NCBI Viral Genomes Resource
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NCBI Viral Genomes Resource
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
NCBI Viral genomes
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Names
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NCBI Viral Genomes Resource
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
NCBI Viral genomes
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Other names: NCBI Viral genomes
Names
More detailed information about this field from each metasource.
NCBI Viral Genomes Resource
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
NCBI Viral genomes
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
NCBI Viral Genomes Resource is a collection of virus genomic sequences that provides curated sequence data, related information and tools. It includes all complete viral genome sequences deposited in the International Nucleotide Sequence Database Collaboration (INSDC) databases, i.e. DDBJ, EMBL, and GenBank. Data are organized by viral taxonomy, and reference sequence records (RefSeqs) from one or more genome sequences for each viral species. After a RefSeq has been created for a species, other complete genomes from that same species are indexed as neighbors to the RefSeq.
Description
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NCBI Viral Genomes Resource is a collection of virus genomic sequences that provides curated sequence data, related information and tools. It includes all complete viral genome sequences deposited in the International Nucleotide Sequence Database Collaboration (INSDC) databases, i.e. DDBJ, EMBL, and GenBank. Data are organized by viral taxonomy, and reference sequence records (RefSeqs) from one or more genome sequences for each viral species. After a RefSeq has been created for a species, other complete genomes from that same species are indexed as neighbors to the RefSeq.
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
The NCBI Viral Genomes Resource (http://www.ncbi.nlm.nih.gov/genomes/VIRUSES/viruses.html) provides sequence information, as well as precomputed comparative analyses and Web tools, for all viruses and viroids for which (nearly) complete genomic sequences have been established and deposited to DDBJ, EMBL, or GeneBank. The collection currently contains over 2200 reference sequences (RefSeq) and about 6,500 additional complete sequences for more than 1,500 different viral species. The reference sequences are maintained in separate records that are further curated and updated. Whenever more than one complete genome for a species is available, a pairwise global alignment of a reference sequence with each additional sequence is provided. Precomputed clusters of related proteins (VOG) from the reference sequences help navigate among viral proteomes and summarize available functional information for most major virus groups. The data are accessible via Entrez as well as from specialized Web pages offering visualization of the sequence information at various levels of detail.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Webpage:
http://www.ncbi.nlm.nih.gov/genomes/VIRUSES/viruses.htmlWebpage
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http://www.ncbi.nlm.nih.gov/genomes/VIRUSES/viruses.html
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
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Name: NCBI Viral Genomes Resource Attribution requiredLicence name
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NCBI Viral Genomes Resource Attribution required
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Licence URL
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https://www.ncbi.nlm.nih.gov/genome/viruses/variation/publications/
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Publications:
Publications
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NCBI viral genomes resource
PMID: 25428358
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Publications
More detailed information about this field from each metasource.
NCBI viral genomes resource
PMID: 25428358
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
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NCBI viral genomes resource
PubMed citations: 236.
