Publication
Ratio-based quantitative multiomics profiling using universal reference materials empowers data integration
Publisher:
Cold Spring Harbor Laboratory
Date:
26-10-2022
DOI:
10.1101/2022.10.24.513612
Abstract: Multiomics profiling is a powerful tool to characterize the same s les with complementary features orchestrating the genome, epigenome, transcriptome, proteome, and metabolome. However, the lack of ground truth h ers the objective assessment of and subsequent choice from a plethora of measurement and computational methods aiming to integrate erse and often enigmatically incomparable omics datasets. Here we establish and characterize the first suites of publicly available multiomics reference materials of matched DNA, RNA, proteins, and metabolites derived from immortalized cell lines from a family quartet of parents and monozygotic twin daughters, providing built-in truth defined by family relationship and the central dogma. We demonstrate that the “ratio”-based omics profiling data, i.e ., by scaling the absolute feature values of a study s le relative to those of a concurrently measured universal reference s le, were inherently much more reproducible and comparable across batches, labs, platforms, and omics types, thus empower the horizontal (within-omics) and vertical (cross-omics) data integration in multiomics studies. Our study identifies “absolute” feature quantitation as the root cause of irreproducibility in multiomics measurement and data integration, and urges a paradigm shift from “absolute” to “ratio"-based multiomics profiling with universal reference materials.