Ensemblex: an accuracy-weighted ensemble genetic demultiplexing framework for population-scale scRNAseq sample pooling

IF 10.1 1区 生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY
Michael R. Fiorini, Saeid Amiri, Allison A. Dilliott, Cristine M. Yde Ohki, Lukasz Smigielski, Susanne Walitza, Edward A. Fon, Edna Grünblatt, Rhalena A. Thomas, Sali M. K. Farhan
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引用次数: 0

Abstract

Multiplexing samples from distinct individuals prior to sequencing is a promising step towards achieving population-scale single-cell RNA sequencing by reducing the restrictive costs of the technology. Individual genetic demultiplexing tools resolve the donor-of-origin identity of pooled cells using natural genetic variation but present diminished accuracy on highly multiplexed experiments, impeding the analytic potential of the dataset. In response, we introduce Ensemblex: an accuracy-weighted, ensemble genetic demultiplexing framework that integrates four distinct algorithms to identify the most probable subject labels. Using computationally and experimentally pooled samples, we demonstrate Ensemblex’s superior accuracy and illustrate the implications of robust demultiplexing on biological analyses.
Ensemblex:用于种群规模scnaseq样本池的精度加权集成遗传解复用框架
在测序前对不同个体的样品进行多路复用是实现群体规模单细胞RNA测序的有希望的一步,因为它降低了该技术的限制性成本。单个遗传解复用工具使用自然遗传变异来解决混合细胞的供体来源身份,但在高度多路复用实验中存在准确性降低,阻碍了数据集的分析潜力。作为回应,我们引入了Ensemblex:一个精度加权的集成遗传解复用框架,集成了四种不同的算法来识别最可能的主题标签。使用计算和实验汇集的样本,我们证明了Ensemblex的卓越准确性,并说明了鲁棒解复用对生物分析的影响。
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来源期刊
Genome Biology
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.
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