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Virus genome databases | Annotation

Recent technological innovations have ignited an explosion in virus genome sequencing that promises to fundamentally alter our understanding of viral biology and profoundly impact public health policy. Yet, any potential benefits from the billowing…
GenBank
Dataset

GenBank

A comprehensive database that contains publicly available nucleotide sequences…

A comprehensive database that contains publicly available nucleotide sequences for over 300 000 formally described species. These sequences are obtained primarily through submissions from individual…

Gene
Dataset

Gene

Integrates gene-specific information from multiple data sources. NCBI Reference…

Integrates gene-specific information from multiple data sources. NCBI Reference Sequence (RefSeq) genomes for viruses, prokaryotes and eukaryotes are the primary foundation for Gene records in that…

IMG
Dataset

IMG Integrated Microbial Genomes

Offers a collection of genomes from all three domains of life, as well as…

Offers a collection of genomes from all three domains of life, as well as viruses, plasmids and genome fragments. IMG contains biosynthetic clusters of genes associated with pathways involved in the…

IMG/VR
Dataset

IMG/VR

Visualizes and analyses viral sequences. IMG/VR allows users to explore…

Visualizes and analyses viral sequences. IMG/VR allows users to explore associated metadata to decipher biogeographical and habitat distribution patterns of viral species as well as traveling across…

VIPERdb
Dataset

VIPERdb Virus Particle Explorer database

A database for icosahedral virus capsid structures. VIPERdb provides a…

A database for icosahedral virus capsid structures. VIPERdb provides a comprehensive resource specific to the needs of the structural virology community, with an emphasis on the description and…

NCBI Influenza…
Dataset

NCBI Influenza Virus Resource

Allows user to study and visualize large phylogenetic trees. NCBI Influenza…

Allows user to study and visualize large phylogenetic trees. NCBI Influenza Virus Resource provides public access to influenza sequence data and a convenient interface. This platform is useful for…

Viral Genomes
Dataset

Viral Genomes

A reference resource designed to bring order to this sequence shockwave and…

A reference resource designed to bring order to this sequence shockwave and improve usability of viral sequence data. The resource catalogs all publicly available virus genome sequences and curates…

Virus…
Dataset

Virus Variation Resource

Provides viral sequence data hosted by the National Center for Biotechnology…

Provides viral sequence data hosted by the National Center for Biotechnology Information. The Virus Variation Resource includes modules for seven viral groups: influenza virus, Dengue virus, West…

IRD
Dataset

IRD Influenza Research Database

A comprehensive, integrated database and analysis resource for influenza…

A comprehensive, integrated database and analysis resource for influenza sequence, surveillance, and research data. IRD comprises (i) a comprehensive collection of influenza virus related data…

proGenomes
Dataset

proGenomes

Provides user-friendly access to currently 25 038 high-quality genomes whose…

Provides user-friendly access to currently 25 038 high-quality genomes whose sequences and consistent annotations can be retrieved individually or by taxonomic clade. These genomes are assigned to…

MicrobesOnline
Dataset

MicrobesOnline

Includes over 1000 complete genomes of bacteria, archaea and fungi and…

Includes over 1000 complete genomes of bacteria, archaea and fungi and thousands of expression microarrays from diverse organisms. To assist in annotating genes and in reconstructing their…

IMG/M
Dataset

IMG/M Integrated Microbial Genomes with Microbiome Samples

A database for analysis and annotation of genome and metagenome datasets in a…

A database for analysis and annotation of genome and metagenome datasets in a comprehensive comparative context. IMG/M includes archaea, bacteria, eukarya, plasmids, viruses, genome fragments…

Influenza…
Dataset

Influenza Virus Resource

Presents data obtained from the NIAID Influenza Genome Sequencing Project as…

Presents data obtained from the NIAID Influenza Genome Sequencing Project as well as from GenBank, combined with tools for flu sequence analysis, annotation and submission to GenBank.

