转座子插入测序实验的设计与分析
The design and analysis of transposon insertion sequencing experiments.
作者信息
Chao Michael C, Abel Sören, Davis Brigid M, Waldor Matthew K
机构信息
Department of Microbiology and Immunobiology, Harvard Medical School, Boston, Massachusetts 02115, USA; the Division of Infectious Disease, Brigham and Women's Hospital, Boston, Massachusetts 02115, USA; and the Howard Hughes Medical Institute, Boston, Massachusetts 02115, USA.
Department of Pharmacy, University of Tromsø, The Arctic University of Norway, 9019 Tromsø, Norway.
出版信息
Nat Rev Microbiol. 2016 Feb;14(2):119-28. doi: 10.1038/nrmicro.2015.7.
Abstract
Transposon insertion sequencing (TIS) is a powerful approach that can be extensively applied to the genome-wide definition of loci that are required for bacterial growth under diverse conditions. However, experimental design choices and stochastic biological processes can heavily influence the results of TIS experiments and affect downstream statistical analysis. In this Opinion article, we discuss TIS experimental parameters and how these factors relate to the benefits and limitations of the various statistical frameworks that can be applied to the computational analysis of TIS data.
摘要
转座子插入测序（TIS）是一种强大的方法，可广泛应用于全基因组范围内定义在不同条件下细菌生长所需的基因座。然而，实验设计选择和随机生物学过程会严重影响TIS实验的结果，并影响下游的统计分析。在这篇观点文章中，我们讨论了TIS实验参数，以及这些因素如何与可应用于TIS数据计算分析的各种统计框架的优缺点相关。
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