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MeSH Disease

HGNC Genes

SARS-CoV-2 proteins

ProteinN (575)

ProteinS (199)

ComplexRdRp (33)

ProteinE (33)

ORF1ab (28)


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SARS-CoV-2 Proteins
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    Epidemic Situation of Novel Coronavirus Pneumonia in China mainland

    Authors: Liu youbin; Gong Liming; Li bao hong

    doi:10.1101/2020.02.17.20024034 Date: 2020-02-18 Source: medRxiv

    [Objective] Analyze the occurrence of novel coronavirus pneumonia MESHD( NCP PROTEIN) in China mainland, explore the epidemiological rules, and evaluate the effect of prevention and control. [Methods] From December 1, 2019 to March 4 HGNC, 2020, Analysis of 80,409 confirmed cases of NCP PROTEIN in China mainland. [Results] From December 1, 2019 to March 4 HGNC, 2020, a total of 80,409 cases of NCP PROTEIN were confirmed in China mainland, a total of 67,466 cases were confirmed in Hubei Province, a total of 49,671 cases were confirmed in Wuhan city. From December 1, 2019 to March 4 HGNC, 2020, a total of 3,012 cases of NCP deaths MESHD NCP deaths PROTEIN in China mainland, the mortality was 3.75% (3012/80,409); A total of 52045 cases of cured in China mainland; The turning point of the epidemic have been reached since February 18.2020 in China mainland; The spread index of NCP PROTEIN gradually declined since January 27. 2020, and the extinction index of NCP PROTEIN rose little by little since January 29, 2020. [Conclusion] From December 1, 2019 to March 4 HGNC, 2020, NCP PROTEIN is under control, and the trend of the epidemic will eventually disappearThe turning point of an epidemic that I've created is a great indicator that can calculate the turning date of an outbreak and provide a basis for scientific prevention.

    Can Search Query Forecast successfully in China's 2019-nCov pneumonia?

    Authors: Li Xiaoxuan; Wu Qi; Lv Benfu

    doi:10.1101/2020.02.12.20022400 Date: 2020-02-18 Source: medRxiv

    Recently the novel coronavirus (2019-nCov) pneumonia MESHD outbreak in China then the world, and the Number of infections and death MESHD continues to increases. Search Query performs well in forecasting the epidemics. It is still a question whether search engine data can forecast the drift and the inflexion in 2019-nCov pneumonia MESHD. Based on the Baidu Search Index, we propose three prediction models: composite Index, composite Index with filtering and suspected NCP PROTEIN(Novel Coronavirus Pneumonia). The result demonstrates that the predictive model of composite index with filtering performs the best while the model of suspected NCP PROTEIN has the highest forecast error. We further predict the out-of-the-set NCP PROTEIN confirmed cases and monitor that the next peak of new diagnoses will occur on February 16th and 17th.

    Optimizing diagnostic strategy for novel coronavirus pneumonia, a multi-center study in Eastern China

    Authors: Jing-Wen Ai; Hao-Cheng Zhang; Teng Xu; Jing Wu; Mengqi Zhu; Yi-Qi Yu; Han-Yue Zhang; Zhongliang Shen; Yang Li; Xian Zhou; Guo-Qing Zang; Jie Xu; Wen-Jing Chen; Yong-Jun Li; De-Sheng Xie; Ming-Zhe Zhou; Jing-Ying Sun; Jia-Zhen Chen; Wen-Hong Zhang

    doi:10.1101/2020.02.13.20022673 Date: 2020-02-17 Source: medRxiv

    COVID-19 MESHD caused by a novel coronavirus SARS-CoV-2 emerged in Wuhan, Hubei province since December 2019, and caused a rapid outbreak throughout China and globally. Cities outside Hubei are also facing great challenge and require implementing of effective and feasible strategy in precision diagnosing novel coronavirus pneumonia MESHD ( NCP PROTEIN). We described a multicenter prospective study on diagnostic strategy of suspected NCP PROTEIN patients from January 22nd to February 9th, 2020 in Eastern China cities. Nasopharyngeal swabs were collected from the patients. The epidemiological characteristics, clinical symptoms, laboratory assessments, and computed tomographic (CT) scans were obtained. Pathogen screen were performed including RT-PCR, multiplex PCR, rapid flu antigen tests and mNGS. We enrolled 53 suspected NCP PROTEIN patients, among whom 20 were laboratory-confirmed. Fourteen (70%) and 3 (15%) patients were positive for the first and second SARS-CoV-2 RT-PCR test, respectively. All NCP PROTEIN patients were positive for mNGS. Chest CT images and the symptoms of early stage NCP PROTEIN patients were similar to other viral pneumonia MESHD patients. We identified 11 of 20 co-infections MESHD in NCP PROTEIN cases, including regular respiratory virus, fungi and bacteria synchronously. Genomic analysis showed that 8 of 10 cases had no mutation in virus genome, while 2 cases had only one single mutation in N gene PROTEIN. Our study discovered that a combination of chest CT, SARS-CoV-2 RT-PCR and multi-plex PCR is recommended in regions outside Hubei province. Co-infection MESHD of other pathogens with SARS-CoV-2 exists and should be acknowledged. Repeated sampling, change of specimen type or metagenomics sequencing could further facilitate during critical clinical cases.