236 articles citing: NCBI viral genomes resource
Development of a Multiepitope Vaccine Against SARS-CoV-2: Immunoinformatics Study. PMID:35891920
FnCas9 Editor Linked Uniform Detection Assay for COVID-19. PMID:35838958
Y RNAs are conserved endogenous RIG-I ligands across RNA virus infection and are targeted by HIV-1. PMID:35789859
Detection of Ancient Viruses and Long-Term Viral Evolution. PMID:35746807
Long-Read Metagenomics Improves the Recovery of Viral Diversity from Complex Natural Marine Samples. PMID:35695508
Thompson loop: opportunities for antitubercular drug design by targeting the weak spot in demethylmenaquinone methyltransferase protein. PMID:35520325
Host-Associated Phages Disperse across the Extraterrestrial Analogue Antarctica. PMID:35499326
Comprehensive human amniotic fluid metagenomics supports the sterile womb hypothesis. PMID:35477737
AutoCoV: tracking the early spread of COVID-19 in terms of the spatial and temporal patterns from embedding space by K-mer based deep learning. PMID:35468739
An overview of dinucleotide and codon usage in all viruses. PMID:35467158
The Chronic Wound Phageome: Phage Diversity and Associations with Wounds and Healing Outcomes. PMID:35435739
Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study. PMID:35356467
Designing sensitive viral diagnostics with machine learning. PMID:35241837
Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma. PMID:35228751
Bacteriophages Roam the Wheat Phyllosphere. PMID:35215838
Using networks to analyze and visualize the distribution of overlapping genes in virus genomes. PMID:35202429
Combination of antiviral drugs inhibits SARS-CoV-2 polymerase and exonuclease and demonstrates COVID-19 therapeutic potential in viral cell culture. PMID:35194144
Genetic and biological characteristics of species A rotaviruses detected in common shrews suggest a distinct evolutionary trajectory. PMID:35169491
The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine. PMID:35165687
The Neglected Gut Microbiome: Fungi, Protozoa, and Bacteriophages in Inflammatory Bowel Disease. PMID:35092426
Conserved Motifs and Domains in Members of Pospiviroidae. PMID:35053346
Unique mobile elements and scalable gene flow at the prokaryote-eukaryote boundary revealed by circularized Asgard archaea genomes. PMID:35027677
Epistatic models predict mutable sites in SARS-CoV-2 proteins and epitopes. PMID:35022216
Development of a Genomics-Based Approach To Identify Putative Hypervirulent Nontyphoidal Salmonella Isolates: Salmonella enterica Serovar Saintpaul as a Model. PMID:34986312
Deconvoluting virome-wide antibody epitope reactivity profiles. PMID:34922324
A proposed workflow for proactive virus surveillance and prediction of variants for vaccine design. PMID:34914686
VDA-RWLRLS: An anti-SARS-CoV-2 drug prioritizing framework combining an unbalanced bi-random walk and Laplacian regularized least squares. PMID:34902608
GenBank. PMID:34850943
Transformation of Seed Non-Transmissible Hop Viroids in Nicotiana benthamiana Causes Distortions in Male Gametophyte Development. PMID:34834761
Correcting the Estimation of Viral Taxa Distributions in Next-Generation Sequencing Data after Applying Artificial Neural Networks. PMID:34828361
Feature-extraction and analysis based on spatial distribution of amino acids for SARS-CoV-2 Protein sequences. PMID:34815067
Computational methods for inferring location and genealogy of overlapping genes in virus genomes: approaches and applications. PMID:34798370
Metatranscriptomics to characterize respiratory virome, microbiome, and host response directly from clinical samples. PMID:34790908
Virtual screening and in vitro validation identifies the first reported inhibitors of Salmonella enterica HPPK. PMID:34778775
Down in the pond: Isolation and characterization of a new Serratia marcescens strain (LVF3) from the surface water near frog's lettuce (Groenlandia densa). PMID:34748577
DNA Viral Diversity, Abundance, and Functional Potential Vary across Grassland Soils with a Range of Historical Moisture Regimes. PMID:34724822
OncoDB: an interactive online database for analysis of gene expression and viral infection in cancer. PMID:34718715
Distribution and Pathogenicity of Two Cutthroat Trout Virus (CTV) Genotypes in Canada. PMID:34578311
VGEA: an RNA viral assembly toolkit. PMID:34567846
STAT: a fast, scalable, MinHash-based k-mer tool to assess Sequence Read Archive next-generation sequence submissions. PMID:34544477
