# Recent Web Platforms for Multi-Omics Integration Unlocking Biological Complexity
## 2 Methods
### Platforms for High-Throughput and Spatial Multi-Omics Integration
#### 2.3.3 Single-Platform Multi-Omic Profiling: Concurrent Proteomics and Metabolomics Integration  
Another approach within high-throughput multi-omics is the Single-Platform Multi-Omic Profiling system, which represents an advancement in integrating proteomics and metabolomics on a unified mass spectrometry platform. Traditionally, proteomics and metabolomics required separate workflows, often resulting in increased variability and larger sample requirements. The Single-Platform Multi-Omic Profiling system reduces variability by combining metabolomics and proteomics in a single workflow [26]. Its high-resolution mass spectrometry has been applied to identify biomarkers in rare disease research. However, its focus on mass spectrometry limits its integration with other omics types, such as epigenomics or transcriptomics.  
At the core of this platform is high-resolution nano-LC-MS (liquid chromatography-mass spectrometry) technology, providing high sensitivity for concurrent measurements across proteomic and metabolomic layers. This setup enables researchers to map protein and metabolite levels in parallel, offering improved insight into real-time cellular dynamics and pathway interactions. This increased sensitivity is particularly beneficial for studying diseases where molecular information at multiple biological levels is critical, such as rare diseases and cancer.  
The Single-Platform Multi-Omic Profiling system further supports robust data processing workflows, including normalization, alignment, and multi-omics data fusion, which are crucial for managing complex datasets. By aligning proteomic and metabolomic data, researchers can explore interactions between metabolic pathways and protein expression changes, revealing novel insights into disease mechanisms.  
2.3.4 CHOmics: Optimizing CHO Cells for Biopharmaceutical Production Through Multi-Omics Integration  
Moving from a broad multi-omics focus to a more specialized application, CHOmics addresses the unique challenges in optimizing Chinese Hamster Ovary (CHO) cells for biopharmaceutical production. CHOmics is a specialized multi-omics platform designed to integrate genomics, transcriptomics, proteomics, and metabolomics data for the optimization of Chinese Hamster Ovary (CHO) cells, which are widely used in the biopharmaceutical industry for the production of therapeutic proteins. The platform aims to provide insights into the molecular mechanisms that govern CHO cell behavior, helping the improvement of the efficiency and yield of protein production [27]. CHO cells are a cornerstone of biological drug production, and CHOmics facilitates the integration of multi-omics data to optimizecellular processes, such as gene expression regulation, protein synthesis, and metabolic pathways. By analyzing data across multiple omics layers, CHOmics helps identify significant genetic and molecular factors that can be modified to enhance cell growth, stability, and protein yield.  
The platform provides tools for pathway analysis, gene regulatory network exploration, and metabolic optimization, allowing a comprehensive understanding of how different molecular layers interact in CHO cells. This is crucial for fine-tuning cellular processes and optimizing production outcomes in high-throughput industrial settings. While CHOmics offers extensive benefits for the biotechnology industry, its applicability remains more limited for broader multi-omics studies. CHOmics, additionally, provides extensive tutorials, pre-configured pipelines, and interactive visualizations, enabling researchers to become proficient relatively quickly. These resources, combined with web-based deployment and community engagement opportunities, ensure accessibility for interdisciplinary teams with varying computational expertise.