    Long-Term Persistence of IgG Antibodies in SARS-CoV Infected Healthcare Workers

    Authors: Xiaoqin Guo; Zhongmin Guo; Chaohui Duan; Zeliang chen; Guoling Wang; Yi Lu; Mengfeng Li; Jiahai Lu

    doi:10.1101/2020.02.12.20021386 Date: 2020-02-14 Source: medRxiv

    BACKGROUND: The ongoing worldwide outbreak of the 2019-nCoV is markedly similar to the severe acute respiratory syndrome MESHD (SARS) outbreak 17 years ago. During the 2002-2003 SARS outbreak, healthcare workers formed a special population of patients. Although virus-specific IgG play important roles in virus neutralization and prevention against future infection, limited information is available regarding the long term persistence of IgG after infection with SARS-like coronavirus. METHODS: A long-term prospective cohort study followed 34 SARS-CoV-infected MESHD healthcare workers from a hospital with clustered infected cases during the 2002-2003 SARS outbreak in Guangzhou, China, with a 13-year follow-up. Serum samples were collected annually from 2003-2015. Twenty SARS-CoV-infected MESHD and 40 non-infected healthcare workers were enrolled in 2015, and their serum samples were collected. All sera were tested for IgG antibodies with ELISA using whole virus and a recombinant nucleocapsid protein PROTEIN of SARS-CoV MESHD, as a diagnostic antigen. RESULTS: Anti SARS-CoV IgG MESHD was found to persist for up to 12 years. IgG titers typically peaked in 2004, declining rapidly from 2004-2006, and then continued to decline at a slower rate. IgG titers in SARS-CoV-infected MESHD healthcare workers remained at a significantly high level until 2015. Patients treated with corticosteroids at the time of infection were found to have lower IgG titers than those without. CONCLUSIONS: IgG antibodies against SARS-CoV can persist for at least 12 years. The presence of SARS-CoV IgG MESHD might provide protection against SARS-CoV MESHD and other betacoronavirus. This study provides valuable information regarding humoral immune responses against SARS-CoV MESHD and the 2019-nCoV.

    Epidemic size of novel coronavirus-infected pneumonia in the Epicenter Wuhan: using data of five-countries' evacuation action

    Authors: Hongxin Zhao; Sailimai Man; Bo Wang; Yi Ning

    doi:10.1101/2020.02.12.20022285 Date: 2020-02-13 Source: medRxiv

    Background: Since late December 2019, novel coronavirus-infected pneumonia MESHD ( NCP PROTEIN) emerged in Wuhan, Hubei province, China. Meanwhile, NCP PROTEIN rapidly spread from China to other countries, and several countries' government rush to evacuate their citizens from Wuhan. We analyzed the infection rate of the evacuees and extrapolated the results in Wuhan's NCP PROTEIN incidence estimation. Methods: We collected the total number and confirmed cases of 2019-nCov infection MESHD in the evacuation of Korea, Japan, Germany, Singapore, and France and estimated the infection rate of the 2019 novel coronavirus (2019-nCov) among people who were evacuated from Wuhan with a meta-analysis. NCP PROTEIN incidence of Wuhan was indirectly estimated based on data of evacuation. Results: From Jan 29 to Feb 2, 2020, 1916 people have been evacuated from Wuhan, among them 17 have been confirmed 2019-nCov infected. The infection rate is estimated to be 1.1% (95% CI 0.4%-3.1%) using one group meta-analysis method with random effect model. We then estimated that almost 110,000 (95% CI: 40,000-310,000) people were infected with 2019-nCov in Wuhan around Feb 2, 2020, assuming the infection risk of evacuees is close to Chinese citizens in Wuhan. Conclusions: At the beginning of the outbreak, incidence of NCP PROTEIN may be vastly underestimated. Our result emphasizes that 2019-nCov has proposed a huge public health threats in Wuhan. We need to respond more rapidly, take large-scale public health interventions and draconian measures to limiting population mobility and control the epidemic.

