少即是多：在基因组学中使用最小化器绘制草图

IF 10.1 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genome Biology Pub Date : 2024-10-14 DOI:10.1186/s13059-024-03414-4

Malick Ndiaye, Silvia Prieto-Baños, Lucy M. Fitzgerald, Ali Yazdizadeh Kharrazi, Sergey Oreshkov, Christophe Dessimoz, Fritz J. Sedlazeck, Natasha Glover, Sina Majidian

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引用次数: 0

摘要

测序数据的指数级增长要求在概念和计算方面取得进步，以提取有用的生物学见解。最小化器就是这样一种先进技术，它可以减少处理的数据量，同时保持数据的一些关键特性。我们提供了最小化器的基本介绍，涵盖了最近的方法论发展，并回顾了最小化器在分析基因组数据方面的各种应用，包括全新基因组组装、元基因组学、读取比对、读取校正和泛基因组。我们还介绍了其他数据勾画技术，包括通用命中集、同步器或strobemers。最小化器及其替代品已迅速成为处理海量数据不可或缺的工具。

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When less is more: sketching with minimizers in genomics

The exponential increase in sequencing data calls for conceptual and computational advances to extract useful biological insights. One such advance, minimizers, allows for reducing the quantity of data handled while maintaining some of its key properties. We provide a basic introduction to minimizers, cover recent methodological developments, and review the diverse applications of minimizers to analyze genomic data, including de novo genome assembly, metagenomics, read alignment, read correction, and pangenomes. We also touch on alternative data sketching techniques including universal hitting sets, syncmers, or strobemers. Minimizers and their alternatives have rapidly become indispensable tools for handling vast amounts of data.

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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.