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Virus Variation Resource—recent updates and future directions
2013
Nucleic Acids Research
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Together these enhancements should support enhanced usability and the inclusion of new viruses in the future. ...
Virus Variation (http://www.ncbi.nlm.nih.gov/gen omes/VirusVariation/) is a comprehensive, webbased resource designed to support the retrieval and display of large virus sequence datasets. ...
FUTURE DIRECTIONS The long term plan is to increase the coverage of virus sequences in the Virus Variation Resource. ...
doi:10.1093/nar/gkt1268
pmid:24304891
pmcid:PMC3965055
fatcat:uyjd4rsizzdtbe7nd4vektt3p4
Virus Variation Resource – improved response to emergent viral outbreaks
2016
Nucleic Acids Research
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This manuscript describes a series of features and functionalities recently added to the Virus Variation Resource. ...
The resource is located at http://www.ncbi.nlm.nih.gov/genome/ viruses/variation/ and includes modules for seven viral groups: influenza virus, Dengue virus, West Nile virus, Ebolavirus, MERS coronavirus ...
FUTURE DIRECTIONS The Virus Variation Resource described here provides a number of features that improve the usability of archival sequence data. ...
doi:10.1093/nar/gkw1065
pmid:27899678
pmcid:PMC5210549
fatcat:rmk3lbtajzed3a3nqyfz2eh3by
ViPR: an open bioinformatics database and analysis resource for virology research
2011
Nucleic Acids Research
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and other viruses. ...
The Virus Pathogen Database and Analysis Resource (ViPR, www.ViPRbrc.org) is an integrated repository of data and analysis tools for multiple virus families, supported by the National Institute of Allergy ...
All these data are updated with each bimonthly release and are directly searchable using intuitive web-based user interfaces. Data from direct submission. ...
doi:10.1093/nar/gkr859
pmid:22006842
pmcid:PMC3245011
fatcat:7z5uulanrrbohb5qhzuuens3ci
CHIKVPRO – a protein sequence annotation database for chikungunya virus
2010
Bioinformation
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In the recent past, there has been a resurgence of interest in Chikungunya virus (CHIKV) attributed to massive outbreaks of Chikungunya fever in the South-East Asia Region. ...
Hereby we submit a database "CHIKVPRO" containing structural and functional annotation of Chikungunya virus proteins (25 strains) submitted in the NCBI repository. ...
The database shall be updated timely as more data on viral proteins is generated through our ongoing experimental analysis and future sequence submissions. ...
doi:10.6026/97320630005004
pmid:21346870
pmcid:PMC3039996
fatcat:mvk2itqzvfho7bpcbrlfplrore
Coronavirus3D: 3D structural visualization of COVID-19 genomic divergence
2020
Bioinformatics
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Motivation As the COVID-19 pandemics is spreading around the world, the SARS-CoV-2 virus is evolving with mutations that potentially change and fine-tune functions of the proteins coded in its genome. ...
Results Coronavirus3D website integrates data on the SARS-CoV-2 virus mutations with information about 3D structures of its proteins, allowing users to visually analyze the mutations in their 3D context ...
Acknowledgments We acknowledge efforts of the teams at PDB, CNCB, GISAID and NextStrain for maintaining and distributing information on COVID-19 and all the individual laboratories that make their results ...
doi:10.1093/bioinformatics/btaa550
pmid:32470119
pmcid:PMC7314196
fatcat:pazcmhr4kzb6niobi6voc452xa
A review on viral data sources and search systems for perspective mitigation of COVID-19
2020
Briefings in Bioinformatics
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future pandemics. ...
In this context, we review the data integration efforts required for accessing and searching genome sequences and metadata of SARS-CoV2, the virus responsible for the COVID-19 disease, which have been ...
This research is funded by the ERC Advanced Grant 693174 GeCo (datadriven Genomic Computing) and by the EIT Digital innovation activity 20663 "DATA against COVID-19". ...
doi:10.1093/bib/bbaa359
pmid:33348368
fatcat:v255kcgjfzhorgzwjtfxxygujy
Hepitopes: A live interactive database of HLA class I epitopes in hepatitis B virus
2016
Wellcome Open Research
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Over time, we will continue to http://www.expmedndm.ox.ac.uk/hepitopes refine and update this resource, as well as inviting contributions from others in the field to support its development. ...
Desmond CP, Bartholomeusz A, Gaudieri S, et al.: A systematic review of T-cell epitopes in hepatitis B virus: identification, genotypic variation and relevance to antiviral therapeutics. ...
Acknowledgements We are grateful to John Rowlands in the Nuffield Department of Medicine for his support in setting up and maintaining the Hepitopes website. ...
doi:10.12688/wellcomeopenres.9952.1
pmid:27976751
pmcid:PMC5142601
fatcat:wh7agd4tifhlhbx5a5uwtmfmnq
ONE YEAR OF THE COVID-19 PANDEMIC: NURSING RESEARCH PRIORITIES FOR THE NEW NORMAL ERA
2020
Belitung Nursing Journal
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Funding The author received no financial support for the research, authorship, and/or publication of this article. ...
