A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma
Abstract Objective Hepatocellular carcinoma (HCC) has become the second most common tumor type that contributes to cancer‐related death worldwide. The study aimed to establish a robust immune‐related gene pair (IRGP) signature for predicting the prognosis of HCC patients. Methods Two RNA‐seq dataset...
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Wiley
2020-04-01
|
| Series: | Cancer Medicine |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/cam4.2921 |
| _version_ | 1819262513947082752 |
|---|---|
| author | Xiao‐Yan Sun Shi‐Zhe Yu Hua‐Peng Zhang Jie Li Wen‐Zhi Guo Shui‐Jun Zhang |
| author_facet | Xiao‐Yan Sun Shi‐Zhe Yu Hua‐Peng Zhang Jie Li Wen‐Zhi Guo Shui‐Jun Zhang |
| author_sort | Xiao‐Yan Sun |
| collection | DOAJ |
| description | Abstract Objective Hepatocellular carcinoma (HCC) has become the second most common tumor type that contributes to cancer‐related death worldwide. The study aimed to establish a robust immune‐related gene pair (IRGP) signature for predicting the prognosis of HCC patients. Methods Two RNA‐seq datasets (The Cancer Genome Atlas Program and International Cancer Genome Consortium) and one microarray dataset (GSE14520) were included in this study. We used a series of immune‐related genes from the ImmPort database to construct gene pairs. Lasso penalized Cox proportional hazards regression was employed to develop the best prognostic signature. We assigned patients into two groups with low immune risk and high immune risk. Then, the prognostic ability of the signature was evaluated by a log‐rank test and a Cox proportional hazards regression model. Results After 1000 iterations, the 33‐immune gene pair model obtained the highest frequency. As a result, we chose the 33 immune gene pairs to establish the immune‐related prognostic signature. As we expected, the immune‐related signature accurately predicted the prognosis of HCC patients, and high‐risk groups showed poor prognosis in the training datasets and testing datasets as well as in the validation datasets. Furthermore, the immune‐related gene pair (IRGP) signature also showed higher predictive accuracy than three existing prognostic signatures. Conclusion Our prognostic signature, which reflects the link between the immune microenvironment and HCC patient outcome, is promising for prognosis prediction in HCC. |
| first_indexed | 2024-12-23T19:58:54Z |
| format | Article |
| id | doaj.art-3424116fec5e42e1b96f61d9a6bcc980 |
| institution | Directory Open Access Journal |
| issn | 2045-7634 |
| language | English |
| last_indexed | 2024-12-23T19:58:54Z |
| publishDate | 2020-04-01 |
| publisher | Wiley |
| record_format | Article |
| series | Cancer Medicine |
| spelling | doaj.art-3424116fec5e42e1b96f61d9a6bcc9802022-12-21T17:33:08ZengWileyCancer Medicine2045-76342020-04-01982868287810.1002/cam4.2921A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinomaXiao‐Yan Sun0Shi‐Zhe Yu1Hua‐Peng Zhang2Jie Li3Wen‐Zhi Guo4Shui‐Jun Zhang5Department of Hepatobiliary and Pancreatic Surgery The First Affiliated Hospital of Zhengzhou University Zhengzhou Henan ChinaDepartment of Hepatobiliary and Pancreatic Surgery The First Affiliated Hospital of Zhengzhou University Zhengzhou Henan ChinaDepartment of Hepatobiliary and Pancreatic Surgery The First Affiliated Hospital of Zhengzhou University Zhengzhou Henan ChinaDepartment of Hepatobiliary and Pancreatic Surgery The First Affiliated Hospital of Zhengzhou University Zhengzhou Henan ChinaDepartment of Hepatobiliary and Pancreatic Surgery The First Affiliated Hospital of Zhengzhou University Zhengzhou Henan ChinaDepartment of Hepatobiliary and Pancreatic Surgery The First Affiliated Hospital of Zhengzhou University Zhengzhou Henan ChinaAbstract Objective Hepatocellular carcinoma (HCC) has become the second most common tumor type that contributes to cancer‐related death worldwide. The study aimed to establish a robust immune‐related gene pair (IRGP) signature for predicting the prognosis of HCC patients. Methods Two RNA‐seq datasets (The Cancer Genome Atlas Program and International Cancer Genome Consortium) and one microarray dataset (GSE14520) were included in this study. We used a series of immune‐related genes from the ImmPort database to construct gene pairs. Lasso penalized Cox proportional hazards regression was employed to develop the best prognostic signature. We assigned patients into two groups with low immune risk and high immune risk. Then, the prognostic ability of the signature was evaluated by a log‐rank test and a Cox proportional hazards regression model. Results After 1000 iterations, the 33‐immune gene pair model obtained the highest frequency. As a result, we chose the 33 immune gene pairs to establish the immune‐related prognostic signature. As we expected, the immune‐related signature accurately predicted the prognosis of HCC patients, and high‐risk groups showed poor prognosis in the training datasets and testing datasets as well as in the validation datasets. Furthermore, the immune‐related gene pair (IRGP) signature also showed higher predictive accuracy than three existing prognostic signatures. Conclusion Our prognostic signature, which reflects the link between the immune microenvironment and HCC patient outcome, is promising for prognosis prediction in HCC.https://doi.org/10.1002/cam4.2921gene pairsHCCprognosistumor immunology |
| spellingShingle | Xiao‐Yan Sun Shi‐Zhe Yu Hua‐Peng Zhang Jie Li Wen‐Zhi Guo Shui‐Jun Zhang A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma Cancer Medicine gene pairs HCC prognosis tumor immunology |
| title | A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma |
| title_full | A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma |
| title_fullStr | A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma |
| title_full_unstemmed | A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma |
| title_short | A signature of 33 immune‐related gene pairs predicts clinical outcome in hepatocellular carcinoma |
| title_sort | signature of 33 immune related gene pairs predicts clinical outcome in hepatocellular carcinoma |
| topic | gene pairs HCC prognosis tumor immunology |
| url | https://doi.org/10.1002/cam4.2921 |
| work_keys_str_mv | AT xiaoyansun asignatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT shizheyu asignatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT huapengzhang asignatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT jieli asignatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT wenzhiguo asignatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT shuijunzhang asignatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT xiaoyansun signatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT shizheyu signatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT huapengzhang signatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT jieli signatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT wenzhiguo signatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma AT shuijunzhang signatureof33immunerelatedgenepairspredictsclinicaloutcomeinhepatocellularcarcinoma |