Abstract
Integrative analysis of multi-omics data is a powerful approach for gaining functional insights into biological and medical processes. Conducting these multifaceted analyses on human samples is often complicated by the fact that the raw sequencing output is rarely available under open access. The Personal Genome Project UK (PGP-UK) is one of few resources that recruits its participants under open consent and makes the resulting multi-omics data freely and openly available. As part of this resource, we describe the PGP-UK multi-omics reference panel consisting of ten genomic, methylomic and transcriptomic data. Specifically, we outline the data processing, quality control and validation procedures which were implemented to ensure data integrity and exclude sample mix-ups. In addition, we provide a REST API to facilitate the download of the entire PGP-UK dataset. The data are also available from two cloud-based environments, providing platforms for free integrated analysis. In conclusion, the genotype-validated PGP-UK multi-omics human reference panel described here provides a valuable new open access resource for integrated analyses in support of personal and medical genomics.
Highlights
Background & SummaryThe Personal Genome Project UK (PGP-UK) is a member of the global PGP network together with the PGPs in the United States, Canada, Austria and China
We describe the PGP-UK multi-omics human reference panel derived from 10 participants
GemBS v. 3.2.1, FastQC v. 0.11.7 and Picard v. 2.18.23 tools were used in quality control of the PGP-UK whole-genome bisulfite sequencing (WGBS) and data QC reports were generated using MultiQC v. 1.5 software[17]
Summary
Background & SummaryThe Personal Genome Project UK (PGP-UK) is a member of the global PGP network together with the PGPs in the United States, Canada, Austria and China. Raw DNA methylation array data (IDAT files) for PGP-UK participants were submitted to the ArrayExpress repository with accession number E-MTAB-537715. The PGP-UK multi-omics reference panel is available in the Lifebit cloud through their Open Data project (opendata.lifebit.ai/table/pgp) along with interactive analyses (ancestry, phenotypic traits, genetic variance) and custom pipelines provided by Lifebit’s cloud-computing platform Deploit
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