In recent months of the pandemic, science is providing policy makers with updated data related to the virus' impact on its victims, transmission factors, and the effectiveness of mitigation strategies. ...
Finally, these ten research priorities are expected to be the future nursing research direction in the new normal era. They should be viewed as a positive step for the nursing agenda in each country. ...
doi:10.33546/bnj.1255
fatcat:ks6wgysxmzhqzp7v3d2mp67lwa
Epidemiological characteristics of human-infective RNA viruses
2018
Scientific Data
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This database can be used in comparative studies of human-infective RNA viruses to identify the characteristics of viruses most likely to pose the greatest public health threat, both now and in the future ...
route(s) and host range. ...
For example, there is huge variation in the epidemiology of subtypes of Influenza A virus: contrast the human influenza viruses such as H1N1 and H3N2 with avian influenza viruses such as H5N1 and H7N9 ...
doi:10.1038/sdata.2018.17
pmid:29461515
pmcid:PMC5819479
fatcat:6h23k7cjx5bp7adfybfog7znqe
Virus Pathogen Database and Analysis Resource (ViPR): A Comprehensive Bioinformatics Database and Analysis Resource for the Coronavirus Research Community
2012
Viruses
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The NIAID-sponsored Virus Pathogen Database and Analysis Resource (ViPR, www.viprbrc.org) supports bioinformatics workflows for a broad range of human virus pathogens and other related viruses, including ...
to new genomes, and store or share results from any search or analysis within personal private 'Workbench' spaces for future access. ...
Meng, Slobodan Paessler, Colin Parrish, Richard Whitley, and John Young, for their guidance and suggestions as well as Dr. Alison Yao for expert oversight of the BRC program. ...
doi:10.3390/v4113209
pmid:23202522
pmcid:PMC3509690
fatcat:xadmxig4lvcihb24fqtgp3mh24
NCBI Viral Genomes Resource
2014
Nucleic Acids Research
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The resource can be accessed at http://www.ncbi.nlm.nih.gov/genome/viruses/ and catalogs all publicly available virus genome sequences and curates reference genome sequences. ...
Recent technological innovations have ignited an explosion in virus genome sequencing that promises to fundamentally alter our understanding of viral biology and profoundly impact public health policy. ...
ACKNOWLEDGEMENT We would like to thank Vyacheslav Chetvernin, Boris Fedorov, Sergey Resenchuck, Igor Tolstoy, Tatiana Tatusova and Jim Ostell for their development and support. ...
doi:10.1093/nar/gku1207
pmid:25428358
pmcid:PMC4383986
fatcat:l3xxswkwgfha7bpz3bsxbzzwbi
Ab and T cell epitopes of influenza A virus, knowledge and opportunities
2007
Proceedings of the National Academy of Sciences of the United States of America
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The Immune Epitope Database and Analysis Resources (IEDB) (www.immuneepitope.org) was recently developed to capture epitope related data. ...
At the same time, the analysis illustrates gaps in our collective knowledge that should inspire directions for further study of immunity against the influenza A virus. ...
Specifically, the revealed gaps in our collective knowledge might inspire and guide directions for future research in the study of immunity against the influenza A virus. ...
doi:10.1073/pnas.0609330104
pmid:17200302
pmcid:PMC1765443
fatcat:bp2aveekezhgrojvlpxxoqj76e
Bioinformatics Applications in Advancing Animal Virus Research
[chapter]
2019
Recent Advances in Animal Virology
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Various databases that organize information on animal and human viruses have also been described. ...
The chapter will converse on overview of the current advances, online and downloadable tools and databases in the field of bioinformatics that will enable the researchers to study animal viruses at gene ...
Acknowledgements All the authors of the manuscript thank and acknowledge their respective universities and institutes.
Conflict of Interest There is no conflict of interest. ...
doi:10.1007/978-981-13-9073-9_23
fatcat:kmnyd5z7wbeltchxzoscpgtpzm
Improving influenza vaccine virus selectionReport of a WHO informal consultation held at WHO headquarters, Geneva, Switzerland, 14-16 June 2010
2011
Influenza and Other Respiratory Viruses
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The World Health Organization retains copyright and all other rights in the manuscript of this article as submitted for publication. ...
in a population could help to establish well-characterized banks of age-stratified representative sera as a national, regional and global resource, while providing direct evidence of the specific benefits ...
global resource. ...
doi:10.1111/j.1750-2659.2011.00277.x
pmid:21819547
pmcid:PMC4954460
fatcat:7b74c4kukrh65eqn42y24ct7jy
Robust Reactions to Potential Day-Zero Worms Through Cooperation and Validation
[chapter]
2006
Lecture Notes in Computer Science
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Our experiments show that distributed algorithms are better able to balance effectiveness against viruses with reduced cost in computation and communication when faced with false alarms. ...
Cooperative defensive systems communicate and cooperate in their response to worm attacks, but determine the presence of a worm attack solely on local information. ...
Acknowledgements This work was supported in part by the National Science Foundation under grants ITR CNS-0426623, DUE-0417085 and CCR-0331584. ...
doi:10.1007/11836810_31
fatcat:7rcpuqt5u5aurhnyzry72ehv3i
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