High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome. PMID:34526611
Whole-genome-based phylogenomic analysis of the Belgian 2016-2017 influenza A(H3N2) outbreak season allows improved surveillance. PMID:34477544
Predicting hosts based on early SARS-CoV-2 samples and analyzing the 2020 pandemic. PMID:34465838
Mutational spectrum of SARS-CoV-2 during the global pandemic. PMID:34453107
Moisture modulates soil reservoirs of active DNA and RNA viruses. PMID:34446837
Development of Novel PCR Assays for Improved Detection of Enterovirus D68. PMID:34432489
Simple Classification of RNA Sequences of Respiratory-Related Coronaviruses. PMID:34395967
Nanotechnology based solutions to combat zoonotic viruses with special attention to SARS, MERS, and COVID 19: Detection, protection and medication. PMID:34390768
A novel mechanism of enhanced transcription activity and fidelity for influenza A viral RNA-dependent RNA polymerase. PMID:34379778
ZWA: Viral genome assembly and characterization hindrances from virus-host chimeric reads; a refining approach. PMID:34370725
Bacteriophages of Thermophilic 'Bacillus Group' Bacteria-A Review. PMID:34361957
Lytic archaeal viruses infect abundant primary producers in Earth's crust. PMID:34330907
BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes. PMID:34320186
Seq12, Seq12m, and Seq13m, peptide analogues of the spike glycoprotein shows antiviral properties against SARS-CoV-2: An in silico study through molecular docking, molecular dynamics simulation, and MM-PB/GBSA calculations. PMID:34305174
Haploflow: strain-resolved de novo assembly of viral genomes. PMID:34281604
Nucleotide Composition and Codon Usage Across Viruses and Their Respective Hosts. PMID:34262534
Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly. PMID:34261503
AAV ablates neurogenesis in the adult murine hippocampus. PMID:34259630
Predicted structural mimicry of spike receptor-binding motifs from highly pathogenic human coronaviruses. PMID:34234921
Interplay between SARS-CoV-2-derived miRNAs, immune system, vitamin D pathway and respiratory system. PMID:34159729
Metatranscriptome Library Preparation Influences Analyses of Viral Community Activity During a Brown Tide Bloom. PMID:34135876
Scaling relation between genome length and particle size of viruses provides insights into viral life history. PMID:34113814
FnCas9-based CRISPR diagnostic for rapid and accurate detection of major SARS-CoV-2 variants on a paper strip. PMID:34106048
A novel piperazine derivative that targets hepatitis B surface antigen effectively inhibits tenofovir resistant hepatitis B virus. PMID:34083665
Temporal Changes of Virus-Like Particle Abundance and Metagenomic Comparison of Viral Communities in Cropland and Prairie Soils. PMID:34077260
Origin, Evolution and Stability of Overlapping Genes in Viruses: A Systematic Review. PMID:34073395
Diverse Viruses Carrying Genes for Microbial Extremotolerance in the Atacama Desert Hyperarid Soil. PMID:34006626
Identifying biases and their potential solutions in human microbiome studies. PMID:34006335
Transcription, mRNA Export, and Immune Evasion Shape the Codon Usage of Viruses. PMID:33988683
Spinal Cord Injury Changes the Structure and Functional Potential of Gut Bacterial and Viral Communities. PMID:33975974
VIRUSBreakend: Viral Integration Recognition Using Single Breakends. PMID:33973999
Retrieval and Investigation of Data on SARS-CoV-2 and COVID-19 Using Bioinformatics Approach. PMID:33973215
Diversity and distribution of viruses inhabiting the deepest ocean on Earth. PMID:33972725
Learning vector quantization as an interpretable classifier for the detection of SARS-CoV-2 types based on their RNA sequences. PMID:33935376
Intrahost speciations and host switches played an important role in the evolution of herpesviruses. PMID:33927887
Profiling SARS-CoV-2 mutation fingerprints that range from the viral pangenome to individual infection quasispecies. PMID:33875001
Rapid and accurate nucleobase detection using FnCas9 and its application in COVID-19 diagnosis. PMID:33866136
Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota. PMID:33808469
Clinical Experience of Cerebrospinal Fluid-Based Liquid Biopsy Demonstrates Superiority of Cell-Free DNA over Cell Pellet Genomic DNA for Molecular Profiling. PMID:33781965
Field-deployable, rapid diagnostic testing of saliva for SARS-CoV-2. PMID:33750853
Pattern of genomic variation in SARS-CoV-2 (COVID-19) suggests restricted nonrandom changes: Analysis using Shewhart control charts. PMID:33709963
