ArticleBioMed research international2015
Integrative Analysis with Monte Carlo Cross-Validation Reveals miRNAs Regulating Pathways Cross-Talk in Aggressive Breast Cancer.
Article in BioMed research international, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 34 citations in OpenAlex.
- Triple negative aggressive phenotype controlled by miR-135b and miR-365: new theranostics candidates.Scientific reports · 2021Article
- Theranostic application ofTheranostics · 2020Article
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- BRCA2 abrogation triggers innate immune responses potentiated by treatment with PARP inhibitors.Nature communications · 2019Article
- Revealing hub pathway cross-talk for premature newborns with bronchopulmonary dysplasia by the integration of pathway analysis and Monte Carlo Cross-Validation.Experimental and therapeutic medicine · 2019Article
- Portrait of Tissue-Specific Coexpression Networks of Noncoding RNAs (miRNA and lncRNA) and mRNAs in Normal Tissues.Computational and mathematical methods in medicine · 2019Article
- Potential Role of miRNAs as Theranostic Biomarkers of Epilepsy.Molecular therapy. Nucleic acids · 2018Review
- Identifying a miRNA signature for predicting the stage of breast cancer.Scientific reports · 2018Article
- In silico identification of drug target pathways in breast cancer subtypes using pathway cross-talk inhibition.Journal of translational medicine · 2018Article
- Radiation-Induced Gene Expression Changes in High and Low Grade Breast Cancer Cell Types.International journal of molecular sciences · 2018Article
- Application of Monte Carlo cross-validation to identify pathway cross-talk in neonatal sepsis.Experimental biology and medicine (Maywood, N.J.) · 2018Article
- Identification of a gene expression signature predicting survival in oral cavity squamous cell carcinoma using Monte Carlo cross validation.Oral oncology · 2018Article
- Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis.BMC genomics · 2018Article
- Predicting pathway cross-talks in ankylosing spondylitis through investigating the interactions among pathways.Brazilian journal of medical and biological research = Revista brasileira de pesquisas medicas e biologica · 2017Article
- Identification of novel targets for multiple myeloma through integrative approach with Monte Carlo cross-validation analysis.Journal of bone oncology · 2017Article
- Personalized Analysis by Validation of Monte Carlo for Application of Pathways in Cardioembolic Stroke.Medical science monitor : international medical journal of experimental and clinical research · 2017Article
- Validation of a novel prognostic scoring system using inflammatory response biomarkers in patients undergoing curative thoracoscopic esophagectomy for esophageal squamous cell carcinoma.OncoTargets and therapy · 2017Article
- How interacting pathways are regulated by miRNAs in breast cancer subtypes.BMC bioinformatics · 2016Article
- Monte Carlo cross-validation analysis screens pathway cross-talk associated with Parkinson's disease.Neurological sciences : official journal of the Italian Neurological Society and of the Italian Society of Clinical Neurophysiology · 2016Article
- Integrating genetics and epigenetics in breast cancer: biological insights, experimental, computational methods and therapeutic potential.BMC systems biology · 2015Review
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In this work an integrated approach was used to identify functional miRNAs regulating gene pathway cross-talk in breast cancer (BC). We first integrated gene expression profiles and biological pathway information to explore the underlying associations between genes differently expressed among normal and BC samples and pathways enriched from these genes. For each pair of pathways, a score was derived from the distribution of gene expression levels by quantifying their pathway cross-talk. Random forest classification allowed the identification of pairs of pathways with high cross-talk. We assessed miRNAs regulating the identified gene pathways by a mutual information analysis. A Fisher test was applied to demonstrate their significance in the regulated pathways. Our results suggest interesting networks of pathways that could be key regulatory of target genes in BC, including stem cell pluripotency, coagulation, and hypoxia pathways and miRNAs that control these networks could be potential biomarkers for diagnostic, prognostic, and therapeutic development in BC. This work shows that standard methods of predicting normal and tumor classes such as differentially expressed miRNAs or transcription factors could lose intrinsic features; instead our approach revealed the responsible molecules of the disease.
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Registered trials
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.