R3S634 last accessed: 2022-11-04

Other names: IRD

The Influenza Research Database (IRD) is a free, open, publicly-accessible resource funded by the U.S. National Institute of Allergy and Infectious Diseases through the Bioinformatics Resource Centers program. IRD provides a comprehensive, integrated database and analysis resource for influenza sequence, surveillance, and research data, including user-friendly interfaces for data retrieval, visualization, and comparative genomics analysis, together with personal login- protected ‘workbench’ spaces for saving data sets and analysis results. IRD integrates genomic, proteomic, immune epitope, and surveillance data from a variety of sources, including public databases, computational algorithms, external research groups, and the scientific literature.

Webpage:

http://www.fludb.org

Licence:

Name: other
URL: https://www.niaid.nih.gov/research/data-sharing-and-release-guidelines

Publications: (10)

Publications
More detailed information about this field from each metasource.

Influenza research database: an integrated bioinformatics resource for influenza research and surveillance
PMID: 22260278
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

Influenza Research Database: An integrated bioinformatics resource for influenza virus research
PMID: 27679478
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway
PMID: 25861210
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

A comprehensive collection of systems biology data characterizing the host response to viral infection
PMID: 25977790
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

Influenza virus sequence feature variant type analysis: evidence of a role for NS1 in influenza virus host range restriction
PMID: 22398283
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

Standardized metadata for human pathogen/vector genomic sequences
PMID: 24936976
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

Metadata-driven comparative analysis tool for sequences (meta-CATS): an automated process for identifying significant sequence variations that correlate with virus attributes
PMID: 24210098
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

Diversifying Selection Analysis Predicts Antigenic Evolution of 2009 Pandemic H1N1 Influenza A Virus in Humans
PMID: 25741011
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

Toward a method for tracking virus evolutionary trajectory applied to the pandemic H1N1 2009 influenza virus
PMID: 25064525
metasource: Fairsharing.org
version: FAIRsharing.org: IRD; Influenza Research Database; DOI: https://doi.org/10.25504/FAIRsharing.ws7cgw; Last edited: March 30, 2020, 1:15 p.m.; Last accessed: Jan 03 2022 7:09 p.m.

http://dx.doi.org/10.1093/nar/1946
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

Influenza research database: an integrated bioinformatics resource for influenza research and surveillance PubMed citations: 176.

176 articles citing: Influenza research database: an integrated bioinformatics resource for influenza research and surveillance

