Quartet RNA reference materials improve the quality of transcriptomic data through ratio-based profiling
-
Published:2023-09-07
Issue:
Volume:
Page:
-
ISSN:1087-0156
-
Container-title:Nature Biotechnology
-
language:en
-
Short-container-title:Nat Biotechnol
Author:
Yu YingORCID, Hou Wanwan, Liu YaqingORCID, Wang Haiyan, Dong Lianhua, Mai Yuanbang, Chen QingwangORCID, Li Zhihui, Sun Shanyue, Yang Jingcheng, Cao Zehui, Zhang Peipei, Zi Yi, Liu Ruimei, Gao Jian, Zhang Naixin, Li JingjingORCID, Ren Luyao, Jiang HeORCID, Shang JunORCID, Zhu Sibo, Wang Xiaolin, Qing Tao, Bao Ding, Li Bingying, Li Bin, Suo Chen, Pi Yan, Wang Xia, Dai Fangping, Scherer AndreasORCID, Mattila Pirkko, Han Jinxiong, Zhang Lijun, Jiang Hui, Thierry-Mieg DanielleORCID, Thierry-Mieg JeanORCID, Xiao WenmingORCID, Hong HuixiaoORCID, Tong WeidaORCID, Wang Jing, Li Jinming, Fang Xiang, Jin LiORCID, Xu JoshuaORCID, Qian FengORCID, Zhang RuiORCID, Shi LemingORCID, Zheng YuantingORCID
Abstract
AbstractCertified RNA reference materials are indispensable for assessing the reliability of RNA sequencing to detect intrinsically small biological differences in clinical settings, such as molecular subtyping of diseases. As part of the Quartet Project for quality control and data integration of multi-omics profiling, we established four RNA reference materials derived from immortalized B-lymphoblastoid cell lines from four members of a monozygotic twin family. Additionally, we constructed ratio-based transcriptome-wide reference datasets between two samples, providing cross-platform and cross-laboratory ‘ground truth’. Investigation of the intrinsically subtle biological differences among the Quartet samples enables sensitive assessment of cross-batch integration of transcriptomic measurements at the ratio level. The Quartet RNA reference materials, combined with the ratio-based reference datasets, can serve as unique resources for assessing and improving the quality of transcriptomic data in clinical and biological settings.
Publisher
Springer Science and Business Media LLC
Subject
Biomedical Engineering,Molecular Medicine,Applied Microbiology and Biotechnology,Bioengineering,Biotechnology
Reference83 articles.
1. Stark, R., Grzelak, M. & Hadfield, J. RNA sequencing: the teenage years. Nat. Rev. Genet. 20, 631–656 (2019). 2. Marco-Puche, G., Lois, S., Benitez, J. & Trivino, J. C. RNA-Seq perspectives to improve clinical diagnosis. Front. Genet. 10, 1152 (2019). 3. Byron, S. A., Van Keuren-Jensen, K. R., Engelthaler, D. M., Carpten, J. D. & Craig, D. W. Translating RNA sequencing into clinical diagnostics: opportunities and challenges. Nat. Rev. Genet. 17, 257–271 (2016). 4. Conesa, A. et al. A survey of best practices for RNA-seq data analysis. Genome Biol. 17, 13 (2016). 5. Peymani, F., Farzeen, A. & Prokisch, H. RNA sequencing role and application in clinical diagnostic. Pediatr. Investig. 6, 29–35 (2022).
Cited by
7 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献
|
|