Corpus overview


MeSH Disease

HGNC Genes

SARS-CoV-2 proteins

ProteinS (1599)

ProteinN (450)

NSP5 (321)

ComplexRdRp (189)

ProteinE (105)


SARS-CoV-2 Proteins
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    Geographic Information Systems and COVID-19 MESHD: The Johns Hopkins University Dashboard

    Authors: BELMIRO N JOAO

    doi:10.21203/ Date: 2020-02-26 Source: ResearchSquare

    Background: This article presents a single case study on the development of a GIS for global monitoring of coronavirus ( COVID-19 MESHD). For such concepts presented about GIS, its use and evolution in epidemic events and a presentation of the context of the current coronavirus outbreak and the meaningless results of consolidating a panel with reliable data.Methods: A single case study of a GIS in continuous development with data sharing and comments from the scientific community was carried out. Because it is not a post-mortem analysis, or a follow-up to a successful case, it was not possible to use more rigorous and systematic approaches such as those used by Lee (1989) and Onsrud, Pinto HGNC and Azad (1992) for case studies in GIS.Results: The case study presents the results of the development of a control dashboard, as well as the availability of consolidated data made by researchers at Johns Hopkins University and who showed a reliable platform and a world reference for health comunity.Conclusions: Efforts to develop a dashboard and provide data on the coronavirus outbreak resulted in the immediate replication of several other information systems with different approaches (Power BI, R, Tableau), becoming a reference for any new global epidemic outbreak events.

    Epidemiological Development of Novel Coronavirus Pneumonia in China and Its Forecast

    Authors: Shan shan Wu; Pan pan Sun; Rui ling Li; Liang Zhao; Yan li Wang IV; Li fang Jiang; Jin Bo Deng

    doi:10.1101/2020.02.21.20026229 Date: 2020-02-26 Source: medRxiv

    ABSTRACT BACKGROUND AND OBJECTIVE The novel coronavirus (SARS-Cov-2) infected coronavirus disease MESHD coronavirus disease 2019 MESHD ( COVID-19 MESHD) was broken out in Wuhan and Hubei province for more than a month. It severely threats people's health of thousands in Chin and even other countries. In order to prevent its wide spread, it is necessary to understand the development of the epidemic with precise mathematical language. METHODS The various data of novel coronavirus pneumonia MESHD were collected from the official websites of the National Health Committee of the People's Republic of China. According to epidemic and administrative division, three groups were divided to analyze the data, Hubei Province (including Wuhan), nationwide without Hubei and Henan Province. With classic SIR models, the fitting epidemiological curves of incidence have made, and basic reproduction number (R0) was also calculated as well. Therefore the disease's infection intensity, peak time and the epidemiological end time can be deduced.

    An Investigation of the Expression of 2019 Novel Coronavirus Cell Receptor Gene ACE2 HGNC in a Wide Variety of Human Tissues

    Authors: Mengyuan Li; Lin Li; Yue Zhang; Xiaosheng Wang

    doi:10.21203/rs.2.24751/v2 Date: 2020-02-26 Source: ResearchSquare

    Background: The 2019 novel coronavirus (2019-nCoV) has affected more than 72,000 people worldwide and caused more than 1,800 deaths so far. 2019-nCoV uses the angiotensinconverting enzyme 2 ( ACE2 HGNC) as the cell receptor to invade the human host and primarily causes pneumonia MESHD. Thus, ACE2 HGNC is the key to understanding the mechanism of 2019-nCoV infection MESHD. Methods: We compared ACE2 HGNC expression levels across 31 human normal tissues, between males and females, and between younger (ages <= 49 years) and older (ages > 49 years) persons in these tissues. We also investigated the correlations between ACE2 HGNC expression and immune signatures in various tissues. Results: ACE2 HGNC expression levels were the highest in small intestine, testis MESHD, kidney, heart, thyroid, and adipose tissue, and were the lowest in blood, spleen, bone marrow MESHD, brain, blood vessel, and muscle. In lungs, colon MESHD, liver, bladder, and adrenal gland, ACE2 HGNC showed the medium expression levels. ACE2 HGNC was not differentially expressed between males and females and between younger and older persons in any tissue. In skin, digestive system, brain, and blood vessel, ACE2 HGNC expression levels were positively associated with immune signatures in both males and females. In thyroid and lungs, ACE2 HGNC expression levels were positively and negatively associated with immune signatures in males and females, respectively.Conclusions: Our data provide potential cues for the 2019-nCoV epidemic may infect other tissues outside lungs, affect males and females and young and old persons equally, and old age and male are associated with higher mortality risk for 2019-nCoV infection MESHD.  

