The downregulation of lncRNA EMX2OS might independently predict shorter recurrence-free survival of classical papillary thyroid cancer

Gu, Yi; Feng, Chao; Liu, Tong; Zhang, Bowei; Yang, Lan

doi:10.1371/journal.pone.0209338

Cited by 26 publications

(23 citation statements)

References 29 publications

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“…In recent years, many studies based on the bioinformatics analysis were conducted to predict the RFS. Gu et al reported that decreased EMX2OS (homeobox protein) expression might be a valuable prognostic biomarker of unfavorable RFS in classical PTMC [56], while Gong et al found that preserved SCN4B might be a prognostic marker of favorable RFS in classical PTMC [57]. In general, the similar recurrence rate and RFS between the two groups in our systematic review and meta-analysis might be caused by the limited number of the study, small sample and insufficient follow-up time.…”

Section: Discussionmentioning

confidence: 64%

Comparison of thermal ablation and routine surgery for the treatment of papillary thyroid microcarcinoma: a systematic review and Meta-analysis

Shen

Xue

Xie

et al. 2020

International Journal of Hyperthermia

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Background: Thermal ablation (TA), as an alternative to surgery, has shown some benefits in the treatment of papillary thyroid microcarcinoma (PTMC) patients, especially for those who are at high risk for surgery or refuse surgery. We performed a systematic review and meta-analysis to evaluate the efficiency, safety, and economy of TA, compared with those of routine surgery (RS), for the treatment of PTMC. Methods: PubMed, Embase, Cochrane Library, China National Knowledge Infrastructure (CNKI), Wanfang, and VIP databases were retrieved from inception to 10 January 2020 to identify relevant original studies on comparison of TA and RS for treatment of PTMC. The recurrence rate, recurrence-free survival (RFS), complication rate, operation time, postoperative length of stay, and cost during the perioperative period were extracted as main indices. The pooled standardized mean difference (SMD) or odds ratio (OR) with 95% confidence intervals (CI) were calculated and analyzed. Chi-square test and I 2 statistic were applied to determine the heterogeneity among studies. The sensitivity analysis was applied to explore the origin of heterogeneity, and the publication bias was evaluated by Egger's test. Results: Seven retrospective studies with a total of 867 patients met the eligibility criteria and were included in the final meta-analysis. Our study demonstrated that TA showed significant reduction in complication with a pooled OR 0.24 (95% CI 0.13 to 0.43), postoperative length of stay with a pooled SMD À3.14 (95% CI À4.77 to À1.51) and cost during the perioperative period with a pooled SMD of À1.69 (95% CI À3.18 to À0.20). It also demonstrated that both TA and RS had similar pooled proportion of recurrence of OR 0.93 (95% CI 0.38 to 2.30) and recurrence-free survive (RFS). The sensitivity analysis showed that each included study had no significant effect on the results and the results were stable and reliable. The Egger's test demonstrated publication bias was acceptable. Conclusions: TA may not be oncologically inferior to RS, and it is a relatively safe and economical alternative for the treatment of PTMC.

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Section: Discussionmentioning

confidence: 64%

Comparison of thermal ablation and routine surgery for the treatment of papillary thyroid microcarcinoma: a systematic review and Meta-analysis

Shen

Xue

Xie

et al. 2020

International Journal of Hyperthermia

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“…including AC005104.1, AC093278.2, AC098484.1, AL360181.2, LINC01011, AP001372.2, AC007637.1, AL354733.3, and AP001189.3, which were the first time that served as markers in the current research. The lncRNA EMX2OS, which has been validated and identified to potentially induce proliferation and invasion, and promote sphere formation in ovarian cancer cells by regulating the miR-654-3p/AKT3/PD-L1 Axis 28 Additionally, EMX2OS can be used as a biomarker in laryngeal cancer and papillary thyroid cancer 29,30 . Furthermore, SPINT1-AS1 was identified as a potential marker www.nature.com/scientificreports/ in the prognosis of colorectal cancer.…”

Section: Discussionmentioning

confidence: 99%

Identification of 12 immune-related lncRNAs and molecular subtypes for the clear cell renal cell carcinoma based on RNA sequencing data