    Epidemiological and Clinical Characteristics of 17 Hospitalized Patients with 2019 Novel Coronavirus Infection MESHDs Outside Wuhan, China

    Authors: Jie Li; Shilin Li; Yurui Cai; Qin Liu; Xue Li; Zhaoping Zeng; Yanpeng Chu; Fangcheng Zhu; Fanxin Zeng

    doi:10.1101/2020.02.11.20022053 Date: 2020-02-12 Source: medRxiv

    An increasing number of cases of novel coronavirus pneumonia (NCP) infected MESHD NCP PROTEIN) infected with 2019-nCoV have been identified in Wuhan and other cities in China, since December 2019. We analyzed data on the 17 confirmed cases in Dazhou to provide the epidemiologic characteristics of NCP PROTEIN outside Wuhan. Among them, 12 patients were still quarantined in the hospital, 5 patients were discharged NCP PROTEIN patients according to the national standards. Compared with non-discharged NCP PROTEIN patients, the discharged NCP PROTEIN patients had younger ages. Moreover, discharged NCP PROTEIN patients had higher heart rate, lymphocytes levels and monocytes levels than non-discharged NCP PROTEIN patients on admission to the hospital. Notably, all of 17 patients had abnormal increased C-reactive protein HGNC levels, and 16 patients had abnormal computed tomography images. This study provided some information that younger age, higher lymphocytes levels and monocytes levels at the diagnoses of 2019-nCoV may contributed to faster recovery and better therapeutic outcome.

    Ophthalmologic evidence against the interpersonal transmission of 2019 novel coronavirus through conjunctiva

    Authors: Yunyun Zhou; Yuyang Zeng; Yongqing Tong; ChangZheng Chen

    doi:10.1101/2020.02.11.20021956 Date: 2020-02-12 Source: medRxiv

    Background: The emerging 2019 novel coronavirus (2019-nCoV) has pushed several countries into state of emergency all over the world. The possible transmission of 2019-nCoV by conjunctiva is controversial and has substantial public health implications. Methods: A retrospective cohort study was initiated to investigate the possible transmission of 2019-nCoV through aerosol contact with conjunctiva. We enrolled 67 cases of confirmed or suspected cases of novel coronavirus pneumonia MESHD ( NCP PROTEIN) during 17-28 Jan 2020. Nasopharyngeal and conjunctival swabs were collected for real time RT-PCR analysis to detect 2019-nCoV. Results: 63 patients were identified as laboratory-confirmed NCP PROTEIN and the remaining four were suspected NCP PROTEIN. Conjunctival swab samples from one NCP PROTEIN patient yielded positive PCR results and two NCP PROTEIN patients yielded probable positive PCR results. None of the three patients had ocular symptoms. The only one NCP PROTEIN patient with conjunctivitis MESHD as the first symptom had negative conjunctival sac 2019-nCoV test. Conjunctival swab samples from the four suspected cases of NCIP were negative. Conclusion: 2019-nCoV can be detected in the conjunctival sac of patients with NCP PROTEIN. Through clinical analysis, viral transmission via the conjunctival route was not supported by the data. Good clinical protection can effectively cut off the transmission path.

    Characteristics of lymphocyte subsets and cytokines in peripheral blood of 123 hospitalized patients with 2019 novel coronavirus pneumonia ( NCP PROTEIN)

    Authors: Suxin Wan; Qingjie Yi; Shibing Fan; Jinglong Lv; Xianxiang Zhang; Lian Guo; Chunhui Lang; Qing Xiao; Kaihu Xiao; Zhengjun Yi; Mao Qiang; Jianglin Xiang; Bangshuo Zhang; Yongping Chen

    doi:10.1101/2020.02.10.20021832 Date: 2020-02-12 Source: medRxiv

    Background: To explore the cellular immunity and cytokines status of NCP PROTEIN patients and to predict the correlation between the cellular immunity levels, cytokines and the severity of patients. Methods: 123 NCP PROTEIN patients were divided into mild and severe groups. Peripheral blood was collected, lymphocyte subsets and cytokines were detected. Correlation analysis was performed on the lymphocyte subsets and cytokines, and the differences between the indexes of the two groups were analyzed. Results: 102 mild and 21 severe patients were included. Lymphocyte subsets were reduced in two groups. The proportion of CD8 HGNC + T reduction in the mild and severe group was 28.43% and 61.9%, respectively; The proportion of B cell reduction was 25.49% and 28.57%; The proportion of NK cell reduction was 34.31% and 47.62%; The detection value of IL-6 HGNC was 0 in 55.88% of the mild group, mild group has a significantly lower proportion of patients with IL-6 HGNC higher than normal than severe group; There was no significant linear correlation between the lymphocyte subsets and cytokines, while significant differences were noticed between the two groups in CD4 HGNC + T, CD8 HGNC + T, IL-6 HGNC and IL-10 HGNC. Conclusions: Low levels of CD4 HGNC+T and CD8 HGNC+T are common in severe NCP PROTEIN. IL-6 HGNC and IL-10 HGNC levels were higher in severe patients. T cell subsets and cytokines can be used as one of the basis for predicting the transition from mild to severe. Large number of samples are still needed to confirm the "warning value" of CD4 HGNC + T, CD8 HGNC + T IL-6 HGNC and IL-10 HGNC.

