ArticleNPJ systems biology and applications2026
Loss of long-range co-expression is a common feature in cancer.
Article in NPJ systems biology and applications, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Transcriptomic signatures and network-based methods uncover new senescent cell anti-apoptotic pathways and senolytics.The FEBS journal · 2025Article
- Integration of chromosome conformation and gene expression networks reveals regulatory mechanisms in triple negative breast cancer.Frontiers in cell and developmental biology · 2025Article
- Single-Sample Networks Reveal Intra-Cytoband Co-Expression Hotspots in Breast Cancer Subtypes.International journal of molecular sciences · 2024Article
- Coordinated inflammation and immune response transcriptional regulation in breast cancer molecular subtypes.Frontiers in immunology · 2024Article
- Gene co-expression networks reveal sex-biased differences in musculoskeletal ageing.Frontiers in aging · 2024Article
- The Role of Transcription Factors in the Loss of Inter-Chromosomal Co-Expression for Breast Cancer Subtypes.International journal of molecular sciences · 2023Article
- The network structure of hematopoietic cancers.Scientific reports · 2023Article
- CNVs in 8q24.3 do not influence gene co-expression in breast cancer subtypes.Frontiers in genetics · 2023Article
- Methylation-related genes involved in renal carcinoma progression.Frontiers in genetics · 2023Article
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Authors and funding
3 authors.
Funding
Abstract
Cancer cells display common features and enabling characteristics collectively known as the Hallmarks of Cancer, which occur alongside alterations in the regulatory mechanisms controlling gene transcription. Gene co-expression networks (GCNs) provide a framework to identify correlated gene sets that may share these regulatory mechanisms. Previously, we reported the loss of long-range co-expression in breast, lung, kidney, and hematopoietic cancer GCNs. Here, we expand the analysis to fifteen tissues, comprising 8772 samples from two independent datasets. Unlike healthy phenotypes, cancer GCNs show that the strongest gene-pair interactions are intra-chromosomal, with their strength decaying as base-pair distance increases. Tumor GCN communities are strongly associated with cancer-related processes and are enriched in gene families located on the same chromosome. In contrast, normal GCN communities are linked to metabolic and cell maintenance processes. Riboproteins remain highly co-expressed in both cancer and normal GCNs, highlighting their importance for cell viability. Notably, in other chronic diseases the loss of long-range co-expression is absent, suggesting it is a distinctive feature of cancer.
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