ViPR
Dataset

ViPR Virus Pathogen database and analysis Resource

An integrated repository of data and analysis tools for multiple virus…

An integrated repository of data and analysis tools for multiple virus families, supported by the National Institute of Allergy and Infectious Diseases (NIAID) Bioinformatics Resource Centers (BRC)…

PaVE
Dataset

PaVE PapillomaVirus Episteme

Provides highly organized and curated papillomavirus genomics information and…

Provides highly organized and curated papillomavirus genomics information and tools to the scientific community.

HFV Database
Dataset

HFV Database Hemorrhagic Fever Viruses Database

Strives to present HFV-associated genetic data in a user-friendly way, by…

Strives to present HFV-associated genetic data in a user-friendly way, by providing access to the central database via web-accessible search interfaces and supplying a number of analysis tools.

HCV sequence…
Dataset

HCV sequence database

Strives to present HCV-associated, hand-annotated genetic data in a…

Strives to present HCV-associated, hand-annotated genetic data in a user-friendly way, by providing access to the central database via web-accessible search interfaces and supplying a number of…

PBRC
Dataset

PBRC Poxvirus Bioinformatics Resource Center

Goals of this project are to acquire and annotate data on poxviruses, and to…

Goals of this project are to acquire and annotate data on poxviruses, and to develop and utilize new tools to facilitate the study of this group of organisms.

PhagesDB
Dataset

PhagesDB

Collects and shares data, pictures, protocols, and analysis tools associated…

Collects and shares data, pictures, protocols, and analysis tools associated with the discovery, sequencing, and characterization of mycobacteriophages viruses that infect the Mycobacteria. PhagesDB…

PhamDB
Desktop

PhamDB

Creates databases of bacteriophage genes, grouped by gene similarity. PhamDB is…

Creates databases of bacteriophage genes, grouped by gene similarity. PhamDB is backwards compatible with the existing Phamerator desktop software while providing an improved database creation…

AgBase
Dataset

AgBase

Provides resources to facilitate modeling of functional genomics data and…

Provides resources to facilitate modeling of functional genomics data and structural and functional annotation of agriculturally important animal, plant, microbe and parasite genomes.

IVDB
Dataset

IVDB Influenza Virus DataBase

Offers instant access to the pre-computed alignments and polymorphism analysis…

Offers instant access to the pre-computed alignments and polymorphism analysis of influenza virus genes and proteins and presents the results by SNP distribution plots and minor allele distributions.

ZikaVR
Dataset

ZikaVR

Comprises of whole genome sequences, their respective functional information…

Comprises of whole genome sequences, their respective functional information regarding proteins, genes, and structural content. ZikaVR is an integrative multi-omics platform dedicated to the ZIKV…

HBVdb
Dataset

HBVdb Hepatitis B Virus database

Allows the researchers to investigate the genetic variability of the virus and…

Allows the researchers to investigate the genetic variability of the virus and the viral resistance to treatment.

CoVDB
Dataset

CoVDB

Provides a platform for retrieving batches of coronavirus gene sequences. CoVDB…

Provides a platform for retrieving batches of coronavirus gene sequences. CoVDB is a web-based coronavirus database. The database contains annotated coronavirus genes and genomes, as well as commonly…

PEDANT
Dataset

PEDANT

Provides exhaustive automatic analysis of genomic sequences by a large variety…

Provides exhaustive automatic analysis of genomic sequences by a large variety of bioinformatics tools. PEDANT is a database that includes (i) integration with the BioRSTM data retrieval system which…

phiSITE
Dataset

phiSITE

A collection of phage gene regulatory elements, genes, genomes and other…

A collection of phage gene regulatory elements, genes, genomes and other related information.

DPVweb
Dataset

DPVweb

Provides a central source of information about viruses, viroids and satellites…

Provides a central source of information about viruses, viroids and satellites of plants, fungi and protozoa, with some additional data on animal viruses and phages with RNA or ssDNA genomes.

ViralZone
Dataset

ViralZone

Provides general molecular and epidemiological information, along with virion…

Provides general molecular and epidemiological information, along with virion and genome figure for all viral genus and families. ViralZone is a knowledge repository that allows users to learn about…

VIGOR
Web

VIGOR Viral Genome ORF Reader

Predicts protein sequences encoded in small viral genomes. VIGOR is a web-based…

Predicts protein sequences encoded in small viral genomes. VIGOR is a web-based genome annotation program for five different viral agents: influenza, rotavirus, rhinovirus, coronavirus and SARS…

ISED
Dataset

ISED Influenza Sequence and Epitope Database

Catalogues the influenza sequence and epitope information obtained in countries…

Catalogues the influenza sequence and epitope information obtained in countries worldwide.