Spatiotemporal changes in influenza A virus prevalence among wild waterfowl inhabiting the continental United States throughout the annual cycle. PMID:35906292
From Open Access to Circular Health: Ilaria Capua's Journey through Science and Politics. PMID:35746767
Cross-reactive immunity potentially drives global oscillation and opposed alternation patterns of seasonal influenza A viruses. PMID:35614123
Databases, Knowledgebases, and Software Tools for Virus Informatics. PMID:35594018
Molecular Evidence of Orthomyxovirus Presence in Colombian Neotropical Bats. PMID:35558106
Spatial and temporal coevolution of N2 neuraminidase and H1 and H3 hemagglutinin genes of influenza A virus in US swine. PMID:35223081
Identification of a Permissive Secondary Mutation That Restores the Enzymatic Activity of Oseltamivir Resistance Mutation H275Y. PMID:35045267
A Transcriptional Signature of IL-2 Expanded Natural Killer Cells Predicts More Favorable Prognosis in Bladder Cancer. PMID:34858395
A Mutation-Selection Model of Protein Evolution under Persistent Positive Selection. PMID:34694387
A Transcriptional Signature of PDGF-DD Activated Natural Killer Cells Predicts More Favorable Prognosis in Low-Grade Glioma. PMID:34539622
The Infectious Disease Ontology in the age of COVID-19. PMID:34275487
Construction and Immunogenicity of Modified mRNA-Vaccine Variants Encoding Influenza Virus Antigens. PMID:34063689
A comprehensive analysis and resource to use CRISPR-Cas13 for broad-spectrum targeting of RNA viruses. PMID:33778788
Genetic characterization of highly pathogenic avian influenza A (H5N8) virus isolated from domestic geese in Iraq, 2018. PMID:33740981
Evolutionary conservation of the DRACH signatures of potential N6-methyladenosine (m6A) sites among influenza A viruses. PMID:33633224
Computational Method for Classification of Avian Influenza A Virus Using DNA Sequence Information and Physicochemical Properties. PMID:33584824
A conserved multi-epitope-based vaccine designed by targeting hemagglutinin protein of highly pathogenic avian H5 influenza viruses. PMID:33251084
Systems Biology Approaches for Therapeutics Development Against COVID-19. PMID:33194800
Detection and Characterization of Swine Origin Influenza A(H1N1) Pandemic 2009 Viruses in Humans following Zoonotic Transmission. PMID:33115872
Using machine learning of clinical data to diagnose COVID-19: a systematic review and meta-analysis. PMID:32993652
Infection Dynamics of Swine Influenza Virus in a Danish Pig Herd Reveals Recurrent Infections with Different Variants of the H1N2 Swine Influenza A Virus Subtype. PMID:32927910
Immunogenicity and Protective Efficacy of Influenza A DNA Vaccines Encoding Artificial Antigens Based on Conservative Hemagglutinin Stem Region and M2 Protein in Mice. PMID:32784907
A panel of anti-influenza virus nucleoprotein antibodies selected from phage-displayed synthetic antibody libraries with rapid diagnostic capability to distinguish diverse influenza virus subtypes. PMID:32770098
A benchmark dataset of protein antigens for antigenicity measurement. PMID:32632108
Different genetic barriers for resistance to HA stem antibodies in influenza H3 and H1 viruses. PMID:32554590
Dynamics of Influenza A (H5N1) virus protein sequence diversity. PMID:32518710
Multi-task learning sparse group lasso: a method for quantifying antigenicity of influenza A(H1N1) virus using mutations and variations in glycosylation of Hemagglutinin. PMID:32393178
Highly pathogenic H5N6 avian influenza virus subtype clade 2.3.4.4 indigenous in South Korea. PMID:32350323
Detection of live attenuated influenza vaccine virus and evidence of reassortment in the U.S. swine population. PMID:32100644
The Central Role of Non-Structural Protein 1 (NS1) in Influenza Biology and Infection. PMID:32098424
Changes in RNA secondary structure affect NS1 protein expression during early stage influenza virus infection. PMID:31864377
The evolution and genetic diversity of avian influenza A(H9N2) viruses in Cambodia, 2015 - 2016. PMID:31815945
A common root for coevolution and substitution rate variability in protein sequence evolution. PMID:31792239
Metagenomic Nanopore Sequencing of Influenza Virus Direct from Clinical Respiratory Samples. PMID:31666364
Profiling host ANP32A splicing landscapes to predict influenza A virus polymerase adaptation. PMID:31363119
Deep sequencing of 2009 influenza A/H1N1 virus isolated from volunteer human challenge study participants and natural infections. PMID:31226666
Computational Approaches and Challenges to Developing Universal Influenza Vaccines. PMID:31141933
Reassortments among Avian Influenza A(H5N1) Viruses Circulating in Indonesia, 2015-2016. PMID:30789142
A context-free encoding scheme of protein sequences for predicting antigenicity of diverse influenza A viruses. PMID:30598102
GLUE: a flexible software system for virus sequence data. PMID:30563445
ISU FLUture: a veterinary diagnostic laboratory web-based platform to monitor the temporal genetic patterns of Influenza A virus in swine. PMID:30382842
A systematic review of spatial decision support systems in public health informatics supporting the identification of high risk areas for zoonotic disease outbreaks. PMID:30376842
The Multifaceted Zoonotic Risk of H9N2 Avian Influenza. PMID:30248906
Evolutionary pathway for the 2017 emergence of a novel highly pathogenic avian influenza A(H7N9) virus among domestic poultry in Tennessee, United States. PMID:30236990
Deep Sequencing of H7N9 Influenza A Viruses from 16 Infected Patients from 2013 to 2015 in Shanghai Reveals Genetic Diversity and Antigenic Drift. PMID:30232169
Detection of Viruses in Clinical Samples by Use of Metagenomic Sequencing and Targeted Sequence Capture. PMID:30232133
Influenza A Virus M2 Protein Apical Targeting Is Required for Efficient Virus Replication. PMID:30158290
Genetic Evidence Supports Sporadic and Independent Introductions of Subtype H5 Low-Pathogenic Avian Influenza A Viruses from Wild Birds to Domestic Poultry in North America. PMID:30045988
Graph-guided multi-task sparse learning model: a method for identifying antigenic variants of influenza A(H3N2) virus. PMID:29878046
Emergence and Evolution of Novel Reassortant Influenza A Viruses in Canines in Southern China. PMID:29871917
Development and evaluation of a rapid nucleic acid amplification method to detect influenza A and B viruses in human respiratory specimens. PMID:29778563
Avian Influenza Viruses in Wild Birds: Virus Evolution in a Multihost Ecosystem. PMID:29769347
Inferring epidemiologic dynamics from viral evolution: 2014-2015 Eurasian/North American highly pathogenic avian influenza viruses exceed transmission threshold, R0 = 1, in wild birds and poultry in North America. PMID:29636805
A complex epistatic network limits the mutational reversibility in the influenza hemagglutinin receptor-binding site. PMID:29593268
Within-Host Evolution of Human Influenza Virus. PMID:29534854
Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States. PMID:29453058
Mouse Models of Influenza Infection with Circulating Strains to Test Seasonal Vaccine Efficacy. PMID:29445377
Identification of high risk areas for avian influenza outbreaks in California using disease distribution models. PMID:29385158
Temporal distribution and genetic variants in influenza A(H1N1)pdm09 virus circulating in Mexico, seasons 2012 and 2013. PMID:29220381
Viral Diagnostics in Plants Using Next Generation Sequencing: Computational Analysis in Practice. PMID:29123534
The M2 protein of live, attenuated influenza vaccine encodes a mutation that reduces replication in human nasal epithelial cells. PMID:29079099
Influenza Herd-Level Prevalence and Seasonality in Breed-to-Wean Pig Farms in the Midwestern United States. PMID:29075636
Site-specific glycosylation profile of influenza A (H1N1) hemagglutinin through tandem mass spectrometry. PMID:29048990
Multiple Genome Constellations of Similar and Distinct Influenza A Viruses Co-Circulate in Pigs During Epidemic Events. PMID:28928365
Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States. PMID:28841443
Extracting geographic locations from the literature for virus phylogeography using supervised and distant supervision methods. PMID:28815119
Structure-Guided Functional Annotation of the Influenza A Virus NS1 Protein Reveals Dynamic Evolution of the p85β-Binding Site during Circulation in Humans. PMID:28814525
Molecular features of influenza A (H1N1)pdm09 prevalent in Mexico during winter seasons 2012-2014. PMID:28692701
Complete Genome Sequencing of Influenza A Viruses within Swine Farrow-to-Wean Farms Reveals the Emergence, Persistence, and Subsidence of Diverse Viral Genotypes. PMID:28659482
A Perspective on the Structural and Functional Constraints for Immune Evasion: Insights from Influenza Virus. PMID:28648617
Highly pathogenic avian influenza H5N1 clade 2.3.2.1 and clade 2.3.4 viruses do not induce a clade-specific phenotype in mallard ducks. PMID:28631606
Predicting Zoonotic Risk of Influenza A Viruses from Host Tropism Protein Signature Using Random Forest. PMID:28587080
Evidence of Intercontinental Spread and Uncommon Variants of Low-Pathogenicity Avian Influenza Viruses in Ducks Overwintering in Guatemala. PMID:28405632
K-Pax2: Bayesian identification of cluster-defining amino acid positions in large sequence datasets. PMID:28348810
Continual Antigenic Diversification in China Leads to Global Antigenic Complexity of Avian Influenza H5N1 Viruses. PMID:28262734
Investigating Substitutions in Antibody-Antigen Complexes Using Molecular Dynamics: A Case Study with Broad-spectrum, Influenza A Antibodies. PMID:28261207
Low-Pathogenic Influenza A Viruses in North American Diving Ducks Contribute to the Emergence of a Novel Highly Pathogenic Influenza A(H7N8) Virus. PMID:28202755
Frequency of influenza H3N2 intra-subtype reassortment: attributes and implications of reassortant spread. PMID:28034300
A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses. PMID:27981236
EuPathDB: the eukaryotic pathogen genomics database resource. PMID:27903906
Directional and reoccurring sequence change in zoonotic RNA virus genomes visualized by time-series word count. PMID:27808119
Annotating Protein Functional Residues by Coupling High-Throughput Fitness Profile and Homologous-Structure Analysis. PMID:27803181
Sequence amplification via cell passaging creates spurious signals of positive adaptation in influenza virus H3N2 hemagglutinin. PMID:27713835
3DFlu: database of sequence and structural variability of the influenza hemagglutinin at population scale. PMID:27694207
