Genome-wide analysis of long noncoding RNA expression profile in papillary thyroid carcinoma

Lan, Xiabin; Zhang, Hao; Wang, Zhihong; Dong, Wenwu; Sun, Wei; Shao, Liang; Zhang, Ting; Zhang, Dalin

doi:10.1016/j.gene.2015.05.046

Cited by 81 publications

(84 citation statements)

References 42 publications

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“…Furthermore, they observed a minimum of 47-fold to a maximum of 148-fold changes among the top 20 downregulated lncRNAs. Of these lncRNAs, 10 lncRNAs have been identified as statistically significant and are differentially expressed as up/downregulated with the similar trend (Lan et al 2015a). A human lncRNA-based microarray study found abnormal expression of 675 lncRNAs in 3 pairs of PTC compared with paired normal thyroid tissues .…”

Section: Lncrnas In Thyroid Cancermentioning

confidence: 81%

“…Gene functions were investigated using gene ontology and KEGG pathway analyses and two independent algorithms were used to predict possible target genes of these lncRNAs. In this microarray-based study, Lan and coworkers found thousands of significantly differentially expressed lncRNAs and mRNAs compared to nonthyroid cancer tissue (Lan et al 2015a). Furthermore, 1805 deregulated lncRNAs have been found to have cis or trans target genes.…”

Section: Lncrnas In Thyroid Cancermentioning

confidence: 99%

“…Recently, a genome-wide analysis (GWAS) of lncRNA expression profile in PTCs identified various up-and downregulated lncRNAs in PTC samples (Lan et al 2015a). This group investigated the lncRNA and mRNA expression profiles in 62 PTC tissues with paired normal thyroid tissue by microarray and validated 10 differentially expressed lncRNAs using qRT-PCR.…”

Section: Lncrnas In Thyroid Cancermentioning

confidence: 99%

“…Recently, long noncoding RNAs (lncRNAs) have been demonstrated to play crucial roles in thyroid tumorigenesis (Lan et al 2015a). lncRNAs and their potential role in follicular cell-derived thyroid tumorigenesis are the central focus of this review.…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Long noncoding RNAs: emerging players in thyroid cancer pathogenesis

Murugan

Munirajan

Alzahrani

2018

Endocrine-Related Cancer

110

100

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Thyroid cancer continues to be the most common malignancy of endocrine glands. The incidence of thyroid cancer has risen significantly over the past 4 decades and has emerged as a major health issue. In recent years, significant progress has been achieved in our understanding of the molecular mechanisms of thyroid carcinogenesis, resulting in significant diagnostic, prognostic and therapeutic implications; yet, it has not reached a satisfactory level. Identifying novel molecular therapeutic targets and molecules for diagnosis and prognosis is expected to advance the overall management of this common malignancy. Long noncoding RNAs (lncRNAs) are implicated in the regulation of various key cellular genes involved in cell differentiation, proliferation, cell cycle, apoptosis, migration and invasion mainly through modulation of gene expression. Recent studies have established that lncRNAs are deregulated in thyroid cancer. In this review, we discuss extensively the tumor-suppressive (for example, LINC00271, MEG3, NAMA, PTCSC1/2/3, etc.) and oncogenic (for example, ANRIL, FAL1, H19, PVT1, etc.) roles of various lncRNAs and their possible disease associations implicated in thyroid carcinogenesis. We briefly summarize the strategies and mechanisms of lncRNA-targeting agents. We also describe the potential role of lncRNAs as prospective novel therapeutic targets, and diagnostic and prognostic markers in thyroid cancer.

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Section: Lncrnas In Thyroid Cancermentioning

confidence: 81%

Section: Lncrnas In Thyroid Cancermentioning

confidence: 99%

Section: Lncrnas In Thyroid Cancermentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Long noncoding RNAs: emerging players in thyroid cancer pathogenesis

Murugan

Munirajan

Alzahrani

2018

Endocrine-Related Cancer

110

100

View full text Add to dashboard Cite

show abstract

“…Other three public thyroid cancer RNA sequencing and microarray datasets (GSE83520,20 GSE66783,21 and GSE103254) were downloaded from Gene Expression Omnibus (GEO). Analyses of lncRNAs expression profile from GEO microarray datasets was based on the Agilent‐060228 Human LncRNA v5 4X180K, and Arraystar Human LncRNA microarray V2.0 platforms.…”

Section: Methodsmentioning

confidence: 99%

Identification of differential expressed lncRNAs in human thyroid cancer by a genome‐wide analyses

et al. 2018

Cancer Medicine

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Recently, a growing number of evidence has revealed that long noncoding RNAs (lncRNAs) act as key regulators in various cellular biologic processes, and dysregulation of lncRNAs involves in tumorigenesis and cancer progression. However, the expression pattern, clinical relevance, and biologic function of most lncRNAs in human thyroid cancer remain unclear. To identify more thyroid‐cancer‐associated lncRNAs, we analyzed the expression profile of lncRNAs in thyroid cancer tissues and adjacent normal or non‐tumor tissues using RNA sequencing data and gene microarray data from The Cancer Genome Atlas and Gene Expression Omnibus. Annotation and analyses of these data revealed that hundreds of lncRNAs are differentially expressed in thyroid cancer tissues when compared with normal tissues. By copy number variation analyses, we identified that some of those dysregulated lncRNAs genome locus are accompanied with the copy number amplification or deletion. Moreover, some lncRNAs expression levels are significantly associated with thyroid cancer patients overall or recurrence‐free survival time, such as RUNDC3A‐AS1, FOXD2‐AS1, PAX8‐AS1, and CRYM‐AS1. Furthermore, we validated an lncRNA termed LINC00704 in thyroid cancer cells by performing loss of function assays. Downregulation of LINC00704 could significantly impair thyroid cancer cells proliferation, colony formation, inhibit cell‐cycle progression and cell invasion, and induce cell apoptosis. Taken together, our findings reveal that lots of lncRNAs are dysregulated and may play critical roles in thyroid cancer, and this study could provide useful resource for identification and investigation of novel lncRNA candidates for thyroid cancer.

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

et al. 2018

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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.

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Genome-wide analysis of long noncoding RNA expression profile in papillary thyroid carcinoma

Cited by 81 publications

References 42 publications

Long noncoding RNAs: emerging players in thyroid cancer pathogenesis

Long noncoding RNAs: emerging players in thyroid cancer pathogenesis

Identification of differential expressed lncRNAs in human thyroid cancer by a genome‐wide analyses

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

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