# Enhancing Omics Analyses Through Coalitional Games and Shapley Values

**Authors:** Eva Vargas, Inés de la Torre, Francisco J. Esteban

PMC · DOI: 10.3390/mps9010025 · Methods and Protocols · 2026-02-12

## TL;DR

This paper introduces a game theory approach to omics data analysis, improving the detection of meaningful biological signals.

## Contribution

The novelty lies in applying coalitional games and Shapley values to enhance omics data analysis.

## Key findings

- The method improves the detection of biologically meaningful signals in transcriptomics data.
- It enhances reproducibility and interpretability in omics research.
- The approach offers new perspectives in systems biology and precision medicine.

## Abstract

We describe a comprehensive methodology for the application of game theory to omics data analysis, with a particular focus on coalitional games and Shapley values. This approach evaluates the cooperative distribution of genes within high-dimensional transcriptomics datasets, providing a complementary perspective to conventional statistical methods. We present the mathematical framework, implementation details, and references for applications that demonstrate its ability to improve the detection of biologically meaningful signals that may not be explicitly modeled by many conventional statistical methods. Our results highlight the potential of coalitional game theory as a powerful tool for enhancing reproducibility and interpretability in omics research, opening new perspectives in systems biology and precision medicine.

## Full-text entities

- **Genes:** SH3KBP1 (SH3 domain containing kinase binding protein 1) [NCBI Gene 30011] {aka AGMX2, CD2BP3, CIN85, GIG10, HSB-1, HSB1}, AGO2 (argonaute RISC catalytic component 2) [NCBI Gene 27161] {aka CASC7, EIF2C2, LESKRES, LINC00980, PPD, Q10}, CFLAR (CASP8 and FADD like apoptosis regulator) [NCBI Gene 8837] {aka CASH, CASP8AP1, CLARP, Casper, FLAME, FLAME-1}, HLA-A (major histocompatibility complex, class I, A) [NCBI Gene 3105] {aka HLAA}, SHROOM4 (shroom family member 4) [NCBI Gene 57477] {aka MRXSSDS, SHAP, shrm4}
- **Diseases:** schizophrenia (MESH:D012559), Autism (MESH:D001321), maternal diabetes (MESH:D003920), Cancer (MESH:D009369), temporal lobe epilepsy (MESH:D004833), neuropsychiatric disorders (MESH:D001523), endometriosis (MESH:D004715), pancreatic cancer (MESH:D010190), ASD (MESH:D000067877), injury to (MESH:D014947), major depression (MESH:D003865), motor deficits (MESH:D009461), metabolic disorders (MESH:D008659), endometrial cancer (MESH:D016889), metastasis (MESH:D009362), neurodevelopmental disorders (MESH:D002658), bipolar disorder (MESH:D001714), breast cancer (MESH:D001943), leiomyomas (MESH:D007889)
- **Chemicals:** alcohol (MESH:D000438)
- **Species:** Homo sapiens (human, species) [taxon 9606]

## Full text

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## References

31 references — full list in the complete paper: https://tomesphere.com/paper/PMC12922054/full.md

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Source: https://tomesphere.com/paper/PMC12922054