Influenza Research Database: An integrated bioinformatics resource for influenza virus research. PMID:27679478
Isolation of H5N6, H7N9 and H9N2 avian influenza A viruses from air sampled at live poultry markets in China, 2014 and 2015. PMID:27608369
Southward autumn migration of waterfowl facilitates cross-continental transmission of the highly pathogenic avian influenza H5N1 virus. PMID:27507581
Incorporating structure context of HA protein to improve antigenicity calculation for influenza virus A/H3N2. PMID:27498613
Towards the knowledge-based design of universal influenza epitope ensemble vaccines. PMID:27402904
Antibodies to Influenza A Viruses in Gulls at Delaware Bay, USA. PMID:27309077
Pandemic Seasonal H1N1 Reassortants Recovered from Patient Material Display a Phenotype Similar to That of the Seasonal Parent. PMID:27279619
A Bird's Eye View of Influenza A Virus Transmission: Challenges with Characterizing Both Sides of a Co-Evolutionary Dynamic. PMID:27252222
The influenza A virus NS genome segment displays lineage-specific patterns in predicted RNA secondary structure. PMID:27206548
Reticulate evolution is favored in influenza niche switching. PMID:27114508
The global antigenic diversity of swine influenza A viruses. PMID:27113719
Reverse transcription strand invasion based amplification (RT-SIBA): a method for rapid detection of influenza A and B. PMID:27063012
VIP: an integrated pipeline for metagenomics of virus identification and discovery. PMID:27026381
Integrated Omics and Computational Glycobiology Reveal Structural Basis for Influenza A Virus Glycan Microheterogeneity and Host Interactions. PMID:26984886
Identification and characterization of influenza variants resistant to a viral endonuclease inhibitor. PMID:26976575
Analyses of Merging Clinical and Viral Genetic Data for Influenza Surveillance. PMID:26958299
Distinct Host Tropism Protein Signatures to Identify Possible Zoonotic Influenza A Viruses. PMID:26915079
Molecular analyses of H3N2 canine influenza viruses isolated from Korea during 2013-2014. PMID:26810402
Time dependence of evolutionary metrics during the 2009 pandemic influenza virus outbreak. PMID:26770819
Coupling high-throughput genetics with phylogenetic information reveals an epistatic interaction on the influenza A virus M segment. PMID:26754751
Deep Sequencing Reveals Potential Antigenic Variants at Low Frequencies in Influenza A Virus-Infected Humans. PMID:26739054
FluKB: A Knowledge-Based System for Influenza Vaccine Target Discovery and Analysis of the Immunological Properties of Influenza Viruses. PMID:26504853
Molecular pathogenesis of H5 highly pathogenic avian influenza: the role of the haemagglutinin cleavage site motif. PMID:26467906
Discovering neutralizing antibodies targeting the stem epitope of H1N1 influenza hemagglutinin with synthetic phage-displayed antibody libraries. PMID:26456860
Analysis of Viral Genetics for Estimating Diffusion of Influenza A H6N1. PMID:26306229
Evolutionary Dynamics of Influenza A Viruses in US Exhibition Swine. PMID:26243317
Phylogeography of Influenza A(H3N2) Virus in Peru, 2010-2012. PMID:26196599
Functional Constraint Profiling of a Viral Protein Reveals Discordance of Evolutionary Conservation and Functionality. PMID:26132554
Recent strategies and progress in identifying host factors involved in virus replication. PMID:26112615
Multi-Dimensional Measurement of Antibody-Mediated Heterosubtypic Immunity to Influenza. PMID:26103163
Global circulation patterns of seasonal influenza viruses vary with antigenic drift. PMID:26053121
Geometric Constraints Dominate the Antigenic Evolution of Influenza H3N2 Hemagglutinin. PMID:26020774
Identification of Influenza A Virus PB2 Residues Involved in Enhanced Polymerase Activity and Virus Growth in Mammalian Cells at Low Temperatures. PMID:26018156
A comprehensive collection of systems biology data characterizing the host response to viral infection. PMID:25977790
MapMyFlu: visualizing spatio-temporal relationships between related influenza sequences. PMID:25940623
A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway. PMID:25861210
Global avian influenza surveillance in wild birds: a strategy to capture viral diversity. PMID:25811221
Advanced molecular surveillance of hepatitis C virus. PMID:25781918
Diversifying Selection Analysis Predicts Antigenic Evolution of 2009 Pandemic H1N1 Influenza A Virus in Humans. PMID:25741011
Spread and persistence of influenza A viruses in waterfowl hosts in the North American Mississippi migratory flyway. PMID:25741003
EpiToolKit--a web-based workbench for vaccine design. PMID:25712691
Influenza A viruses of swine circulating in the United States during 2009-2014 are susceptible to neuraminidase inhibitors but show lineage-dependent resistance to adamantanes. PMID:25701593
Predicting host tropism of influenza A virus proteins using random forest. PMID:25521718
Grouping of large populations into few CTL immune 'response-types' from influenza H1N1 genome analysis. PMID:25505972
Unraveling the web of viroinformatics: computational tools and databases in virus research. PMID:25428870
Predicting evolution from the shape of genealogical trees. PMID:25385532
Appearance of L90I and N205S Mutations in Effector Domain of NS1 Gene of pdm (09) H1N1 Virus from India during 2009-2013. PMID:25309598
Swine-to-human transmission of influenza A(H3N2) virus at agricultural fairs, Ohio, USA, 2012. PMID:25148572
Toward a method for tracking virus evolutionary trajectory applied to the pandemic H1N1 2009 influenza virus. PMID:25064525
Mutations within the conserved NS1 nuclear export signal lead to inhibition of influenza A virus replication. PMID:25023993
Standardized metadata for human pathogen/vector genomic sequences. PMID:24936976
Diffusion of influenza viruses among migratory birds with a focus on the Southwest United States. PMID:24910106
Influenza viruses and mRNA splicing: doing more with less. PMID:24825008
How to infer relative fitness from a sample of genomic sequences. PMID:24770330
The EMPRES-i genetic module: a novel tool linking epidemiological outbreak information and genetic characteristics of influenza viruses. PMID:24608033
Sampling strategies and biodiversity of influenza A subtypes in wild birds. PMID:24599502
Role of poultry in the spread of novel H7N9 influenza virus in China. PMID:24574407
Large-scale analysis of B-cell epitopes on influenza virus hemagglutinin - implications for cross-reactivity of neutralizing antibodies. PMID:24570677
Literature classification for semi-automated updating of biological knowledgebases. PMID:24564403
A LC3-interacting motif in the influenza A virus M2 protein is required to subvert autophagy and maintain virion stability. PMID:24528869
Sequencing artifacts in the type A influenza databases and attempts to correct them. PMID:24512607
Universal influenza B virus genomic amplification facilitates sequencing, diagnostics, and reverse genetics. PMID:24501036
Integrating influenza antigenic dynamics with molecular evolution. PMID:24497547
The influenza A virus protein NS1 displays structural polymorphism. PMID:24478439
LABEL: fast and accurate lineage assignment with assessment of H5N1 and H9N2 influenza A hemagglutinins. PMID:24466291
Genetic diversity of hemagglutinin gene of A(H1N1)pdm09 influenza strains isolated in Taiwan and its potential impact on HA-neutralizing epitope interaction. PMID:24407429
ClassyFlu: classification of influenza A viruses with Discriminatively trained profile-HMMs. PMID:24404173
Comparative dynamics and distribution of influenza drug resistance acquisition to protein m2 and neuraminidase inhibitors. PMID:24214415
Metadata-driven comparative analysis tool for sequences (meta-CATS): an automated process for identifying significant sequence variations that correlate with virus attributes. PMID:24210098
A comprehensive map of the influenza A virus replication cycle. PMID:24088197
Subclinical avian influenza A(H5N1) virus infection in human, Vietnam. PMID:24047510
Influenza a virus migration and persistence in North American wild birds. PMID:24009503
Mutational analysis of the binding pockets of the diketo acid inhibitor L-742,001 in the influenza virus PA endonuclease. PMID:23824822
Human H3N2 Influenza Viruses Isolated from 1968 To 2012 Show Varying Preference for Receptor Substructures with No Apparent Consequences for Disease or Spread. PMID:23805213
Asparagine substitution at PB2 residue 701 enhances the replication, pathogenicity, and transmission of the 2009 pandemic H1N1 influenza A virus. PMID:23799150
Protein clustering and RNA phylogenetic reconstruction of the influenza A [corrected] virus NS1 protein allow an update in classification and identification of motif conservation. PMID:23667580
Evidence for the circulation and inter-hemispheric movement of the H14 subtype influenza A virus. PMID:23555632
Viral phylodynamics. PMID:23555203
Avian influenza virus surveillance in wild birds in Georgia: 2009-2011. PMID:23516501
Molecular signatures of virulence in the PB1-F2 proteins of H5N1 influenza viruses. PMID:23499672
SUMOylation affects the interferon blocking activity of the influenza A nonstructural protein NS1 without affecting its stability or cellular localization. PMID:23468495
Cross-species comparison of site-specific evolutionary-rate variation in influenza haemagglutinin. PMID:23382434
Peptide sharing between influenza A H1N1 hemagglutinin and human axon guidance proteins. PMID:23378012
Systems approaches to influenza-virus host interactions and the pathogenesis of highly virulent and pandemic viruses. PMID:23218769
Molecular characterization of the predominant influenza A(H1N1)pdm09 virus in Mexico, December 2011-February 2012. PMID:23209653
Virus pathogen database and analysis resource (ViPR): a comprehensive bioinformatics database and analysis resource for the coronavirus research community. PMID:23202522
ViralZone: recent updates to the virus knowledge resource. PMID:23193299
EuPathDB: the eukaryotic pathogen database. PMID:23175615
Systematic identification of H274Y compensatory mutations in influenza A virus neuraminidase by high-throughput screening. PMID:23152521
Integrating sequence variation and protein structure to identify sites under selection. PMID:22977116
The immune epitope database: a historical retrospective of the first decade. PMID:22681406
Influenza virus sequence feature variant type analysis: evidence of a role for NS1 in influenza virus host range restriction. PMID:22398283
Influenza Research Database: An integrated bioinformatics resource for influenza virus research PubMed citations: 133.

