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Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA

Lung cancer has the lowest survival rate spread globally resulting in a large number of deaths. This is attributed to insufficient measures such as lack of early detection and chemoresistance in the patients. It can be subdivided into two histological groups: Non-Small-Cell Lung Cancer (NSCLC), whic...

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Autores principales: Shriwash, Nitesh, Singh, Prithvi, Arora, Shweta, Ali, Syed Mansoor, Ali, Sher, Dohare, Ravins
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6580189/
https://www.ncbi.nlm.nih.gov/pubmed/31338439
http://dx.doi.org/10.1016/j.heliyon.2019.e01707
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author Shriwash, Nitesh
Singh, Prithvi
Arora, Shweta
Ali, Syed Mansoor
Ali, Sher
Dohare, Ravins
author_facet Shriwash, Nitesh
Singh, Prithvi
Arora, Shweta
Ali, Syed Mansoor
Ali, Sher
Dohare, Ravins
author_sort Shriwash, Nitesh
collection PubMed
description Lung cancer has the lowest survival rate spread globally resulting in a large number of deaths. This is attributed to insufficient measures such as lack of early detection and chemoresistance in the patients. It can be subdivided into two histological groups: Non-Small-Cell Lung Cancer (NSCLC), which is most prevalent (85% of all lung cancers) but less destructive; and Small-Cell Lung Cancer (SCLC), which is intermittently metastatic and less prevalent (15% of all lung cancers). The present study deals with the analysis of gene expression of two subtypes to identify the Differentially Expressed Genes (DEGs). For this study, we selected two datasets from the Omnibus database, which included 50 non-small cell lung cancer samples, 31 small cell lung cancer samples, and 48 samples from normal lung tissue. After DEGs identification using the meta-analysis approach, they were then subjected to further analysis following p-value adjustment via the Benjamini-Hochberg method. We identified 440 overexpressed and 489 underexpressed genes in NSCLC, and 489 overexpressed and 525 underexpressed genes in SCLC, compared with normal lung tissues. Furthermore, we identified 3 overlapping genes between upregulated DEGs in NSCLC and downregulated DEGs in SCLC; and 8 overlapping genes between upregulated DEGs in SCLC and downregulated DEGs in NSCLC. Accordingly, a Protein-Protein Interaction (PPI) network of the overlapping genes was generated, which contained a total of 261 genes, of which the top five were TRIM29, ANK3, CSTA, FGG, and AGR2. These five candidate genes reported herein may prove to be potential therapeutic targets.
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spelling pubmed-65801892019-07-23 Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA Shriwash, Nitesh Singh, Prithvi Arora, Shweta Ali, Syed Mansoor Ali, Sher Dohare, Ravins Heliyon Article Lung cancer has the lowest survival rate spread globally resulting in a large number of deaths. This is attributed to insufficient measures such as lack of early detection and chemoresistance in the patients. It can be subdivided into two histological groups: Non-Small-Cell Lung Cancer (NSCLC), which is most prevalent (85% of all lung cancers) but less destructive; and Small-Cell Lung Cancer (SCLC), which is intermittently metastatic and less prevalent (15% of all lung cancers). The present study deals with the analysis of gene expression of two subtypes to identify the Differentially Expressed Genes (DEGs). For this study, we selected two datasets from the Omnibus database, which included 50 non-small cell lung cancer samples, 31 small cell lung cancer samples, and 48 samples from normal lung tissue. After DEGs identification using the meta-analysis approach, they were then subjected to further analysis following p-value adjustment via the Benjamini-Hochberg method. We identified 440 overexpressed and 489 underexpressed genes in NSCLC, and 489 overexpressed and 525 underexpressed genes in SCLC, compared with normal lung tissues. Furthermore, we identified 3 overlapping genes between upregulated DEGs in NSCLC and downregulated DEGs in SCLC; and 8 overlapping genes between upregulated DEGs in SCLC and downregulated DEGs in NSCLC. Accordingly, a Protein-Protein Interaction (PPI) network of the overlapping genes was generated, which contained a total of 261 genes, of which the top five were TRIM29, ANK3, CSTA, FGG, and AGR2. These five candidate genes reported herein may prove to be potential therapeutic targets. Elsevier 2019-06-14 /pmc/articles/PMC6580189/ /pubmed/31338439 http://dx.doi.org/10.1016/j.heliyon.2019.e01707 Text en © 2019 Published by Elsevier Ltd. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Article
Shriwash, Nitesh
Singh, Prithvi
Arora, Shweta
Ali, Syed Mansoor
Ali, Sher
Dohare, Ravins
Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA
title Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA
title_full Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA
title_fullStr Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA
title_full_unstemmed Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA
title_short Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA
title_sort identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mrna
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6580189/
https://www.ncbi.nlm.nih.gov/pubmed/31338439
http://dx.doi.org/10.1016/j.heliyon.2019.e01707
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