使用Complete Genomics的标准和长片段读取技术对BT-474进行全基因组序列分析。

Whole genome sequence analysis of BT-474 using complete Genomics' standard and long fragment read technologies.

作者信息

Ciotlos Serban, Mao Qing, Zhang Rebecca Yu, Li Zhenyu, Chin Robert, Gulbahce Natali, Liu Sophie Jia, Drmanac Radoje, Peters Brock A

机构信息

Complete Genomics, Inc., 2071 Stierlin Court, Mountain View, CA 94043 USA.

BGI-Shenzhen, Shenzhen, 518083 China.

出版信息

Gigascience. 2016 Feb 9;5:8. doi: 10.1186/s13742-016-0113-x. eCollection 2016.

DOI:10.1186/s13742-016-0113-x

PMID:26865974

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4748558/

Abstract

BACKGROUND

The cell line BT-474 is a popular cell line for studying the biology of cancer and developing novel drugs. However, there is no complete, published genome sequence for this highly utilized scientific resource. In this study we sought to provide a comprehensive and useful data set for the scientific community by generating a whole genome sequence for BT-474.

FINDINGS

Five μg of genomic DNA, isolated from an early passage of the BT-474 cell line, was used to generate a whole genome sequence (114X coverage) using Complete Genomics' standard sequencing process. To provide additional variant phasing and structural variation data we also processed and analyzed two separate libraries of 5 and 6 individual cells to depths of 99X and 87X, respectively, using Complete Genomics' Long Fragment Read (LFR) technology.

CONCLUSIONS

BT-474 is a highly aneuploid cell line with an extremely complex genome sequence. This ~300X total coverage genome sequence provides a more complete understanding of this highly utilized cell line at the genomic level.

摘要

背景

BT-474细胞系是研究癌症生物学和开发新药的常用细胞系。然而，对于这种高度利用的科学资源，尚无完整的、已发表的基因组序列。在本研究中，我们试图通过生成BT-474的全基因组序列，为科学界提供一个全面且有用的数据集。

研究结果

从BT-474细胞系的早期传代培养物中分离出5μg基因组DNA，使用Complete Genomics公司的标准测序流程生成全基因组序列（覆盖度为114倍）。为了提供额外的变异定相和结构变异数据，我们还分别使用Complete Genomics公司的长片段读取（LFR）技术，对5个和6个单细胞的两个独立文库进行了处理和分析，深度分别为99倍和87倍。