133 articles citing: Influenza Research Database: An integrated bioinformatics resource for influenza virus research

Spatiotemporal changes in influenza A virus prevalence among wild waterfowl inhabiting the continental United States throughout the annual cycle. PMID:35906292
Genotype Uniformity, Wild Bird-to-Poultry Transmissions, and Farm-to-Farm Carryover during the Spread of the Highly Pathogenic Avian Influenza H5N8 in the Czech Republic in 2021. PMID:35891391
In Silico Analyses of the Role of Codon Usage at the Hemagglutinin Cleavage Site in Highly Pathogenic Avian Influenza Genesis. PMID:35891333
Genetic and Antigenic Characterization of an Expanding H3 Influenza A Virus Clade in U.S. Swine Visualized by Nextstrain. PMID:35766502
Mutation in Hemagglutinin Antigenic Sites in Influenza A pH1N1 Viruses from 2015-2019 in the United States Mountain West, Europe, and the Northern Hemisphere. PMID:35627294
Fast COVID-19 versus H1N1 screening using Optimized Parallel Inception. PMID:35611121
The unequivocal preponderance of biocomputation in clinical virology. PMID:35539262
Development of a Universal Epitope-Based Influenza Vaccine and Evaluation of Its Effectiveness in Mice. PMID:35455283
Deep learning based on biologically interpretable genome representation predicts two types of human adaptation of SARS-CoV-2 variants. PMID:35233612
Spatial and temporal coevolution of N2 neuraminidase and H1 and H3 hemagglutinin genes of influenza A virus in US swine. PMID:35223081
Modeling the Probability of COVID-19 Based on Symptom Screening and Prevalence of Influenza and Influenza-Like Illnesses. PMID:35195616
The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine. PMID:35165687
RF-Net 2: Fast Inference of Virus Reassortment and Hybridization Networks. PMID:35150239
Inferring Protein Function in an Emerging Virus: Detection of the Nucleoprotein in Tilapia Lake Virus. PMID:35107373
Evolution of Viral Pathogens Follows a Linear Order. PMID:35107326
PABP1 Drives the Selective Translation of Influenza A Virus mRNA. PMID:35074482
Evolution of influenza A virus in intensive and free-range swine farms in Spain. PMID:35039784
Itaconate and derivatives reduce interferon responses and inflammation in influenza A virus infection. PMID:35025971
Characterization of a 2016-2017 Human Seasonal H3 Influenza A Virus Spillover Now Endemic to U.S. Swine. PMID:35019669
A critical analysis of SARS-CoV-2 (COVID-19) complexities, emerging variants, and therapeutic interventions and vaccination strategies. PMID:34959116
Avian Influenza Virus Status and Maternal Antibodies in Nestling White Ibis (Eudocimus albus). PMID:34946070
octoFLUshow: an Interactive Tool Describing Spatial and Temporal Trends in the Genetic Diversity of Influenza A Virus in U.S. Swine. PMID:34913720
Joint Inference of Migration and Reassortment Patterns for Viruses with Segmented Genomes. PMID:34893876
The evolution of cheating in viruses. PMID:34836945
Transcriptomic Characterization Reveals Attributes of High Influenza Virus Productivity in MDCK Cells. PMID:34835006
Antigenic Distance between North American Swine and Human Seasonal H3N2 Influenza A Viruses as an Indication of Zoonotic Risk to Humans. PMID:34757846
Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO). PMID:34710081
Immune Response in Mice Immunized with Chimeric H1 Antigens. PMID:34696290
Deciphering transmission dynamics and spillover of avian influenza viruses from avian species to swine populations globally. PMID:34625868
virusMED: an atlas of hotspots of viral proteins. PMID:34614039
Analysis of the Genetic Diversity Associated With the Drug Resistance and Pathogenicity of Influenza A Virus Isolated in Bangladesh From 2002 to 2019. PMID:34603265
Molecular epidemiologic characteristics of hemagglutinin from five waves of avian influenza A (H7N9) virus infection, from 2013 to 2017, in Zhejiang Province, China. PMID:34595553
Coding-Complete Genome Sequence of Swine Influenza Virus Isolate A/Swine/Karaganda/04/2020 (H1N1) from Kazakhstan. PMID:34591672
Influenza A virus segments five and six can harbor artificial introns allowing expanded coding capacity. PMID:34570829
RNA Modifications in Genomic RNA of Influenza A Virus and the Relationship between RNA Modifications and Viral Infection. PMID:34502037
Influenza virus genotype to phenotype predictions through machine learning: a systematic review. PMID:34498543
Parallel evolution between genomic segments of seasonal human influenza viruses reveals RNA-RNA relationships. PMID:34448455
Use of hemagglutinin and neuraminidase amplicon-based high-throughput sequencing with variant analysis to detect co-infection and resolve identical consensus sequences of seasonal influenza in a university setting. PMID:34388979
A novel mechanism of enhanced transcription activity and fidelity for influenza A viral RNA-dependent RNA polymerase. PMID:34379778
Evolution and Antigenic Advancement of N2 Neuraminidase of Swine Influenza A Viruses Circulating in the United States following Two Separate Introductions from Human Seasonal Viruses. PMID:34379513
Exploiting Pan Influenza A and Pan Influenza B Pseudotype Libraries for Efficient Vaccine Antigen Selection. PMID:34358157
Influenza in Malaysian adult patients hospitalized with community-acquired pneumonia, acute exacerbation of chronic obstructive pulmonary disease or asthma: a multicenter, active surveillance study. PMID:34225647
Quantifying the Persistence of Vaccine-Related T Cell Epitopes in Circulating Swine Influenza A Strains from 2013-2017. PMID:34066605
Epitope-targeting platform for broadly protective influenza vaccines. PMID:34043704
Comorbidities and Susceptibility to COVID-19: A Generalized Gene Set Data Mining Approach. PMID:33924631
Balanced Cellular and Humoral Immune Responses Targeting Multiple Antigens in Adults Receiving a Quadrivalent Inactivated Influenza Vaccine. PMID:33922875
Broad Reactivity Single Domain Antibodies against Influenza Virus and Their Applications to Vaccine Potency Testing and Immunotherapy. PMID:33802072
Immunization and Drug Metabolizing Enzymes: Focus on Hepatic Cytochrome P450 3A. PMID:33666138
Influenza A Viruses in Whistling Ducks (Subfamily Dendrocygninae). PMID:33525360
Genomic Evidence for Sequestration of Influenza A Virus Lineages in Sea Duck Host Species. PMID:33498851
Gaps in Serologic Immunity against Contemporary Swine-Origin Influenza A Viruses among Healthy Individuals in the United States. PMID:33477472
Structural insights into the substrate specificity of the endonuclease activity of the influenza virus cap-snatching mechanism. PMID:33469660
Host Range of Influenza A Virus H1 to H16 in Eurasian Ducks Based on Tissue and Receptor Binding Studies. PMID:33361418
Next-generation computational tools and resources for coronavirus research: From detection to vaccine discovery. PMID:33301953
Viral Subpopulation Screening Guides in Designing a High Interferon-Inducing Live Attenuated Influenza Vaccine by Targeting Rare Mutations in NS1 and PB2 Proteins. PMID:33115873
Identification of a Newly Conserved SLA-II Epitope in a Structural Protein of Swine Influenza Virus. PMID:33042120
A chimeric influenza hemagglutinin delivered by parainfluenza virus 5 vector induces broadly protective immunity against genetically divergent influenza a H1 viruses in swine. PMID:33039727
A computational toolset for rapid identification of SARS-CoV-2, other viruses and microorganisms from sequencing data. PMID:33003197
A Heterogeneous Swine Show Circuit Drives Zoonotic Transmission of Influenza A Viruses in the United States. PMID:32999022
Full-length three-dimensional structure of the influenza A virus M1 protein and its organization into a matrix layer. PMID:32997652
Biased Mutation and Selection in RNA Viruses. PMID:32986832
Infection Dynamics of Swine Influenza Virus in a Danish Pig Herd Reveals Recurrent Infections with Different Variants of the H1N2 Swine Influenza A Virus Subtype. PMID:32927910
Phosphorylation controls RNA binding and transcription by the influenza virus polymerase. PMID:32881973
Human-viral chimera: a novel protein affecting viral virulence and driving host T-cell immunity. PMID:32843627
Normal modes analysis and surface electrostatics of haemagglutinin proteins as fingerprints for high pathogenic type A influenza viruses. PMID:32838732
