Identification of potential gene signatures associated with osteosarcoma by integrated bioinformatics analysis.

PeerJ
Yutao JiaRong Tian

Abstract

Osteosarcoma (OS) is the most primary malignant bone cancer in children and adolescents with a high mortality rate. This work aims to screen novel potential gene signatures associated with OS by integrated microarray analysis of the Gene Expression Omnibus (GEO) database. The OS microarray datasets were searched and downloaded from GEO database to identify differentially expressed genes (DEGs) between OS and normal samples. Afterwards, the functional enrichment analysis, protein-protein interaction (PPI) network analysis and transcription factor (TF)-target gene regulatory network were applied to uncover the biological function of DEGs. Finally, two published OS datasets (GSE39262 and GSE126209) were obtained from GEO database for evaluating the expression level and diagnostic values of key genes.  In total 1,059 DEGs (569 up-regulated DEGs and 490 down-regulated DEGs) between OS and normal samples were screened. Functional analysis showed that these DEGs were markedly enriched in 214 GO terms and 54 KEGG pathways such as pathways in cancer. Five genes (CAMP, METTL7A, TCN1, LTF and CXCL12) acted as hub genes in PPI network. Besides, METTL7A, CYP4F3, TCN1, LTF and NETO2 were key genes in TF-gene network. Moreover, Pax-6 regulate...Continue Reading

References

Apr 1, 1995·Infection and Immunity·J W LarrickS C Wright
Dec 1, 1996·Current Opinion in Cell Biology·A MansouriP Gruss
Feb 1, 2002·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Stefan S BielackKurt Winkler
Jul 2, 2004·Nature Reviews. Cancer·Fran Balkwill
Sep 4, 2007·Lung Cancer : Journal of the International Association for the Study of Lung Cancer·Judith von HaussenRobert Bals
Feb 24, 2009·Proceedings of the National Academy of Sciences of the United States of America·Seth B CoffeltAline B Scandurro
Jul 25, 2009·Bioinformatics·Guillemette MarotFlorence Jaffrézic
Aug 5, 2009·The Journal of the American Academy of Orthopaedic Surgeons·Patrick J MesserschmittPatrick J Getty
Jun 4, 2010·International Journal of Cancer. Journal International Du Cancer·William K K WuChi H Cho
Jul 25, 2013·Clinical Sarcoma Research·Wei XiaoAnne-Marie Cleton-Jansen
Apr 12, 2014·Journal of Molecular Medicine : Official Organ of the Gesellschaft Deutscher Naturforscher Und Ärzte·Takashi Nagasawa
Aug 1, 2014·Journal of Cellular Physiology·Puneet DhawanSylvia Christakos
Aug 5, 2014·PloS One·Lorraine FrewSarah J Stock
Nov 6, 2014·Journal of Oral Pathology & Medicine : Official Publication of the International Association of Oral Pathologists and the American Academy of Oral Pathology·Jie ZhangKai Wang
Aug 26, 2015·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Michael S IsakoffRichard Gorlick
Dec 10, 2016·Rheumatology and Therapy·Brock A LindseyEugenie S Kleinerman
May 31, 2018·Cellular Physiology and Biochemistry : International Journal of Experimental Cellular Physiology, Biochemistry, and Pharmacology·Xi ChenLihua Liang
Apr 15, 2019·Pathology Oncology Research : POR·Chenggang YangXiaofeng Shi
Jul 7, 2019·BMC Bioinformatics·Nguyen Quoc Khanh LeHui-Yuan Yeh
Jan 11, 2020·Computational and Structural Biotechnology Journal·Nguyen Quoc Khanh LeHui-Yuan Yeh
Jul 3, 2020·Briefings in Bioinformatics·Duyen Thi DoNguyen Quoc Khanh Le

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