ArticleScientific reports2016
Tissue-specific Co-expression of Long Non-coding and Coding RNAs Associated with Breast Cancer.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 32 citations in OpenAlex.
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- Biological and clinical relevance of correlated expression levels of coding and long noncoding RNAs in HPV16 positive cervical cancers.Human genomics · 2024Article
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- Pattern discovery of long non-coding RNAs associated with the herbal treatments in breast and prostate cancers.Quantitative biology (Beijing, China) · 2023Article
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- Inferring cell developmental stage-specific lncRNA regulation in the developing human neocortex with CDSlncR.Frontiers in molecular neuroscience · 2022Article
- Long Non-coding RNAs: Mechanisms, Experimental, and Computational Approaches in Identification, Characterization, and Their Biomarker Potential in Cancer.Frontiers in genetics · 2021Review
- Differential Co-Expression Analyses Allow the Identification of Critical Signalling Pathways Altered during Tumour Transformation and Progression.International journal of molecular sciences · 2020Review
- CORAZON: a web server for data normalization and unsupervised clustering based on expression profiles.BMC research notes · 2020Article
- Gene expression of Epithelial Membrane Protein 2 gene and β1-Integrin gene in patients with breast cancer.Biochemistry and biophysics reports · 2020Article
- Transcriptome-wide Profiling of Cerebral Cavernous Malformations Patients Reveal Important Long noncoding RNA molecular signatures.Scientific reports · 2019Article
- TOX3 is a favorable prognostic indicator and potential immunomodulatory factor in lung adenocarcinoma.Oncology letters · 2019Article
- Genetic Variants of lncRNAJournal of clinical medicine · 2019Article
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- Review
- Emerging roles of long non-coding RNAs in cancer.Journal of biosciences · 2019Review
- Dysregulated lncRNA-miRNA-mRNA Network Reveals Patient Survival-Associated Modules and RNA Binding Proteins in Invasive Breast Carcinoma.Frontiers in genetics · 2019Article
- Weighted Gene Co-Expression Analyses Point to Long Non-Coding RNA Hub Genes at DifferentFrontiers in genetics · 2019Article
- Cross-species inference of long non-coding RNAs greatly expands the ruminant transcriptome.Genetics, selection, evolution : GSE · 2018Article
- Gene regulation of mammalian long non-coding RNA.Molecular genetics and genomics : MGG · 2018Review
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Authors and funding
10 authors at 4 institutions in 1 country.
Funding
Abstract
Inference of the biological roles of lncRNAs in breast cancer development remains a challenge. Here, we analyzed RNA-seq data in tumor and normal breast tissue samples from 18 breast cancer patients and 18 healthy controls and constructed a functional lncRNA-mRNA co-expression network. We revealed two distinctive co-expression patterns associated with breast cancer, reflecting different underlying regulatory mechanisms: (1) 516 pairs of lncRNA-mRNAs have differential co-expression pattern, in which the correlation between lncRNA and mRNA expression differs in tumor and normal breast tissue; (2) 291 pairs have dose-response co-expression pattern, in which the correlation is similar, but the expression level of lncRNA or mRNA differs in the two tissue types. We further validated our findings in TCGA dataset and annotated lncRNAs using TANRIC. One novel lncRNA, AC145110.1 on 8p12, was found differentially co-expressed with 127 mRNAs (including TOX4 and MAEL) in tumor and normal breast tissue and also highly correlated with breast cancer clinical outcomes. Functional enrichment and pathway analyses identified distinct biological functions for different patterns of co-expression regulations. Our data suggested that lncRNAs might be involved in breast tumorigenesis through the modulation of gene expression in multiple pathologic pathways.
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