Immunogenicity and Protective Efficacy of Influenza A DNA Vaccines Encoding Artificial Antigens Based on Conservative Hemagglutinin Stem Region and M2 Protein in Mice. PMID:32784907
Antigenicity prediction and vaccine recommendation of human influenza virus A (H3N2) using convolutional neural networks. PMID:32750260
Computational predicting the human infectivity of H7N9 influenza viruses isolated from avian hosts. PMID:32706427
FluConvert and IniFlu: a suite of integrated software to identify novel signatures of emerging influenza viruses with increasing risk. PMID:32682392
Influenza A virus vaccine research conducted in swine from 1990 to May 2018: A scoping review. PMID:32673368
Weighted correlation network bioinformatics uncovers a key molecular biosignature driving the left-sided heart failure. PMID:32620106
A comparison of amplification methods to detect Avian Influenza viruses in California wetlands targeted via remote sensing of waterfowl. PMID:32592444
Implications of localized charge for human influenza A H1N1 hemagglutinin evolution: Insights from deep mutational scans. PMID:32584807
Hybrid Gene Origination Creates Human-Virus Chimeric Proteins during Infection. PMID:32559462
Year‑Round Influenza A Virus Surveillance in Mallards (Anas platyrhynchos) Reveals Genetic Persistence During the Under‑Sampled Spring Season. PMID:32545281
Aerosol Transmission from Infected Swine to Ferrets of an H3N2 Virus Collected from an Agricultural Fair and Associated with Human Variant Infections. PMID:32522849
IgA Responses Following Recurrent Influenza Virus Vaccination. PMID:32508822
H7N9 influenza split vaccine with SWE oil-in-water adjuvant greatly enhances cross-reactive humoral immunity and protection against severe pneumonia in ferrets. PMID:32411401
Phylogeography and Antigenic Diversity of Low-Pathogenic Avian Influenza H13 and H16 Viruses. PMID:32321814
Wild Birds in Live Birds Markets: Potential Reservoirs of Enzootic Avian Influenza Viruses and Antimicrobial Resistant Enterobacteriaceae in Northern Egypt. PMID:32155863
Obesity-Related Microenvironment Promotes Emergence of Virulent Influenza Virus Strains. PMID:32127459
Detection of live attenuated influenza vaccine virus and evidence of reassortment in the U.S. swine population. PMID:32100644
A systems approach to infectious disease. PMID:32060427
Influenza A Virus Field Surveillance at a Swine-Human Interface. PMID:32024713
Quantifying within-host diversity of H5N1 influenza viruses in humans and poultry in Cambodia. PMID:31951644
Genetic variations on 31 and 450 residues of influenza A nucleoprotein affect viral replication and translation. PMID:31906961
H9 Influenza Viruses: An Emerging Challenge. PMID:31871234
The dynamic proteome of influenza A virus infection identifies M segment splicing as a host range determinant. PMID:31797923
Machine Learning Methods for Predicting Human-Adaptive Influenza A Viruses Based on Viral Nucleotide Compositions. PMID:31750915
Influenza Virus Polymerase Mutation Stabilizes a Foreign Gene Inserted into the Virus Genome by Enhancing the Transcription/Replication Efficiency of the Modified Segment. PMID:31575766
SUSCEPTIBILITY OF LAUGHING GULLS (LEUCOPHAEUS ATRICILLA) AND MALLARDS (ANAS PLATYRHYNCHOS) TO RUDDY TURNSTONE (ARENARIA INTERPRES MORINELLA) ORIGIN TYPE A INFLUENZA VIRUSES. PMID:31532732
Rapid evolution of Mexican H7N3 highly pathogenic avian influenza viruses in poultry. PMID:31513638
Mutations in the H7 HA and PB1 genes of avian influenza a viruses increase viral pathogenicity and contact transmission in guinea pigs. PMID:31503518
octoFLU: Automated Classification for the Evolutionary Origin of Influenza A Virus Gene Sequences Detected in U.S. Swine. PMID:31395641
Global patterns of avian influenza A (H7): virus evolution and zoonotic threats. PMID:31381759
A Global Perspective on H9N2 Avian Influenza Virus. PMID:31284485
Influenza passaging annotations: what they tell us and why we should listen. PMID:31275610
Human Influenza A Virus Hemagglutinin Glycan Evolution Follows a Temporal Pattern to a Glycan Limit. PMID:30940704
Conserved HA-peptide NG34 formulated in pCMV-CTLA4-Ig reduces viral shedding in pigs after a heterosubtypic influenza virus SwH3N2 challenge. PMID:30822308
Avian influenza viruses at the wild-domestic bird interface in Egypt. PMID:30815236
Comparison of individual, group and environmental sampling strategies to conduct influenza surveillance in pigs. PMID:30764815
Adaptation of Human Influenza Viruses to Swine. PMID:30723723
Multistate design of influenza antibodies improves affinity and breadth against seasonal viruses. PMID:30642961
Effect of strain-specific maternally-derived antibodies on influenza A virus infection dynamics in nursery pigs. PMID:30640929
Flexibility In Vitro of Amino Acid 226 in the Receptor-Binding Site of an H9 Subtype Influenza A Virus and Its Effect In Vivo on Virus Replication, Tropism, and Transmission. PMID:30567980
UniProt: a worldwide hub of protein knowledge. PMID:30395287
ISU FLUture: a veterinary diagnostic laboratory web-based platform to monitor the temporal genetic patterns of Influenza A virus in swine. PMID:30382842
Plasticity of Amino Acid Residue 145 Near the Receptor Binding Site of H3 Swine Influenza A Viruses and Its Impact on Receptor Binding and Antibody Recognition. PMID:30355680
Deep Sequencing of H7N9 Influenza A Viruses from 16 Infected Patients from 2013 to 2015 in Shanghai Reveals Genetic Diversity and Antigenic Drift. PMID:30232169
Antigenic evolution of H3N2 influenza A viruses in swine in the United States from 2012 to 2016. PMID:30216671
Design and validation of a universal influenza virus enrichment probe set and its utility in deep sequence analysis of primary cloacal swab surveillance samples of wild birds. PMID:30212665
Enhanced ER proteostasis and temperature differentially impact the mutational tolerance of influenza hemagglutinin. PMID:30188321
Development of a Pan-H1 Influenza Vaccine. PMID:30185594
Polyglutamine Repeats in Viruses. PMID:30182336
Influenza A Virus Cell Entry, Replication, Virion Assembly and Movement. PMID:30079062
Genetic characterization and pathogenic potential of H10 avian influenza viruses isolated from live poultry markets in Bangladesh. PMID:30013138
Atomistic simulations indicate the functional loop-to-coiled-coil transition in influenza hemagglutinin is not downhill. PMID:30012616
Comparative studies of alignment, alignment-free and SVM based approaches for predicting the hosts of viruses based on viral sequences. PMID:29968780
INSaFLU: an automated open web-based bioinformatics suite "from-reads" for influenza whole-genome-sequencing-based surveillance. PMID:29954441
A Dual Motif in the Hemagglutinin of H5N1 Goose/Guangdong-Like Highly Pathogenic Avian Influenza Virus Strains Is Conserved from Their Early Evolution and Increases both Membrane Fusion pH and Virulence. PMID:29899102
Pandemic Avian Influenza and Intra/Interhaemagglutinin Subtype Electrostatic Variation among Viruses Isolated from Avian, Mammalian, and Human Hosts. PMID:29888260
Emergence and Evolution of Novel Reassortant Influenza A Viruses in Canines in Southern China. PMID:29871917
How single mutations affect viral escape from broad and narrow antibodies to H1 influenza hemagglutinin. PMID:29643370
Regional patterns of genetic diversity in swine influenza A viruses in the United States from 2010 to 2016. PMID:29624873
Conjunction of factors triggering waves of seasonal influenza. PMID:29485041
Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States. PMID:29453058
Designing a B Cell-Based Vaccine against a Highly Variable Hepatitis C Virus. PMID:29379486
The structural variability of the influenza A hemagglutinin receptor-binding site. PMID:29253080
RNA structure interactions and ribonucleoprotein processes of the influenza A virus. PMID:29040388
Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States. PMID:28841443
Influenza-Omics and the Host Response: Recent Advances and Future Prospects. PMID:28604586
Mutations during the Adaptation of H9N2 Avian Influenza Virus to the Respiratory Epithelium of Pigs Enhance Sialic Acid Binding Activity and Virulence in Mice. PMID:28148793
A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses. PMID:27981236
A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway PubMed citations: 115.

