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Genome databases

Genomic software tools and databases > Genome annotation software tools and databases | Genomics

A C. elegans DataBase

OMIC_03115

A C. elegans DataBase
AceDB

Provides a custom database kernel, with a non-standard data model designed specifically…

Provides a custom database kernel, with a non-standard data model designed specifically for handling scientific data flexibly, and a graphical user interface with many specific displays and tools for genomic data.

A Systematic Annotation Package

OMIC_03172

A Systematic Annotation Package
ASAP

A comprehensive web-based system for community genome annotation and analysis.

A comprehensive web-based system for community genome annotation and analysis.

AgBase

OMIC_03223

AgBase

Provides resources to facilitate modeling of functional genomics data and structural and…

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

Alignable Tight Genomic Clusters

OMIC_03173

Alignable Tight Genomic Clusters
ATGC

A database of closely related microbial genomes optimized for microevolutionary research.

A database of closely related microbial genomes optimized for microevolutionary research.

AlterORF

OMIC_03170

AlterORF

Provides a platform for improving genome annotation and to serve as an aid for the…

Provides a platform for improving genome annotation and to serve as an aid for the identification of prokaryotic genes that potentially encode proteins in more than one reading frame.

AmoebaDB

OMIC_03152

AmoebaDB

Functional genomic databases serving the amoebozoa research communities.

Functional genomic databases serving the amoebozoa research communities.

ANISEED

OMIC_10163

ANISEED

A sophisticated information system dedicated to the biology of ascidians, and which…

A sophisticated information system dedicated to the biology of ascidians, and which consists of two classes of inter-linked databases. The Developmental Browser formalizes, integrates and displays an extensive set of complementary and inter-related…

AphidBase

OMIC_03116

AphidBase

A centralized bioinformatic resource that was developed to facilitate community…

A centralized bioinformatic resource that was developed to facilitate community annotation of the pea aphid genome by the International Aphid Genomics Consortium (IAGC).

Arabidopsis Information Portal

OMIC_06475

Arabidopsis Information Portal
Araport

An online resource for plant biology research. Araport houses the Arabidopsis thaliana…

An online resource for plant biology research. Araport houses the Arabidopsis thaliana genome sequence and associated annotation. It was conceived as a framework that allows the research community to develop and release ‘modules’ that integrate,…

ARKdb

OMIC_04528

ARKdb

Provides comprehensive public repositories for genome mapping data from farmed species…

Provides comprehensive public repositories for genome mapping data from farmed species and other animals.

Ashbya Genome Database

OMIC_03095

Ashbya Genome Database
AGD

A comprehensive online source of information covering genes from the filamentous fungus…

A comprehensive online source of information covering genes from the filamentous fungus Ashbya gossypii. The database content is based upon comparative genome annotation between A.gossypii and the closely related budding yeast Saccharomyces…

Aspergillus Genome Database

OMIC_03096

Aspergillus Genome Database
AspGD

A freely available web-based resource that was designed for Aspergillus researchers and…

A freely available web-based resource that was designed for Aspergillus researchers and is also a valuable source of information for the entire fungal research community. In addition to being a repository and central point of access to genome,…

Aspergillus Genomes

OMIC_03155

Aspergillus Genomes

A resource for viewing annotated genes arising from various Aspergillus sequencing and…

A resource for viewing annotated genes arising from various Aspergillus sequencing and annotation projects.

AureusDB

OMIC_04497

AureusDB

A S. aureus database, provides access to the genome sequences of various S. aureus…

A S. aureus database, provides access to the genome sequences of various S. aureus strains and related species.

Avianbase

OMIC_07478

Avianbase

A resource for bird genomics, which provides access to data released by the Avian…

A resource for bird genomics, which provides access to data released by the Avian Phylogenomics Consortium. This bird portal can be tailored to the needs of the individual bird research communities. It can list available resources and support…

BacillOndex

OMIC_04774

BacillOndex

An integrated knowledge base for Bacillus subtilis.

An integrated knowledge base for Bacillus subtilis.

Bacterial Diversity Metadatabase

OMIC_10161

Bacterial Diversity Metadatabase
BacDive

Provides strain-linked information about bacterial and archaeal biodiversity. The range…

Provides strain-linked information about bacterial and archaeal biodiversity. The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology. The majority of data is…

BacWGSTdb

OMIC_10196

BacWGSTdb

A bacterial whole genome sequence typing database which is designed for clinicians,…

A bacterial whole genome sequence typing database which is designed for clinicians, clinical microbiologists and hospital epidemiologists. BacWGSTdb borrows the population structure from the current multi-locus sequence typing (MLST) scheme and…

BambooGDB

OMIC_03295

BambooGDB

A bamboo genome database with comprehensive functional annotation and extensible analysis…

A bamboo genome database with comprehensive functional annotation and extensible analysis platform.

Banana Genome Hub

OMIC_06476

Banana Genome Hub

Centralises databases of genetic and genomic data for the Musa acuminata crop Hub. Data…

Centralises databases of genetic and genomic data for the Musa acuminata crop Hub. Data available are the complete genome sequence along with gene structure, gene product information, metabolism, gene families, transcriptomics (ESTs, RNA-Seq),…

BASC

OMIC_03287

BASC

This public resource hosts information on Brassica species.

This public resource hosts information on Brassica species.

BeeBase

OMIC_10641

BeeBase

A comprehensive sequence data source for the bee research community. BeeBase hosts the…

A comprehensive sequence data source for the bee research community. BeeBase hosts the genomes of Apis mellifera and three of its pathogens, as well as Bombus terrestris and B. impatiens.

BeetleBase

OMIC_03118

BeetleBase

A comprehensive sequence database and important community resource for Tribolium…

A comprehensive sequence database and important community resource for Tribolium genetics, genomics and developmental biology.

Bgi-Ris

OMIC_04473

Bgi-Ris

An integrated information resource and comparative analysis workbench for rice genomes.

An integrated information resource and comparative analysis workbench for rice genomes.

BmuG@Sbase

OMIC_03174

BmuG@Sbase

A microbial gene expression and comparative genomic database.

A microbial gene expression and comparative genomic database.

Bovine Genome Database

OMIC_04529

Bovine Genome Database
BGD

Strives to improve annotation of the bovine genome and to integrate the genome sequence…

Strives to improve annotation of the bovine genome and to integrate the genome sequence with other genomics data. We have developed new genome and annotation browsers using JBrowse and WebApollo for two Bos taurus genome assemblies, the reference…

BuchneraBASE

OMIC_03175

BuchneraBASE

A database designed to encapsulate and reference information obtained from the complete…

A database designed to encapsulate and reference information obtained from the complete genome sequence of the gamma-proteobacterium Buchnera aphidicola APS.

ButterflyBase

OMIC_03119

ButterflyBase

A unified resource for lepidopteran genomics.

A unified resource for lepidopteran genomics.

campyDB

OMIC_03554

campyDB

A genome resource for the Campylobacter research community.

A genome resource for the Campylobacter research community.

Candida Genome Database

OMIC_03098

Candida Genome Database
CGD

A resource for genomic sequence data and gene and protein information for Candida…

A resource for genomic sequence data and gene and protein information for Candida albicans and related species.

CandidaDB

OMIC_03099

CandidaDB

Contains a database dedicated to the analysis of the genome of the human fungal pathogen,…

Contains a database dedicated to the analysis of the genome of the human fungal pathogen, Candida albicans.

Canto

OMIC_04514

Canto

A web-based tool that provides an intuitive curation interface for both curators and…

A web-based tool that provides an intuitive curation interface for both curators and researchers, to support community curation in the fission yeast database, PomBase.

CarrotDB

OMIC_05904

CarrotDB

A Web-based genomic and transcriptomic database for D. carota. It offers the tools of…

A Web-based genomic and transcriptomic database for D. carota. It offers the tools of Genome Map and Basic Local Alignment Search Tool.

catfish Breeder And Researcher Bioinformatics…

OMIC_04530

catfish Breeder And Researcher Bioinformatics Entry Location
cBARBEL

An online open-access database for genome biology of ictalurid catfish (Ictalurus spp.).

An online open-access database for genome biology of ictalurid catfish (Ictalurus spp.).

CauloBrowser

OMIC_10270

CauloBrowser

An online resource for Caulobacter studies. CauloBrowser provides a user-friendly…

An online resource for Caulobacter studies. CauloBrowser provides a user-friendly interface for quickly searching genes of interest and downloading genome-wide results. Search results about individual genes are displayed as tables, graphs of time…

Central Aspergillus Data REpository

OMIC_03097

Central Aspergillus Data REpository
CADRE

A public resource for genomic data extracted from species of Aspergillus.