High-Throughput Metagenomics for Identification of Pathogens in the Clinical Settings. PMID:33614906
Massive expansion of human gut bacteriophage diversity. PMID:33606979
The analysis on the human protein domain targets and host-like interacting motifs for the MERS-CoV and SARS-CoV/CoV-2 infers the molecular mimicry of coronavirus. PMID:33596252
Complete Genome Sequence of a Phapecoctavirus Isolated from a Pigeon Cloacal Swab Sample. PMID:33541888
Haploflow: Strain-resolved de novo assembly of viral genomes. PMID:33532769
Cenote-Taker 2 democratizes virus discovery and sequence annotation. PMID:33505708
Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions. PMID:33452481
Viruses in Extreme Environments, Current Overview, and Biotechnological Potential. PMID:33430116
Identification and characterization of a silent mutation in RNA binding domain of N protein coding gene from SARS-CoV-2. PMID:33407800
Expansion and re-classification of the extracytoplasmic function (ECF) σ factor family. PMID:33398323
Revisiting Orthotospovirus phylogeny using full-genome data and testing the contribution of selection, recombination and segment reassortment in the origin of members of new species. PMID:33394171
Virxicon: A Lexicon Of Viral Sequences. PMID:33367605
Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities. PMID:33279989
GenBank. PMID:33196830
Virome Sequencing of the Human Intestinal Mucosal-Luminal Interface. PMID:33194818
Systems Biology Approaches for Therapeutics Development Against COVID-19. PMID:33194800
Profiling SARS-CoV-2 mutation fingerprints that range from the viral pangenome to individual infection quasispecies. PMID:33173909
The Presence of Human Herpesvirus 6 in the Brain in Health and Disease. PMID:33172107
Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation. PMID:33137082
Single Cell Genomics Reveals Viruses Consumed by Marine Protists. PMID:33072003
Evolutionary Analysis of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Reveals Genomic Divergence with Implications for Universal Vaccine Efficacy. PMID:33050053
Automated download and clean-up of family-specific databases for kmer-based virus identification. PMID:33031509
Structural and Proteomic Studies of the Aureococcus anophagefferens Virus Demonstrate a Global Distribution of Virus-Encoded Carbohydrate Processing. PMID:33013751
From Orphan Phage to a Proposed New Family-the Diversity of N4-Like Viruses. PMID:33008130
A computational toolset for rapid identification of SARS-CoV-2, other viruses and microorganisms from sequencing data. PMID:33003197
Five Novel Non-Sialic Acid-Like Scaffolds Inhibit In Vitro H1N1 and H5N2 Neuraminidase Activity of Influenza a Virus. PMID:32947893
CoV-Seq, a New Tool for SARS-CoV-2 Genome Analysis and Visualization: Development and Usability Study. PMID:32931441
A distinct lineage of Caudovirales that encodes a deeply branching multi-subunit RNA polymerase. PMID:32908149
Enhanced Detection of DNA Viruses in the Cerebrospinal Fluid of Encephalitis Patients Using Metagenomic Next-Generation Sequencing. PMID:32903437
Insights into the Evolutionary Origin of Mediterranean Sandfly Fever Viruses. PMID:32878929
Development of a Fluorescence-Based, High-Throughput SARS-CoV-2 3CLpro Reporter Assay. PMID:32843534
Multi-Omics Characterization of the 4T1 Murine Mammary Gland Tumor Model. PMID:32793490
NCBI Taxonomy: a comprehensive update on curation, resources and tools. PMID:32761142
Assessment of Metagenomic Sequencing and qPCR for Detection of Influenza D Virus in Bovine Respiratory Tract Samples. PMID:32731471
Machine-learning approach expands the repertoire of anti-CRISPR protein families. PMID:32728052
Immunogenic SARS-CoV-2 Epitopes: In Silico Study Towards Better Understanding of COVID-19 Disease-Paving the Way for Vaccine Development. PMID:32717854
Computational search for potential COVID-19 drugs from FDAapproved drugs and small molecules of natural origin identifies several anti-virals and plant products. PMID:32713863
Computational approaches in viral ecology. PMID:32670501
Selection for Reducing Energy Cost of Protein Production Drives the GC Content and Amino Acid Composition Bias in Gene Transfer Agents. PMID:32665274
Sequence Compression Benchmark (SCB) database-A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences. PMID:32627830
Whole genome sequencing identifies an allele responsible for clear vs. turbid plaque morphology in a Mycobacteriophage. PMID:32513117
