A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening

Yong Qiao He; Tong Min Wang; Mingfang Ji; Zhi Ming Mai; Minzhong Tang; Ruozheng Wang; Yifeng Zhou; Yuming Zheng; Ruowen Xiao; Dawei Yang; Ziyi Wu; Changmi Deng; Jiangbo Zhang; Wenqiong Xue; Siqi Dong; Jiyun Zhan; Yonglin Cai; Fugui Li; Biaohua Wu; Ying Liao; Ting Zhou; Meiqi Zheng; Yijing Jia; Danhua Li; Lianjing Cao; Leilei Yuan; Wenli Zhang; Luting Luo; Xiating Tong; Yanxia Wu; Xizhao Li; Peifen Zhang; Xiaohui Zheng; Shaodan Zhang; Yezhu Hu; Weiling Qin; Bisen Deng; Xuejun Liang; Peiwen Fan; Yaning Feng; Jia Song; Shang Hang Xie; Ellen T. Chang; Zhe Zhang; Guangwu Huang; Miao Xu; Lin Feng; Guangfu Jin; Jinxin Bei; Sumei Cao; Qing Liu; Zisis Kozlakidis; Haiqiang Mai; Ying Sun; Jun Ma; Zhibin Hu; Jianjun Liu; Maria Li Lung; Hans Olov Adami; Hongbing Shen; Weimin Ye; Tai Hing Lam; Yi Xin Zeng; Wei Hua Jia

doi:10.1038/s41467-022-29570-4

A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening

Yong Qiao He, Tong Min Wang, Mingfang Ji, Zhi Ming Mai, Minzhong Tang, Ruozheng Wang, Yifeng Zhou, Yuming Zheng, Ruowen Xiao, Dawei Yang, Ziyi Wu, Changmi Deng, Jiangbo Zhang, Wenqiong Xue, Siqi Dong, Jiyun Zhan, Yonglin Cai, Fugui Li, Biaohua Wu, Ying LiaoTing Zhou, Meiqi Zheng, Yijing Jia, Danhua Li, Lianjing Cao, Leilei Yuan, Wenli Zhang, Luting Luo, Xiating Tong, Yanxia Wu, Xizhao Li, Peifen Zhang, Xiaohui Zheng, Shaodan Zhang, Yezhu Hu, Weiling Qin, Bisen Deng, Xuejun Liang, Peiwen Fan, Yaning Feng, Jia Song, Shang Hang Xie, Ellen T. Chang, Zhe Zhang, Guangwu Huang, Miao Xu, Lin Feng, Guangfu Jin, Jinxin Bei, Sumei Cao, Qing Liu, Zisis Kozlakidis, Haiqiang Mai, Ying Sun, Jun Ma, Zhibin Hu, Jianjun Liu, Maria Li Lung, Hans Olov Adami, Hongbing Shen, Weimin Ye, Tai Hing Lam, Yi Xin Zeng, Wei Hua Jia

Research output: Contribution to journal › Article › peer-review

34 Citations (Scopus)

Abstract

Polygenic risk scores (PRS) have the potential to identify individuals at risk of diseases, optimizing treatment, and predicting survival outcomes. Here, we construct and validate a genome-wide association study (GWAS) derived PRS for nasopharyngeal carcinoma (NPC), using a multi-center study of six populations (6 059 NPC cases and 7 582 controls), and evaluate its utility in a nested case-control study. We show that the PRS enables effective identification of NPC high-risk individuals (AUC = 0.65) and improves the risk prediction with the PRS incremental deciles in each population (P_trend ranging from 2.79 × 10⁻⁷ to 4.79 × 10⁻⁴⁴). By incorporating the PRS into EBV-serology-based NPC screening, the test’s positive predictive value (PPV) is increased from an average of 4.84% to 8.38% and 11.91% in the top 10% and 5% PRS, respectively. In summary, the GWAS-derived PRS, together with the EBV test, significantly improves NPC risk stratification and informs personalized screening.

Original language	English
Article number	1966
Journal	Nature Communications
Volume	13
Issue number	1
DOIs	https://doi.org/10.1038/s41467-022-29570-4
Publication status	Published - Dec 2022
Externally published	Yes

Bibliographical note

Publisher Copyright:
© 2022, The Author(s).