A public resource for genomic data extracted from species of Aspergillus.

Cereal small RNAs Database

OMIC_04419

Cereal small RNAs Database
CSRDB

A bioinformatics resource for cereal crops consisting of large-scale datasets of maize…

A bioinformatics resource for cereal crops consisting of large-scale datasets of maize and rice smRNA sequences generated by high-throughput pyrosequencing.

CerealsDB

OMIC_09707

CerealsDB

An online resource containing a range of genomic datasets for wheat (Triticum aestivum)…

An online resource containing a range of genomic datasets for wheat (Triticum aestivum) that will assist plant breeders and scientists to select the most appropriate markers for marker assisted selection. CerealsDB includes a database which…

ChiloDB

OMIC_05799

ChiloDB

An integrated resource that will be of use to the rice stem borer research community.

An integrated resource that will be of use to the rice stem borer research community.

Ciona Intestinalis PROtein database

OMIC_03120

Ciona Intestinalis PROtein database
CIPRO

An integrated protein database for the tunicate species C. intestinalis. The database is…

An integrated protein database for the tunicate species C. intestinalis. The database is unique in two respects: first, because of its phylogenetic position, Ciona is suitable model for understanding vertebrate evolution; and second, the database…

ClostriDB

OMIC_03558

ClostriDB

A genome resource for the Clostridiales research community.

A genome resource for the Clostridiales research community.

Cnidarian evolutionary genomics dataBase

OMIC_03121

Cnidarian evolutionary genomics dataBase
CnidBase

A tool for investigating the evolutionary, developmental and ecological factors that…

A tool for investigating the evolutionary, developmental and ecological factors that affect gene expression and gene function in cnidarians.

Coffee Genome Hub

OMIC_06474

Coffee Genome Hub

An integrative genome information system that allows centralized access to genomics and…

An integrative genome information system that allows centralized access to genomics and genetics data and analysis tools to facilitate translational and applied research in coffee. The hub relies on generic software (e.g. GMOD tools) for easy…

COGEME

OMIC_03101

COGEME

Enables identification of a set of functional groups of genes that are more highly…

Enables identification of a set of functional groups of genes that are more highly represented in the genomes of pathogenic fungi than non-pathogenic species.

coliBASE

OMIC_03178

coliBASE

A genome resource for the E. coli research community.

A genome resource for the E. coli research community.

Comparasite

OMIC_03122

Comparasite

A database for comparative studies of transcriptomes of parasites.

A database for comparative studies of transcriptomes of parasites.

Comparative Fungal Genomics Platform

OMIC_03100

Comparative Fungal Genomics Platform
CFGP

Archives 283 genomes corresponding to 152 fungal and Oomycete species as well as 201…

Archives 283 genomes corresponding to 152 fungal and Oomycete species as well as 201 genomes that correspond to seven bacteria, 39 plants and 105 animals.

Comparative Genometrics

OMIC_03179

Comparative Genometrics
CG

Devoted to the characterization of complete chromosome sequences by standardized…

Devoted to the characterization of complete chromosome sequences by standardized genometric methods.

Comprehensive Yeast Genome Database

OMIC_02929

Comprehensive Yeast Genome Database
CYGD

Aims to present information on the molecular structure and functional network of the…

Aims to present information on the molecular structure and functional network of the entirely sequenced, well-studied model eukaryote, the budding yeast Saccharomyces cerevisiae.

CottonGen

OMIC_04488

CottonGen

A curated and integrated web-based relational database providing access to publicly…

A curated and integrated web-based relational database providing access to publicly available genomic, genetic and breeding data for cotton. CottonGen supercedes CottonDB and the Cotton Marker Database, with enhanced tools for easier data sharing,…

CoVDB

OMIC_03066

CoVDB

A comprehensive database of annotated coronavirus genes and genomes.

A comprehensive database of annotated coronavirus genes and genomes.

CryptoDB

OMIC_03156

CryptoDB

A community bioinformatics resource for the AIDS-related apicomplexan-parasite,…

A community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium.

cuticleDB

OMIC_03123

cuticleDB

A relational database containing all structural proteins of Arthropod cuticle identified…

A relational database containing all structural proteins of Arthropod cuticle identified to date.

CyanoBase

OMIC_03180

CyanoBase

A genome database for cyanobacteria.

A genome database for cyanobacteria.

CyanOmics

OMIC_07413

CyanOmics

A database based on the results of Synechococcus sp. PCC 7002 omics studies. CyanOmics…

A database based on the results of Synechococcus sp. PCC 7002 omics studies. CyanOmics comprises one genomic dataset, 29 transcriptomic datasets and one proteomic dataset and should prove useful for systematic and comprehensive analysis of all those…

Cyber infrastructure for Fusarium

OMIC_03104

Cyber infrastructure for Fusarium
CiF

Supports archiving and utilization of rapidly increasing data and knowledge and consists…

Supports archiving and utilization of rapidly increasing data and knowledge and consists of Fusarium-ID, Fusarium Comparative Genomics Platform (FCGP) and Fusarium Community Platform (FCP). The Fusarium-ID archives phylogenetic marker sequences from…

CyberCell DataBase

OMIC_03176

CyberCell DataBase
CCDB

A comprehensive collection of detailed enzymatic, biological, chemical, genetic, and…

A comprehensive collection of detailed enzymatic, biological, chemical, genetic, and molecular biological data about E. coli (strain K12, MG1655).

Database for Bacterial ExoToxins

OMIC_03182

Database for Bacterial ExoToxins
DBETH

The main objective of this database is to provide a comprehensive knowledgebase for human…

The main objective of this database is to provide a comprehensive knowledgebase for human pathogenic bacterial toxins where various important sequence, structure and physico-chemical property based analyses are provided.

Database for Computational Modeling of Gene…

OMIC_03177

Database for Computational Modeling of Gene Silencing
CMGSDB

An integration of heterogeneous data sources about Caenorhabditis elegans with…

An integration of heterogeneous data sources about Caenorhabditis elegans with capabilities for compositional data mining (CDM) across diverse domains.

Database of Bat-associated Viruses

OMIC_03290

Database of Bat-associated Viruses
DBatVir

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

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 of domestic and wild animals.

DemaDb

OMIC_11343

DemaDb

Enables mycologists to access easily and analyse the genomics data using a genome…

Enables mycologists to access easily and analyse the genomics data using a genome browser. Currently, a total of eight genomes (B. papendorfii, D. eschscholtzii, P. unguis-hominis, C. sphaerospermum, Ochroconis mirabilis, Herpotrichiellaceae sp. and…

DESM

OMIC_10547

DESM

A platform for discovery, analysis and exploration of information from a number of…

A platform for discovery, analysis and exploration of information from a number of topic-specific microbial knowledgebases. The knowledgebases include integrated information from published scientific literature and a number of major databases from…

Diamondback moth Genome Database

OMIC_02235

Diamondback moth Genome Database
DBM-DB

A central online repository for storing and integrating genomic data of diamondback moth…

A central online repository for storing and integrating genomic data of diamondback moth (DBM), Plutella xylostella (L.).

DictyBase

OMIC_03158

DictyBase

The model organism database for Dictyostelium discoideum, includes the complete genome…

The model organism database for Dictyostelium discoideum, includes the complete genome sequence and expression data for this organism. Relevant literature is integrated into the database, and gene models and functional annotation are manually…

DNA Data Bank of Japan

OMIC_01644

DNA Data Bank of Japan
DDBJ

Maintains and provides public archival, retrieval and analytical services for biological…

Maintains and provides public archival, retrieval and analytical services for biological information. The contents of the DDBJ databases are shared with the US National Center for Biotechnology Information (NCBI) and the European Bioinformatics…

DNA replication Origin DataBase

OMIC_03108

DNA replication Origin DataBase
OriDB

Provides a catalogue of confirmed and predicted DNA replication origin sites.

Provides a catalogue of confirmed and predicted DNA replication origin sites.

DPVweb

OMIC_03067

DPVweb

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

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.

Drosophila Species Genomes

OMIC_03125

Drosophila Species Genomes
DroSpeGe

Provides genome researchers with rapid, usable access to 12 new and old Drosophila…

Provides genome researchers with rapid, usable access to 12 new and old Drosophila genomes, since its inception in 2004.

