进行监督细胞类型鉴定

IF 10.1 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genome Biology Pub Date : 2025-06-10 DOI:10.1186/s13059-025-03614-6

Xin Wei, Wenjing Ma, Zhijin Wu, Hao Wu

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引用次数: 0

摘要

细胞类型鉴定是单细胞RNA-seq （scRNA-seq）数据分析的关键步骤，监督方法因其准确性和效率而更受青睐。性能高度依赖于参考数据的质量，但目前还没有选择和构建参考数据的方法。我们开发了面向目标的参考构建（TORC），这是一种广泛适用的策略，用于在给定目标数据集的情况下构建参考数据，用于scRNA-seq监督细胞类型鉴定。TORC缓解了参考文献和目标文献在数据分布和细胞类型组成上的差异。模拟和真实数据分析的广泛基准测试表明，TORC在细胞类型识别方面有一致的改进。

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TORC: Target-Oriented Reference Construction for supervised cell-type identification in scRNA-seq

Cell-type identification is a crucial step in single cell RNA-seq (scRNA-seq) data analysis, for which supervised methods are preferred due to their accuracy and efficiency. Performance is highly dependent on the quality of the reference data, but there is no method for selecting and constructing reference data. We develop Target-Oriented Reference Construction (TORC), a widely applicable strategy for constructing reference data given a target dataset for scRNA-seq supervised cell-type identification. TORC alleviates the differences in data distribution and cell-type composition between reference and target. Extensive benchmarks on simulated and real data analyses demonstrate consistent improvements in cell-type identification from TORC.

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来源期刊

Genome Biology Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

21.00

自引率

3.30%

发文量

241

审稿时长

2 months

期刊介绍： Genome Biology stands as a premier platform for exceptional research across all domains of biology and biomedicine, explored through a genomic and post-genomic lens. With an impressive impact factor of 12.3 (2022),* the journal secures its position as the 3rd-ranked research journal in the Genetics and Heredity category and the 2nd-ranked research journal in the Biotechnology and Applied Microbiology category by Thomson Reuters. Notably, Genome Biology holds the distinction of being the highest-ranked open-access journal in this category. Our dedicated team of highly trained in-house Editors collaborates closely with our esteemed Editorial Board of international experts, ensuring the journal remains on the forefront of scientific advances and community standards. Regular engagement with researchers at conferences and institute visits underscores our commitment to staying abreast of the latest developments in the field.