Kang Xiaolong, Liu Shuli, Fang Lingzhao, Lin Shudai, Liu Mei, Baldwin Ransom L, Liu George E, Li Cong-Jun
Animal Genomics and Improvement Laboratory, BARC, Agricultural Research Service, USDA, Beltsville, MD 20705, USA.
College of Agriculture, Ningxia University, Yinchuan 750021, China.
Data Brief. 2019 Dec 12;28:104983. doi: 10.1016/j.dib.2019.104983. eCollection 2020 Feb.
Discovering the regulatory elements of genomes in livestock is essential for our understanding of livestock's basic biology and genomic improvement programs. Previous studies showed butyrate mediates epigenetic modifications of bovine cells. To explore the bovine functional genomic elements and the vital roles of butyrate on the epigenetic modifications of bovine genomic activities, we generated and deposited the genome-wide datasets of transcript factor binding sites of CTCF (CCCTC-binding factor, insulator binding protein), histone methylation (H3H27me3, H3K4me1, H3K4me3) and histone acetylation (H3K27ac) from bovine rumen epithelial primary cells (REPC) before and after butyrate treatment (doi: 10.1186/s12915-019-0687-8 [1]). In this dataset, we provide detailed information on experiment design, data generation, data quality assessment and guideline for data re-use. Our data will be a valuable resource for systematic annotation of regulatory elements in cattle and the functionally biological role of butyrate in the epigenetic modifications in bovine, as well as for the nutritional regulation and metabolism study of farm animal and human.
发现家畜基因组的调控元件对于我们理解家畜的基础生物学和基因组改良计划至关重要。先前的研究表明丁酸盐介导牛细胞的表观遗传修饰。为了探索牛功能基因组元件以及丁酸盐对牛基因组活动表观遗传修饰的重要作用，我们生成并存储了来自丁酸盐处理前后牛瘤胃上皮原代细胞（REPC）的CTCF（CCCTC结合因子，绝缘子结合蛋白）转录因子结合位点、组蛋白甲基化（H3H27me3、H3K4me1、H3K4me3）和组蛋白乙酰化（H3K27ac）的全基因组数据集（doi: 10.1186/s12915-019-0687-8 [1]）。在这个数据集中，我们提供了关于实验设计、数据生成、数据质量评估和数据再利用指南的详细信息。我们的数据将成为系统注释牛调控元件以及丁酸盐在牛表观遗传修饰中的功能生物学作用的宝贵资源，也将为农场动物和人类的营养调控与代谢研究提供帮助。