A tissue level atlas of the healthy human virome. PMID:32493363
Predicting host taxonomic information from viral genomes: A comparison of feature representations. PMID:32453718
An effective CTL peptide vaccine for Ebola Zaire Based on Survivors' CD8+ targeting of a particular nucleocapsid protein epitope with potential implications for COVID-19 vaccine design. PMID:32418793
Phages Actively Challenge Niche Communities in Antarctic Soils. PMID:32371471
Massively multiplexed nucleic acid detection with Cas13. PMID:32349121
Combination of Biodata Mining and Computational Modelling in Identification and Characterization of ORF1ab Polyprotein of SARS-CoV-2 Isolated from Oronasopharynx of an Iranian Patient. PMID:32336957
Structural Genomics of SARS-CoV-2 Indicates Evolutionary Conserved Functional Regions of Viral Proteins. PMID:32218151
Experimental Evolution To Isolate Vaccinia Virus Adaptive G9 Mutants That Overcome Membrane Fusion Inhibition via the Vaccinia Virus A56/K2 Protein Complex. PMID:32132237
Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities. PMID:32075851
Metagenome Mining Reveals Hidden Genomic Diversity of Pelagimyophages in Aquatic Environments. PMID:32071164
Variant morphology and random chromosomal integration of BK polyomavirus in posttransplant urothelial carcinomas. PMID:32047230
The evolution of protein domain repertoires: Shedding light on the origins of the Herpesviridae family. PMID:32042448
Discovery of several thousand highly diverse circular DNA viruses. PMID:32014111
LAMPA, LArge Multidomain Protein Annotator, and its application to RNA virus polyproteins. PMID:32003788
Intratumoral heterogeneity and clonal evolution in liver cancer. PMID:31941899
The Microbiota in Hematologic Malignancies. PMID:31927673
Full genomic characterization of a porcine rotavirus strain detected in an asymptomatic piglet in Accra, Ghana. PMID:31924206
Metabolic Modeling Elucidates the Transactions in the Rumen Microbiome and the Shifts Upon Virome Interactions. PMID:31866953
Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust. PMID:31848272
Exploiting the Feedstock Flexibility of the Emergent Synthetic Biology Chassis Vibrio natriegens for Engineered Natural Product Production. PMID:31801279
Are viral-infections associated with Ménière's Disease? A systematic review and meta-analysis of molecular-markers of viral-infection in case-controlled observational studies of MD. PMID:31756230
The pulmonary virome, bacteriological and histopathological findings in bovine respiratory disease from western Canada. PMID:31715071
Studying the gut virome in the metagenomic era: challenges and perspectives. PMID:31660953
Molecular characterization and In Vitro synthesis of infectious RNA of a Turnip vein-clearing virus isolated from Alliaria petiolata in Hungary. PMID:31648277
Prediction of microbial communities for urban metagenomics using neural network approach. PMID:31639050
Programmable Inhibition and Detection of RNA Viruses Using Cas13. PMID:31607545
Database resources of the National Center for Biotechnology Information. PMID:31602479
Endogenous Avian Leukosis Virus in Combination with Serotype 2 Marek's Disease Virus Significantly Boosted the Incidence of Lymphoid Leukosis-Like Bursal Lymphomas in Susceptible Chickens. PMID:31554689
A Puzzling Anomaly in the 4-Mer Composition of the Giant Pandoravirus Genomes Reveals a Stringent New Evolutionary Selection Process. PMID:31534042
Sequence determinants of polyadenylation-mediated regulation. PMID:31530582
DisCVR: Rapid viral diagnosis from high-throughput sequencing data. PMID:31528358
NCBI's Virus Discovery Hackathon: Engaging Research Communities to Identify Cloud Infrastructure Requirements. PMID:31527408
Discovery of Genomic Characteristics and Selection Signatures in Korean Indigenous Goats Through Comparison of 10 Goat Breeds. PMID:31440273
Genomic detection and molecular characterization of two distinct isolates of cycas necrotic stunt virus from Paeonia suffruticosa and Daphne odora. PMID:31352619
Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth's biomes. PMID:31332386
Highly conserved influenza T cell epitopes induce broadly protective immunity. PMID:31331771
Harnessing host-virus evolution in antiviral therapy and immunotherapy. PMID:31312450
High-Throughput Sequencing Analysis of Small RNAs Derived from Coleus Blumei Viroids. PMID:31284471
Phages and Human Health: More Than Idle Hitchhikers. PMID:31252683
