Submitted:
07 October 2025
Posted:
08 October 2025
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Abstract
Keywords:
Introduction:
Material and method
Methodology
Result and discussion

Pathway Interconnectivity and Significance
Disease Association Landscape
Publication Trends and Research Bias
Pathway-Disease Heatmap Insights

Omics-Level Consistency and Stability
mRNA–Protein Correlation and Biomarker Reliability
Statistical Significance and Network Penetration
Biomarker Dimensions and Functional Novelty
Metabolic Reprogramming Linked to ESR1 Activity
Post-Translational Modifications and Resistance Mechanisms

Biological Process Enrichment
Pathway Integration (KEGG / Reactome)
KPI-Based Target Validation
Network Topology and Functional Interactors
- FOXA1 exhibits high betweenness despite a moderate degree, functioning as a chromatin gatekeeper that regulates ESR1’s access to genomic binding sites.
- EP300 and NCOA3 serve as powerful transcriptional coactivators, enhancing ESR1-driven gene transcription by remodelling chromatin and recruiting transcriptional machinery. These partnerships define ESR1’s efficiency in translating hormonal signals into coordinated transcriptional responses and identify possible co-regulator nodes for therapeutic intervention.

Degree Centrality: ESR1’s Unmatched Connectivity
- EP300 and NCOA3: Function as major transcriptional coactivators, bridging ESR1 to RNA polymerase II machinery while modifying chromatin structure for optimal gene activation.
- FOXA1: Despite a moderate degree, it is structurally important for ESR1’s access to estrogen response elements by acting as a pioneer factor in chromatin opening.[27]
Degree vs Betweenness: Network Influence and Bottlenecks
- Targeting ESR1 directly (e.g., via SERDs, PROTAC degraders) dismantles the global network.
- Targeting bottlenecks like FOXA1, EP300, or NCOA3 selectively disrupts specific modules, enabling more precise intervention in cases of therapy resistance.
Functional Modules: Architecture of ESR1’s Interactome
- Transcriptional Activation Complex (12 proteins): Includes ESR1, NCOAs, EP300; drives hormone-responsive gene expression.
- Chromatin Remodeling Module (10 proteins): Includes FOXA1, GATA3, GTF2B; ensures genomic accessibility and transcription factor binding.
- Cell Cycle & Signaling Integration Module (8 proteins): Links ESR1 activity to proliferation via CCND1, MYC, and PI3K-Akt crosstalk.
ESR1-Centric PPI Network Visualisation
- Core activation unit: ESR1, NCOAs, EP300 for direct transcriptional activation.
- Chromatin remodeling: FOXA1 initiates chromatin opening; GATA3 reinforces lineage-specific enhancer usage; GTF2B links to basal transcription machinery.
- Downstream signalling: CCND1 and MYC couple transcriptional programs to proliferation; AKT1 mediates growth and survival pathways.

KPI Summary: Depth of Genetic and Clinical Validation
- Genome-Wide Hits (9.5): ESR1 consistently appears as a top GWAS locus for ER+ breast cancer, underscoring its role in susceptibility.
- Replication Rate & Clinical Annotation (10): Findings confirming ESR1’s genetic links have been validated across multiple populations, with interpretations supported by expert clinical panels.
- Translational Impact (9.8): ESR1 mutations, especially in the ligand-binding domain (LBD), directly inform endocrine therapy strategies and drive drug development pipelines for selective estrogen receptor degraders (SERDs).
Variant Effect Size: Germline vs Somatic Dynamics
- Germline Variants (GWAS): These common alleles exhibit modest individual effects (odds ratio ~1.1), consistent with typical polygenic risk profiles. Their contribution lies in fine-tuning baseline cancer risk rather than driving tumour biology.
- Somatic Mutations (LBD): These exhibit far greater functional impact (~3.5 relative effect), operating as driver mutations in therapy resistance. LBD mutations alter receptor conformation, enabling ligand-independent activation and diminishing the efficacy of aromatase inhibitors.31
Frequency of Genetic Alterations
- Mutations: Present in ~35% of aromatase inhibitor-resistant metastatic breast cancers, these are the dominant molecular route to acquired resistance.
- Amplification: Observed in 8% of cases, driving overexpression and increased signalling output.
- Fusions (e.g., ESR1–CCDC170): While rare (~3%), they produce constitutively active receptor variants that are clinically significant in resistant contexts.32
Genetic KPI Integration: Complete Translational Spectrum
- Population-level susceptibility (via germline GWAS signals)
- Mechanistic insights into therapy resistance (via somatic LBD mutations)
- Direct drug development guidance (via genetic-phenotypic correlations in multiple patient cohorts) 33
Conclusion
Conflict of Interest
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