    Thalidomide Combined with Low-dose Glucocorticoid in the Treatment of COVID-19 MESHD Pneumonia

    Authors: Chengshui Chen; Feng Qi; Keqing Shi; Yuping Li; Ji Li; Yongping Chen; Jingye Pan; Tieli Zhou; Xiangyang Lin; Jinsan Zhang; Yongde Luo; Xiaokun Li; Jinglin Xia

    id:202002.0395/v1 Date: 2020-02-26 Source:

    A novel coronavirus strain (severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) first appeared in December 2019 and can cause acute respiratory distress syndrome and death. However, there are only limited therapy choices and no vaccine for SARS-CoV-2 is currently available. Here we report about a case of a SARS-CoV-2 caused pneumonia successfully treated with thalidomide. Thalidomide is an immunomodulatory and anti-inflammatory agent and was combined with a low-dose glucocorticoid. We suggest, that the effects of thalidomide might be related to regulating immunity, inhibiting the inflammatory cytokine surge, alleviating anxiety to reduce oxygen consumption, relieving vomit and lung exudation.

    Rapid Design of a Bait Capture Platform for Culture- and Amplification-Free Next-Generation Sequencing of SARS-CoV-2

    Authors: Jalees A. Nasir; David J. Speicher; Robert A. Kozak; Hendrik N. Poinar; Matthew S. Miller; Andrew G. McArthur

    id:10.20944/preprints202002.0385.v1 Date: 2020-02-26 Source:

    SARS-CoV-2 is a novel betacoronavirus and the aetiological agent of the current COVID-19 MESHD outbreak that originated in Hubei Province, China. While polymerase chain reaction is the front-line tool for SARS-CoV-2 surveillance, application of amplification-free and culture-free methods for isolation of SARS-CoV-2 RNA, partnered with next-generation sequencing, would provide a useful tool for both surveillance and research of SARS-CoV-2. We here release into the public domain a set of bait capture hybridization probe sequences for enrichment of SARS-CoV-2 RNA from complex biological samples. These probe sequences have been designed using rigorous bioinformatics methods to provide sensitivity, accuracy, and minimal off-target hybridization. Probe design was based on existing, validated approaches for detecting antimicrobial resistance genes in complex samples and it is our hope that this SARS-CoV-2 bait capture platform, once validated by those with samples in hand, will be of aid in combating the current outbreak.

    Genomic variations of COVID-19 MESHD suggest multiple outbreak sources of transmission

    Authors: Liangsheng Zhang; Jian-Rong Yang; Zhenguo Zhang; Zhenguo Lin

    doi:10.1101/2020.02.25.20027953 Date: 2020-02-26 Source: medRxiv

    We examined 169 genomes of SARS-CoV-2 and found that they can be classified into two major genotypes, Type I and Type II. Type I can be further divided into Type IA and IB. Our phylogenetic analysis showed that the Type IA resembles the ancestral SARS-CoV-2 most. Type II was likely evolved from Type I and predominant in the infections. Our results suggest that Type II SARS-CoV-2 MESHD was the source of the outbreak in the Wuhan Huanan market and it was likely originated from a super-spreader. The outbreak caused by the Type I virus should have occurred somewhere else, because the patients had no direct link to the market. Furthermore, by analyzing three genomic sites that distinguish Type I and Type II strains, we found that synonymous changes at two of the three sites confer higher protein translational efficiencies in Type II strains than in Type I strains, which might explain why Type II strains are predominant, implying that Type II is more contagious (transmissible) than Type I. These findings could be valuable for the current epidemic prevention and control.

    2019 novel coronavirus disease MESHD in hemodialysis (HD) patients: Report from one HD center in Wuhan, China

