Integrated Analysis of a Risk Score System Predicting Prognosis and a ceRNA Network for Differentially Expressed lncRNAs in Multiple Myeloma

Frontiers in Genetics
Sijie ZhouHuixiang Li

Abstract

Long non-coding RNAs (lncRNAs) are non-protein-coding RNAs longer than 200 nucleotides. Accumulating evidence demonstrates that lncRNA is a potential biomarker for cancer diagnosis and prognosis. However, there are no prognostic biomarkers and lncRNA models for multiple myeloma (MM). Hence, it is necessary to screen novel lncRNA that can potentially participate in the initiation and progression of MM and consequently construct a risk score system for the disease. Raw microarray datasets were obtained from the Gene Expression Omnibus website. Weighted gene co-expression network analysis and principal component analysis identified 12 lncRNAs of interest. Then, univariate, least absolute shrinkage and selection operator Cox regression and multivariate Cox hazard regression analysis identified two lncRNAs (LINC00996 and LINC00525) that were formulated to construct a risk score system to predict survival. Receiver operating characteristic analysis certificated the superior performance in predicting 3-year overall survival (area under the curve = 0.829). The similar prognostic values of the two-lncRNA signature were also observed in the tested The Cancer Genome Atlas dataset. Furthermore, two other lncRNAs (LINC00324 and LINC01128) w...Continue Reading

References

Feb 28, 1997·Statistics in Medicine·R Tibshirani
Dec 19, 2001·British Journal of Cancer·E Bálint E, K H Vousden
Oct 4, 2005·Proceedings of the National Academy of Sciences of the United States of America·Aravind SubramanianJill P Mesirov
Mar 11, 2008·Nature Biotechnology·Markus Ringnér
Dec 31, 2008·BMC Bioinformatics·Peter Langfelder, Steve Horvath
Jul 17, 2009·Neural Networks : the Official Journal of the International Neural Network Society·Junbin GaoDaming Shi
Oct 23, 2009·Nature·Stephen P Jackson, Jiri Bartek
Apr 14, 2010·Proceedings of the National Academy of Sciences of the United States of America·Yiming ZhouJohn D Shaughnessy
Oct 12, 2010·RNA Biology·Tiffany Hung, Howard Y Chang
Nov 26, 2010·Annual Review of Medicine·Jacob LaubachKenneth Anderson
Oct 10, 2013·Nature Reviews. Molecular Cell Biology·Sarah Geisler, Jeff Coller
Dec 4, 2013·Nature Reviews. Genetics·Alessandro Fatica, Irene Bozzoni
May 8, 2014·Advances in Hematology·Steven M PrideauxTimothy J Chevassut
Jan 22, 2015·Nucleic Acids Research·Matthew E RitchieGordon K Smyth
May 13, 2015·Bioinformatics·Wencke WalterMercedes Ricote
May 20, 2017·Molecular Cell·Chun-Song YangBryce M Paschal
Jul 27, 2017·Cancer Management and Research·Wei-Chih ChenLori A Hazlehurst
Nov 25, 2017·Journal of Neuro-oncology·Wen WangJizong Zhao
Dec 8, 2017·Oncology Research·Hui MengQianchuan Huang
Apr 20, 2019·Journal of Clinical Laboratory Analysis·Zhisen ShenDong Ye
May 3, 2019·Journal of Cellular Biochemistry·Huihui ZhouDanli Zeng
Jun 7, 2019·Journal of Cellular Biochemistry·Dong OuyangXueqiong Zhu

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Datasets Mentioned

BETA
GSE16791
GSE57317
GSE16558
GSE47552
GSE17498

Methods Mentioned

BETA
PCA
PCR
RNA-Seq

Software Mentioned

Cytoscape
RNA22
Limma
GSVA
GOplot
R glmnet
GOplot R
LASSO
GSEA
RNA22 tool

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