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COVID-19 GPH|Home|PHGKB Last data update: Jul 24, 2021 . (Total: 23317 Documents since 2020)

Last Posted: Jul-24-2021 08:11:11
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BNT162b2 Vaccination efficacy is marginally affected by the SARS-CoV-2 B.1.351 variant in fully vaccinated individuals.
A Huppert et al, MEDRXIV, July 23, 2021

We used logistic regression, with variant type as the dependent variable, vaccination status as the main explanatory variable, controlling for age, sex, subpopulation, place of residence and time of sample, to estimate the odds ratio for a vaccinated case to have the B. 1.351 versus the B.1.1.7 variant, within vaccinated and unvaccinated persons who tested positive. Findings There were 19 cases of B.1.351 variant (3.2%) among those vaccinated more than 14 days before the positive sample and 88 (3.5%) among the unvaccinated. The estimated odds ratio was 1.29 [95% CI: 0.66-2.50].

New susceptibility loci for severe COVID-19 by detailed GWAS analysis in European populations
F Degenhardt et al, MEDRXIV, July 23, 2021

We describe an extended GWAS meta-analysis of 3,260 COVID-19 patients with respiratory failure and 12,483 population controls from Italy, Spain, Norway and Germany, as well as hypothesis-driven targeted analysis of the human leukocyte antigen (HLA) region and chromosome Y haplotypes. We include detailed stratified analyses based on age, sex and disease severity. In addition to already established risk loci, our data identify and replicate two genome-wide significant loci at 17q21.31 and 19q13.33 associated with severe COVID-19 with respiratory failure.

Obesity, Ethnicity, and Covid-19 Mortality: A population-based cohort study of 12.6 Million Adults in England
T Yates et al, MEDRXIV, July 23, 2021

Obesity and ethnicity are well characterized risk factors for severe COVID-19 outcomes, but the differential effects of obesity on COVID-19 outcomes by race/ethnicity has not been examined robustly in the general population. This large population-based study using linked Census and electronic health care records demonstrates that the risk of COVID-19 mortality associated with obesity is greater in ethnic minority groups compared to white populations.

County Vaccination Coverage and COVID-19 Case Rates
CDC COVID Data Tracker, July 23, 2021

The following set of maps shows the percent of the population fully vaccinated and the case rate per 100,000 population in U.S. counties. The case rate per 100,000 population shows the number of COVID-19 cases for every 100,000 people over the last 7 days, allowing you to compare areas with different population sizes.

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Reduced neutralizing activity of post-SARS-CoV-2 vaccination serum against variants B.1.617.2, B.1.351, B.1.1.7+E484K and a sub-variant of C.37
JM Carreno et al, MEDRXIV, July 23, 2021

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Air travel-related outbreak of multiple SARS-CoV-2 variants
V Dhanasekaran et al, MEDRXIV, July 23, 2021

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How concerned should we be about breakthrough coronavirus infections? One expert weighs in
M Tirrell et al, Stat News, July 23, 2021

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Pfizer’s shot remains strong against disease, but Israeli data raise the prospect of it waning against infection
C Zimmer, NY Times, July 23, 2021

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Exploring Feasibility of Multivariate Deep Learning Models in Predicting COVID-19 Epidemic.
Chen Shi, et al. Frontiers in public health 2021 0 0. 661615

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Covid-19 and Risk of Venous Thromboembolism in Ethnically Diverse Populations.
Go Alan S, et al. Chest 2021 0 0.

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Monoclonal Antibodies for Early Treatment of COVID-19 in a World of Evolving SARS-CoV-2 Mutations and Variants.
Pogue Jason M, et al. Open forum infectious diseases 2021 0 0. (7) ofab268

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Identification of Causal Genes of COVID-19 Using the SMR Method.
Zong Yan, et al. Frontiers in genetics 2021 0 0. 690349

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Acute autoimmune-like hepatitis with atypical anti-mitochondrial antibody after mRNA COVID-19 vaccination: A novel clinical entity?
Ghielmetti Michele, et al. Journal of autoimmunity 2021 0 0. 102706

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CoVrimer: A tool for aligning SARS-CoV-2 primer sequences and selection of conserved/degenerate primers.
Vural Merve, et al. Genomics 2021 0 0.

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About COVID-19 GPH

COVID-19 GPH is an online, continuously updated, searchable database of published scientific literature, CDC and NIH resources, and other materials that captures emerging discoveries and applications of genomics, molecular and other precision medicine and precision public health tools in the investigation and control of COVID-19. Contents include PubMed records via an automated pubmed search algorithm, preprint records from NIH iCite, the relevant information from many media sources picked by experts, and linkages to contents from our curated PHGKB databases.
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All Records23317
Genomics Precision Health16636
Non-Genomics Precision Health6681

Publication Categories Brand

Mechanism 4323
Treatment 3917
Vaccine 3829
Variant 3325
Prevention 2811
Diagnosis 2810
Forecasting 1881
Surveillance 1706
Transmission 930
Health Equity 607
Case Report 459

Publication Types

PubMed Records16988
Online News/Reports/Publications427

Genomics Precision Health (GPH): The use of pathogen and human genomics and advanced molecular detection methods in discovery, clinical and public health investigations and response to COVID-19.
Non Genomics Precision Health (non-GPH): The use of big data, data science, digital health, machine learning and predictive analytic methods (not involving genomics) in discovery, clinical and public health investigations and response to COVID-19

Following categories are annotated by LitCovid from NCBI NIH.
MechanismUnderlying cause(s) of covid-19 infections and transmission & possible drug mechanism of action
Transmission Characteristics and modes of covid-19 transmissions, such as human-to-human
DiagnosisDisease assessment through symptoms, test results, and radiological features
PreventionPrevention, control, response and management strategies
Case ReportDescriptions of specific patient cases
ForecastingModelling and estimating the trend of covid-19 spread

Following categories are annotated by the text mining tool from CDC PHGKB
Health EquityRelevant to health equity. Search terms are derived from a list provided by the Association for Territorial Health Officials which include terms such as diversity, health disparities, and others.
VaccineRelevant to vaccine development, evaluation, implementation and impact. For additional information on vaccines and COVID-19. Check out general CDC Information pages
VariantRelevant to SARS-CoV-2 variants and their impact on public health. For additional information on variants COVID-19. Check out CDC New Variants of the Virus that Causes COVID-19 page
SurveillanceRelevant to SARS-CoV-2 public health surveillance and tracking. For additional information on COVID-19 surveillance, check out CDC COVID-19 Data Tracker

Disclaimer: Articles listed in the Public Health Genomics and Precision Health Knowledge Base are selected by the CDC Office of Public Health Genomics to provide current awareness of the literature and news. Inclusion in the update does not necessarily represent the views of the Centers for Disease Control and Prevention nor does it imply endorsement of the article's methods or findings. CDC and DHHS assume no responsibility for the factual accuracy of the items presented. The selection, omission, or content of items does not imply any endorsement or other position taken by CDC or DHHS. Opinion, findings and conclusions expressed by the original authors of items included in the update, or persons quoted therein, are strictly their own and are in no way meant to represent the opinion or views of CDC or DHHS. References to publications, news sources, and non-CDC Websites are provided solely for informational purposes and do not imply endorsement by CDC or DHHS.