Ebola virus-centered Knowledge Base

OMIC_08835

Ebola virus-centered Knowledge Base
Ebola-KB

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

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 knowledge is transformed to RDF, linked to the Bio2RDF…

EcoCyc

OMIC_01645

EcoCyc

A scientific database for the bacterium Escherichia coli K-12 MG1655.

A scientific database for the bacterium Escherichia coli K-12 MG1655.

EcoGene

OMIC_03184

EcoGene

A database and website devoted to continuously improving the structural and functional…

A database and website devoted to continuously improving the structural and functional annotation of Escherichia coli K-12.

EcoliWiki

OMIC_03185

EcoliWiki

Generates community-based pages about everything related to non-pathogenic E. coli, its…

Generates community-based pages about everything related to non-pathogenic E. coli, its phages, plasmids, and mobile genetic elements.

Ensembl

OMIC_01647

Ensembl

A genomic interpretation system providing the most up-to-date annotations, querying tools…

A genomic interpretation system providing the most up-to-date annotations, querying tools and access methods for chordates and key model organisms. The REST server, which allows programs written in any language to query our databases, has moved to a…

Ensembl Genomes

OMIC_01648

Ensembl Genomes

An integrating resource for genome-scale data from non-vertebrate species.

An integrating resource for genome-scale data from non-vertebrate species.

Enteropathogen Resource Integration Center

OMIC_03187

Enteropathogen Resource Integration Center
ERIC

A web portal serving as a rich source of information about enterobacteria on the National…

A web portal serving as a rich source of information about enterobacteria on the National Institute of Allergy and Infectious Diseases (NIAID) established list of Select Agents related to biodefense—diarrheagenic Escherichia coli, Shigella spp.,…

euGenes

OMIC_04534

euGenes

A genome information system and database that provides a common summary of eukaryote…

A genome information system and database that provides a common summary of eukaryote genes and genomes.

EuPathDB

OMIC_03154

EuPathDB

An integrated database covering the eukaryotic pathogens of the genera Cryptosporidium,…

An integrated database covering the eukaryotic pathogens of the genera Cryptosporidium, Giardia, Leishmania, Neospora, Plasmodium, Toxoplasma, Trichomonas and Trypanosoma.

Fish Karyome

OMIC_11345

Fish Karyome

A database driven information system for fishes and other aquatic organisms. The system…

A database driven information system for fishes and other aquatic organisms. The system presently provides the ability to view the cytogenetic information of 726 fish species belonging to 146 families of 47 orders covered into 866 records. Besides,…

FLAGdb++

OMIC_03228

FLAGdb++

Dedicated to the integration and visualization of data for high-throughput functional…

Dedicated to the integration and visualization of data for high-throughput functional analysis of a fully sequenced genome, as illustrated for Arabidopsis.

Flavitrack

OMIC_08014

Flavitrack

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

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 of isolation, phenotype and lethality. Internal…

FluGenome

OMIC_08015

FluGenome

A portal to accessing the lineage and genotype information of influenza A viruses and 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 its ability to automatically detect genotype…

FlyBase

OMIC_01649

FlyBase

It is the leading website and database of Drosophila genes and genomes. FlyBase curates a…

It is the leading website and database of Drosophila genes and genomes. FlyBase curates a variety of data from published biological literature, including phenotype, gene expression, interactions (genetic and physical), gene ontology (GO) information…

Flybrain

OMIC_06491

Flybrain

The large amounts of neuroanatomical data and images that can be difficult to publish by…

The large amounts of neuroanatomical data and images that can be difficult to publish by conventional means because of the lack of space and financial constraints can now be made available electronically. The Flybrain Project represents a concerted…

FlyMine

OMIC_02691

FlyMine

A data warehouse that addresses one of the important challenges of modern biology: how to…

A data warehouse that addresses one of the important challenges of modern biology: how to integrate and make use of the diversity and volume of current biological data. Its main focus is genomic and proteomics data for Drosophila and other insects.…

FlyView

OMIC_06481

FlyView

An image database for Drosophila development and genetics, particularly for…

An image database for Drosophila development and genetics, particularly for gene-expression patterns. The concept of FlyView includes compatibility to FlyBase, the main Drosophila database.

FR database

OMIC_07642

FR database

A database using manual curation from 38 423 articles published before 1 April 2014, and…

A database using manual curation from 38 423 articles published before 1 April 2014, and integrating protein interactomes and several transcriptome datasets. FR database provides detailed information for 904 genes derived from 53 organisms reported…

FtBASE

OMIC_03557

FtBASE

A genome resource for the Francisella research community.

A genome resource for the Francisella research community.

Full-Malaria/Parasites

OMIC_03159

Full-Malaria/Parasites

A database for transcriptome studies of apicomplexa and other parasites, which is based…

A database for transcriptome studies of apicomplexa and other parasites, which is based on our original full-length cDNA sequences and physical cDNA clone resources.

FungiDB

OMIC_03103

FungiDB

A functional genomic resource for pan-fungal genomes that was developed in partnership…

A functional genomic resource for pan-fungal genomes that was developed in partnership with the Eukaryotic Pathogen Bioinformatic resource center.

Fusarium graminearum Genome Database

OMIC_03102

Fusarium graminearum Genome Database
FGDB

A comprehensive genome database on one of the most devastating fungal plant pathogens of…

A comprehensive genome database on one of the most devastating fungal plant pathogens of wheat, barley and maize.

FusoBase

OMIC_05793

FusoBase

Fusobacterium are anaerobic gram-negative bacteria that have been associated with a wide…

Fusobacterium are anaerobic gram-negative bacteria that have been associated with a wide spectrum of human infections and diseases. FusoBase is an online database providing access to genome-wide annotated sequences of Fusobacterium strains as well…

GABI Primary Database

OMIC_03230

GABI Primary Database
GabiPD

Constitutes a repository and analysis platform for a wide array of heterogeneous data…

Constitutes a repository and analysis platform for a wide array of heterogeneous data from high-throughput experiments in several plant species.

GABI-Kat SimpleSearch

OMIC_03267

GABI-Kat SimpleSearch

A Flanking Sequence Tag (FST)-based database for T-DNA insertion mutants generated by the…

A Flanking Sequence Tag (FST)-based database for T-DNA insertion mutants generated by the GABI-Kat project.

Gallus GBrowse

OMIC_04536

Gallus GBrowse

Provides online access to genomic and other information about the chicken, Gallus gallus.

Provides online access to genomic and other information about the chicken, Gallus gallus.

GenBank

OMIC_01650

GenBank

A comprehensive database that contains publicly available nucleotide sequences for over…

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 laboratories and batch submissions from…

GeneDB

OMIC_03160

GeneDB

A genome database for prokaryotic and eukaryotic pathogens and closely related organisms.

A genome database for prokaryotic and eukaryotic pathogens and closely related organisms.

GenoBase

OMIC_06418

GenoBase

Contains key information about comprehensive experimental resources of E. coli K-12,…

Contains key information about comprehensive experimental resources of E. coli K-12, their quality control and several omics data sets generated using these resources. GenoBase focused on information about comprehensively constructed experimental…

Génolevures

OMIC_03105

Génolevures

Provides annotated sequence data and classifications for the genomes of eighteen species…

Provides annotated sequence data and classifications for the genomes of eighteen species of hemiascomycete yeasts, including nine complete genomes.

Genome Database for Rosaceae

OMIC_04489

Genome Database for Rosaceae
GDR

A central repository of curated and integrated genetics and genomics data of Rosaceae, an…

A central repository of curated and integrated genetics and genomics data of Rosaceae, an economically important family which includes apple, cherry, peach, pear, raspberry, rose and strawberry.

Genomicus

OMIC_00914

Genomicus

A visualization tool allowing comparative genomics in four different phyla (Vertebrate,…

A visualization tool allowing comparative genomics in four different phyla (Vertebrate, Fungi, Metazoan and Plants). Genomicus provides access to genomic information from extant species, as well as ancestral gene content and gene order for…

GenoPlante-Info

OMIC_03229

GenoPlante-Info
GPI

Aims at developing genome analysis programs for crop species (corn, wheat, rapeseed,…

Aims at developing genome analysis programs for crop species (corn, wheat, rapeseed, sunflower and pea) and model plants (Arabidopsis and rice).

GenProtEC

OMIC_03188

GenProtEC

Dedicated to the functions encoded by the Escherichia coli K-12 (strain MG1655) genome.

Dedicated to the functions encoded by the Escherichia coli K-12 (strain MG1655) genome.