Zhong

Chen

Zhong

et al. 2020

Sci Rep

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Clear cell renal cell carcinoma (ccRCC) is the most common type of renal cell carcinoma (RCC). Despite the existing extensive research, the molecular and pathogenic mechanisms of ccRCC are elusive. We aimed to identify the immune-related lncRNA signature and molecular subtypes associated with ccRCC. By integrating 4 microarray datasets from Gene Expression Omnibus database, we identified 49 immune-related genes. The corresponding immune-related lncRNAs were further identified in the TCGA dataset. 12-lncRNAs prognostic and independent signature was identified through survival analysis and survival difference between risk groups was further identified based on the risk score. Besides, we identified 3 molecular subtypes and survival analysis result showed that cluster 2 has a better survival outcome. Further, ssGSEA enrichment analysis for the immune-associated gene sets revealed that cluster 1 corresponded to a high immune infiltration level. While cluster 2 and cluster 3 corresponded to low and medium immune infiltration level, respectively. In addition, we validated the 12-lncRNA prognostic signature and molecular subtypes in an external validation dataset from the ICGC database. In summary, we identified a 12-lncRNA prognostic signature which may provide new insights into the molecular mechanisms of ccRCC and the molecular subtypes provided a theoretical basis for personalized treatment by clinicians. Renal cell carcinoma (RCC) accounts for over 90% of all kidney cancer cases among human adults 1. Clear cell renal cell carcinoma (ccRCC) is the most common RCC histological subtype which responsible for 70-80% of RCC cases 2. Recent studies estimate that 102,000 patients succumb to ccRCC and 202,000 new cases are diagnosed annually throughout the globe 3. Besides, ccRCC has no clear symptoms in its early stages therefore can only be diagnosed in advanced stages 4. Despite interventions through chemotherapy and radiotherapy, ccRCC is prone to distant metastasis. These metastases occur in lung, bone, liver, distant lymph nodes, and renal vein 5. A few effective biomarkers, particularly in both early and advanced stages of ccRCC, have been identified. The recent version of the human genome annotation transcribes approximately 16,000 long non-coding RNAs (lncRNAs) responsible for 26.7% of the total genes (https ://www.genco degen es.org/human /) 6. lncRNAs are non-coding RNAs composed of about 200 nucleotides in length. They include the antisense lncRNAs, intronic transcripts, large intergenic noncoding RNAs (lincRNAs), promoter-associated lncRNAs, and UTR associated lncRNAs 7. Previous studies have revealed that lncRNA plays an important role in regulating gene expression, epigenetics, cell differentiation, and ontogeny 8,9. Additionally, studies have shown that massive aberrantly expressed

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“…It was shown, however, to be highly expressed in hepatocellular carcinoma and inhibited the transcription of THBS1 by recruiting DNMT3b to its promoter region [34]. Previous research has revealed that the downregulation of EMX2OS in classical papillary thyroid cancer might independently predict shorter recurrence-free survival [35], while the overexpression of EMX2OS in ovarian cancer and EMX2OS/miR-654/AKT3 axis may target PD-L1(programmed cell death protein 1) to suppress the initiation and progression of cancer [36].…”

Section: Discussionmentioning

confidence: 99%

Immune‐related Long Noncoding RNA Signature for Patients with Cervical Cancer

Zheng

Tong

Cao

et al. 2020

Preprint

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Background: Cervical cancer (CC) is a common gynecological malignancy for which prognostic and therapeutic biomarkers are urgently needed. The signature based on immune‐related lncRNAs(IRLs) of CC has never been reported. This study aimed to establish an IRL signature for patients with CC.Methods: The RNA-seq dataset was obtained from the TCGA, GEO, and GTEx database. The immune scores（IS）based on single-sample gene set enrichment analysis (ssGSEA) were calculated to identify the IRLs, which were then analyzed using univariate Cox regression analysis to identify significant prognostic IRLs. A risk score model was established to divide patients into low-risk and high-risk groups based on the median risk score of these IRLs. This was then validated by splitting TCGA dataset(n=304) into a training-set(n=152) and a valid-set(n=152). The fraction of 22 immune cell subpopulations was evaluated in each sample to identify the differences between low-risk and high-risk groups. Additionally, a ceRNA network associated with the IRLs was constructed.Results: A cohort of 326 CC and 21 normal tissue samples with corresponding clinical information was included in this study. Twenty-eight IRLs were collected according to the Pearson’s correlation analysis between immune score and lncRNA expression (P < 0.01). Four IRLs (BZRAP1-AS1, EMX2OS, ZNF667-AS1, and CTC-429P9.1) with the most significant prognostic values (P < 0.05) were identified which demonstrated an ability to stratify patients into low-risk and high-risk groups by developing a risk score model. It was observed that patients in the low‐risk group showed longer overall survival (OS) than those in the high‐risk group in the training-set, valid-set, and total-set. The area under the curve (AUC) of the receiver operating characteristic curve (ROC curve) for the four IRLs signature in predicting the one-, two-, and three-year survival rates were larger than 0.65. In addition, the low-risk and high-risk groups displayed different immune statuses in GSEA. These IRLs were also significantly correlated with immune cell infiltration. Conclusions: Our results showed that the IRL signature had a prognostic value for CC. Meanwhile, the specific mechanisms of the four-IRLs in the development of CC were ascertained preliminarily.

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The downregulation of lncRNA EMX2OS might independently predict shorter recurrence-free survival of classical papillary thyroid cancer

Cited by 26 publications

References 29 publications

Comparison of thermal ablation and routine surgery for the treatment of papillary thyroid microcarcinoma: a systematic review and Meta-analysis

Comparison of thermal ablation and routine surgery for the treatment of papillary thyroid microcarcinoma: a systematic review and Meta-analysis

Identification of 12 immune-related lncRNAs and molecular subtypes for the clear cell renal cell carcinoma based on RNA sequencing data

Immune‐related Long Noncoding RNA Signature for Patients with Cervical Cancer

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