The expression data of UCEC are obtained from TCGA long noncoding RNAs website (http://larssonlab.org/tcga-lncrnas/datasets.php), including the profiles of 20,462 protein coding genes, 10,419 lncRNA genes, and 742 miRNAs from 301 UCEC patients, as shown in Table 1.
These triplets are further analyzed for their interactions and biological functions as to UCEC according to literature.
Candidate mRNA-lncRNA-miRNA Triplets of UCEC. By restricting the vertices types of clique problem to have all three RNA types, 14,416 mRNA-lncRNA-miRNA triplets are detected from the integrative network.
As for UCEC, CDH1 contributes the initiation and invasion of endometrial cancer through its specific role in epithelial-mesenchymal transition (EMT) [30-32].
Therefore, it is reasonable that, in UCEC, such lncRNA may play a similar way to interact with the miRNA and lncRNAs mentioned above and contribute to the tumor initiation and progression.
Therefore, miR126, lncRNA AP006285.7.1, and CDH1 can be clustered together because of their specific function and contribution to UCEC. This triplet focuses more on the cell adhesion instead of EMT progression and concentrates on the progression and migration process of the tumorigenesis of UCEC.
As to lncRNA CTD-2008N3.1.1, which is also called lnc-CTD-2012 M11.2.1-1:1, it has been reported to associate with several miRNAs using computational prediction, which may have its specific way to interact with TP53 and miR203 in UCEC [56-58].
We found that high PLK1 expression levels were associated with depressed Treg cell enrichment levels in 16 cancer types (THYM, LUSC, GBM, TGCT, SKCM, PRAD, UCEC, ESCA, UCS, UVM, OV, DLBC, LUAD, STAD, CESC, and KICH) while were associated with enhanced Treg cell activity in 5 cancer types (THCA, KIRC, LIHC, BRCA, and BLCA) (Spearman correlation, FDR<0.1) (Figure 3).
We observed that the MHC class I molecules had significantly increased expression in the posttreated cell lines compared to the pretreated cell lines, and the results were consistent in all the four different cell lines (LUSC, GBM, UCEC, and SKCM) tested (Figure 7).