115 articles citing: A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway

Genome-Wide Identification and Expression Pattern Analysis of KNOX Gene Family in Orchidaceae. PMID:35712569
Generation of a homozygous mutant drug transporter (ABCB1) knockout line in the sea urchin Lytechinus pictus. PMID:35666622
Host Shift Speciation of the Ectomycorrhizal Genus Suillus (Suillineae, Boletales) and Biogeographic Comparison With Its Host Pinaceae. PMID:35432238
Phylogenomic resolution of the root of Panpulmonata, a hyperdiverse radiation of gastropods: new insight into the evolution of air breathing. PMID:35382597
Species Identification in Plant-Associated Prokaryotes and Fungi Using DNA. PMID:35265781
Genomic Characteristics Revealed Plasmid-Mediated Pathogenicity and Ubiquitous Rifamycin Resistance of Rhodococcus equi. PMID:35252029
The complete chloroplast genome of Hylotelephium erythrostictum (Miq.) H. Ohba (Crassulaceae). PMID:35174293
Novel gene rearrangement in the mitochondrial genome of Anastatus fulloi (Hymenoptera Chalcidoidea) and phylogenetic implications for Chalcidoidea. PMID:35079090
A new combination in Pseudolappula (Boraginaceae, Rochelieae) based on morphological, molecular and palynological evidence. PMID:35068969
Hysterangiales revisited: expanded phylogeny reveals new genera and two new suborders. PMID:35005573
The complete chloroplast genome sequence of Artabotrys pilosus (Annonaceae). PMID:34912957
The complete chloroplast genome of Sedum tricarpum Makino. (Crassulaceae). PMID:34912956
Correlation between acoustic divergence and phylogenetic distance in soniferous European gobiids (Gobiidae; Gobius lineage). PMID:34890403
Population dynamics linked to glacial cycles in Cercis chuniana F. P. Metcalf (Fabaceae) endemic to the montane regions of subtropical China. PMID:34815745
Pan-genome analysis identifies intersecting roles for Pseudomonas specialized metabolites in potato pathogen inhibition. PMID:34792466
Draft genome and description of Waterburya agarophytonicola gen. nov. sp. nov. (Pleurocapsales, Cyanobacteria): a seaweed symbiont. PMID:34674103
Molecular species delimitation of shrub frogs of the genus Pseudophilautus (Anura, Rhacophoridae). PMID:34665841
Three new species of Creptotrema (Trematoda, Allocreadiidae) with an amended diagnosis of the genus and reassignment of Auriculostoma (Allocreadiidae), based on morphological and molecular evidence. PMID:34643505
Five Novel Taxa from Freshwater Habitats and New Taxonomic Insights of Pleurotheciales and Savoryellomycetidae. PMID:34575749
The critical role of natural history museums in advancing eDNA for biodiversity studies: a case study with Amazonian fishes. PMID:34518574
Human Adenovirus Type 7 Infections in Hubei, China During 2018-2019: Epidemic Features and Genetic Characterization of the Detected Viruses. PMID:34490137
Fungal Planet description sheets: 1112-1181. PMID:34456379
Assessing the effects of a two-amino acid flexibility in the Hemagglutinin 220-loop receptor-binding domain on the fitness of Influenza A(H9N2) viruses. PMID:33866955
The genome of the stable fly, Stomoxys calcitrans, reveals potential mechanisms underlying reproduction, host interactions, and novel targets for pest control. PMID:33750380
Complete mitochondrial genome of Chroicocephalus brunnicephalus from India: phylogeny with other Larids. PMID:33659671
Oral, Cloacal, and Hemipenal Actinomycosis in Captive Ball Pythons (Python regius). PMID:33490131
Structure of Erm-modified 70S ribosome reveals the mechanism of macrolide resistance. PMID:33462493
Genome-wide macroevolutionary signatures of key innovations in butterflies colonizing new host plants. PMID:33441560
Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes. PMID:33419955
Re-Evaluating the Internal Phylogenetic Relationships of Collembola by Means of Mitogenome Data. PMID:33396901
Repeated Evolution of Inactive Pseudonucleases in a Fungal Branch of the Dis3/RNase II Family of Nucleases. PMID:33313834
Genomic Analysis Enlightens Agaricales Lifestyle Evolution and Increasing Peroxidase Diversity. PMID:33211093
Evolution of Developmental GATA Factors in Nematodes. PMID:33207804
A new species of Thinouia (Paullinieae, Sapindaceae) from the Amazon and its phylogenetic placement. PMID:33192150
New Light on Historical Specimens Reveals a New Species of Ladybird (Coleoptera: Coccinellidae): Morphological, Museomic, and Phylogenetic Analyses. PMID:33172182
Antiretroviral drug use and HIV drug resistance in female sex workers in Tanzania and the Dominican Republic. PMID:33119663
Fungal Planet description sheets: 1042-1111. PMID:33116344
Effect of Host, Environment and Fungal Growth on Fungal Leaf Endophyte Communities in Taiwan. PMID:33114080
Genetic identification and hybridization in the seagrass genus Halophila (Hydrocharitaceae) in Sri Lankan waters. PMID:33062439
Two new combinations in Oreocharis (Gesneriaceae) based on morphological, molecular and cytological evidence. PMID:32934447
Subcutaneous nodules and dermatitis associated with non-immitis non-repens dirofilariosis morphologically consistent with Dirofilaria striata in a 2-year-old male domestic cat in Florida, USA. PMID:32838703
From economy to luxury: Copper homeostasis in Chlamydomonas and other algae. PMID:32800924
Human Immunodeficiency Virus (HIV) Drug Resistance, Phylogenetic Analysis, and Superinfection Among Men Who Have Sex with Men and Transgender Women in Sub-Saharan Africa: HIV Prevention Trials Network (HPTN) 075 Study. PMID:32761071
Spatial and Temporal Evolutionary Patterns in Puumala Orthohantavirus (PUUV) S Segment. PMID:32650456
Functional insights from the GC-poor genomes of two aphid parasitoids, Aphidius ervi and Lysiphlebus fabarum. PMID:32471448
Visual pigment evolution in Characiformes: The dynamic interplay of teleost whole-genome duplication, surviving opsins and spectral tuning. PMID:32421918
Testis-specific serine kinase protein family in male fertility and as targets for non-hormonal male contraception†. PMID:32337545
Isolation and characterization of new Puumala orthohantavirus strains from Germany. PMID:32328924
The complete mitochondrial genome of the endangered Assam Roofed Turtle, Pangshura sylhetensis (Testudines: Geoemydidae): Genomic features and phylogeny. PMID:32324729
Divide to Conquer: Evolutionary History of Allioideae Tribes (Amaryllidaceae) Is Linked to Distinct Trends of Karyotype Evolution. PMID:32318079
Pseudobactrodesmium (Dactylosporaceae, Eurotiomycetes, Fungi) a Novel Lignicolous Genus. PMID:32300334
Of Retinoids and Organotins: The Evolution of the Retinoid X Receptor in Metazoa. PMID:32290525
The open EEGLAB portal Interface: High-Performance computing with EEGLAB. PMID:32289453
Exceptional diversity of opsin expression patterns in Neogonodactylus oerstedii (Stomatopoda) retinas. PMID:32241889
Plastome Evolution and Phylogeny of Orchidaceae, With 24 New Sequences. PMID:32153600
Asymmetron lucayanum: How many species are valid? PMID:32130230
Molecular Evolution and Diversification of Proteins Involved in miRNA Maturation Pathway. PMID:32121542
Clinical Manifestation and Molecular Characterization of a Novel Member of the Nannizziopsiaceae in a Pulmonary Granuloma From a Galapagos Tortoise (Chelonoidis nigra). PMID:32118056
