Next Article in Journal
2-deoxy-d-glucose Ameliorates Animal Models of Dermatitis
Previous Article in Journal
Protective Effects of Astaxanthin Supplementation against Ultraviolet-Induced Photoaging in Hairless Mice
Open AccessArticle

A Multi-Omics Analysis of Bone Morphogenetic Protein 5 (BMP5) mRNA Expression and Clinical Prognostic Outcomes in Different Cancers Using Bioinformatics Approaches

1
Department of Genetic Engineering and Biotechnology, Jashore University of Science & Technology, Jashore 7408, Bangladesh
2
School of Medicine, Western Sydney University, Campbelltown, NSW 2560, Australia
3
Laboratory Science & Service Division (LSSD), International Centre for Diarrhoeal Disease Research, Dhaka 1213, Bangladesh
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
These authors also contributed equally to this work.
Biomedicines 2020, 8(2), 19; https://doi.org/10.3390/biomedicines8020019
Received: 25 November 2019 / Revised: 27 December 2019 / Accepted: 17 January 2020 / Published: 21 January 2020
(This article belongs to the Section Immunology and Immunotherapy)
Cumulative studies have provided controversial evidence for the prognostic values of bone morphogenetic protein 5 (BMP5) in different types of cancers such as colon, breast, lung, bladder, and ovarian cancer. To address the inconsistent correlation of BMP5 expression with patient survival and molecular function of BMP5 in relation to cancer progression, we performed a systematic study to determine whether BMP5 could be used as a prognostic marker in human cancers. BMP5 expression and prognostic values were assessed using different bioinformatics tools such as ONCOMINE, GENT, TCGA, GEPIA, UALCAN, PrognoScan, PROGgene V2 server, and Kaplan–Meier Plotter. In addition, we used cBioPortal database for the identification and analysis of BMP5 mutations, copy number alterations, altered expression, and protein–protein interaction (PPI). We found that BMP5 is frequently down-regulated in our queried cancer types. Use of prognostic analysis showed negative association of BMP5 down-regulation with four types of cancer except for ovarian cancer. The highest mutation was found in the R321*/Q amino acid of BMP5 corresponding to colorectal and breast cancer whereas the alteration frequency was higher in lung squamous carcinoma datasets (>4%). In PPI analysis, we found 31 protein partners of BMP5, among which 11 showed significant co-expression (p-value < 0.001, log odds ratio > 1). Pathway analysis of differentially co-expressed genes with BMP5 in breast, lung, colon, bladder and ovarian cancers revealed the BMP5-correlated pathways. Collectively, this data-driven study demonstrates the correlation of BMP5 expression with patient survival and identifies the involvement of BMP5 pathways that may serve as targets of a novel biomarker for various types of cancers in human. View Full-Text
Keywords: BMP5; BMP5 mutations; cancer prognostic biomarkers; cancer progression; multi-omics analysis; protein–protein interaction; bioinformatics BMP5; BMP5 mutations; cancer prognostic biomarkers; cancer progression; multi-omics analysis; protein–protein interaction; bioinformatics
Show Figures

Figure 1

MDPI and ACS Style

Karim, M..A.; Samad, A.; Adhikari, U.K.; Kader, M..A.; Kabir, M..M.; Islam, M..A.; Hasan, M..N. A Multi-Omics Analysis of Bone Morphogenetic Protein 5 (BMP5) mRNA Expression and Clinical Prognostic Outcomes in Different Cancers Using Bioinformatics Approaches. Biomedicines 2020, 8, 19. https://doi.org/10.3390/biomedicines8020019

AMA Style

Karim MA, Samad A, Adhikari UK, Kader MA, Kabir MM, Islam MA, Hasan MN. A Multi-Omics Analysis of Bone Morphogenetic Protein 5 (BMP5) mRNA Expression and Clinical Prognostic Outcomes in Different Cancers Using Bioinformatics Approaches. Biomedicines. 2020; 8(2):19. https://doi.org/10.3390/biomedicines8020019

Chicago/Turabian Style

Karim, Md. A.; Samad, Abdus; Adhikari, Utpal K.; Kader, Md. A.; Kabir, Md. M.; Islam, Md. A.; Hasan, Md. N. 2020. "A Multi-Omics Analysis of Bone Morphogenetic Protein 5 (BMP5) mRNA Expression and Clinical Prognostic Outcomes in Different Cancers Using Bioinformatics Approaches" Biomedicines 8, no. 2: 19. https://doi.org/10.3390/biomedicines8020019

Find Other Styles
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Search more from Scilit
 
Search
Back to TopTop