GiardiaDB

OMIC_03161

GiardiaDB

House the genome databases for Giardia lamblia.

House the genome databases for Giardia lamblia.

GISAID EpiFlu database

OMIC_08016

GISAID EpiFlu database

Featuring the world’s most complete collection of influenza sequences containing…

Featuring the world’s most complete collection of influenza sequences containing associated metadata, both clinical and epidemiological. GISAID EpiFlu database functionality continues to be tailored to the needs of influenza researchers from…

GrainGenes

OMIC_03232

GrainGenes

An international database for genetic and genomic information about Triticeae species…

An international database for genetic and genomic information about Triticeae species (wheat [Triticum aestivum], barley [Hordeum vulgare], rye [Secale cereale], and their wild relatives) and oat (Avena sativa) and its wild relatives.

Gramene

OMIC_02700

Gramene

A curated, open-source, integrated data resource for comparative functional genomics in…

A curated, open-source, integrated data resource for comparative functional genomics in crops and model plant species. Our goal is to facilitate the study of cross-species comparisons using information generated from projects supported by public…

GreenPhylDB

OMIC_03268

GreenPhylDB

A web resource designed for comparative and functional genomics in plants. GreenPhylDB…

A web resource designed for comparative and functional genomics in plants. GreenPhylDB contains a catalogue of gene families based on gene predictions of genomes, covering a broad taxonomy of green plants.

HCV sequence database

OMIC_03070

HCV sequence database

Strives to present HCV-associated, hand-annotated genetic data in a user-friendly way, by…

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 analysis tools.

HCVDB

OMIC_03068

HCVDB

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

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

HelicoBase

OMIC_05108

HelicoBase

A user-friendly Helicobacter resource platform with diverse functionality for the…

A user-friendly Helicobacter resource platform with diverse functionality for the analysis of Helicobacter genomic data for the Helicobacter research communities.

Helminth Control and Prevention

OMIC_06353

Helminth Control and Prevention
HelmCoP

An online resource built by integrating functional, structural and comparative genomic…

An online resource built by integrating functional, structural and comparative genomic data from plant, animal and human helminthes, to enable researchers to develop strategies for drug, vaccine and pesticide prioritization, while also providing a…

Helminth.net

OMIC_06352

Helminth.net

A collection of worm-related databases and analysis tools. Currently the sites…

A collection of worm-related databases and analysis tools. Currently the sites Nematode.net and Trematode.net fall under the Helminth.net umbrella. The databases’ interface, with a sophisticated query engine as a backbone, is intended to allow…

Hemorrhagic Fever Viruses Database

OMIC_03073

Hemorrhagic Fever Viruses Database
HFV Database

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

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.

Hepatitis B Virus database

OMIC_03069

Hepatitis B Virus database
HBVdb

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

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

HepSEQ

OMIC_03071

HepSEQ

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

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

HGTree

OMIC_10796

HGTree

Provides genome-wide horizontal gene transfer information for 2472 completely sequenced…

Provides genome-wide horizontal gene transfer information for 2472 completely sequenced prokaryotic genomes (156 Archaea and 2316 Bacteria). HGTree defines lateral gene transfer by comparing the gene tree for each orthologous gene set to the…

Highly Expressed Genes DataBase

OMIC_03190

Highly Expressed Genes DataBase
HEG-DB

A genomic database that includes the prediction of which genes are highly expressed in…

A genomic database that includes the prediction of which genes are highly expressed in prokaryotic complete genomes under strong translational selection.

HIV databases

OMIC_03075

HIV databases

Contain data on HIV genetic sequences, immunological epitopes, drug resistance-associated…

Contain data on HIV genetic sequences, immunological epitopes, drug resistance-associated mutations, and vaccine trials.

HIV Drug Resistance Database

OMIC_03074

HIV Drug Resistance Database

A curated public database designed to represent, store, and analyse the divergent forms…

A curated public database designed to represent, store, and analyse the divergent forms of data underlying HIV drug resistance.

Horizontal Gene Transfer DataBase

OMIC_03191

Horizontal Gene Transfer DataBase
HGT-DB

A genomic database that includes statistical parameters such as G+C content, codon and…

A genomic database that includes statistical parameters such as G+C content, codon and amino-acid usage, as well as information about which genes deviate in these parameters for prokaryotic complete genomes.

Human Oral Microbiome Database

OMIC_09092

Human Oral Microbiome Database
HOMD

A body site-specific public database providing the scientific community with…

A body site-specific public database providing the scientific community with comprehensive information on prokaryote species that are present in the human oral cavity. This dynamic database provides a curated taxonomy of oral prokaryotes, a curated…

Human papillomavirus Proteome DataBase

OMIC_03504

Human papillomavirus Proteome DataBase
hpvPDB

Domiciles proteomic and genomic information on 150 HPV strains sequenced to date.…

Domiciles proteomic and genomic information on 150 HPV strains sequenced to date. Retreival of such vast information from different resources with a provision of prediction and validation of proteins structures would help researchers in designing…

Hymenoptera Genome Database

OMIC_03130

Hymenoptera Genome Database
HGD

A model organism database for insect species of the order Hymenoptera (ants, bees and…

A model organism database for insect species of the order Hymenoptera (ants, bees and wasps). HGD maintains genomic data for 9 bee species, 10 ant species and 1 wasp, including the versions of genome and annotation data sets published by the genome…

i5k Workspace@NAL

OMIC_06252

i5k Workspace@NAL

The 5000 arthropod genomes initiative (i5k) has tasked itself with coordinating the…

The 5000 arthropod genomes initiative (i5k) has tasked itself with coordinating the sequencing of 5000 insect or related arthropod genomes. The resulting influx of data, mostly from small research groups or communities with little bioinformatics…

ICEberg

OMIC_03193

ICEberg

A web-based resource for integrative and conjugative elements found in Bacteria.

A web-based resource for integrative and conjugative elements found in Bacteria.

Influenza Research Database

OMIC_04512

Influenza Research Database
IRD

Provides a comprehensive, integrated database and analysis resource for influenza…

Provides a comprehensive, integrated database and analysis resource for influenza sequence, surveillance, and research data.

Influenza Sequence and Epitope Database

OMIC_03076

Influenza Sequence and Epitope Database
ISED

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

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

Influenza Virus DataBase

OMIC_03077

Influenza Virus DataBase
IVDB

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

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.

Influenza Virus Resource

OMIC_03092

Influenza Virus Resource

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

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.

Information Commons for Rice

OMIC_10446

Information Commons for Rice
IC4R

A rice knowledgebase featuring adoption of an extensible and sustainable architecture…

A rice knowledgebase featuring adoption of an extensible and sustainable architecture that integrates multiple omics data through community-contributed modules. Each module is developed and maintained by different committed groups, deals with data…

InSatDb

OMIC_03131

InSatDb

Presents an interactive interface to query information regarding microsatellite…

Presents an interactive interface to query information regarding microsatellite characteristics per se of five fully sequenced insect genomes (fruit-fly, honeybee, malarial mosquito, red-flour beetle and silkworm).

InsectBase

OMIC_10639

InsectBase

Provides a comprehensive platform for researchers who have interests in analyzing insect…

Provides a comprehensive platform for researchers who have interests in analyzing insect genes. InsectBase contains more than 12 millions of sequences, encompassing the genomes of 138 insects, transcriptomes of 116 insects, gene sets of 61 insects,…

inTB

OMIC_04936

inTB

A web-based system for storage and analysis of clinical, socio-demographic and molecular…

A web-based system for storage and analysis of clinical, socio-demographic and molecular typing data.

Interactive Fly

OMIC_03132

Interactive Fly

A cyberspace guide to Drosophila development and metazoan evolution.

A cyberspace guide to Drosophila development and metazoan evolution.

International Nucleotide Sequence Database…

OMIC_01653

International Nucleotide Sequence Database Collaboration
INSDC

Developed and maintained collaboratively between DDBJ, ENA, and GenBank for over 18 years.

Developed and maintained collaboratively between DDBJ, ENA, and GenBank for over 18 years.

Interrupted CoDing Sequence database

OMIC_03194

Interrupted CoDing Sequence database
ICDS database

Contains interrupted coding sequence detected by a similarity-based approach in 80…

Contains interrupted coding sequence detected by a similarity-based approach in 80 complete prokaryotic genomes.

ISfinder

OMIC_03195

ISfinder

A dedicated database for bacterial insertion sequences (ISs).

A dedicated database for bacterial insertion sequences (ISs).