Shared response to changes in drainage basin: Phylogeography of the Yunnan small narrow-mouthed frog, Glyphoglossus yunnanensis (Anura: Microhylidae). PMID:32076534
Structural evolution drives diversification of the large LRR-RLK gene family. PMID:31990988
Igh locus structure and evolution in Platyrrhines: new insights from a genomic perspective. PMID:31838542
Origin and Evolution of Two Independently Duplicated Genes Encoding UDP- Glucose: Glycoprotein Glucosyltransferases in Caenorhabditis and Vertebrates. PMID:31796523
Early diversification and permeable species boundaries in the Mediterranean firs. PMID:31730195
The first complete mitochondrial genome of the Indian Tent Turtle, Pangshura tentoria (Testudines: Geoemydidae): Characterization and comparative analysis. PMID:31624586
Consistent host and organ occupancy of phyllosphere bacteria in a community of wild herbaceous plant species. PMID:31624344
Unexpected species diversity in electric eels with a description of the strongest living bioelectricity generator. PMID:31506444
Exploration of stem endophytic communities revealed developmental stage as one of the drivers of fungal endophytic community assemblages in two Amazonian hardwood genera. PMID:31481728
Biocontrol Strains Differentially Shift the Genetic Structure of Indigenous Soil Populations of Aspergillus flavus. PMID:31417528
Nectria-related fungi causing dieback and canker diseases in China, with Neothyronectriacitri sp. nov. described. PMID:31341399
Updated taxonomy of LactifluussectionLuteoli: L.russulisporus from Australia and L.caliendrifer from Thailand. PMID:31341397
T-BAS Version 2.1: Tree-Based Alignment Selector Toolkit for Evolutionary Placement of DNA Sequences and Viewing Alignments and Specimen Metadata on Curated and Custom Trees. PMID:31320426
The antenna-like domain of the cyanobacterial ferrochelatase can bind chlorophyll and carotenoids in an energy-dissipative configuration. PMID:31167780
Prevalence and Diversity of Endosymbionts in Cassava Whiteflies (Hemiptera: Aleyrodidae) From Colombia. PMID:31115477
Evolutionary Plasticity in Detoxification Gene Modules: The Preservation and Loss of the Pregnane X Receptor in Chondrichthyes Lineages. PMID:31083458
Human COQ10A and COQ10B are distinct lipid-binding START domain proteins required for coenzyme Q function. PMID:31048406
Secondary Metabolite Dereplication and Phylogenetic Analysis Identify Various Emerging Mycotoxins and Reveal the High Intra-Species Diversity in Aspergillus flavus. PMID:31024476
Multi-locus DNA sequence analysis, antifungal agent susceptibility, and fungal keratitis outcome in horses from Southeastern United States. PMID:30921394
Principles of plastid reductive evolution illuminated by nonphotosynthetic chrysophytes. PMID:30872488
Functional lability of RNA-dependent RNA polymerases in animals. PMID:30779744
Origin and evolution of plexins, semaphorins, and Met receptor tyrosine kinases. PMID:30760850
Biosynthetic Gene Content of the 'Perfume Lichens' Evernia prunastri and Pseudevernia furfuracea. PMID:30626017
Nezara viridula (Hemiptera: Pentatomidae) transcriptomic analysis and neuropeptidomics. PMID:30467353
Cryptic Diversity Hidden within the Leafminer Genus Liriomyza (Diptera: Agromyzidae). PMID:30445780
Beta-tubulin and Actin gene phylogeny supports Phaeoacremoniumovale as a new species from freshwater habitats in China. PMID:30344440
Patients with Chronic Obstructive Pulmonary Disease harbour a variation of Haemophilus species. PMID:30282975
Sperm capacitation is associated with phosphorylation of the testis-specific radial spoke protein Rsph6a†. PMID:30239614
Scent matters: differential contribution of scent to insect response in flowers with insect vs. wind pollination traits. PMID:30052759
Climate and host-plant associations shaped the evolution of ceutorhynch weevils throughout the Cenozoic. PMID:30040114
Conspicuously concealed: revision of the arid clade of the Gehyra variegata (Gekkonidae) group in Western Australia using an integrative molecular and morphological approach, with the description of five cryptic species. PMID:30038877
Complete Chloroplast Genome of Cercis chuniana (Fabaceae) with Structural and Genetic Comparison to Six Species in Caesalpinioideae. PMID:29693617
Phylogeography of Daphnia magna Straus (Crustacea: Cladocera) in Northern Eurasia: Evidence for a deep longitudinal split between mitochondrial lineages. PMID:29543844
Genetic diversity and connectivity of the megamouth shark (Megachasma pelagios). PMID:29527411
Fish polyomaviruses belong to two distinct evolutionary lineages. PMID:29517483
Synopsis of the SOFL Plant-Specific Gene Family. PMID:29467189
Divergent bornaviruses from Australian carpet pythons with neurological disease date the origin of extant Bornaviridae prior to the end-Cretaceous extinction. PMID:29462190
Population genomic footprints of host adaptation, introgression and recombination in coffee leaf rust. PMID:29328532
Determination of the diversity of astroviruses in feces from cats in Florida. PMID:29202674
Global population structure and adaptive evolution of aflatoxin-producing fungi. PMID:29152206
Unique genome organization of non-mammalian papillomaviruses provides insights into the evolution of viral early proteins. PMID:29026649
Multiple Geographical Origins of Environmental Sex Determination enhanced the diversification of Darwin's Favourite Orchids. PMID:29018291
Andean Mountain Building Did not Preclude Dispersal of Lowland Epiphytic Orchids in the Neotropics. PMID:28687774
Recent origin and rapid speciation of Neotropical orchids in the world's richest plant biodiversity hotspot. PMID:28631324
Chimeric origins of ochrophytes and haptophytes revealed through an ancient plastid proteome. PMID:28498102
Multiple measures could alleviate long-branch attraction in phylogenomic reconstruction of Cupressoideae (Cupressaceae). PMID:28120880
LXRα and LXRβ Nuclear Receptors Evolved in the Common Ancestor of Gnathostomes. PMID:28057729
Evidence of functional divergence in MSP7 paralogous proteins: a molecular-evolutionary and phylogenetic analysis. PMID:27894257
A Shorter Route to Antibody Binders via Quantitative in vitro Bead-Display Screening and Consensus Analysis. PMID:27819305
Influenza Research Database: An integrated bioinformatics resource for influenza virus research. PMID:27679478
Toward a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa. PMID:27616324
Mammal madness: is the mammal tree of life not yet resolved? PMID:27325836
The Ancient Evolutionary History of Polyomaviruses. PMID:27093155
Evolutionary functional elaboration of the Elovl2/5 gene family in chordates. PMID:26856376
Spintharus flavidus in the Caribbean-a 30 million year biogeographical history and radiation of a 'widespread species'. PMID:26618089
Draft Genomes, Phylogenetic Reconstruction, and Comparative Genomics of Two Novel Cohabiting Bacterial Symbionts Isolated from Frankliniella occidentalis. PMID:26185096
Origin and diversification of living cycads: a cautionary tale on the impact of the branching process prior in Bayesian molecular dating. PMID:25884423
A comprehensive collection of systems biology data characterizing the host response to viral infection PubMed citations: 24.

