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Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer

With the widespread use of highly active antiretroviral therapy (HARRT), the survival time of AIDS patients has been greatly extended. However, the incidence of lung cancer in HIV‐infected patients is increasing and has become a major problem threatening the survival of AIDS patients. The aim of thi...

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Autores principales: Wu, Liwei, Chen, Yongfang, Wan, Laiyi, Wen, Zilu, Liu, Rong, Li, Leilei, Song, Yanzheng, Wang, Lin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9844649/
https://www.ncbi.nlm.nih.gov/pubmed/35608130
http://dx.doi.org/10.1002/cam4.4853
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author Wu, Liwei
Chen, Yongfang
Wan, Laiyi
Wen, Zilu
Liu, Rong
Li, Leilei
Song, Yanzheng
Wang, Lin
author_facet Wu, Liwei
Chen, Yongfang
Wan, Laiyi
Wen, Zilu
Liu, Rong
Li, Leilei
Song, Yanzheng
Wang, Lin
author_sort Wu, Liwei
collection PubMed
description With the widespread use of highly active antiretroviral therapy (HARRT), the survival time of AIDS patients has been greatly extended. However, the incidence of lung cancer in HIV‐infected patients is increasing and has become a major problem threatening the survival of AIDS patients. The aim of this study is to use Weighted Gene Co‐expression Network Analysis (WGCNA) and differential gene analysis to find possible key genes involved in HIV‐infected lung cancer. In this study, using lung tissue samples from five pairs of HIV‐infected lung cancer patients, second‐generation sequencing was performed and transcriptomic data were obtained. A total of 132 HIV‐infected lung cancer‐related genes were screened out by WGCNA and differential gene expression analysis methods. Based on gene annotation analysis, these genes were mainly enriched in mitosis‐related functions and pathways. In addition, in protein–protein interaction (PPI) analysis, a total of 39 hub genes were identified. Among them, five genes (ASPM, CDCA8, CENPF, CEP55, and PLK1) were present in both three hub gene lists (intersection gene, DEGs, and WCGNA module) suggesting that these five genes may become key genes involved in HIV‐infected lung cancer.
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spelling pubmed-98446492023-01-24 Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer Wu, Liwei Chen, Yongfang Wan, Laiyi Wen, Zilu Liu, Rong Li, Leilei Song, Yanzheng Wang, Lin Cancer Med Research Articles With the widespread use of highly active antiretroviral therapy (HARRT), the survival time of AIDS patients has been greatly extended. However, the incidence of lung cancer in HIV‐infected patients is increasing and has become a major problem threatening the survival of AIDS patients. The aim of this study is to use Weighted Gene Co‐expression Network Analysis (WGCNA) and differential gene analysis to find possible key genes involved in HIV‐infected lung cancer. In this study, using lung tissue samples from five pairs of HIV‐infected lung cancer patients, second‐generation sequencing was performed and transcriptomic data were obtained. A total of 132 HIV‐infected lung cancer‐related genes were screened out by WGCNA and differential gene expression analysis methods. Based on gene annotation analysis, these genes were mainly enriched in mitosis‐related functions and pathways. In addition, in protein–protein interaction (PPI) analysis, a total of 39 hub genes were identified. Among them, five genes (ASPM, CDCA8, CENPF, CEP55, and PLK1) were present in both three hub gene lists (intersection gene, DEGs, and WCGNA module) suggesting that these five genes may become key genes involved in HIV‐infected lung cancer. John Wiley and Sons Inc. 2022-05-24 /pmc/articles/PMC9844649/ /pubmed/35608130 http://dx.doi.org/10.1002/cam4.4853 Text en © 2022 The Authors. Cancer Medicine published by John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Articles
Wu, Liwei
Chen, Yongfang
Wan, Laiyi
Wen, Zilu
Liu, Rong
Li, Leilei
Song, Yanzheng
Wang, Lin
Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer
title Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer
title_full Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer
title_fullStr Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer
title_full_unstemmed Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer
title_short Identification of unique transcriptomic signatures and key genes through RNA sequencing and integrated WGCNA and PPI network analysis in HIV infected lung cancer
title_sort identification of unique transcriptomic signatures and key genes through rna sequencing and integrated wgcna and ppi network analysis in hiv infected lung cancer
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9844649/
https://www.ncbi.nlm.nih.gov/pubmed/35608130
http://dx.doi.org/10.1002/cam4.4853
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