KAIKObase

OMIC_05800

KAIKObase

An integrated silkworm genome database and data mining tool.

An integrated silkworm genome database and data mining tool.

Kiwifruit Information Resource

OMIC_10981

Kiwifruit Information Resource
KIR

Hosts a wide range of kiwifruit genomics and genetics datasets based on the latest and…

Hosts a wide range of kiwifruit genomics and genetics datasets based on the latest and most accurate genome annotation. KIR aims to be a comprehensive online platform for users to search, visualize, download, retrieve literature and perform…

KONAGAbase

OMIC_05801

KONAGAbase

A genomic database of the diamondback moth (Plutella xylostella).

A genomic database of the diamondback moth (Plutella xylostella).

Leaf Senescence Database

OMIC_03233

Leaf Senescence Database
LSD

A database of leaf senescence to collect SAGs, mutants, phenotypes and literature…

A database of leaf senescence to collect SAGs, mutants, phenotypes and literature references.

LEGER

OMIC_03196

LEGER

Supports functional Listeria genome analyses by combining information obtained by…

Supports functional Listeria genome analyses by combining information obtained by applying bioinformatics methods and from public databases to improve the original annotations. LEGER offers three unique key features: (i) it is the first…

Legume Information System

OMIC_04490

Legume Information System
LIS

A genomic data portal (GDP) for the legume family. LIS provides access to genetic and…

A genomic data portal (GDP) for the legume family. LIS provides access to genetic and genomic information for major crop and model legumes. With more than two-dozen domesticated legume species, there are numerous specialists working on particular…

LegumeIP

OMIC_04491

LegumeIP

Hosts large-scale genomics and transcriptomics data and provides integrative…

Hosts large-scale genomics and transcriptomics data and provides integrative bioinformatics tools for the study of gene function and evolution in legumes. Our recent updates in LegumeIP 2.0 include gene and protein sequences, gene models and…

MabsBase

OMIC_05109

MabsBase

A user-friendly database providing access to whole-genome sequences of newly discovered…

A user-friendly database providing access to whole-genome sequences of newly discovered M. abscessus strains as well as resources for whole-genome annotations and computational predictions.

MAGIC

OMIC_02206

MAGIC

A maize expression compendium, making use of an integration methodology and a consistent…

A maize expression compendium, making use of an integration methodology and a consistent probe to gene mapping based on the 5b.60 sequence release of Zea mays.

Magnaporthe grisea Database

OMIC_03094

Magnaporthe grisea Database

Performs a comprehensive molecular dissection of the mechanisms regulating early events…

Performs a comprehensive molecular dissection of the mechanisms regulating early events of the host-pathogen recognition process, including the induction of a specialized infection cell, the appressorium, as well as host response genes.

Maize Genetics and Genomics Database

OMIC_01655

Maize Genetics and Genomics Database
MaizeGDB

A highly curated, community-oriented database and informatics service to researchers…

A highly curated, community-oriented database and informatics service to researchers focused on the crop plant and model organism Zea mays ssp. mays. Although some form of the maize community database has existed over the last 25 years, there have…

Metagenomic Proximon

OMIC_09591

Metagenomic Proximon
MetaProx

A searchable repository of proximon objects that can be used to find metagenomic genes,…

A searchable repository of proximon objects that can be used to find metagenomic genes, as well as their predicted functional interactions and corresponding annotations. Proximons represent a special subset of directons (series of contiguous…

MetaMicrobesOnline

OMIC_03197

MetaMicrobesOnline

Offers phylogenetic analysis of genes from microbial genomes and metagenomes.

Offers phylogenetic analysis of genes from microbial genomes and metagenomes.

MicRhoDE

OMIC_09726

MicRhoDE

A comprehensive, high-quality and freely accessible database that facilitates analysis of…

A comprehensive, high-quality and freely accessible database that facilitates analysis of the diversity and evolution of microbial rhodopsins. Rhodopsin sequences isolated from a vast array of marine and terrestrial environments were manually…

MicrobeDB

OMIC_08271

MicrobeDB

Provides centralized local storage and access to completed archaeal and bacterial…

Provides centralized local storage and access to completed archaeal and bacterial genomes. MicrobeDB creates a simple to use, easy to maintain, centralized local resource for various large-scale comparative genomic analyses and a back-end for future…

MicrobesOnline

OMIC_03198

MicrobesOnline

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

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 evolutionary history, MicrobesOnline includes a comparative…

Microbial Database for Activated Sludge

OMIC_09091

Microbial Database for Activated Sludge
MiDAS

Provides a curated taxonomy for abundant and important microorganisms and integrates it…

Provides a curated taxonomy for abundant and important microorganisms and integrates it into a community knowledge web platform about the microbes in activated sludge. The MiDAS taxonomy proposes putative names for each genus-level-taxon that can be…

Microbial genome database for comparative analysis

OMIC_05348

Microbial genome database for comparative analysis
MBGD

A comprehensive ortholog database for flexible comparative analysis of microbial genomes,…

A comprehensive ortholog database for flexible comparative analysis of microbial genomes, where the users are allowed to create an ortholog table among any specified set of organisms. The MyMBGD interface allows the users to upload their own genome…

MicroScope

OMIC_03199

MicroScope

An integrated platform dedicated to both the methodical updating of microbial genome…

An integrated platform dedicated to both the methodical updating of microbial genome annotation and to comparative analysis.

MicrosporidiaDB

OMIC_03153

MicrosporidiaDB

Functional genomic databases serving the microsporidia research communities.

Functional genomic databases serving the microsporidia research communities.

MIPS Neurospora crassa Genome Database

OMIC_03107

MIPS Neurospora crassa Genome Database
MNCDB

Aims to present information on the molecular structure and functional network of the…

Aims to present information on the molecular structure and functional network of the entirely sequenced, filamentous fungus Neurospora crassa.

MIPS Rice (Oryza sativa) DataBase

OMIC_03275

MIPS Rice (Oryza sativa) DataBase
MOsDB

A resource for publicly available sequences of the rice (Oryza sativa L.) genome. MOsDB…

A resource for publicly available sequences of the rice (Oryza sativa L.) genome. MOsDB provides all available data about rice genes and genomics, including (in the future) mutant information and expression profiles. At this moment, the MOsDB…

MoccaDB

OMIC_06477

MoccaDB

An online MySQL-PHP driven relational database that houses annotated and/or mapped…

An online MySQL-PHP driven relational database that houses annotated and/or mapped microsatellite markers in Rubiaceae. MoccaDB will be extremely useful for all researchers working in the areas of comparative and functional genomics and molecular…

modENCODE

OMIC_03816

modENCODE

The goal of the project is to provide the biological research community with a…

The goal of the project is to provide the biological research community with a comprehensive encyclopedia of genomic functional elements in the model organisms C. elegans and D. melanogaster.

modMine

OMIC_03817

modMine

An integrated web resource of data & tools to browse and search modENCODE data and…

An integrated web resource of data & tools to browse and search modENCODE data and experimental details, download results and access the GBrowse genome browser.

MolliGen

OMIC_03200

MolliGen

A database dedicated to the comparative genomics of bacteria belonging to the class…

A database dedicated to the comparative genomics of bacteria belonging to the class Mollicutes.

MonarchBase

OMIC_05844

MonarchBase

An integrated database for the eastern North American monarch butterfly (Danaus…

An integrated database for the eastern North American monarch butterfly (Danaus plexippus). MonarchBase provides access to a wide-range of genomic, proteomic, and related biological information. Moreover, MonarchBase provides access to an updated…

Morus genome database

OMIC_04696

Morus genome database
MorusDB

Provides important genomic resources for scientists working with mulberry and other…

Provides important genomic resources for scientists working with mulberry and other Moraceae species, which include many important fruit crops.

Mouse Genome Database

OMIC_01656

Mouse Genome Database
MGD

Serves the international biomedical research community as the central resource for…

Serves the international biomedical research community as the central resource for integrated genomic, genetic and biological data on the laboratory mouse. To facilitate use of mouse as a model in translational studies, MGD maintains a core of…

MouseMine

OMIC_03812

MouseMine

Provides integrated mouse data from MGI, via the uniquely powerful InterMine framework.

Provides integrated mouse data from MGI, via the uniquely powerful InterMine framework.

MvirDB

OMIC_03201

MvirDB

Integrates DNA and protein sequence information from Tox-Prot, SCORPION, the PRINTS…

Integrates DNA and protein sequence information from Tox-Prot, SCORPION, the PRINTS virulence factors, VFDB, TVFac, Islander, ARGO and a subset of VIDA.

