The Quartet Data Portal: integration of community-wide resources for multiomics quality control

Jingcheng Yang; Yaqing Liu; Jun Shang; Qiaochu Chen; Qingwang Chen; Luyao Ren; Naixin Zhang; Ying Yu; Zhihui Li; Yueqiang Song; Shengpeng Yang; Andreas Scherer; Weida Tong; Huixiao Hong; Wenming Xiao; Leming Shi; Yuanting Zheng

doi:10.1186/s13059-023-03091-9

The Quartet Data Portal: integration of community-wide resources for multiomics quality control

Genome Biol. 2023 Oct 26;24(1):245. doi: 10.1186/s13059-023-03091-9.

Authors

Jingcheng Yang^#^{1

2}, Yaqing Liu^#¹, Jun Shang^#¹, Qiaochu Chen¹, Qingwang Chen¹, Luyao Ren¹, Naixin Zhang¹, Ying Yu¹, Zhihui Li¹, Yueqiang Song¹, Shengpeng Yang³, Andreas Scherer^{4

5}, Weida Tong⁶, Huixiao Hong⁶, Wenming Xiao⁷, Leming Shi^{8

9}, Yuanting Zheng¹⁰

Affiliations

¹ State Key Laboratory of Genetic Engineering, School of Life Sciences, Human Phenome Institute and Shanghai Cancer Center, Fudan University, Shanghai, China.
² Greater Bay Area Institute of Precision Medicine, Guangzhou, Guangdong, China.
³ Intelligent Storage, Alibaba Cloud, Alibaba Group, Hangzhou, Zhejiang, China.
⁴ Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland.
⁵ EATRIS ERIC-European Infrastructure for Translational Medicine, Amsterdam, the Netherlands.
⁶ Division of Bioinformatics and Biostatistics, National Center for Toxicological Research, US Food and Drug Administration, Jefferson, AR, USA.
⁷ Office of Oncological Diseases, Office of New Drugs, Center for Drug Evaluation and Research, US Food and Drug Administration, Silver Spring, MD, USA.
⁸ State Key Laboratory of Genetic Engineering, School of Life Sciences, Human Phenome Institute and Shanghai Cancer Center, Fudan University, Shanghai, China. lemingshi@fudan.edu.cn.
⁹ International Human Phenome Institutes (Shanghai), Shanghai, China. lemingshi@fudan.edu.cn.
¹⁰ State Key Laboratory of Genetic Engineering, School of Life Sciences, Human Phenome Institute and Shanghai Cancer Center, Fudan University, Shanghai, China. zhengyuanting@fudan.edu.cn.

^# Contributed equally.

Abstract

The Quartet Data Portal facilitates community access to well-characterized reference materials, reference datasets, and related resources established based on a family of four individuals with identical twins from the Quartet Project. Users can request DNA, RNA, protein, and metabolite reference materials, as well as datasets generated across omics, platforms, labs, protocols, and batches. Reproducible analysis tools allow for objective performance assessment of user-submitted data, while interactive visualization tools support rapid exploration of reference datasets. A closed-loop "distribution-collection-evaluation-integration" workflow enables updates and integration of community-contributed multiomics data. Ultimately, this portal helps promote the advancement of reference datasets and multiomics quality control.

Keywords: Evolving technologies; Interactive visualization; Multiomics; Performance evaluation; Quality control; Quartet Data Portal; Quartet Project; Reference datasets; Reference materials; Reproducibility.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Humans
Multiomics*
Quality Control
Software*