    Laboratory diagnosis and monitoring the viral shedding of 2019-nCoV infection MESHDs

    Authors: Yang Yang; Minghui Yang; Chenguang Shen; Fuxiang Wang; Jing Yuan; Jinxiu Li; Mingxia Zhang; Zhaoqin Wang; Li Xing; Jinli Wei; Ling Peng; Gary Wong; Haixia Zheng; Mingfeng Liao; Kai Feng; Jianming Li; Qianting Yang; Juanjuan Zhao; Zheng Zhang; Lei Liu; Yingxia Liu

    doi:10.1101/2020.02.11.20021493 Date: 2020-02-12 Source: medRxiv

    Background: The outbreak of novel coronavirus pneumonia MESHD ( NCP PROTEIN) caused by 2019-nCoV spread rapidly, and elucidation the diagnostic accuracy of different respiratory specimens is crucial for the control and treatment of this diseases. Methods: Respiratory samples including nasal swabs, throat swabs, sputum and bronchoalveolar lavage fluid MESHD ( BALF MESHD) were collected from Guangdong CDC confirmed NCP PROTEIN patients, and viral RNAs were detected using a CFDA approved detection kit. Results were analyzed in combination with sample collection date and clinical information. Finding: Except for BALF MESHD, the sputum possessed the highest positive rate (74.4%~88.9%), followed by nasal swabs (53.6%~73.3%) for both severe and mild cases during the first 14 days after illness onset (d.a.o). For samples collected [≥] 15 d.a.o, sputum and nasal swabs still possessed a high positive rate ranging from 42.9%~61.1%. The positive rate of throat swabs collected [≥] 8 d.a.o was low, especially in samples from mild cases. Viral RNAs could be detected in all the lower respiratory tract of severe cases, but not the mild cases. CT scan of cases 02, 07 and 13 showed typical viral pneumonia MESHD with ground glass opacity, while no viral RNAs were detected in first three or all the upper respiratory samples. Interpretation: Sputum is most accurate for laboratory diagnosis of NCP PROTEIN, followed by nasal swabs. Detection of viral RNAs in BLAF is necessary for diagnosis and monitoring of viruses in severe cases. CT scan could serve as an important make up for the diagnosis of NCP PROTEIN. Funding National Science and Technology Major Project, Sanming Project of Medicine and China Postdoctoral Science Foundation.

    Network-based Drug Repurposing for Human Coronavirus

    Authors: Yadi Zhou; Yuan Hou; Jiayu Shen; Yin Huang; William Martin; Feixiong Cheng

    doi:10.1101/2020.02.03.20020263 Date: 2020-02-05 Source: medRxiv

    Human Coronaviruses (HCoVs), including severe acute respiratory syndrome coronavirus (SARS-CoV), Middle east respiratory syndrome coronavirus (MERS-CoV) MESHD, and 2019 novel coronavirus (2019-nCoV), lead global epidemics with high morbidity and mortality. However, there are currently no effective drugs targeting 2019-nCoV. Drug repurposing, represented as an effective drug discovery strategy from existing drugs, could shorten the time and reduce the cost compared to de novo drug discovery. In this study, we present an integrative, antiviral drug repurposing methodology implementing a systems pharmacology-based network medicine platform, quantifying the interplay between the HCoV-host interactome and drug targets in the human protein-protein interaction network. Phylogenetic analyses of 15 HCoV whole genomes reveal that 2019-nCoV has the highest nucleotide sequence identity with SARS-CoV MESHD (79.7%) among the six other known pathogenic HCoVs. Specifically, the envelope and nucleocapsid proteins PROTEIN of 2019-nCoV are two evolutionarily conserved regions, having the sequence identities of 96% and 89.6%, respectively, compared to SARS-CoV MESHD. Using network proximity analyses of drug targets and known HCoV-host interactions in the human protein-protein interactome, we computationally identified 135 putative repurposable drugs for the potential prevention and treatment of HCoVs. In addition, we prioritized 16 potential anti-HCoV repurposable drugs (including melatonin, mercaptopurine, and sirolimus) that were further validated by enrichment analyses of drug-gene signatures and HCoV-induced transcriptomics data in human cell lines. Finally, we showcased three potential drug combinations (including sirolimus plus dactinomycin, mercaptopurine plus melatonin, and toremifene plus emodin) captured by the Complementary Exposure pattern: the targets of the drugs both hit the HCoV-host subnetwork, but target separate neighborhoods in the human protein-protein interactome network. In summary, this study offers powerful network-based methodologies for rapid identification of candidate repurposable drugs and potential drug combinations toward future clinical trials for HCoVs.

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MeSH Disease
HGNC Genes
SARS-CoV-2 Proteins


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