    Authors: Yiqiong Ma; Bo Diao; Xifeng Lv; Jili Zhu; Wei Liang; Lei Liu; Wenduo Bu; Huiling Cheng; Sihao Zhang; Lianhua Yang; Ming Shi; Guohua Ding; Bo Shen; Huiming Wang

    doi:10.1101/2020.02.24.20027201 Date: 2020-02-25 Source: medRxiv

    The outbreak of COVID-19 MESHD originated in Wuhan has become a global epidemic of contagious diseases, which poses a serious threat to human life and health, especially for those with underlined diseases. However, Impacts of COVID-19 MESHD epidemic on HD center and HD patients are still unknown. In this report, we reviewed the whole course of the epidemic emerged in the HD center of Renmin Hospital, Wuhan University from January 14, 2020, the day the first case was confirmed, to February 17, 2020, the day the epidemic extinction. There are totally 37 cases among 230 HD patients and 4 cases among 33 staff being diagnosed with COVID-19 MESHD. The epidemiology, clinical presentation and immune profile of dialysis patients contracted COVID-19 MESHD were further studied. We found that the two key measures we took in response to the epidemic, one was upgrading level of prevention and protection on January 21 and the other one starting universal screening, isolating, and distributing the infected cases on February 4, were effective in the epidemic control. No new COVID-19 MESHD case had been diagnosed since February 13. During the epidemic, 7 HD patients died, including 6 with COVID-19 MESHD and 1 without COVID-19 MESHD. The presumed causes of death MESHD were not directly related to pneumonia MESHD, but due to cardiovascular and cerebrovascular diseases MESHD, hyperkalemia MESHD, etc. Most of the leukocytes in the peripheral blood of the HD patients infected with COVID-19 MESHD decreased, and the CT images of the chest mostly showed the ground glass like changes on the right side. The symptoms of most of the patients were mild, and there were no cases admitted to ICU. The frequency of lymphocytes in PBMCs and the serum level of inflammatory cytokines were assessed in HD patients contracted COVID-19 MESHD or not, non-HD COVID-19 MESHD patients, as well as healthy volunteers. The results showed that lymphocytes of T cell, Th cells, killer T cells, as well as NK cells in PBMCs of HD patients decreased significantly than other groups. HD patients with COVID-19 MESHD also displayed remarkable lower serum level of inflammatory cytokines than other COVID-19 MESHD patients. Our study indicates that HD patients are the highly susceptible population and HD centers are high risk area in the outbreak of COVID-19 MESHD epidemic. Measures of prevention, protection, screening, isolation, and distribution are essential in the epidemic management and should be taken in the early stage. HD Patients with COVID-19 MESHD are mostly clinical mild and unlikely progress to severe pneumonia MESHD due to the impaired cellular immune function and incapability of mounting cytokines storm. More attention should be paid to prevent cardiovascular events, which may be the collateral impacts of COVID-19 MESHD epidemic on HD patients.

    Epidemiological and clinical characteristics of SARS-CoV-2 and SARS-CoV: a system review

    Authors: mao yaqian; Wei Lin; Junping Wen; Gang Chen

    doi:10.1101/2020.02.20.20025601 Date: 2020-02-25 Source: medRxiv

    Importance: In 2002-2003, a severe pulmonary infectious disease MESHD occurred in Guangdong, China. The disease was caused by SARS-CoV MESHD, 17 years apart, also happen in China, and SARS-CoV-2, this epidemic has posed a significant hazard to people health both China and the whole world. Objective: Summarized the latest epidemiological changes, clinical manifestations, auxiliary examination and pathological characteristics of COVID-19 MESHD. Evidence Review: PubMed database were searched from 2019 to 2020 using the index terms novel coronavirus or COVID-19 MESHD or 2019-nCoV or SARS-CoV-2 and synonyms. Articles that reported clinical characteristics, laboratory results, imageological diagnosis and pathologic condition were included and were retrospectively reviewed for these cases. This paper adopts the method of descriptive statistics. Results: 34 COVID-19 MESHD-related articles were eligible for this systematic review;Four of the articles were related to pathology. We found that Fever MESHD (86.0%), cough (63.9%) and Malaise/Fatigue MESHD (34.7%) were the most common symptoms in COVID-19 MESHD. But in general, the clinical symptoms and signs of COVID-19 MESHD were not obvious. Compared with SARS, COVID-19 MESHD was transmitted in a more diverse way. The mortality rates of COVID-19 MESHD were 2.5%, and the overall infection rate of healthcare worker of COVID-19 MESHD was 3.9%. We also found that the pathological features of COVID-19 MESHD have greatly similar with SARS, which manifested as ARDS. But the latest pathological examination of COVID-19 MESHD revealed the obvious mucinous secretions in the lungs. Interpretation: The clinical and pathological characteristics of SARS and COVID-19 MESHD in China are very similar, but also difference. The latest finds of pathological examination on COVID-19 MESHD may upend existing treatment schemes, so the early recognition of disease by healthcare worker is very important.

