Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma
Shaomei Tang,1 Xiaoliang Huang,2 Haixing Jiang,1 Shanyu Qin1 1Department of Gastroenterology, The First Affiliated Hospital of Guangxi Medical University, Nanning, People’s Republic of China; 2Department of Gastrointestinal Surgery, Guangxi Medical University Cancer Hospital, Nanning, People’s Repub...
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| Format: | Article |
| Language: | English |
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Dove Medical Press
2021-08-01
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| Series: | International Journal of General Medicine |
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| Online Access: | https://www.dovepress.com/identification-of-a-five-gene-prognostic-signature-related-to-b-cells--peer-reviewed-fulltext-article-IJGM |
| _version_ | 1818682666975756288 |
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| author | Tang S Huang X Jiang H Qin S |
| author_facet | Tang S Huang X Jiang H Qin S |
| author_sort | Tang S |
| collection | DOAJ |
| description | Shaomei Tang,1 Xiaoliang Huang,2 Haixing Jiang,1 Shanyu Qin1 1Department of Gastroenterology, The First Affiliated Hospital of Guangxi Medical University, Nanning, People’s Republic of China; 2Department of Gastrointestinal Surgery, Guangxi Medical University Cancer Hospital, Nanning, People’s Republic of ChinaCorrespondence: Shanyu QinDepartment of Gastroenterology, The First Affiliated Hospital of Guangxi Medical University, Nanning, People’s Republic of ChinaEmail qsy0511@163.comBackground: Pancreatic adenocarcinoma (PAAD) is an extremely malignant cancer. Immunotherapy is a promising avenue to increase the survival time of patients with PAAD.Methods: RNA sequencing and clinical data for PAAD were downloaded from the TCGA database. The ssGSEA method and weighted gene co-expression network analysis were used to calculate the relative abundance of tumor-infiltrating immune cells and identify the related modules. Least absolute shrinkage and selection operator (LASSO) and Cox regression analyses were used to construct a prognostic model. MCPcounter and EPIC were also used to assess immune cell components using gene expression profiles.Results: The B cells closely related module was identified, and five genes, including ARID5A, CLEC2B, MICAL1, MZB1, and RAPGEF1, were ultimately selected to establish a prognostic signature to calculate the risk scores of PAAD patients. Kaplan–Meier curves showed worse survival in the high-risk patients (p < 0.05), and the area under the receiver operating characteristic (ROC) curves of risk score for 1-year and 3-year survival were 0.78 and 0.80, respectively, based on the training set. Similar results were verified using the validated and combined sets. Interestingly, the low-risk group presented significantly elevated immune and stromal scores, proportion of B cells, and associations between these five genes and B cells were identified using multiple methods including ssGSEA, MCPcounter, and EPIC.Conclusion: This is the first attempt to study a B cells-related prognostic signature, which is instrumental in the exploration of novel prognostic biomarkers in PAAD.Keywords: B cells, prognostic signature, WGCNA, ssGSEA, pancreatic adenocarcinoma |
| first_indexed | 2024-12-17T10:22:29Z |
| format | Article |
| id | doaj.art-687c210587cd4a71a7f7490bbc0ac17f |
| institution | Directory Open Access Journal |
| issn | 1178-7074 |
| language | English |
| last_indexed | 2024-12-17T10:22:29Z |
| publishDate | 2021-08-01 |
| publisher | Dove Medical Press |
| record_format | Article |
| series | International Journal of General Medicine |
| spelling | doaj.art-687c210587cd4a71a7f7490bbc0ac17f2022-12-21T21:52:45ZengDove Medical PressInternational Journal of General Medicine1178-70742021-08-01Volume 145051506868351Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic AdenocarcinomaTang SHuang XJiang HQin SShaomei Tang,1 Xiaoliang Huang,2 Haixing Jiang,1 Shanyu Qin1 1Department of Gastroenterology, The First Affiliated Hospital of Guangxi Medical University, Nanning, People’s Republic of China; 2Department of Gastrointestinal Surgery, Guangxi Medical University Cancer Hospital, Nanning, People’s Republic of ChinaCorrespondence: Shanyu QinDepartment of Gastroenterology, The First Affiliated Hospital of Guangxi Medical University, Nanning, People’s Republic of ChinaEmail qsy0511@163.comBackground: Pancreatic adenocarcinoma (PAAD) is an extremely malignant cancer. Immunotherapy is a promising avenue to increase the survival time of patients with PAAD.Methods: RNA sequencing and clinical data for PAAD were downloaded from the TCGA database. The ssGSEA method and weighted gene co-expression network analysis were used to calculate the relative abundance of tumor-infiltrating immune cells and identify the related modules. Least absolute shrinkage and selection operator (LASSO) and Cox regression analyses were used to construct a prognostic model. MCPcounter and EPIC were also used to assess immune cell components using gene expression profiles.Results: The B cells closely related module was identified, and five genes, including ARID5A, CLEC2B, MICAL1, MZB1, and RAPGEF1, were ultimately selected to establish a prognostic signature to calculate the risk scores of PAAD patients. Kaplan–Meier curves showed worse survival in the high-risk patients (p < 0.05), and the area under the receiver operating characteristic (ROC) curves of risk score for 1-year and 3-year survival were 0.78 and 0.80, respectively, based on the training set. Similar results were verified using the validated and combined sets. Interestingly, the low-risk group presented significantly elevated immune and stromal scores, proportion of B cells, and associations between these five genes and B cells were identified using multiple methods including ssGSEA, MCPcounter, and EPIC.Conclusion: This is the first attempt to study a B cells-related prognostic signature, which is instrumental in the exploration of novel prognostic biomarkers in PAAD.Keywords: B cells, prognostic signature, WGCNA, ssGSEA, pancreatic adenocarcinomahttps://www.dovepress.com/identification-of-a-five-gene-prognostic-signature-related-to-b-cells--peer-reviewed-fulltext-article-IJGMb cellsprognostic signaturewgcnassgseapancreatic adenocarcinoma |
| spellingShingle | Tang S Huang X Jiang H Qin S Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma International Journal of General Medicine b cells prognostic signature wgcna ssgsea pancreatic adenocarcinoma |
| title | Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma |
| title_full | Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma |
| title_fullStr | Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma |
| title_full_unstemmed | Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma |
| title_short | Identification of a Five-Gene Prognostic Signature Related to B Cells Infiltration in Pancreatic Adenocarcinoma |
| title_sort | identification of a five gene prognostic signature related to b cells infiltration in pancreatic adenocarcinoma |
| topic | b cells prognostic signature wgcna ssgsea pancreatic adenocarcinoma |
| url | https://www.dovepress.com/identification-of-a-five-gene-prognostic-signature-related-to-b-cells--peer-reviewed-fulltext-article-IJGM |
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