Network biology bridges the gaps between quantitative genetics and multi-omics to map complex diseases
Abstract
With advances in high-throughput sequencing technologies, quantitative genetics approaches have provided insights into genetic basis of many complex diseases. Emerging in-depth multi-omics profiling technologies have created exciting opportunities for systematically investigating intricate interaction networks with different layers of biological molecules underlying disease etiology. Herein, we summarized two main categories of biological networks: evidence-based and statistically inferred. These different types of molecular networks complement each other at both bulk and single-cell levels. We also review three main strategies to incorporate quantitative genetics results with multi-omics data by network analysis: (a) network propagation, (b) functional module-based methods, (c) comparative/dynamic networks. These strategies not only aid in elucidating molecular mechanisms of complex diseases but can guide the search for therapeutic targets.
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Low dimensional embeddings of EHR data can be generated by separately considering medical services, doctors, and patients in shallow network embeddings and graph neural networks.
“Low dimensional embeddings of EHR data can be generated by separately considering medical services, doctors, and patients in shallow network embeddings (Section 2.1) and graph neural networks (Section 2.2) [202, 203].”
From Graph representation learning in biomedicine and healthcare (2022) · cites this paper as [202]
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References 57 · Cited by 25
- Authors
- Wu, S., Chen, D., & Snyder, M. P.
- Affiliations
- Stanford Medicine (US)
- State Key Laboratory of Pharmaceutical Biotechnology (CN)
- Corresponding author
- Snyder, Michael P.
- Venue
- Current Opinion in Chemical Biology
- Publisher
- Elsevier BV
- Published
- 2022-02
- Volume
- 66
- Pages
- 102101
- ISSN
- 1367-5931 (ISSN-L)
- OpenAlex
- W3215020121
- Cited by
- 25
- References
- 57
- Citations by year
- 2026: 3 · 2025: 4 · 2024: 6 · 2023: 5 · 2022: 7
- FWCI
- 0.47
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- Locations
- Current Opinion in Chemical Biology (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Institutes of Health (1U2CCA233311-01, 5RM1HG00773508)
- Stanford University
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Biomedical Text Mining and Ontologies
- Keywords
- network biology, quantitative genetics, multi-omics integration, complex diseases, biological networks, network propagation, functional modules, dynamic networks, single-cell networks, therapeutic target discovery, etiology
- MeSH terms
- Computational Biology, Genomics, High-Throughput Nucleotide Sequencing
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