Integrated analysis of long noncoding RNA interactions reveals the potential role in progression of human papillary thyroid cancer

Abstract

Recent scientific evidence has suggested that long noncoding RNAs (lncRNAs) play an important part in tumorigenesis as an important member of competing endogenous RNAs (ceRNAs). Hundreds of RNA sequence data and relevant clinic information are freely accessible in The Cancer Genome Atlas (TCGA) datasets. However, the role of cancer‐related lncRNAs in papillary thyroid cancer (PTC) is not fully understood yet. In this study, we identified 461 RNA sequencing data from TCGA. Subsequently, 45 lncRNAs, 21 miRNAs, and 78 mRNAs were chosen to construct a ceRNA network of PTC. Then, we analyzed the correlation between these 45 PTC‐specific lncRNAs and clinic features and patient outcome. Thirty‐seven of these lncRNAs were found to be closely related to age, race, gender, lymph node metastasis, TNM staging system, and patient outcome. Additionally, three of them were linked to PTC patient overall survival. Eventually, we selected eight lncRNAs randomly and performed quantificational real‐time polymerase chain reaction (qRT‐PCR) in 28 newly diagnosed patients with PTC to verify the reliability of the above results. The results of qRT‐PCR are totally in agreement with the bioinformatics analysis. Additionally, it was found that HAND2‐AS1 was negatively related to tumor size (P < 0.05). The results were consistent with the bioinformatics analysis in TCGA. Taken together, we identified the differentially expressed lncRNAs and constructed a PTC ceRNA network. The study provides a new perspective and supplement for our understanding of lncRNAs in PTC development and reveals potential diagnostic and prognostic markers in PTC.

Large-scale analyses identify a cluster of novel long noncoding RNAs as potential competitive endogenous RNAs in progression of hepatocellular carcinoma

“…We next investigated the underlying molecular mechanisms regulating these processes. LncRNAs have been reported to promote tumor progression through various types of gene regulatory mechanisms, such as epigenetic and transcriptional regulation and serving as ceRNAs for miRNAs [10, 11, 14, 15, 18–20]. Therefore, we constructed a ceRNA regulatory network to reveal the unknown mechanisms driving HCC development.…”

Retracted: LINC00311 promotes cancer stem‐like properties by targeting miR‐330‐5p/TLR4 pathway in human papillary thyroid cancer

“…In addition, microRNAs (miRNAs) are defined as small, noncoding RNAs, which are approximately 21 nucleotides long and are able to repress translation or degradation of mRNA . Accumulating evidences have proved that lncRNAs and miRNAs were abnormally expressed in PTC and can be used to determine the outcomes of PTC patients . Recent studies reported that lncRNA LINC00311 participates in the process of cell proliferation and differentiation .…”

Prognostic lncRNA, miRNA, and mRNA Signatures in Papillary Thyroid Carcinoma

“…There were some studies involving the ceRNA network of PTC (You et al, 2018;Zhao et al, 2018;Xu et al, 2019). However, only the global ceRNA network based on the differentially expressed lncRNAs, mRNAs, and miRNAs was constructed in these studies.…”

“…Some researchers have revealed that several lncRNAs were associated with the initiation and progression of PTC ( Ding et al, 2018 ; Xia et al, 2018 ; Zhuang et al, 2019 ). The ceRNA network has also been investigated in the study about the roles of lncRNAs in the diagnosis and overall survival of PTC ( You et al, 2018 ; Zhao et al, 2018 ). However, the role of ceRNA network and the prognostic value of lncRNAs, miRNAs, and messenger RNAs (mRNAs) in PTC progression have not been fully explored yet.…”