24 articles citing: A comprehensive collection of systems biology data characterizing the host response to viral infection

Meta-Analysis of Two Human RNA-seq Datasets to Determine Periodontitis Diagnostic Biomarkers and Drug Target Candidates. PMID:35628390
Significance of Immune Status of SARS-CoV-2 Infected Patients in Determining the Efficacy of Therapeutic Interventions. PMID:35330349
A Bibliometric Analysis of Corona Pandemic in Social Sciences: A Review of Influential Aspects and Conceptual Structure. PMID:34812340
Therapeutic targets and interventional strategies in COVID-19: mechanisms and clinical studies. PMID:34446699
The epigenetic implication in coronavirus infection and therapy. PMID:33087172
Consensus transcriptional regulatory networks of coronavirus-infected human cells. PMID:32963239
Comparative Transcriptomic Analysis of Rhinovirus and Influenza Virus Infection. PMID:32849329
Digital microbiology. PMID:32603804
Consensus transcriptional regulatory networks of coronavirus-infected human cells. PMID:32511379
Thoughts on the alveolar phase of COVID-19. PMID:32493030
Unique epidemiological and clinical features of the emerging 2019 novel coronavirus pneumonia (COVID-19) implicate special control measures. PMID:32134116
Unified feature association networks through integration of transcriptomic and proteomic data. PMID:31527878
Analysis of clinical characteristics of macrophage capping protein (CAPG) gene expressed in glioma based on TCGA data and clinical experiments. PMID:31423196
Myeloid TBK1 Signaling Contributes to the Immune Response to Influenza. PMID:30290124
MERS-CoV and H5N1 influenza virus antagonize antigen presentation by altering the epigenetic landscape. PMID:29339515
Childhood tolerance of severe influenza: a mortality analysis in mice. PMID:28882815
Influenza-Omics and the Host Response: Recent Advances and Future Prospects. PMID:28604586
Searching for a Lifeline: Transcriptome Profiling Studies of Influenza Susceptibility and Resistance. PMID:28249256
Epigenetic Landscape during Coronavirus Infection. PMID:28212305
Annotating Protein Functional Residues by Coupling High-Throughput Fitness Profile and Homologous-Structure Analysis. PMID:27803181
Influenza Research Database: An integrated bioinformatics resource for influenza virus research. PMID:27679478
Integrating Transcriptomic and Proteomic Data Using Predictive Regulatory Network Models of Host Response to Pathogens. PMID:27403523
Human H7N9 virus induces a more pronounced pro-inflammatory cytokine but an attenuated interferon response in human bronchial epithelial cells when compared with an epidemiologically-linked chicken H7N9 virus. PMID:26975414
Multi-task consensus clustering of genome-wide transcriptomes from related biological conditions. PMID:26801959
Influenza virus sequence feature variant type analysis: evidence of a role for NS1 in influenza virus host range restriction PubMed citations: 23.

23 articles citing: Influenza virus sequence feature variant type analysis: evidence of a role for NS1 in influenza virus host range restriction

Mutation in Hemagglutinin Antigenic Sites in Influenza A pH1N1 Viruses from 2015-2019 in the United States Mountain West, Europe, and the Northern Hemisphere. PMID:35627294
In silico epitope-based vaccine design against influenza a neuraminidase protein: Computational analysis established on B- and T-cell epitope predictions. PMID:35574284
FluConvert and IniFlu: a suite of integrated software to identify novel signatures of emerging influenza viruses with increasing risk. PMID:32682392
Viral Fitness Landscapes in Diverse Host Species Reveal Multiple Evolutionary Lines for the NS1 Gene of Influenza A Viruses. PMID:31851929
Influenza Virus Polymerase Mutation Stabilizes a Foreign Gene Inserted into the Virus Genome by Enhancing the Transcription/Replication Efficiency of the Modified Segment. PMID:31575766
Rapid evolution of Mexican H7N3 highly pathogenic avian influenza viruses in poultry. PMID:31513638
Adaptation of Human Influenza Viruses to Swine. PMID:30723723
Novel Flu Viruses in Bats and Cattle: "Pushing the Envelope" of Influenza Infection. PMID:30082582
Unexpected Functional Divergence of Bat Influenza Virus NS1 Proteins. PMID:29237829
Structure-Guided Functional Annotation of the Influenza A Virus NS1 Protein Reveals Dynamic Evolution of the p85β-Binding Site during Circulation in Humans. PMID:28814525
Origin, distribution, and potential risk factors associated with influenza A virus in swine in two production systems in Guatemala. PMID:27860313
Influenza Research Database: An integrated bioinformatics resource for influenza virus research. PMID:27679478
The ecology and adaptive evolution of influenza A interspecies transmission. PMID:27426214
Whole-genome analysis of influenza A(H1N1)pdm09 viruses isolated in Uganda from 2009 to 2011. PMID:27339410
Novel Bat Influenza Virus NS1 Proteins Bind Double-Stranded RNA and Antagonize Host Innate Immunity. PMID:26246567
Diversifying Selection Analysis Predicts Antigenic Evolution of 2009 Pandemic H1N1 Influenza A Virus in Humans. PMID:25741011
Activation of c-jun N-terminal kinase upon influenza A virus (IAV) infection is independent of pathogen-related receptors but dependent on amino acid sequence variations of IAV NS1. PMID:24872593
Naturally occurring mutations in the PA gene are key contributors to increased virulence of pandemic H1N1/09 influenza virus in mice. PMID:24522908
Metadata-driven comparative analysis tool for sequences (meta-CATS): an automated process for identifying significant sequence variations that correlate with virus attributes. PMID:24210098
Viral and host factors required for avian H5N1 influenza A virus replication in mammalian cells. PMID:23752648
Protein clustering and RNA phylogenetic reconstruction of the influenza A [corrected] virus NS1 protein allow an update in classification and identification of motif conservation. PMID:23667580
Virus pathogen database and analysis resource (ViPR): a comprehensive bioinformatics database and analysis resource for the coronavirus research community. PMID:23202522
New treatments for influenza. PMID:22973873