Applied Molecular-Based Quality Control of Biobanked Samples for Multi-Omics Approach

SIMPLE SUMMARY: This study highlights the significance of quality assurance in biobanking facilities, specifically in the context of high-throughput research and novel molecular techniques. We established specific quality management workflows utilizing biospecimens collected from oncological patients in Polish clinics. The process for serum/plasma samples involved essential steps, such as monitoring hemolysis, controlling RNA extraction, assessing cDNA library quality and quantity, and evaluating NGS raw data before bioinformatics analysis. Pathologic evaluation of fresh frozen tissue samples was conducted to verify histological images and determine tumor content. Consequently, we developed workflows for preanalytical quality control of serum/plasma and fresh-frozen tissue samples, which can be tailored to individual biobank capabilities. These integrated molecular-based quality control methods ensure that biobanking procedures fulfill the requirements of high-throughput assays, offering access to biospecimens of confirmed omics-grade quality. We strongly recommend implementing these workflows for specimen qualification before conducting multi-omics assays, as they exhibit exceptional sensitivity and specificity. ABSTRACT: Biobanks are vital for high-throughput translational research, but the rapid development of novel molecular techniques, especially in omics assays, poses challenges to traditional practices and recommendations. In our study, we used biospecimens from oncological patients in Polish clinics and collaborated with the Indivumed Group. For serum/plasma samples, we monitored hemolysis, controlled RNA extraction, assessed cDNA library quality and quantity, and verified NGS raw data. Tissue samples underwent pathologic evaluation to confirm histology and determine tumor content. Molecular quality control measures included evaluating the RNA integrity number, assessing cDNA library quality and quantity, and analyzing NGS raw data. Our study yielded the creation of distinct workflows for conducting preanalytical quality control of serum/plasma and fresh-frozen tissue samples. These workflows offer customization options to suit the capabilities of different biobanking entities. In order to ensure the appropriateness of biospecimens for advanced research applications, we introduced molecular-based quality control methods that align with the demands of high-throughput assays. The novelty of proposed workflows, rooted in innovative molecular techniques, lies in the integration of these QC methods into a comprehensive schema specifically designed for high-throughput research applications.