MycoCosm

OMIC_01657

MycoCosm

Developed by the US Department of Energy Joint Genome Institute to support integration,…

Developed by the US Department of Energy Joint Genome Institute to support integration, analysis and dissemination of fungal genome sequences and other ‘omics’ data by providing interactive web-based tools.

MycoDB

OMIC_03555

MycoDB

A genome resource for the Mycobacteria research community.

A genome resource for the Mycobacteria research community.

MyMpn

OMIC_06221

MyMpn

An online resource devoted to studying the human pathogen Mycoplasma pneumoniae, a…

An online resource devoted to studying the human pathogen Mycoplasma pneumoniae, a minimal bacterium causing lower respiratory tract infections. MyMpn hosts a wealth of omics-scale datasets generated by hundreds of experimental and computational…

NasoniaBase

OMIC_10876

NasoniaBase

An informatics data repository for the Nasonia Species Complex Genome Projects.…

An informatics data repository for the Nasonia Species Complex Genome Projects. NasoniaBase provides a graphical interface to the assembly of the Nasonia vitripennis genome.

NCBI Genome

OMIC_05336

NCBI Genome

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

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

Nematode.net

OMIC_02754

Nematode.net

Disseminates diverse bioinformatic data sets and provide analysis tools to the broad…

Disseminates diverse bioinformatic data sets and provide analysis tools to the broad scientific community in a useful and user-friendly manner. Next-generation data has been added to the various data-mining portals hosted, including NemaBLAST and…

nematoStella genomics dataBase

OMIC_03143

nematoStella genomics dataBase
StellaBase

A resource to support the Nematostella research community.

A resource to support the Nematostella research community.

nextflu

OMIC_09372

nextflu

A processing pipeline and browser-based visualization that allows convenient exploration…

A processing pipeline and browser-based visualization that allows convenient exploration and analysis of the most recent influenza virus sequence data. nextflu displays a phylogenetic tree that can be decorated with additional information such as…

NONATObase

OMIC_03288

NONATObase

A free and open access database on Polychaeta that includes species and samples occurring…

A free and open access database on Polychaeta that includes species and samples occurring in the western south Atlantic.

OpenFlu database

OMIC_04511

OpenFlu database
OpenfluDB

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

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

OryGenesDB

OMIC_04476

OryGenesDB

A database developed for rice reverse genetics.

A database developed for rice reverse genetics.

Oryza Tag Line

OMIC_03272

Oryza Tag Line
OTL

Facilitates forward genetic search for specific phenotypes, putatively resulting from…

Facilitates forward genetic search for specific phenotypes, putatively resulting from gene disruption, and/or for GUSA or GFP reporter gene expression patterns, reflecting ET-mediated endogenous gene detection.

Oryzabase

OMIC_03278

Oryzabase

Creates a comprehensive view of rice (Oryza sativa) as a model monocot plant by…

Creates a comprehensive view of rice (Oryza sativa) as a model monocot plant by integrating biological data with molecular genomic information.

Panzea

OMIC_03293

Panzea

The public web site of the Molecular and Functional Diversity in the Maize Genome…

The public web site of the Molecular and Functional Diversity in the Maize Genome project. Panzea provides access to the genotype, phenotype and polymorphism data produced by the project through user-friendly web-based database searches and data…

PapillomaVirus Episteme

OMIC_03079

PapillomaVirus Episteme
PaVE

Provides highly organized and curated papillomavirus genomics information and tools to…

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

PAthogenicity Island DataBase

OMIC_03204

PAthogenicity Island DataBase
PAIDB

A comprehensive relational database of all the reported pathogenicity islands (PAIs) and…

A comprehensive relational database of all the reported pathogenicity islands (PAIs) and potential PAI regions which were predicted by a method that combines feature-based analysis and similarity-based analysis. PAIDB v2.0 contains 223 types of PAIs…

PathoPlant

OMIC_03238

PathoPlant

A database on plant-pathogen interactions and components of signal transduction pathways…

A database on plant-pathogen interactions and components of signal transduction pathways related to plant pathogenesis.

Pathosystems Resource Integration Center

OMIC_01658

Pathosystems Resource Integration Center
PATRIC

A genomics-centric relational database and bioinformatics resource designed to assist…

A genomics-centric relational database and bioinformatics resource designed to assist scientists in infectious-disease research. PATRIC provides researchers with an online resource that stores and integrates a variety of data types [e.g. genomics,…

PCOSKB

OMIC_10748

PCOSKB

A manually curated knowledgebase on polycystic ovary syndrome (PCOS). PCOS-related…

A manually curated knowledgebase on polycystic ovary syndrome (PCOS). PCOS-related information available through scientific literature is cross-linked with molecular, biochemical and clinical databases. Information on associated genes, SNPs,…

PhamDB

OMIC_11317

PhamDB

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

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 workflow. Key features include a graphical user…

PhenoM

OMIC_03109

PhenoM

Allows users to rapidly search and retrieve raw images and their quantified morphological…

Allows users to rapidly search and retrieve raw images and their quantified morphological data for genes of interest.

phiSITE

OMIC_03081

phiSITE

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

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

Phylogenetic exploration of Viruses Evolutionary…

OMIC_03080

Phylogenetic exploration of Viruses Evolutionary Relationships
PhEVER

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

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 from up-to-date completely sequenced genomes (2426…

PhytoPath

OMIC_10268

PhytoPath

A resource for genomic and phenotypic data from plant pathogen species, that integrates…

A resource for genomic and phenotypic data from plant pathogen species, that integrates phenotypic data for genes from PHI-base, an expertly curated catalog of genes with experimentally verified pathogenicity, with the Ensembl tools for data…

Phytozome

OMIC_03242

Phytozome

A comparative hub for plant genome and gene family data and analysis. Phytozome provides…

A comparative hub for plant genome and gene family data and analysis. Phytozome provides a view of the evolutionary history of every plant gene at the level of sequence, gene structure, gene family and genome organization, while at the same time…

pico-PLAZA

OMIC_03163

pico-PLAZA

A web-based resource for algal genomics that combines different data types with intuitive…

A web-based resource for algal genomics that combines different data types with intuitive tools to explore genomic diversity, perform integrative evolutionary sequence analysis and study gene functions.

PiroplasmaDB

OMIC_06546

PiroplasmaDB

A genome database for the genus Piroplasma. PiroplasmaDB is a member of…

A genome database for the genus Piroplasma. PiroplasmaDB is a member of pathogen-databases that are housed under the NIAID-funded EuPathDB Bioinformatics Resource Center (BRC) umbrella.

PlanMine

OMIC_10766

PlanMine

Aims to provide an easily accessible and minable repository of general planarian sequence…

Aims to provide an easily accessible and minable repository of general planarian sequence data. Our dual mission objective is to first, provide opportunities for comparing and mining planarian transcriptomes and RNA-Seq data sets created across the…

Plant DNA C-values Database

OMIC_03244

Plant DNA C-values Database

Provides information on nuclear DNA contents across land plants and some algal groups.

Provides information on nuclear DNA contents across land plants and some algal groups.

Plant Genome and Systems Biology PlantsDB

OMIC_03234

Plant Genome and Systems Biology PlantsDB
PGSB PlantsDB

A database framework for the comparative analysis and visualization of plant genome data.…

A database framework for the comparative analysis and visualization of plant genome data. PGSB PlantsDB has been updated with new data sets and types as well as specialized tools and interfaces to address user demands for intuitive access to complex…

Plant Genome Duplication Database

OMIC_03239

Plant Genome Duplication Database
PGDD

A public database to identify and catalog plant genes in terms of intragenome or…

A public database to identify and catalog plant genes in terms of intragenome or cross-genome syntenic relationships.

Plant Genomes Central

OMIC_03245

Plant Genomes Central
PGC

Provides access to data from large-scale sequencing projects, genetic maps, and…

Provides access to data from large-scale sequencing projects, genetic maps, and large-scale EST sequencing projects. PGC has three purposes. First, it integrates all of the genetic maps for each plant species genome with observed sequence…

Plant Ontology

OMIC_03247

Plant Ontology
PO

A controlled vocabulary (ontology) that describes plant anatomy and morphology and stages…

A controlled vocabulary (ontology) that describes plant anatomy and morphology and stages of development for all plants.