Vaccinia viral A26 protein is a fusion suppressor of mature virus and triggers membrane fusion through conformational change at low pH. PMID:31220181
Diversity patterns of bacteriophages infecting Aggregatibacter and Haemophilus species across clades and niches. PMID:31201356
Sub-genotype phylogeny of the non-G, non-P genes of genotype 2 Rotavirus A strains. PMID:31150425
Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages. PMID:31127947
DNAscan: personal computer compatible NGS analysis, annotation and visualisation. PMID:31029080
Respiratory viruses identified in western Canadian beef cattle by metagenomic sequencing and their association with bovine respiratory disease. PMID:30873724
Piscine orthoreovirus demonstrates high infectivity but low virulence in Atlantic salmon of Pacific Canada. PMID:30867461
Vgas: A Viral Genome Annotation System. PMID:30814982
Capturing sequence diversity in metagenomes with comprehensive and scalable probe design. PMID:30718881
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. PMID:30661755
Reduced bonobo MHC class I diversity predicts a reduced viral peptide binding ability compared to chimpanzees. PMID:30630404
Strengthening the Interaction of the Virology Community with the International Committee on Taxonomy of Viruses (ICTV) by Linking Virus Names and Their Abbreviations to Virus Species. PMID:30597118
A longitudinal systems immunologic investigation of acute Zika virus infection in an individual infected while traveling to Caracas, Venezuela. PMID:30596671
Minimum Information about an Uncultivated Virus Genome (MIUViG). PMID:30556814
Genomic Signatures Among Acanthamoeba polyphaga Entoorganisms Unveil Evidence of Coevolution. PMID:30456441
KrakenUniq: confident and fast metagenomics classification using unique k-mer counts. PMID:30445993
Named entity linking of geospatial and host metadata in GenBank for advancing biomedical research. PMID:30412219
Database resources of the National Center for Biotechnology Information. PMID:30395293
A planarian nidovirus expands the limits of RNA genome size. PMID:30383829
Metagenomic Sequencing of HIV-1 in the Blood and Female Genital Tract Reveals Little Quasispecies Diversity during Acute Infection. PMID:30381486
A diversity-generating retroelement encoded by a globally ubiquitous Bacteroides phage. PMID:30352623
Overlapping genes and the proteins they encode differ significantly in their sequence composition from non-overlapping genes. PMID:30339683
Soil Viruses Are Underexplored Players in Ecosystem Carbon Processing. PMID:30320215
Considerations for Optimization of High-Throughput Sequencing Bioinformatics Pipelines for Virus Detection. PMID:30262776
Genome-wide diversity in temporal and regional populations of the betabaculovirus Erinnyis ello granulovirus (ErelGV). PMID:30249206
Mimiviridae: An Expanding Family of Highly Diverse Large dsDNA Viruses Infecting a Wide Phylogenetic Range of Aquatic Eukaryotes. PMID:30231528
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection. PMID:30229723
Tracing mother-infant transmission of bacteriophages by means of a novel analytical tool for shotgun metagenomic datasets: METAnnotatorX. PMID:30126456
Integrated analysis of the impact of age on genetic and clinical aspects of hepatocellular carcinoma. PMID:30125264
Predicting MicroRNA Mediated Gene Regulation between Human and Viruses. PMID:30096814
Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus. PMID:29937276
Viromic Analysis of Wastewater Input to a River Catchment Reveals a Diverse Assemblage of RNA Viruses. PMID:29795788
Reproducible protocols for metagenomic analysis of human faecal phageomes. PMID:29631623
A comprehensive and quantitative exploration of thousands of viral genomes. PMID:29624169
A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection. PMID:29564396
The End of a 60-year Riddle: Identification and Genomic Characterization of an Iridovirus, the Causative Agent of White Fat Cell Disease in Zooplankton. PMID:29487186
Know Your Enemy: Successful Bioinformatic Approaches to Predict Functional RNA Structures in Viral RNAs. PMID:29354101
ReprDB and panDB: minimalist databases with maximal microbial representation. PMID:29347966
MVP: a microbe-phage interaction database. PMID:29177508
Do Viruses Exchange Genes across Superkingdoms of Life? PMID:29163404
Coral-associated viral communities show high levels of diversity and host auxiliary functions. PMID:29158985
