Identification of Prognostic Long Noncoding RNAs Associated with Spontaneous Regression of Neuroblastoma

Overview

Journal Cancer Med

Specialty Oncology

Date 2020 Mar 28

PMID 32216054

Citations 18

Authors

Xinyao Meng

Erhu Fang

Xiang Zhao

Jiexiong Feng

Affiliations

Soon will be listed here.

Abstract

Background: The association between long noncoding RNAs (lncRNAs) and spontaneous regression of neuroblastoma (NB) has rarely been investigated and remains unknown.

Objective: To identify prognostic lncRNAs involved in the spontaneous regression of NB.

Methods: Differential expression analyses were performed between those samples with an outcome of death in stage 4 NB group and those samples with an outcome of survival in stage 4S NB group in two independent public datasets, respectively. Univariate Cox proportional hazard regression survival analysis was performed in each of the entire cohort to identify those lncRNAs significantly associated with overall survival (OS). Those lncRNAs independently associated with OS were then identified by multivariate Cox survival analysis and used to construct an lncRNA risk score.

Results: A total of 20 differentially expressed and survival-related lncRNAs were identified sharing between the two independent cohorts. The expression of each of these 20 lncRNAs was significantly correlated with the expression of NTRK1, which is a well-known factor involved in NB spontaneous regression. Four lncRNAs (LNC00839, FIRRE, LOC283177, and LOC101928100) were identified to be significantly associated with survival independent with each other and a four-lncRNA signature risk score was constructed. Patients with high lncRNA signature risk score had a significantly poorer OS and event-free survival than those with low lncRNA signature risk score. The four-lncRNA signature has a good performance in predicting survival independent with MYCN amplification (nonamplified vs amplified), age status (<18 months vs ≥18 months), risk status (low risk vs high risk), and International Neuroblastoma Staging System (INSS) stage (INSS 1/2/3/4S vs INSS 4).

Conclusions: We identified 20 survival-related lncRNAs that might be associated with the spontaneous regression of NB and developed a four-lncRNA signature risk score. The four-lncRNA signature is an independent prognostic factor for survival of NB patients.

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References

Xu L, Yu X, Wei B, Hui H, Sun Y, Dai J . Long non-coding RNA DUXAP8 regulates proliferation and invasion of esophageal squamous cell cancer. Eur Rev Med Pharmacol Sci. 2018; 22(9):2646-2652. DOI: 10.26355/eurrev_201805_14959. View

Erttmann R, Tafese T, Berthold F, Kerbl R, Mann J, Parker L . 10 years' neuroblastoma screening in Europe: preliminary results of a clinical and biological review from the Study Group for Evaluation of Neuroblastoma Screening in Europe (SENSE). Eur J Cancer. 1998; 34(9):1391-7. DOI: 10.1016/s0959-8049(98)00135-x. View

Cohn S, Pearson A, London W, Monclair T, Ambros P, Brodeur G . The International Neuroblastoma Risk Group (INRG) classification system: an INRG Task Force report. J Clin Oncol. 2008; 27(2):289-97. PMC: 2650388. DOI: 10.1200/JCO.2008.16.6785. View

Bardou P, Mariette J, Escudie F, Djemiel C, Klopp C . jvenn: an interactive Venn diagram viewer. BMC Bioinformatics. 2014; 15:293. PMC: 4261873. DOI: 10.1186/1471-2105-15-293. View

Brodeur G, Minturn J, Ho R, Simpson A, Iyer R, Varela C . Trk receptor expression and inhibition in neuroblastomas. Clin Cancer Res. 2009; 15(10):3244-50. PMC: 4238907. DOI: 10.1158/1078-0432.CCR-08-1815. View

Chalei V, Sansom S, Kong L, Lee S, Montiel J, Vance K . The long non-coding RNA Dali is an epigenetic regulator of neural differentiation. Elife. 2014; 3:e04530. PMC: 4383022. DOI: 10.7554/eLife.04530. View

Xu X, Zhao Y, Simon R . Gene Set Expression Comparison kit for BRB-ArrayTools. Bioinformatics. 2007; 24(1):137-9. DOI: 10.1093/bioinformatics/btm541. View

