ArticlePloS one2014
Loss of connectivity in cancer co-expression networks.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers, 3 of them syntheses that pooled it.
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Who cites it
43 citing papers in PubMed, 3 syntheses or guidelines pooled it.
- Uncovering Oncogenic Mechanisms of Tumor Suppressor Genes in Breast Cancer Multi-Omics Data.International journal of molecular sciences · 2022Pooled it
- Meta-Analysis of Differential Connectivity in Gene Co-Expression Networks in Multiple Sclerosis.International journal of molecular sciences · 2016Pooled it
- Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma.PloS one · 2015Pooled it
- Integrating Transcriptomics and 3D Spheroid Models Reveals Microenvironment-Dependent Purinergic Modulation in Hepatocellular Carcinoma.Metabolites · 2026Article
- A method for mining condition-specific co-expressed genes in Camellia sinensis based on k-means clustering.BMC plant biology · 2024Article
- STARGATE-X: a Python package for statistical analysis on the REACTOME network.Journal of integrative bioinformatics · 2023Article
- Structure learning for gene regulatory networks.PLoS computational biology · 2023Article
- Variation in the co-expression profile highlights a loss of miRNA-mRNA regulation in multiple cancer types.Non-coding RNA research · 2022Article
- Article
- Convergent Usage of Amino Acids in Human Cancers as A Reversed Process of Tissue Development.Genomics, proteomics & bioinformatics · 2022Article
- Aging at Evolutionary Crossroads: Longitudinal Gene Co-expression Network Analyses of Proximal and Ultimate Causes of Aging in Bats.Molecular biology and evolution · 2022Article
- Molecular Subtyping of Cancer Based on Distinguishing Co-Expression Modules and Machine Learning.Frontiers in genetics · 2022Article
- Network Analysis of Microarray Data.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Conditional transcriptional relationships may serve as cancer prognostic markers.BMC medical genomics · 2021Article
- GWENA: gene co-expression networks analysis and extended modules characterization in a single Bioconductor package.BMC bioinformatics · 2021Article
- Gene expression barcode values reveal a potential link between Parkinson's disease and gastric cancer.Aging · 2021Article
- Gene Co-Expression in Breast Cancer: A Matter of Distance.Frontiers in oncology · 2021Article
- Differential Co-Expression Analyses Allow the Identification of Critical Signalling Pathways Altered during Tumour Transformation and Progression.International journal of molecular sciences · 2020Review
- Applying graph database technology for analyzing perturbed co-expression networks in cancer.Database : the journal of biological databases and curation · 2020Article
- Identification of lncRNA-associated differential subnetworks in oesophageal squamous cell carcinoma by differential co-expression analysis.Journal of cellular and molecular medicine · 2020Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Differential gene expression profiling studies have lead to the identification of several disease biomarkers. However, the oncogenic alterations in coding regions can modify the gene functions without affecting their own expression profiles. Moreover, post-translational modifications can modify the activity of the coded protein without altering the expression levels of the coding gene, but eliciting variations to the expression levels of the regulated genes. These considerations motivate the study of the rewiring of networks co-expressed genes as a consequence of the aforementioned alterations in order to complement the informative content of differential expression. We analyzed 339 mRNAomes of five distinct cancer types to find single genes that presented co-expression patterns strongly differentiated between normal and tumor phenotypes. Our analysis of differentially connected genes indicates the loss of connectivity as a common topological trait of cancer networks, and unveils novel candidate cancer genes. Moreover, our integrated approach that combines the differential expression together with the differential connectivity improves the classic enrichment pathway analysis providing novel insights on putative cancer gene biosystems not still fully investigated.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.