Proofreading-Deficient Coronaviruses Adapt for Increased Fitness over Long-Term Passage without Reversion of Exoribonuclease-Inactivating Mutations. PMID:29114026
A review of methods and databases for metagenomic classification and assembly. PMID:29028872
Identification of sapovirus GV.2, astrovirus VA3 and novel anelloviruses in serum from patients with acute hepatitis of unknown aetiology. PMID:28982120
WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs. PMID:28957499
Protein-Protein Interactions in Virus-Host Systems. PMID:28861068
RNA-Seq investigations of human post-mortem trigeminal ganglia. PMID:28699403
A viral metagenomic approach on a non-metagenomic experiment: Mining next generation sequencing datasets from pig DNA identified several porcine parvoviruses for a retrospective evaluation of viral infections. PMID:28662150
Presence of Human Hepegivirus-1 in a Cohort of People Who Inject Drugs. PMID:28586923
Zika virus evolution and spread in the Americas. PMID:28538734
In silico approach to designing rational metagenomic libraries for functional studies. PMID:28532384
Implementation of Objective PASC-Derived Taxon Demarcation Criteria for Official Classification of Filoviruses. PMID:28492506
drVM: a new tool for efficient genome assembly of known eukaryotic viruses from metagenomes. PMID:28369462
How to Name and Classify Your Phage: An Informal Guide. PMID:28368359
Intracellular HIV-1 RNA and CD4+ T-cell activation in patients starting antiretrovirals. PMID:28358734
The blood DNA virome in 8,000 humans. PMID:28328962
Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer. PMID:28102365
viruSITE-integrated database for viral genomics. PMID:28025349
Virus Variation Resource - improved response to emergent viral outbreaks. PMID:27899678
MRPrimerV: a database of PCR primers for RNA virus detection. PMID:27899620
Pharmacometabolomics Informs Viromics toward Precision Medicine. PMID:27833560
Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation. PMID:27789703
Identification of a Lineage D Betacoronavirus in Cave Nectar Bats (Eonycteris spelaea) in Singapore and an Overview of Lineage D Reservoir Ecology in SE Asian Bats. PMID:27637887
Detection of Natural Resistance-Associated Substitutions by Ion Semiconductor Technology in HCV1b Positive, Direct-Acting Antiviral Agents-Naïve Patients. PMID:27618896
HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts. PMID:27375564
Twenty-Five New Viruses Associated with the Drosophilidae (Diptera). PMID:27375356
Aberrant PD-L1 expression through 3'-UTR disruption in multiple cancers. PMID:27281199
Development of a candidate reference material for adventitious virus detection in vaccine and biologicals manufacturing by deep sequencing. PMID:26709640
Database resources of the National Center for Biotechnology Information. PMID:26615191
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation. PMID:26553804
Full-length single-cell RNA-seq applied to a viral human cancer: applications to HPV expression and splicing analysis in HeLa S3 cells. PMID:26550473
Different combinations of atomic interactions predict protein-small molecule and protein-DNA/RNA affinities with similar accuracy. PMID:26370248
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Advanced molecular surveillance of hepatitis C virus. PMID:25781918
Are arthropods at the heart of virus evolution? PMID:25751043
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More detailed information about this field from each metasource.
deoxyribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genome
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
ribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
viral genome
metasource: Fairsharing.org
version: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
viral genome databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Tags
More detailed information about this field from each metasource.
deoxyribonucleic acid
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genome
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
ribonucleic acid
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
viral genome
metasource: Fairsharing.orgversion: FAIRsharing.org: NCBI Viral Genomes Resource; NCBI Viral Genomes Resource; DOI: https://doi.org/10.25504/FAIRsharing.qt5ky7; Last edited: April 26, 2021, 12:01 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
viral genome databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
dna genome rna viral genome genomics viral genome
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