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这篇博客整理了生物信息学中关于高阶关系的研究论文，涵盖了多位点上位相互作用、全基因组关联研究中的高阶相互作用、微生物间相互作用等多个主题。通过对这些论文的探讨，揭示了复杂疾病、基因组学和微生物群落中高阶关系的重要性。
生物信息中High-Order高阶关系研究论文集锦（1）
- 1. A General Model for Multilocus Epistatic Interactions in Case-Control Studies
- 2. Detecting purely epistatic multi-locus interactions by an omnibus permutation test on ensembles of two-locus analyses
- 3. Forward LASSO analysis for high-order interactions in genome-wide association study
- 4. Methods for Identifying SNP Interactions: A Review on Variations of Logic Regression, Random Forest and Bayesian Logistic Regression
- 5. Inferring combinatorial association logic networks in multimodal genome-wide screens
- 6. Travelling the world of gene-gene interactions
- 7. A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites
- 8. Adaptive rewiring aggravates the effects of species loss in ecosystems
- 9. The ecology of human microbiota: dynamics and diversity in health and disease
- 10. ARE DISCOVERIES SPURIOUS? DISTRIBUTIONS OF MAXIMUM SPURIOUS CORRELATIONS AND THEIR APPLICATIONS
- 11. Beyond pairwise mechanisms of species coexistence in complex communities
- 12. Challenges in microbial ecology: building predictive understanding of community function and dynamics
- 13. Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome
- 14. Composite measurements and molecular compressed sensing for highly efficient transcriptomics
- 15. Convergence in Multispecies Interactions
- 16. Co-occurring soil bacteria exhibit a robust competitive hierarchy and lack of non-transitive interactions
- 17. Deciphering microbial interactions in synthetic human gut microbiome communities
- 18. Detecting high-order interactions of single nucleotide polymorphisms using genetic programming
- 19. Discovery of Reactive Microbiota-Derived Metabolites that Inhibit Host Proteases
- 20. Disentangling Interactions in the Microbiome: A Network Perspective
- 21. Disentangling the co-structure of multilayer interaction networks: degree distribution and module composition in two-layer bipartite networks
- 22. Diversity of Interaction Types and Ecological Community Stability
- 23. Ecological systems biology: The dynamics of interacting populations
- 24. Efficient measurement and factorization of high-order drug interactions in Mycobacterium tuberculosis
- 25. Evolutionary stability of antibiotic protection in a defensive symbiosis
- 26. Exploring and Understanding the Biochemical Diversity of the Human Microbiota.
- 27. Exploring the interaction patterns among taxa and environments from marine metagenomic data
- 28. Finding the Missing Links among Metabolites, Microbes, and the Host
- 29. Fundamental limits on dynamic inference from single-cell snapshots
- 30. Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota
1. A General Model for Multilocus Epistatic Interactions in Case-Control Studies
- 病例对照研究中多位点上位相互作用的一个一般模型
Abstract: Background: Epistasis, i.e., the interaction of alleles at different loci, is thought to play a central role in the formation and progression of complex diseases. The complexity of disease expression should arise from a complex network of epistatic interactions involving multiple genes. Methodology: We develop a general model for testing high-order epistatic interactions for a complex disease in a case-control study. We incorporate the quantitative genetic theory of high-order epistasis into the setting of cases and controls sampled from a na
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