MultiomicsTracks96: A high throughput PIXUL-Matrix-based toolbox to profile frozen and FFPE tissues multiomes

Area of Science:

• Genomics and Molecular Biology
• Biotechnology and Bioengineering

Background:

• Vast biospecimen repositories from freezing and FFPE storage are underutilized for multi-omics due to low-throughput technologies.
• Developing high-throughput methods is crucial for large-scale multi-omic analyses of stored tissues.

Approach:

• The MultiomicsTracks96 workflow integrates tissue sampling, preparation, and multi-omics analysis into a 96-well format.
• It utilizes specialized equipment for efficient extraction and analysis of DNA, RNA, chromatin, and proteins.
• The workflow supports various assays including ChIP, MeDIP, MeRIP, and LC-MS/MS, coupled with advanced computational analysis.

Key Points:

• MultiomicsTracks96 generates 8-dimensional datasets (mRNA, m6A, m5C, H3K27Ac, H3K4m3, Pol II, 5mC, proteins) from both frozen and FFPE samples.
• High correlation was observed between data from matched frozen and FFPE organs.
• The Segway algorithm accurately identified organ-specific super-enhancers, and multi-omics data improved protein expression prediction compared to individual omics layers.

Conclusions:

• The MultiomicsTracks96 workflow facilitates high-dimensional multi-omics studies using existing biospecimen repositories.
• It is suitable for diverse applications including disease modeling, toxicity studies, and large-scale clinical investigations.
• This approach significantly enhances the utility of archived tissues for comprehensive molecular profiling.