酵母物种染色体接触图谱的生成与分析

Generation and Analysis of Chromosomal Contact Maps of Yeast Species.

作者信息

Cournac Axel, Marbouty Martial, Mozziconacci Julien, Koszul Romain

机构信息

Institut Pasteur, Department Genomes and Genetics, Groupe Régulation Spatiale des Génomes, 75015, Paris, France.

CNRS, UMR 3525, 75015, Paris, France.

出版信息

Methods Mol Biol. 2016;1361:227-45. doi: 10.1007/978-1-4939-3079-1_13.

DOI:10.1007/978-1-4939-3079-1_13

PMID:26483025

Abstract

Genome-wide derivatives of the chromosome conformation capture (3C) technique are now well-established approaches to study the multiscale average organization of chromosomes from bacteria to mammals. However, the experimental parameters of the protocol have to be optimized for different species, and the downstream experimental products (i.e., pair-end sequences) are influenced by these parameters. Here, we describe a complete pipeline to generate 3C-seq libraries and compute chromosomal contact maps of yeast species.

摘要

全基因组染色体构象捕获（3C）技术的衍生技术，如今已成为研究从细菌到哺乳动物染色体多尺度平均组织的成熟方法。然而，该实验方案的实验参数必须针对不同物种进行优化，并且下游实验产物（即双端序列）会受到这些参数的影响。在此，我们描述了一个完整的流程，用于生成酵母物种的3C-seq文库并计算染色体接触图谱。