ASJC Scopus Subject Areas

General Chemistry
General Biochemistry,Genetics and Molecular Biology
General Physics and Astronomy

Access to Document

10.1038/s41467-022-29570-4

Cite this

He, Y. Q., Wang, T. M., Ji, M., Mai, Z. M., Tang, M., Wang, R., Zhou, Y., Zheng, Y., Xiao, R., Yang, D., Wu, Z., Deng, C., Zhang, J., Xue, W., Dong, S., Zhan, J., Cai, Y., Li, F., Wu, B., ... Jia, W. H. (2022). A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening. Nature Communications, 13(1), Article 1966. https://doi.org/10.1038/s41467-022-29570-4

He, YQ, Wang, TM, Ji, M, Mai, ZM, Tang, M, Wang, R, Zhou, Y, Zheng, Y, Xiao, R, Yang, D, Wu, Z, Deng, C, Zhang, J, Xue, W, Dong, S, Zhan, J, Cai, Y, Li, F, Wu, B, Liao, Y, Zhou, T, Zheng, M, Jia, Y, Li, D, Cao, L, Yuan, L, Zhang, W, Luo, L, Tong, X, Wu, Y, Li, X, Zhang, P, Zheng, X, Zhang, S, Hu, Y, Qin, W, Deng, B, Liang, X, Fan, P, Feng, Y, Song, J, Xie, SH, Chang, ET, Zhang, Z, Huang, G, Xu, M, Feng, L, Jin, G, Bei, J, Cao, S, Liu, Q, Kozlakidis, Z, Mai, H, Sun, Y, Ma, J, Hu, Z, Liu, J, Lung, ML, Adami, HO, Shen, H, Ye, W, Lam, TH, Zeng, YX & Jia, WH 2022, 'A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening', Nature Communications, vol. 13, no. 1, 1966. https://doi.org/10.1038/s41467-022-29570-4

@article{330676ee255943e696341c8a06fcbe44,

title = "A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening",

abstract = "Polygenic risk scores (PRS) have the potential to identify individuals at risk of diseases, optimizing treatment, and predicting survival outcomes. Here, we construct and validate a genome-wide association study (GWAS) derived PRS for nasopharyngeal carcinoma (NPC), using a multi-center study of six populations (6 059 NPC cases and 7 582 controls), and evaluate its utility in a nested case-control study. We show that the PRS enables effective identification of NPC high-risk individuals (AUC = 0.65) and improves the risk prediction with the PRS incremental deciles in each population (Ptrend ranging from 2.79 × 10−7 to 4.79 × 10−44). By incorporating the PRS into EBV-serology-based NPC screening, the test{\textquoteright}s positive predictive value (PPV) is increased from an average of 4.84% to 8.38% and 11.91% in the top 10% and 5% PRS, respectively. In summary, the GWAS-derived PRS, together with the EBV test, significantly improves NPC risk stratification and informs personalized screening.",

author = "He, {Yong Qiao} and Wang, {Tong Min} and Mingfang Ji and Mai, {Zhi Ming} and Minzhong Tang and Ruozheng Wang and Yifeng Zhou and Yuming Zheng and Ruowen Xiao and Dawei Yang and Ziyi Wu and Changmi Deng and Jiangbo Zhang and Wenqiong Xue and Siqi Dong and Jiyun Zhan and Yonglin Cai and Fugui Li and Biaohua Wu and Ying Liao and Ting Zhou and Meiqi Zheng and Yijing Jia and Danhua Li and Lianjing Cao and Leilei Yuan and Wenli Zhang and Luting Luo and Xiating Tong and Yanxia Wu and Xizhao Li and Peifen Zhang and Xiaohui Zheng and Shaodan Zhang and Yezhu Hu and Weiling Qin and Bisen Deng and Xuejun Liang and Peiwen Fan and Yaning Feng and Jia Song and Xie, {Shang Hang} and Chang, {Ellen T.} and Zhe Zhang and Guangwu Huang and Miao Xu and Lin Feng and Guangfu Jin and Jinxin Bei and Sumei Cao and Qing Liu and Zisis Kozlakidis and Haiqiang Mai and Ying Sun and Jun Ma and Zhibin Hu and Jianjun Liu and Lung, {Maria Li} and Adami, {Hans Olov} and Hongbing Shen and Weimin Ye and Lam, {Tai Hing} and Zeng, {Yi Xin} and Jia, {Wei Hua}",