HepSEQ
Dataset

HepSEQ

A repository for an extensive library of public health and molecular data…

A repository for an extensive library of public health and molecular data relating to hepatitis B virus (HBV) infection collected from international sources.

RNA virus…
Dataset

RNA virus database

A database and web application describing the genome organization and providing…

A database and web application describing the genome organization and providing analytical tools for known species of RNA virus.

PhEVER
Dataset

PhEVER Phylogenetic exploration of Viruses Evolutionary Relationships

A unique database of homologous families both (i) between sequences from…

A unique database of homologous families both (i) between sequences from different viruses and (ii) between viral sequences and sequences from cellular organisms. PhEVER integrates extensive data…

DenHunt
Dataset

DenHunt DENgue - HUman INTeractions

Provides curated set of experimentally verified dengue-human interactions.…

Provides curated set of experimentally verified dengue-human interactions. DenHunt contains data that come from many publications. All genes associated with dengue viral infection are classified into…

viruSITE
Dataset

viruSITE

Comprises all genomes from viruses, viroids and satellites published in NCBI…

Comprises all genomes from viruses, viroids and satellites published in NCBI Reference Sequence Database (RefSeq). ViruSITE is a comprehensive information resource in the field of viral genomics. The…

Geminivirus…
Dataset

Geminivirus data warehouse

Allows easy manipulation of geminivirus data. Geminivirus data warehouse…

Allows easy manipulation of geminivirus data. Geminivirus data warehouse contains machine learning (ML) techniques, search modules and bioinformatics tools to retrieve high precision information or…

Subviral RNA…
Dataset

Subviral RNA Database

A web-based environment that facilitates the research and analysis of viroids,…

A web-based environment that facilitates the research and analysis of viroids, satellite RNAs, satellites viruses, the human hepatitis delta virus, and related RNA sequences.

Megx.net
Dataset

Megx.net

Provides integrated access to georeferenced marker genes, environment data and…

Provides integrated access to georeferenced marker genes, environment data and marine genome and metagenome projects for microbial ecological genomics. Megx.net is a database and portal that provides…

euHCVdb
Dataset

euHCVdb European Hepatitis C Virus database

A collection of computer-annotated hepatitis C virus (HCV) sequences based on…

A collection of computer-annotated hepatitis C virus (HCV) sequences based on reference genomes. The annotations include genome mapping of sequences, use of recommended nomenclature, subtyping as…

NCBI Genome
Dataset

NCBI Genome

This resource organizes information on genomes including sequences, maps,…

This resource organizes information on genomes including sequences, maps, chromosomes, assemblies, and annotations.

gb4gv
Dataset

gb4gv

Consists of five databases (a database per genus including one for each…

Consists of five databases (a database per genus including one for each satellite although, in biological terms, satellite is not considered a genus): Begomovirus, Mastrevirus, Curtovirus,…

SilkPathDB
Dataset

SilkPathDB

Proposes a comprehensive resource for studying on pathogens of silkworm,…

Proposes a comprehensive resource for studying on pathogens of silkworm, including microsporidia, fungi, bacteria and virus. SilkPathDB provides access to not only genomic data including functional…

GISAID EpiFlu…
Dataset

GISAID EpiFlu database

Provides a collection of influenza sequences containing associated metadata,…

Provides a collection of influenza sequences containing associated metadata, both clinical and epidemiological. GISAID EpiFlu database is a relational database that stores information about Influenza…

HCVDB
Dataset

HCVDB

Provides key data about the hepatitis C virus sequences and ensures consistency…

Provides key data about the hepatitis C virus sequences and ensures consistency of the annotations, which enables reliable keyword queries.