    Deep learning Enables Accurate Diagnosis of Novel Coronavirus ( COVID-19 MESHD) with CT images

    Authors: Ying Song; Shuangjia Zheng; Liang Li; Xiang Zhang; Xiaodong Zhang; Ziwang Huang; Jianwen Chen; Huiying Zhao; Yusheng Jie; Ruixuan Wang; Yutian Chong; Jun Shen; Yunfei Zha; Yuedong Yang

    doi:10.1101/2020.02.23.20026930 Date: 2020-02-25 Source: medRxiv

    Background A novel coronavirus ( COVID-19 MESHD) has emerged recently as an acute respiratory syndrome MESHD. The outbreak was originally reported in Wuhan, China, but has subsequently been spread world-widely. As the COVID-19 MESHD continues to spread rapidly across the world, computed tomography (CT) has become essentially important for fast diagnoses. Thus, it is urgent to develop an accurate computer-aided method to assist clinicians to identify COVID-19 MESHD-infected patients by CT images. Materials and Methods We collected chest CT scans of 88 patients diagnosed with the COVID-19 MESHD from hospitals of two provinces in China, 101 patients infected with bacteria pneumonia MESHD, and 86 healthy persons for comparison and modeling. Based on the collected dataset, a deep learning-based CT diagnosis system (DeepPneumonia) was developed to identify patients with COVID-19 MESHD. Results The experimental results showed that our model can accurately identify the COVID-19 MESHD patients from others with an excellent AUC of 0.99 and recall (sensitivity) of 0.93. In addition, our model was capable of discriminating the COVID-19 MESHD infected MESHD patients and bacteria pneumonia-infected MESHD patients with an AUC of 0.95, recall (sensitivity) of 0.96. Moreover, our model could localize the main lesion features, especially the ground-glass opacity (GGO) that is of great help to assist doctors in diagnosis. The diagnosis for a patient could be finished in 30 seconds, and the implementation on Tianhe-2 supercompueter enables a parallel executions of thousands of tasks simultaneously. An online server is available for online diagnoses with CT images by Conclusions The established models can achieve a rapid and accurate identification of COVID-19 MESHD in human samples, thereby allowing identification of patients.

    Coronavirus Disease 2019 MESHD ( COVID-19 MESHD) During Pregnancy: A Case Series

    Authors: Weiyong Liu; Qianli Wang; Qi Zhang; Ling Chen; Junbo Chen; Bo Zhang; Yanjun Lu; Shaoshuai Wang; Liming Xia; Lu Huang; Kai Wang; Lu Liang; Yongli Zhang; Lance Turtle; David Lissauer; Ke Lan; Ling Feng; Hongjie Yu; Yingle Liu; Ziyong Sun

    id:202002.0373/v1 Date: 2020-02-25 Source:

    Background: Coronavirus disease 2019 MESHD ( COVID-19 MESHD) is a new viral respiratory disease MESHD and whether pregnant women are at increased risk of infection is unknown. Viral pneumonia MESHD is an important indirect cause of maternal death MESHD. Little is known about the effects of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) during pregnancy. Objective: To describe the clinical characteristics of COVID-19 MESHD in pregnancy and their newborn infant, and we sought to explored whether the SARS-CoV-2 can be intrauterine vertically transmitted. Study Design: The study was a case series study conducted in the obstetric ward of Tongji Hospital affiliated to Huazhong University of science and technology, Wuhan, China. Demographic, clinical, laboratory and radiological profiles of the SARS-CoV-2 infection MESHD case series. A systematic testing procedure for SARS-CoV-2 infection MESHD using oropharyngeal swab, placenta tissue, vaginal mucus, and breast milk of mothers. and oropharyngeal swab, umbilical cord blood, and serum of newborns was conducted. Results: We have conducted the most thorough virological assessment to date, and we include a longer clinical observation in mother-infant dyads during hospitalization. The clinical course and outcomes of three pregnant women who acquired SARS-CoV-2 infection MESHD late pregnancy are described in mother-infant dyads. Two had caesarean delivery in their third trimester. All patients showed an uneventful perinatal course, and a successful outcome. No infants became infected by vertical transmission or during delivery. Conclusion: No evidence to suggest the potential risk of intrauterine vertical transmission in the case series and further in-depth study is needed. Both the pregnancy woman and infant showed fewer adverse maternal and neonatal outcomes.

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MeSH Disease
HGNC Genes
SARS-CoV-2 Proteins

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