Plant Resistance Genes database

OMIC_03257

Plant Resistance Genes database
PRGdb

A comprehensive resource on resistance genes (R-genes), a major class of genes in plant…

A comprehensive resource on resistance genes (R-genes), a major class of genes in plant genomes that convey disease resistance against pathogens.

PlantGDB

OMIC_04420

PlantGDB

A genomics database encompassing sequence data for green plants (Viridiplantae).

A genomics database encompassing sequence data for green plants (Viridiplantae).

PlantTribes

OMIC_03255

PlantTribes

A plant gene family database based on the inferred proteomes of five sequenced plant…

A plant gene family database based on the inferred proteomes of five sequenced plant species: Arabidopsis thaliana, Carica papaya, Medicago truncatula, Oryza sativa and Populus trichocarpa.

PlasmoDB

OMIC_02765

PlasmoDB

A genome database for the genus Plasmodium, a set of single-celled eukaryotic pathogens…

A genome database for the genus Plasmodium, a set of single-celled eukaryotic pathogens that cause human and animal diseases, including malaria.

Plasmodium Genetic Modification

OMIC_07544

Plasmodium Genetic Modification
PlasmoGEM

Platform of Functional genomics analysis in…

OMIC_08509

Platform of Functional genomics analysis in Gossypium raimondii
GraP

Provides an integration, multi-dimensional analysis and visualization platform for cotton…

Provides an integration, multi-dimensional analysis and visualization platform for cotton functional genomics research. GraP includes updated functional annotation, gene family classifications, protein–protein interaction networks, co-expression…

PolyTB

OMIC_04915

PolyTB

A web-based resource designed to explore Mycobacterium tuberculosis complex (MTBC)…

A web-based resource designed to explore Mycobacterium tuberculosis complex (MTBC) genomic variation at a global scale.

PomBase

OMIC_06183

PomBase

It is the model organism database for the fission yeast Schizosaccharomyces pombe.…

It is the model organism database for the fission yeast Schizosaccharomyces pombe. PomBase provides a central hub for the fission yeast community, supporting both exploratory and hypothesis-driven research. PomBase provides users easy access to data…

PortEco

OMIC_03205

PortEco

A next-generation data resource for the bacterial model organism, Escherichia coli.

A next-generation data resource for the bacterial model organism, Escherichia coli.

Poxvirus Bioinformatics Resource Center

OMIC_03082

Poxvirus Bioinformatics Resource Center
PBRC

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

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.

PPNEMA

OMIC_03134

PPNEMA

A Resource of Plant-Parasitic Nematodes Multialigned Ribosomal Cistrons.

A Resource of Plant-Parasitic Nematodes Multialigned Ribosomal Cistrons.

PrionHome

OMIC_05791

PrionHome

This is a sequence database that keeps track of the ever-expanding universe of prions and…

This is a sequence database that keeps track of the ever-expanding universe of prions and prion-like phenomena, and their families of related sequences.

PrionScan

OMIC_05792

PrionScan

An online database of predicted prion domains in complete proteomes.

An online database of predicted prion domains in complete proteomes.

Pristionchus.org

OMIC_03135

Pristionchus.org

Offers diverse content covering genome browsing, genetic and physical maps, similarity…

Offers diverse content covering genome browsing, genetic and physical maps, similarity searches, a community platform and assembly details. Content will be continuously improved and will be an indispensable resource for P.pacificus genomics.

PromEC

OMIC_03206

PromEC

An updated database of E. coli mRNA promoters with experimentally identified…

An updated database of E. coli mRNA promoters with experimentally identified transcriptional start sites.

PROPHECY

OMIC_03110

PROPHECY

Provides quantitative information about phenotypes for the complete collection of…

Provides quantitative information about phenotypes for the complete collection of deletion strains in yeast (Saccharomyces cerevisiae).

ProPortal

OMIC_03208

ProPortal

A database containing genomic, metagenomic, transcriptomic and field data for the marine…

A database containing genomic, metagenomic, transcriptomic and field data for the marine cyanobacterium Prochlorococcus.

Protist Ribosomal reference database

OMIC_03164

Protist Ribosomal reference database
PR2 Database

Provides a unique access to eukaryotic small sub-unit (SSU) ribosomal RNA and DNA…

Provides a unique access to eukaryotic small sub-unit (SSU) ribosomal RNA and DNA sequences, with curated taxonomy.

Protozoa DataBase

OMIC_03165

Protozoa DataBase
ProtozoaDB

An integrated, user-friendly and flexible platform that contains the several protozoa…

An integrated, user-friendly and flexible platform that contains the several protozoa genomes.

Pseudomonas Genome Database

OMIC_03209

Pseudomonas Genome Database

Collaborates with an international panel of expert Pseudomonas researchers to provide…

Collaborates with an international panel of expert Pseudomonas researchers to provide high quality updates to the PAO1 genome annotation and make cutting edge genome analysis data available. The Pseudomonas Genome Database integrates…

RadishBase

OMIC_06119

RadishBase

A genomics and genetics database of radish. RadishBase contains radish mitochondrial…

A genomics and genetics database of radish. RadishBase contains radish mitochondrial genome sequences, expressed sequence tag (EST) and unigene sequences and annotations, biochemical pathways, EST-derived single nucleotide polymorphism (SNP) and…

Rat Genome Database

OMIC_01660

Rat Genome Database
RGD

Provides the most comprehensive data repository and informatics platform related to the…

Provides the most comprehensive data repository and informatics platform related to the laboratory rat, one of the most important model organisms for disease studies. Rat Genome Database (RGD) maintains and updates datasets for genomic elements such…

RatMine

OMIC_03813

RatMine

Integrates many types of data for Rattus Norvegicus, Homo Sapiens, Mus Musculus and other…

Integrates many types of data for Rattus Norvegicus, Homo Sapiens, Mus Musculus and other organisms.

ReCGiP

OMIC_08072

ReCGiP

A database providing candidate genes for reproductive researches in pig by mining and…

A database providing candidate genes for reproductive researches in pig by mining and processing existing biological literatures in human and pigs. Based on text-mining and comparative genomics, ReCGiP presents diverse information of…

Reference Sequence

OMIC_01659

Reference Sequence
RefSeq

RegTransBase

OMIC_03210

RegTransBase

Consists of two modules – a database of regulatory interactions based on literature and…

Consists of two modules – a database of regulatory interactions based on literature and an expertly curated database of transcription factor binding sites. This literature based information in RegTransBase is a manually curated database of…

RhizoBase

OMIC_03181

RhizoBase

A genome database for rhizobia, nitrogen-fixing bacteria associated with leguminous…

A genome database for rhizobia, nitrogen-fixing bacteria associated with leguminous plants.

RhizoDB

OMIC_03556

RhizoDB

A genome resource for the Rhizobia research community.

A genome resource for the Rhizobia research community.

Rice Annotation Project Database

OMIC_04479

Rice Annotation Project Database
RAP-DB

A comprehensive set of gene annotations for the genome sequence of rice, Oryza sativa…

A comprehensive set of gene annotations for the genome sequence of rice, Oryza sativa (japonica group) cv. Nipponbare.

Rice Genome Automated Annotation System

OMIC_03283

Rice Genome Automated Annotation System
RiceGAAS

A rice genome automated annotation system. RiceGAAS has the following functional…

A rice genome automated annotation system. RiceGAAS has the following functional features: (i) collection of rice genome sequences from GenBank; (ii) execution of gene prediction and homology search programs; (iii) integration of results from…

RiceGeneThresher

OMIC_02773

RiceGeneThresher

A public online resource for mining genes underlying genome regions of interest or…

A public online resource for mining genes underlying genome regions of interest or quantitative trait loci (QTL) in rice genome.

RNA virus database

OMIC_03083

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.

rrnDB

OMIC_03212

rrnDB

A searchable database documenting variation in ribosomal RNA operons in Bacteria and…

A searchable database documenting variation in ribosomal RNA operons in Bacteria and Archaea. The redesigned rrnDB brings a substantial increase in the number of genomes described, improved curation, mapping of genomes to both NCBI and RDP…

RsGDB

OMIC_03213

RsGDB

Provides public access to the collected genomic information for R.sphaeroides. The…

Provides public access to the collected genomic information for R.sphaeroides. The database allows the user access to hundreds of low redundancy R.sphaeroides sequences for further database searching, a summary of our current search results, and…

RSIADB

OMIC_11410

RSIADB

A collective resource for rice sheath blight pathogen, Rhizoctonia solani AG1 IA genome…

A collective resource for rice sheath blight pathogen, Rhizoctonia solani AG1 IA genome and transcritome. RSIADB enables users to search, browse, and download gene sequences for R. solani AG1 IA, and mine the data using BLAST, sequence extractor,…

Saccharomyces Cerevisiae Morphological Database

OMIC_03111

Saccharomyces Cerevisiae Morphological Database
SCMD

A collection of micrographs of budding yeast mutants.

