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Single-cell multi-omics integration

Schematic of the different single-cell multi-omic integration strategies. Adapted from Adossa et al., 2021[1]

Single-cell multi-omics integration describes a suite of computational methods used to harmonize information from multiple "omes" to jointly analyze biological phenomena.[2][3][4][5] This approach allows researchers to discover intricate relationships between different chemical-physical modalities by drawing associations across various molecular layers simultaneously. Multi-omics integration approaches can be categorized into four broad categories: Early integration, intermediate integration, late integration methods.[6] Multi-omics integration can enhance experimental robustness by providing independent sources of evidence to address hypotheses, leveraging modality-specific strengths to compensate for another's weaknesses through imputation, and offering cell-type clustering and visualizations that are more aligned with reality[2][3]

  1. ^ Adossa, Nigatu; Khan, Sofia; Rytkönen, Kalle T.; Elo, Laura L. (2021). "Computational strategies for single-cell multi-omics integration". Computational and Structural Biotechnology Journal. 19: 2588–2596. doi:10.1016/j.csbj.2021.04.060. ISSN 2001-0370. PMC 8114078. PMID 34025945.
  2. ^ a b Miao, Zhen; Humphreys, Benjamin D; McMahon, Andrew P; Kim, Junhyong (2021). "Multi-omics integration in the age of million single-cell data". Nat Rev Nephrol. 17 (11): 710–724. doi:10.1038/s41581-021-00463-x. PMC 9191639. PMID 34417589.
  3. ^ a b Subramanian, Indhupriya (2020). "Multi-omics Data Integration, Interpretation, and Its Application". Bioinform Biol Insights. 14. doi:10.1177/1177932219899051. PMC 7003173. PMID 32076369.
  4. ^ Stuart, Tim; Sajita, Rahul (2019). "Integrative single-cell analysis". Nat Rev Genet. 20 (5): 257–272. doi:10.1038/s41576-019-0093-7. PMID 30696980. S2CID 59409752.
  5. ^ Li, Yunjin; Ma, Lu; Wu, Duojiao; Chen, Geng (2021). "Advances in bulk and single-cell multi-omics approaches for systems biology and precision medicine". Brief Bioinform. 22 (5). doi:10.1093/bib/bbab024. PMID 33778867.
  6. ^ Adossa, Nigatu; Khan, Sofia; Rytkönen, Kalle T; Elo, Laura L (2021). "Computational strategies for single-cell multi-omics integration". Comput Struct Biotechnol J. 19: 2588–2596. doi:10.1016/j.csbj.2021.04.060. PMC 8114078. PMID 34025945.

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