note = "Publisher Copyright: {\textcopyright} 2022, The Author(s).",

year = "2022",

month = dec,

doi = "10.1038/s41467-022-29570-4",

language = "English",

volume = "13",

journal = "Nature Communications",

issn = "2041-1723",

number = "1",

}

TY - JOUR

T1 - A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening

AU - He, Yong Qiao

AU - Wang, Tong Min

AU - Ji, Mingfang

AU - Mai, Zhi Ming

AU - Tang, Minzhong

AU - Wang, Ruozheng

AU - Zhou, Yifeng

AU - Zheng, Yuming

AU - Xiao, Ruowen

AU - Yang, Dawei

AU - Wu, Ziyi

AU - Deng, Changmi

AU - Zhang, Jiangbo

AU - Xue, Wenqiong

AU - Dong, Siqi

AU - Zhan, Jiyun

AU - Cai, Yonglin

AU - Li, Fugui

AU - Wu, Biaohua

AU - Liao, Ying

AU - Zhou, Ting

AU - Zheng, Meiqi

AU - Jia, Yijing

AU - Li, Danhua

AU - Cao, Lianjing

AU - Yuan, Leilei

AU - Zhang, Wenli

AU - Luo, Luting

AU - Tong, Xiating

AU - Wu, Yanxia

AU - Li, Xizhao

AU - Zhang, Peifen

AU - Zheng, Xiaohui

AU - Zhang, Shaodan

AU - Hu, Yezhu

AU - Qin, Weiling

AU - Deng, Bisen

AU - Liang, Xuejun

AU - Fan, Peiwen

AU - Feng, Yaning

AU - Song, Jia

AU - Xie, Shang Hang

AU - Chang, Ellen T.

AU - Zhang, Zhe

AU - Huang, Guangwu

AU - Xu, Miao

AU - Feng, Lin

AU - Jin, Guangfu

AU - Bei, Jinxin

AU - Cao, Sumei

AU - Liu, Qing

AU - Kozlakidis, Zisis

AU - Mai, Haiqiang

AU - Sun, Ying

AU - Ma, Jun

AU - Hu, Zhibin

AU - Liu, Jianjun

AU - Lung, Maria Li

AU - Adami, Hans Olov

AU - Shen, Hongbing

AU - Ye, Weimin

AU - Lam, Tai Hing

AU - Zeng, Yi Xin

AU - Jia, Wei Hua

PY - 2022/12

Y1 - 2022/12

N2 - Polygenic risk scores (PRS) have the potential to identify individuals at risk of diseases, optimizing treatment, and predicting survival outcomes. Here, we construct and validate a genome-wide association study (GWAS) derived PRS for nasopharyngeal carcinoma (NPC), using a multi-center study of six populations (6 059 NPC cases and 7 582 controls), and evaluate its utility in a nested case-control study. We show that the PRS enables effective identification of NPC high-risk individuals (AUC = 0.65) and improves the risk prediction with the PRS incremental deciles in each population (Ptrend ranging from 2.79 × 10−7 to 4.79 × 10−44). By incorporating the PRS into EBV-serology-based NPC screening, the test’s positive predictive value (PPV) is increased from an average of 4.84% to 8.38% and 11.91% in the top 10% and 5% PRS, respectively. In summary, the GWAS-derived PRS, together with the EBV test, significantly improves NPC risk stratification and informs personalized screening.

AB - Polygenic risk scores (PRS) have the potential to identify individuals at risk of diseases, optimizing treatment, and predicting survival outcomes. Here, we construct and validate a genome-wide association study (GWAS) derived PRS for nasopharyngeal carcinoma (NPC), using a multi-center study of six populations (6 059 NPC cases and 7 582 controls), and evaluate its utility in a nested case-control study. We show that the PRS enables effective identification of NPC high-risk individuals (AUC = 0.65) and improves the risk prediction with the PRS incremental deciles in each population (Ptrend ranging from 2.79 × 10−7 to 4.79 × 10−44). By incorporating the PRS into EBV-serology-based NPC screening, the test’s positive predictive value (PPV) is increased from an average of 4.84% to 8.38% and 11.91% in the top 10% and 5% PRS, respectively. In summary, the GWAS-derived PRS, together with the EBV test, significantly improves NPC risk stratification and informs personalized screening.

UR - http://www.scopus.com/inward/record.url?scp=85128123857&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85128123857&partnerID=8YFLogxK

U2 - 10.1038/s41467-022-29570-4

DO - 10.1038/s41467-022-29570-4

M3 - Article

C2 - 35414057

AN - SCOPUS:85128123857

SN - 2041-1723

VL - 13

JO - Nature Communications

JF - Nature Communications

IS - 1

M1 - 1966

ER -

A polygenic risk score for nasopharyngeal carcinoma shows potential for risk stratification and personalized screening

Abstract

Bibliographical note

ASJC Scopus Subject Areas

Access to Document

Other files and links

Cite this