The next-generation sequencing-chess problem.

IF 4 Q1 GENETICS & HEREDITY NAR Genomics and Bioinformatics Pub Date : 2024-10-24 eCollection Date: 2024-09-01 DOI:10.1093/nargab/lqae144
Leo Zeitler, Arach Goldar, Cyril Denby Wilkes, Julie Soutourina
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Abstract

The development of next-generation sequencing (NGS) technologies paved the way for studying the spatiotemporal coordination of cellular processes along the genome. However, data sets are commonly limited to a few time points, and missing information needs to be interpolated. Most models assume that the studied dynamics are similar between individual cells, so that a homogeneous cell culture can be represented by a population-wide average. Here, we demonstrate that this understanding can be inappropriate. We developed a thought experiment-which we call the NGS chess problem-in which we compare the temporal sequencing data analysis to observing a superimposed picture of many independent games of chess at a time. The analysis of the spatiotemporal kinetics advocates for a new methodology that considers DNA-particle interactions in each cell independently even for a homogeneous cell population.

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下一代测序-国际象棋问题。
新一代测序(NGS)技术的发展为沿基因组研究细胞过程的时空协调铺平了道路。然而,数据集通常仅限于几个时间点,缺失的信息需要内插。大多数模型假定单个细胞之间的研究动态相似,因此同种细胞培养可以用全群体平均值来表示。在这里,我们证明了这种理解可能是不恰当的。我们开发了一个思想实验--我们称之为 NGS 国际象棋问题--将时序测序数据分析比作同时观察多盘独立国际象棋的叠加画面。对时空动力学的分析主张采用一种新方法,即使是在同质细胞群中,也要独立考虑每个细胞中 DNA 粒子之间的相互作用。
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来源期刊
CiteScore
8.00
自引率
2.20%
发文量
95
审稿时长
15 weeks
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