DBatVir
Dataset

DBatVir Database of Bat-associated Viruses

Devotes to serve as a valuable platform that not only be helpful to virologists…

Devotes to serve as a valuable platform that not only be helpful to virologists who want to better understand the virome diversity of bats, but also be useful to zoologists concerned with the health…

FluGenome
Dataset

FluGenome

A portal to accessing the lineage and genotype information of influenza A…

A portal to accessing the lineage and genotype information of influenza A viruses and a Web tool for determining lineages and genotypes of influenza A viruses. These features make FluGenome unique in…

fauna
Desktop

fauna

Stores viral sequences and serological data in rethinkdb. The fauna database…

Stores viral sequences and serological data in rethinkdb. The fauna database and scripts are designed around influenza and Zika viruses. Fauna is a part of the nextstrain project. The nextstrain…

Ebola-KB
Dataset

Ebola-KB Ebola virus-centered Knowledge Base

An Ebola virus-centered Knowledge Base using linked data and semantic web…

An Ebola virus-centered Knowledge Base using linked data and semantic web technologies. Ebola-KB aggregates knowledge from several open data sources, web services and biomedical ontologies. This…

GORBI
Dataset

GORBI

Presents the results of a novel model for computational assignment of gene…

Presents the results of a novel model for computational assignment of gene function using phylogenetic profiling. The predictions for 998 prokaryotic genomes include ~400000 high-confidence…

OpenfluDB
Dataset

OpenfluDB OpenFlu database

An algorithm was developed to act as the interface between EMPRES-i disease…

An algorithm was developed to act as the interface between EMPRES-i disease event data and publicly available influenza virus sequences in OpenfluDB.

VGO
Desktop

VGO Viral Genome Organizer

Views genes and predicts Open Reading Frames (ORFs) in one or a series of…

Views genes and predicts Open Reading Frames (ORFs) in one or a series of genomes. VGO is an easy-to-use genome browser that searches for sequences within genomes. It searches the translated genome…

VBRC
Dataset

VBRC Viral Bioinformatics Resource Center

Provides bioinformatics resources to support scientific research directed at…

Provides bioinformatics resources to support scientific research directed at viruses belonging to the Arenaviridae, Bunyaviridae, Filoviridae, Flaviviridae, Paramyxoviridae, Poxviridae, and…

HIV databases
Dataset

HIV databases

Contains comprehensive data on HIV genetic sequences and immunological…

Contains comprehensive data on HIV genetic sequences and immunological epitopes. HIV databases gives access to a large number of tools that can be used to analyze and visualize these data. The HIV…

BioHealthBase
Dataset

BioHealthBase

Provides information about specific biodefense and public health pathogens:…

Provides information about specific biodefense and public health pathogens: Influenza virus, Francisella tularensis, Mycobacterium tuberculosis, Microsporidia species and ricin toxin. BioHealthBase…

ViralORFeome
Dataset

ViralORFeome

An open-access database and management system that provides an integrated set…

An open-access database and management system that provides an integrated set of bioinformatic tools to clone viral ORFs in the Gateway(R) system. ViralORFeome provides a convenient interface to…

GIB
Dataset

GIB Genome Information Broker for Viruses

Fills the need for a comprehensive virus genome database. GIB is a downloadable…

Fills the need for a comprehensive virus genome database. GIB is a downloadable database that includes all groups of viruses and is updated regularly with the release of DNA Data Bank of Japan (DDBJ)…

WikiGenomes
Dataset

WikiGenomes

Facilitates the consumption and curation of genomic data by the entire…

Facilitates the consumption and curation of genomic data by the entire scientific community. WikiGenomes empowers the individual genomic researcher to contribute their expertise to the curation…

Flavitrack
Dataset

Flavitrack

Contains over 590 complete flavivirus genome/protein sequences and information…

Contains over 590 complete flavivirus genome/protein sequences and information on known mutations and literature references. Each sequence has been manually annotated according to its date and place…

CPGR
Dataset

CPGR Comprehensive Phytopathogen Genomics Resource

Provides information about plant pathogen genomics and their annotation. CPGR…

Provides information about plant pathogen genomics and their annotation. CPGR intends to help researchers for determining the genome sequence status of their organism of interest and for data mining…

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