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Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis

Colorectal cancer (CRC) is one of the most common malignant carcinomas worldwide with poor prognosis, imposing an increasingly heavy burden on patients. Previous experiments and epidemiological studies have shown that vitamin D and vitamin D-related genes play a vital role in CRC. Therefore, we aime...

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Autores principales: Bu, Luping, Huang, Fengxing, Li, Mengting, Peng, Yanan, Wang, Haizhou, Zhang, Meng, Peng, Liqun, Liu, Lan, Zhao, Qiu
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8126261/
https://www.ncbi.nlm.nih.gov/pubmed/34035992
http://dx.doi.org/10.7717/peerj.11430
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author Bu, Luping
Huang, Fengxing
Li, Mengting
Peng, Yanan
Wang, Haizhou
Zhang, Meng
Peng, Liqun
Liu, Lan
Zhao, Qiu
author_facet Bu, Luping
Huang, Fengxing
Li, Mengting
Peng, Yanan
Wang, Haizhou
Zhang, Meng
Peng, Liqun
Liu, Lan
Zhao, Qiu
author_sort Bu, Luping
collection PubMed
description Colorectal cancer (CRC) is one of the most common malignant carcinomas worldwide with poor prognosis, imposing an increasingly heavy burden on patients. Previous experiments and epidemiological studies have shown that vitamin D and vitamin D-related genes play a vital role in CRC. Therefore, we aimed to construct a vitamin D-related gene signature to predict prognosis in CRC. The CRC data from The Cancer Genome Atlas (TCGA) was performed as the training set. A total of 173 vitamin D-related genes in the TCGA CRC dataset were screened, and 17 genes associated with CRC prognosis were identified from them. Then, a vitamin D-related gene signature consisting of those 17 genes was established by univariate and multivariate Cox analyses. Moreover, four external datasets (GSE17536, GSE103479, GSE39582, and GSE17537) were used as testing set to validate the stability of this signature. The high-risk group presented a significantly poorer overall survival than low-risk group in both of training set and testing sets. Besides, the areas under the curve (AUCs) for signature on OS in training set at 1, 3, and 5 years were 0.710, 0.708, 0.710 respectively. The AUCs of the ROC curve in GSE17536 for 1, 3, and 5 years were 0.649, 0.654, and 0.694. These results indicated the vitamin D-related gene signature model could effectively predict the survival status of CRC patients. This vitamin D-related gene signature was also correlated with TNM stage in CRC clinical parameters, and the higher risk score from this model was companied with higher clinical stage. Furthermore, the high accuracy of this prognostic signature was validated and confirmed by nomogram model. In conclusion, we have proposed a novel vitamin D-related gene model to predict the prognosis of CRC, which will help provide new therapeutic targets and act as potential prognostic biomarkers for CRC.
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spelling pubmed-81262612021-05-24 Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis Bu, Luping Huang, Fengxing Li, Mengting Peng, Yanan Wang, Haizhou Zhang, Meng Peng, Liqun Liu, Lan Zhao, Qiu PeerJ Bioinformatics Colorectal cancer (CRC) is one of the most common malignant carcinomas worldwide with poor prognosis, imposing an increasingly heavy burden on patients. Previous experiments and epidemiological studies have shown that vitamin D and vitamin D-related genes play a vital role in CRC. Therefore, we aimed to construct a vitamin D-related gene signature to predict prognosis in CRC. The CRC data from The Cancer Genome Atlas (TCGA) was performed as the training set. A total of 173 vitamin D-related genes in the TCGA CRC dataset were screened, and 17 genes associated with CRC prognosis were identified from them. Then, a vitamin D-related gene signature consisting of those 17 genes was established by univariate and multivariate Cox analyses. Moreover, four external datasets (GSE17536, GSE103479, GSE39582, and GSE17537) were used as testing set to validate the stability of this signature. The high-risk group presented a significantly poorer overall survival than low-risk group in both of training set and testing sets. Besides, the areas under the curve (AUCs) for signature on OS in training set at 1, 3, and 5 years were 0.710, 0.708, 0.710 respectively. The AUCs of the ROC curve in GSE17536 for 1, 3, and 5 years were 0.649, 0.654, and 0.694. These results indicated the vitamin D-related gene signature model could effectively predict the survival status of CRC patients. This vitamin D-related gene signature was also correlated with TNM stage in CRC clinical parameters, and the higher risk score from this model was companied with higher clinical stage. Furthermore, the high accuracy of this prognostic signature was validated and confirmed by nomogram model. In conclusion, we have proposed a novel vitamin D-related gene model to predict the prognosis of CRC, which will help provide new therapeutic targets and act as potential prognostic biomarkers for CRC. PeerJ Inc. 2021-05-13 /pmc/articles/PMC8126261/ /pubmed/34035992 http://dx.doi.org/10.7717/peerj.11430 Text en © 2021 Bu et al. https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.
spellingShingle Bioinformatics
Bu, Luping
Huang, Fengxing
Li, Mengting
Peng, Yanan
Wang, Haizhou
Zhang, Meng
Peng, Liqun
Liu, Lan
Zhao, Qiu
Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
title Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
title_full Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
title_fullStr Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
title_full_unstemmed Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
title_short Identification of Vitamin D-related gene signature to predict colorectal cancer prognosis
title_sort identification of vitamin d-related gene signature to predict colorectal cancer prognosis
topic Bioinformatics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8126261/
https://www.ncbi.nlm.nih.gov/pubmed/34035992
http://dx.doi.org/10.7717/peerj.11430
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