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[…] ticed that the red module for two variables, encompassing positive lymph nodes (r=0.49, p=0.002) and pathology M stage (r=0.54, p=0.009), displayed the highest correlation coefficient. Moreover, the yellow module also showed the higher association in pathology M stage (r=0.34), though no statistical significance was revealed (p=0.4). The green module exhibited the highest correlation in pathology N stage (r=0.24, p=0.01). Taken together, the DEmRNAs of the previously mentioned modules may be the key regulators for the development of TNBC., To further investigate the role and relation of lncRNA and miRNA mediation in TNBC, we searched for DEmiRNAs targeted by these 22 hub mRNAs obtained from WGCNA and PPI network analysis. Through the predicted miRNAs and algorithm analyzed dysregulated expressed 67 miRNAs. As a result, 11 intersection miRNAs related to the 22 hub genes were identified by miRTarBase database, and some of them have been reported to be cancer-associated miRNAs such as hsa-mir-145, hsa-mir-9, and hsa-mir-503. The miRNAs target with lncRNA through MREs in the ceRNA network, and thus, we detected whether key miRNAs and the above 723 differently expressed lncRNAs have the potential MREs based on the information retrieved from the miRcode database. The predicted results showed that the key miRNAs interacted with 14 DElncRNAs, which could act as key lncRNAs. Finally, we obtained 22 hub DEmRNAs mediating with 11 DEmiRNAs and 14 DElncRNAs, which could be the key nodes involved in the ceRNA network., Based on combination of the above data, the lncRNA-miRNA-mRNA ceRNA network was established and visualized using the Cytoscape software (). The detailed information of each node is shown in . In the ceRNA network, some of them have been reported to be cancer-associated moleculars such as MMP1, ESR1, STMN1 and HOTAIR. We noticed that DGCR5 is the key lncRNA interrelated with seven key miRNAs (hsa-mir-145, hsa-mir-33a, hsa-mir-142, hsa-mir-144, hsa-mir-503, hsa-mir-183, and hsa-mir-210), and may serve as ceRNA to inhibit target miRNAs, and mediated related hub genes translation such as HMGA2, CCNA2, SAMD5, ABRACL, and IFNB1. And, HNF1A-AS1 may act as an endogenous sink by binding hsa-mir-183, hsa-mir-141, hsa-mir-145 and may be associated with targeted genes transcripts such as AKAP12, ESR1, MMP1, CCNA2. In […]

Pipeline specifications

Software tools WGCNA, MiRcode, Cytoscape
Databases miRTarBase
Diseases Breast Neoplasms, Breast Diseases, Neoplasms, Carcinogenesis, Neoplastic Processes