A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma
Background Colon adenocarcinoma (COAD) is the most common colon cancer exhibiting high mortality. Due to their association with cancer progression, long noncoding RNAs (lncRNAs) are now being used as prognostic biomarkers. In the present study, we used relevant clinical information and expression pr...
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PeerJ Inc.
2020-04-01
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| Online Access: | https://peerj.com/articles/8877.pdf |
| _version_ | 1797420004355866624 |
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| author | Xiaorui Fu Jinzhong Duanmu Taiyuan Li Qunguang Jiang |
| author_facet | Xiaorui Fu Jinzhong Duanmu Taiyuan Li Qunguang Jiang |
| author_sort | Xiaorui Fu |
| collection | DOAJ |
| description | Background Colon adenocarcinoma (COAD) is the most common colon cancer exhibiting high mortality. Due to their association with cancer progression, long noncoding RNAs (lncRNAs) are now being used as prognostic biomarkers. In the present study, we used relevant clinical information and expression profiles of lncRNAs originating from The Cancer Genome Atlas database, aiming to construct a prognostic lncRNA signature to estimate the prognosis of patients. Methods The samples were randomly spilt into training and validation cohorts. In the training cohort, prognosis-related lncRNAs were selected from differentially expressed lncRNAs using the univariate Cox analysis. Furthermore, the least absolute shrinkage and selection operator (LASSO) regression and multivariate Cox analysis were employed for identifying prognostic lncRNAs. The prognostic signature was constructed by these lncRNAs. Results The prognostic model was able to calculate each COAD patient’s risk score and split the patients into groups of low and high risks. Compared to the low-risk group, the high-risk group had significant poor prognosis. Next, the prognostic signature was validated in the validation, as well as all cohorts. The receiver operating characteristic (ROC) curve and c-index were determined in all cohorts. Moreover, these prognostic lncRNA signatures were combined with clinicopathological risk factors to construct a nomogram for predicting the prognosis of COAD in the clinic. Finally, seven lncRNAs (CTC-273B12.10, AC009404.2, AC073283.7, RP11-167H9.4, AC007879.7, RP4-816N1.7, and RP11-400N13.2) were identified and validated by different cohorts. The Kyoto Encyclopedia of Genes and Genomes analysis of the mRNAs co-expressed with the seven prognostic lncRNAs suggested four significantly upregulated pathways, which were AGE-RAGE, focal adhesion, ECM-receptor interaction, and PI3K/Akt signaling pathways. Conclusion Thus, our study verified that the seven lncRNAs mentioned can be used as biomarkers to predict the prognosis of COAD patients and design personalized treatments. |
| first_indexed | 2024-03-09T06:55:21Z |
| format | Article |
| id | doaj.art-99103074bc6e487fb03e330ff18c1144 |
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| language | English |
| last_indexed | 2024-03-09T06:55:21Z |
| publishDate | 2020-04-01 |
| publisher | PeerJ Inc. |
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| spelling | doaj.art-99103074bc6e487fb03e330ff18c11442023-12-03T10:04:47ZengPeerJ Inc.PeerJ2167-83592020-04-018e887710.7717/peerj.8877A 7-lncRNA signature associated with the prognosis of colon adenocarcinomaXiaorui Fu0Jinzhong Duanmu1Taiyuan Li2Qunguang Jiang3Queen Mary School of Medical Department, Nanchang University, Nanchang, Jiangxi, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, Jiangxi, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, Jiangxi, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, Jiangxi, ChinaBackground Colon adenocarcinoma (COAD) is the most common colon cancer exhibiting high mortality. Due to their association with cancer progression, long noncoding RNAs (lncRNAs) are now being used as prognostic biomarkers. In the present study, we used relevant clinical information and expression profiles of lncRNAs originating from The Cancer Genome Atlas database, aiming to construct a prognostic lncRNA signature to estimate the prognosis of patients. Methods The samples were randomly spilt into training and validation cohorts. In the training cohort, prognosis-related lncRNAs were selected from differentially expressed lncRNAs using the univariate Cox analysis. Furthermore, the least absolute shrinkage and selection operator (LASSO) regression and multivariate Cox analysis were employed for identifying prognostic lncRNAs. The prognostic signature was constructed by these lncRNAs. Results The prognostic model was able to calculate each COAD patient’s risk score and split the patients into groups of low and high risks. Compared to the low-risk group, the high-risk group had significant poor prognosis. Next, the prognostic signature was validated in the validation, as well as all cohorts. The receiver operating characteristic (ROC) curve and c-index were determined in all cohorts. Moreover, these prognostic lncRNA signatures were combined with clinicopathological risk factors to construct a nomogram for predicting the prognosis of COAD in the clinic. Finally, seven lncRNAs (CTC-273B12.10, AC009404.2, AC073283.7, RP11-167H9.4, AC007879.7, RP4-816N1.7, and RP11-400N13.2) were identified and validated by different cohorts. The Kyoto Encyclopedia of Genes and Genomes analysis of the mRNAs co-expressed with the seven prognostic lncRNAs suggested four significantly upregulated pathways, which were AGE-RAGE, focal adhesion, ECM-receptor interaction, and PI3K/Akt signaling pathways. Conclusion Thus, our study verified that the seven lncRNAs mentioned can be used as biomarkers to predict the prognosis of COAD patients and design personalized treatments.https://peerj.com/articles/8877.pdfLong noncoding RNAPrognosisNomogramThe Cancer Genome AtlasColon carcinoma |
| spellingShingle | Xiaorui Fu Jinzhong Duanmu Taiyuan Li Qunguang Jiang A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma PeerJ Long noncoding RNA Prognosis Nomogram The Cancer Genome Atlas Colon carcinoma |
| title | A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma |
| title_full | A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma |
| title_fullStr | A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma |
| title_full_unstemmed | A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma |
| title_short | A 7-lncRNA signature associated with the prognosis of colon adenocarcinoma |
| title_sort | 7 lncrna signature associated with the prognosis of colon adenocarcinoma |
| topic | Long noncoding RNA Prognosis Nomogram The Cancer Genome Atlas Colon carcinoma |
| url | https://peerj.com/articles/8877.pdf |
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