Zhao X, Li D, Huang D, Song H, Mei H, Fang E . Retracted: Risk-Associated Long Noncoding RNA FOXD3-AS1 Inhibits Neuroblastoma Progression by Repressing PARP1-Mediated Activation of CTCF. Mol Ther. 2018; 26(3):755-773. PMC: 5910666. DOI: 10.1016/j.ymthe.2017.12.017. View

Bhan A, Soleimani M, Mandal S . Long Noncoding RNA and Cancer: A New Paradigm. Cancer Res. 2017; 77(15):3965-3981. PMC: 8330958. DOI: 10.1158/0008-5472.CAN-16-2634. View

10.

Pandey G, Mitra S, Subhash S, Hertwig F, Kanduri M, Mishra K . The risk-associated long noncoding RNA NBAT-1 controls neuroblastoma progression by regulating cell proliferation and neuronal differentiation. Cancer Cell. 2014; 26(5):722-37. DOI: 10.1016/j.ccell.2014.09.014. View

11.

Wu W, Gao H, Li X, Zhu Y, Peng S, Yu J . LncRNA TPT1-AS1 promotes tumorigenesis and metastasis in epithelial ovarian cancer by inducing TPT1 expression. Cancer Sci. 2019; 110(5):1587-1598. PMC: 6500995. DOI: 10.1111/cas.14009. View

12.

Meng X, Fang E, Zhao X, Feng J . Identification of prognostic long noncoding RNAs associated with spontaneous regression of neuroblastoma. Cancer Med. 2020; 9(11):3800-3815. PMC: 7286466. DOI: 10.1002/cam4.3022. View

13.

Jiang H, Huang G, Zhao N, Zhang T, Jiang M, He Y . Long non-coding RNA TPT1-AS1 promotes cell growth and metastasis in cervical cancer via acting AS a sponge for miR-324-5p. J Exp Clin Cancer Res. 2018; 37(1):169. PMC: 6060520. DOI: 10.1186/s13046-018-0846-8. View

14.

Lavarino C, Cheung N, Garcia I, Domenech G, de Torres C, Alaminos M . Specific gene expression profiles and chromosomal abnormalities are associated with infant disseminated neuroblastoma. BMC Cancer. 2009; 9:44. PMC: 2642835. DOI: 10.1186/1471-2407-9-44. View

15.

Benard J, Raguenez G, Kauffmann A, Valent A, Ripoche H, Joulin V . MYCN-non-amplified metastatic neuroblastoma with good prognosis and spontaneous regression: a molecular portrait of stage 4S. Mol Oncol. 2009; 2(3):261-71. PMC: 5527812. DOI: 10.1016/j.molonc.2008.07.002. View

16.

Brodeur G . Spontaneous regression of neuroblastoma. Cell Tissue Res. 2018; 372(2):277-286. PMC: 5920563. DOI: 10.1007/s00441-017-2761-2. View

17.

Tang Y, Cheung B, Atmadibrata B, Marshall G, Dinger M, Liu P . The regulatory role of long noncoding RNAs in cancer. Cancer Lett. 2017; 391:12-19. DOI: 10.1016/j.canlet.2017.01.010. View

18.

DAngio G, Evans A, KOOP C . Special pattern of widespread neuroblastoma with a favourable prognosis. Lancet. 1971; 1(7708):1046-9. DOI: 10.1016/s0140-6736(71)91606-0. View

19.

Suita S, Zaizen Y, Sera Y, Takamatsu H, Mizote H, Ohgami H . Mass screening for neuroblastoma: quo vadis? A 9-year experience from the Pediatric Oncology Study Group of the Kyushu area in Japan. J Pediatr Surg. 1996; 31(4):555-8. DOI: 10.1016/s0022-3468(96)90495-9. View

20.

Cerami E, Gao J, Dogrusoz U, Gross B, Sumer S, Aksoy B . The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data. Cancer Discov. 2012; 2(5):401-4. PMC: 3956037. DOI: 10.1158/2159-8290.CD-12-0095. View