{"title":"预测 Omicron SARS-CoV-2 变体患者病毒脱落情况的强大网络工具","authors":"Weilong Zhang, Xiaoyan Gai, Ben Wang, Zhonghui Duan, Qingtao Zhou, Lili Dai, Changjian Yan, Chaoling Wu, Jiarun Fan, Ping Wang, Ping Yang, Fang Bao, Hongmei Jing, Chao Cai, Chunli Song, Yingmin Ma, Yongchang Sun","doi":"10.1183/23120541.00939-2023","DOIUrl":null,"url":null,"abstract":"Data on viral kinetics and variants affecting the duration of viral shedding (VS) were limited. Our objective was to determine VS in distinct SARS-CoV-2 variants, including Omicron BA.4/5 and BF.7, and to identify the relevant influencing factors.We carried out a longitudinal cohort study at Beijing Xiaotangshan Fangcang shelter hospital from May to June of 2022 (Omicron BA.4/5) and from November to December of 2022 (Omicron BF.7). Nucleocapsid protein (N) and open reading frame (ORF) genes were considered as the target genes of the reverse transcription-polymerase chain reaction. The daily results of cycle threshold (CT), including lowest ORF1ab-CT values for day1-day3 post of hospitalisation (CT3minORF) and lowest N-CT values for day1-day3 post of hospitalisation (CT3minN), and demographic and clinical characteristics were collected.A total of 1433 patients with COVID-19 were recruited from Fangcang shelter hospital, in which 278 patients were diagnosed with Omicron BA.4/5 and 1155 patients with Omicron BF.7. Patients with BF.7 infection showed a longer duration of VS. The duration of VS was associated with variants, age, alcohol use, the severity of COVID-19, and CT3minN. Moreover, the nomogram had excellent accuracy in predicting VS.Our results indicated that patients with Omicron BF.7 had a longer period of contagiousness than those with BA.4/5. The duration of VS was affected by a variety of factors and the nomogram may become an applicable clinical instrument to predict VS. Furthermore, we developed a new COVID-19 viral shedding predicting (CVSP) model that can accurately predict the duration of VS for COVID-19 and created a user-friendly website to easily apply this prediction model (https://puh3.shinyapps.io/CVSP_Model/).","PeriodicalId":504874,"journal":{"name":"ERJ Open Research","volume":null,"pages":null},"PeriodicalIF":0.0000,"publicationDate":"2024-04-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"A robust web-based tool to predict viral shedding in patients with Omicron SARS-CoV-2 variants\",\"authors\":\"Weilong Zhang, Xiaoyan Gai, Ben Wang, Zhonghui Duan, Qingtao Zhou, Lili Dai, Changjian Yan, Chaoling Wu, Jiarun Fan, Ping Wang, Ping Yang, Fang Bao, Hongmei Jing, Chao Cai, Chunli Song, Yingmin Ma, Yongchang Sun\",\"doi\":\"10.1183/23120541.00939-2023\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Data on viral kinetics and variants affecting the duration of viral shedding (VS) were limited. Our objective was to determine VS in distinct SARS-CoV-2 variants, including Omicron BA.4/5 and BF.7, and to identify the relevant influencing factors.We carried out a longitudinal cohort study at Beijing Xiaotangshan Fangcang shelter hospital from May to June of 2022 (Omicron BA.4/5) and from November to December of 2022 (Omicron BF.7). Nucleocapsid protein (N) and open reading frame (ORF) genes were considered as the target genes of the reverse transcription-polymerase chain reaction. The daily results of cycle threshold (CT), including lowest ORF1ab-CT values for day1-day3 post of hospitalisation (CT3minORF) and lowest N-CT values for day1-day3 post of hospitalisation (CT3minN), and demographic and clinical characteristics were collected.A total of 1433 patients with COVID-19 were recruited from Fangcang shelter hospital, in which 278 patients were diagnosed with Omicron BA.4/5 and 1155 patients with Omicron BF.7. Patients with BF.7 infection showed a longer duration of VS. The duration of VS was associated with variants, age, alcohol use, the severity of COVID-19, and CT3minN. Moreover, the nomogram had excellent accuracy in predicting VS.Our results indicated that patients with Omicron BF.7 had a longer period of contagiousness than those with BA.4/5. The duration of VS was affected by a variety of factors and the nomogram may become an applicable clinical instrument to predict VS. Furthermore, we developed a new COVID-19 viral shedding predicting (CVSP) model that can accurately predict the duration of VS for COVID-19 and created a user-friendly website to easily apply this prediction model (https://puh3.shinyapps.io/CVSP_Model/).\",\"PeriodicalId\":504874,\"journal\":{\"name\":\"ERJ Open Research\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2024-04-19\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"ERJ Open Research\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/10.1183/23120541.00939-2023\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"ERJ Open Research","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1183/23120541.00939-2023","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
A robust web-based tool to predict viral shedding in patients with Omicron SARS-CoV-2 variants
Data on viral kinetics and variants affecting the duration of viral shedding (VS) were limited. Our objective was to determine VS in distinct SARS-CoV-2 variants, including Omicron BA.4/5 and BF.7, and to identify the relevant influencing factors.We carried out a longitudinal cohort study at Beijing Xiaotangshan Fangcang shelter hospital from May to June of 2022 (Omicron BA.4/5) and from November to December of 2022 (Omicron BF.7). Nucleocapsid protein (N) and open reading frame (ORF) genes were considered as the target genes of the reverse transcription-polymerase chain reaction. The daily results of cycle threshold (CT), including lowest ORF1ab-CT values for day1-day3 post of hospitalisation (CT3minORF) and lowest N-CT values for day1-day3 post of hospitalisation (CT3minN), and demographic and clinical characteristics were collected.A total of 1433 patients with COVID-19 were recruited from Fangcang shelter hospital, in which 278 patients were diagnosed with Omicron BA.4/5 and 1155 patients with Omicron BF.7. Patients with BF.7 infection showed a longer duration of VS. The duration of VS was associated with variants, age, alcohol use, the severity of COVID-19, and CT3minN. Moreover, the nomogram had excellent accuracy in predicting VS.Our results indicated that patients with Omicron BF.7 had a longer period of contagiousness than those with BA.4/5. The duration of VS was affected by a variety of factors and the nomogram may become an applicable clinical instrument to predict VS. Furthermore, we developed a new COVID-19 viral shedding predicting (CVSP) model that can accurately predict the duration of VS for COVID-19 and created a user-friendly website to easily apply this prediction model (https://puh3.shinyapps.io/CVSP_Model/).