Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis
Abstract The diffuse gastric cancer (DGC) is a malignant tumor distinct from intestinal gastric cancer (IGC). This study aims to identify genetic variances and potential diagnostic and therapeutic approaches for diverse types of gastric cancer utilizing an extensive dataset. Data from RNA sequencing...
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| Format: | Article |
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Springer
2024-12-01
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| Series: | Discover Oncology |
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| Online Access: | https://doi.org/10.1007/s12672-024-01603-y |
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| author | Wenjuan Li Hong Gao Jianjun Liu |
| author_facet | Wenjuan Li Hong Gao Jianjun Liu |
| author_sort | Wenjuan Li |
| collection | DOAJ |
| description | Abstract The diffuse gastric cancer (DGC) is a malignant tumor distinct from intestinal gastric cancer (IGC). This study aims to identify genetic variances and potential diagnostic and therapeutic approaches for diverse types of gastric cancer utilizing an extensive dataset. Data from RNA sequencing and clinical pathological details were acquired from The Cancer Genome Atlas (TCGA) database and the Gene Expression Omnibus (GEO) dataset. Co‐expression gene modules were constructed via Weighted Gene Co‐Expression Network Analysis (WGCNA), followed by deciphering gene functions and protein–protein interaction networks within significantly associated modules. In total, analysis was conducted on 56,753 genes from 247 individuals with gastric cancer. Particularly, 621 genes from the green module exhibited strong associations with the Lauren type of gastric cancer. The prominent genes in the green module showed enrichment in processes such as signal transduction, immune response, and the positive regulation of GTPase activity. Noteworthy among these, VCAM1 was identified as the central gene linked to patients’ prognosis. Moreover, 72 gastric cancer specimens were collected from The First Affiliated Hospital of University of Science and Technology of China. Immunohistochemical analysis demonstrated a significantly higher expression of VCAM1 in DGC compared to IGC (p = 0.019). Furthermore, it was confirmed that VCAM1 expression serves as a prognostic indicator for patients with DGC (p = 0.002), a correlation not observed in IGC (p = 0.760). In conclusion, this study identifies VCAM1 as a promising diagnostic and prognostic factor, suggesting novel avenues for diagnostic and therapeutic approaches in gastric cancer. |
| format | Article |
| id | doaj-art-761db6d463624430a665c72f1f55db01 |
| institution | Kabale University |
| issn | 2730-6011 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Springer |
| record_format | Article |
| series | Discover Oncology |
| spelling | doaj-art-761db6d463624430a665c72f1f55db012025-02-02T12:30:26ZengSpringerDiscover Oncology2730-60112024-12-0115111310.1007/s12672-024-01603-yIdentified VCAM1 as prognostic gene in gastric cancer by co-expression network analysisWenjuan Li0Hong Gao1Jianjun Liu2Department of Oncology, Division of Life Sciences and Medicine, The First Affiliated Hospital of University of Science and Technology of China, University of Science and Technology of ChinaBreast Cancer Center, Division of Life Sciences and Medicine,The First Affiliated Hospital of University of Science and Technology of China, University of Science and Technology of ChinaBreast Cancer Center, Division of Life Sciences and Medicine,The First Affiliated Hospital of University of Science and Technology of China, University of Science and Technology of ChinaAbstract The diffuse gastric cancer (DGC) is a malignant tumor distinct from intestinal gastric cancer (IGC). This study aims to identify genetic variances and potential diagnostic and therapeutic approaches for diverse types of gastric cancer utilizing an extensive dataset. Data from RNA sequencing and clinical pathological details were acquired from The Cancer Genome Atlas (TCGA) database and the Gene Expression Omnibus (GEO) dataset. Co‐expression gene modules were constructed via Weighted Gene Co‐Expression Network Analysis (WGCNA), followed by deciphering gene functions and protein–protein interaction networks within significantly associated modules. In total, analysis was conducted on 56,753 genes from 247 individuals with gastric cancer. Particularly, 621 genes from the green module exhibited strong associations with the Lauren type of gastric cancer. The prominent genes in the green module showed enrichment in processes such as signal transduction, immune response, and the positive regulation of GTPase activity. Noteworthy among these, VCAM1 was identified as the central gene linked to patients’ prognosis. Moreover, 72 gastric cancer specimens were collected from The First Affiliated Hospital of University of Science and Technology of China. Immunohistochemical analysis demonstrated a significantly higher expression of VCAM1 in DGC compared to IGC (p = 0.019). Furthermore, it was confirmed that VCAM1 expression serves as a prognostic indicator for patients with DGC (p = 0.002), a correlation not observed in IGC (p = 0.760). In conclusion, this study identifies VCAM1 as a promising diagnostic and prognostic factor, suggesting novel avenues for diagnostic and therapeutic approaches in gastric cancer.https://doi.org/10.1007/s12672-024-01603-yGastric cancerLauren classificationWGCNAVCAM 1 |
| spellingShingle | Wenjuan Li Hong Gao Jianjun Liu Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis Discover Oncology Gastric cancer Lauren classification WGCNA VCAM 1 |
| title | Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis |
| title_full | Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis |
| title_fullStr | Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis |
| title_full_unstemmed | Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis |
| title_short | Identified VCAM1 as prognostic gene in gastric cancer by co-expression network analysis |
| title_sort | identified vcam1 as prognostic gene in gastric cancer by co expression network analysis |
| topic | Gastric cancer Lauren classification WGCNA VCAM 1 |
| url | https://doi.org/10.1007/s12672-024-01603-y |
| work_keys_str_mv | AT wenjuanli identifiedvcam1asprognosticgeneingastriccancerbycoexpressionnetworkanalysis AT honggao identifiedvcam1asprognosticgeneingastriccancerbycoexpressionnetworkanalysis AT jianjunliu identifiedvcam1asprognosticgeneingastriccancerbycoexpressionnetworkanalysis |