ArticleNature communications2015
MicroRNA-mRNA interactions underlying colorectal cancer molecular subtypes.
Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- An efficient framework to decipher microRNA regulatory programs applied to T cells.Genes and immunity · 2025Article
- The emerging role of miR-362 in cancer: expression and function across different cancer types.Medical oncology (Northwood, London, England) · 2025Review
- Clonal dispersal is associated with tumor heterogeneity and poor prognosis in colorectal cancer.iScience · 2025Article
- Clinical Challenges of Consensus Molecular Subtype CMS4 Colon Cancer in the Era of Precision Medicine.Clinical cancer research : an official journal of the American Association for Cancer Research · 2024Review
- Article
- Development of a miRNA-based classifier for detection of colorectal cancer molecular subtypes.Molecular oncology · 2022Article
- Upregulation of BMI1-suppressor miRNAs (miR-200c, miR-203) during terminal differentiation of colon epithelial cells.Journal of gastroenterology · 2022Article
- Multi-omics analysis revealed TEK and AXIN2 are potential biomarkers in multifocal papillary thyroid cancer.Cancer cell international · 2022Article
- MicroRNA regulatory networks associated with abnormal muscle repair in survivors of critical illness.Journal of cachexia, sarcopenia and muscle · 2022Article
- Long noncoding RNA KCNMB2-AS1 promotes the development of esophageal cancer by modulating the miR-3194-3p/PYGL axis.Bioengineered · 2021Article
- A laminar augmented cascading flexible neural forest model for classification of cancer subtypes based on gene expression data.BMC bioinformatics · 2021Article
- Vertical integration methods for gene expression data analysis.Briefings in bioinformatics · 2021Review
- Rac3 Expression and its Clinicopathological Significance in Patients With Bladder Cancer.Pathology oncology research : POR · 2021Article
- Integrative approaches for analysis of mRNA and microRNA high-throughput data.Computational and structural biotechnology journal · 2021Review
- A Prognosis Marker SLC2A3 Correlates With EMT and Immune Signature in Colorectal Cancer.Frontiers in oncology · 2021Article
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- Article
- microRNA-21 regulates the proliferation of placental cells via FOXM1 in preeclampsia.Experimental and therapeutic medicine · 2020Article
- Article
- Comprehensive transcriptome profiling of Taiwanese colorectal cancer implicates an ethnic basis for pathogenesis.Scientific reports · 2020Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Colorectal cancer (CRC) transcriptional subtypes have been recently identified by gene expression profiling. Here we describe an analytical pipeline, microRNA master regulator analysis (MMRA), developed to search for microRNAs potentially driving CRC subtypes. Starting from a microRNA-mRNA tumour expression data set, MMRA identifies candidate regulator microRNAs by assessing their subtype-specific expression, target enrichment in subtype mRNA signatures and network analysis-based contribution to subtype gene expression. When applied to a CRC data set of 450 samples, assigned to subtypes by 3 different transcriptional classifiers, MMRA identifies 24 candidate microRNAs, in most cases downregulated in the stem/serrated/mesenchymal (SSM) poor prognosis subtype. Functional validation in CRC cell lines confirms downregulation of the SSM subtype by miR-194, miR-200b, miR-203 and miR-429, which share target genes and pathways mediating this effect. These results show that, by combining statistical tests, target prediction and network analysis, MMRA effectively identifies microRNAs functionally associated to cancer subtypes.
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