A collection of micrographs of budding yeast mutants.

Saccharomyces Genome Database

OMIC_01661

Saccharomyces Genome Database
SGD

Provides comprehensive integrated biological information for the budding yeast…

Provides comprehensive integrated biological information for the budding yeast Saccharomyces cerevisiae along with search and analysis tools to explore these data, enabling the discovery of functional relationships between sequence and gene products…

Salinity Tolerant Poplar Database

OMIC_07740

Salinity Tolerant Poplar Database
STPD

An integrative database for salt-tolerant poplar genome biology. Currently the STPD…

An integrative database for salt-tolerant poplar genome biology. Currently the STPD contains Populus euphratica genome and its related genetic resources. P. euphratica, with a preference of the salty habitats, has become a valuable genetic resource…

SchistoDB

OMIC_03137

SchistoDB

Provides a rich resource of genomic data for key blood flukes (genus Schistosoma) which…

Provides a rich resource of genomic data for key blood flukes (genus Schistosoma) which cause disease in hundreds of millions of people worldwide.

Schmidtea mediterranea Genome Database

OMIC_03141

Schmidtea mediterranea Genome Database
SmedGD

Integrates in a single web-accessible portal all available data associated with the…

Integrates in a single web-accessible portal all available data associated with the planarian genome, including predicted and annotated genes, ESTs, protein homologies, gene expression patterns and RNAi phenotypes.

Shanghai RAPESEED Database

OMIC_04495

Shanghai RAPESEED Database

Provides the solid platform for functional genomics studies of oilseed crops with the…

Provides the solid platform for functional genomics studies of oilseed crops with the emphasis on seed development and fatty acid metabolism. The RAPESEED includes the resource of 8462 unique ESTs, of which 3526 clones are with full length cDNA; the…

ShiBASE

OMIC_03169

ShiBASE

It focuses on the comparative genomics of Shigella and provides a way to summarize large…

It focuses on the comparative genomics of Shigella and provides a way to summarize large volumes of genomic and comparison data in a visually intuitive format.

SilkDB

OMIC_03139

SilkDB

An open-access database for genome biology of the silkworm (Bombyx mori).

An open-access database for genome biology of the silkworm (Bombyx mori).

SilkSatDb

OMIC_03140

SilkSatDb

An interactive online relational database that catalogs information about the…

An interactive online relational database that catalogs information about the microsatellite repeats of the silkworm, Bombyx mori.

SOL Genomics Network

OMIC_02776

SOL Genomics Network
SGN

A Clade Oriented Database (COD) containing genomic, genetic, phenotypic and taxonomic…

A Clade Oriented Database (COD) containing genomic, genetic, phenotypic and taxonomic information for plant genomes.

SoyBase

OMIC_02778

SoyBase

A comprehensive repository for professionally curated genetics, genomics and related data…

A comprehensive repository for professionally curated genetics, genomics and related data resources for soybean.

Soybean Functional Genomics Database

OMIC_03610

Soybean Functional Genomics Database
SFGD

A comprehensive database integrating genome and transcriptome data, and also for soybean…

A comprehensive database integrating genome and transcriptome data, and also for soybean acyl-lipid metabolism pathways. SFGD provides useful toolboxes for biologists to improve the accuracy and robustness of soybean functional genomics analysis,…

Soybean Genome and Microarray Database

OMIC_04494

Soybean Genome and Microarray Database
SGMD

Attempts to provide an integrated view of the interaction of soybean with the soybean…

Attempts to provide an integrated view of the interaction of soybean with the soybean cyst nematode and contains genomic, EST and microarray data with embedded analytical tools.

Soybean Genome Database

OMIC_03296

Soybean Genome Database
SoyGD

Combines Perl MySQL database programming with Gbrowse to provide an integrated way of…

Combines Perl MySQL database programming with Gbrowse to provide an integrated way of presenting soybean genomic features.

Soybean Knowledge Base

OMIC_03297

Soybean Knowledge Base
SoyKB

A comprehensive web resource developed for bridging soybean translational genomics and…

A comprehensive web resource developed for bridging soybean translational genomics and molecular breeding research. It provides information for six entities including genes/proteins, microRNAs/sRNAs, metabolites, single nucleotide polymorphisms,…

SPODOBASE

OMIC_03142

SPODOBASE

An integrated database for the genomics of the Lepidoptera Spodoptera frugiperda.

An integrated database for the genomics of the Lepidoptera Spodoptera frugiperda.

SporeWeb

OMIC_03216

SporeWeb

Serves as an interactive knowledge platform about the sporulation cycle of Bacillus…

Serves as an interactive knowledge platform about the sporulation cycle of Bacillus subtilis.

Standard European Vector Architecture

OMIC_03215

Standard European Vector Architecture
SEVA

A web-based resource and a material clone repository to assist the choice of optimal…

A web-based resource and a material clone repository to assist the choice of optimal plasmid vectors for de-constructing and re-constructing complex prokaryotic phenotypes. The SEVA-DB adopts simple design concepts that facilitate the swapping of…

StaphyloBase

OMIC_04496

StaphyloBase

Developed with the goal of having a one-stop genomic resource platform for the scientific…

Developed with the goal of having a one-stop genomic resource platform for the scientific community to access, retrieve, download, browse, search, visualize and analyse the staphylococcal genomic data and annotations.

Strepto-DB

OMIC_03217

Strepto-DB

A database for comparative genomics of group A and group B streptococci.

A database for comparative genomics of group A and group B streptococci.

Streptococcus pneumoniae Genome Database

OMIC_10592

Streptococcus pneumoniae Genome Database
SPGDB

Integrates and analyzes the completely sequenced and available S. pneumoniae genome…

Integrates and analyzes the completely sequenced and available S. pneumoniae genome sequences. Further, links to several tools are provided to compare the pool of gene and protein sequences, and proteins structure across different strains of S.…

Subviral RNA Database

OMIC_03084

Subviral RNA Database

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

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.

SymbioGenomesDB

OMIC_10778

SymbioGenomesDB

Consists of a community database resource for laboratories which aim to research and…

Consists of a community database resource for laboratories which aim to research and gather information of the genetics and the genomic systems involved in symbiosis, regardless of its biotic interaction as commensal, mutualist or pathogen. The aim…

TADB

OMIC_03219

TADB

A web-based resource for Type 2 toxin-antitoxin loci in Bacteria and Archaea.

A web-based resource for Type 2 toxin-antitoxin loci in Bacteria and Archaea.

Taxonomically Broad EST DataBase

OMIC_03166

Taxonomically Broad EST DataBase
TBestDB

Serves as a repository for EST data from a wide range of eukaryotes, many of which have…

Serves as a repository for EST data from a wide range of eukaryotes, many of which have previously not been thoroughly investigated.

Tetrahymena Genome Database

OMIC_03167

Tetrahymena Genome Database
TGD

A user-updatable database of information about the Tetrahymena thermophila genome…

A user-updatable database of information about the Tetrahymena thermophila genome sequence determined at The Institute for Genomic Research (TIGR).

The Adaptive Evolution Database

OMIC_03258

The Adaptive Evolution Database
TAED

Provides a resource for bioinformaticists interested in data mining and for experimental…

Provides a resource for bioinformaticists interested in data mining and for experimental evolutionists seeking candidate examples of adaptive evolution for further experimental study.

The Arabidopsis Information Resource

OMIC_01662

The Arabidopsis Information Resource
TAIR

Maintains a database of genetic and molecular biology data for the model higher plant…

Maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. Data available from TAIR includes the complete genome sequence along with gene structure, gene product information, gene expression, DNA and…

The Diatom EST database

OMIC_03157

The Diatom EST database

Provides integrated access to expressed sequence tag (EST) data from two eukaryotic…

Provides integrated access to expressed sequence tag (EST) data from two eukaryotic microalgae of the class Bacillariophyceae, Phaeodactylum tricornutum and Thalassiosira pseudonana.

The L. monocytogenes 10403S BioCyc database

OMIC_07893

The L. monocytogenes 10403S BioCyc database

A resource for researchers studying Listeria and related organisms. The L. monocytogenes…

A resource for researchers studying Listeria and related organisms. The L. monocytogenes 10403S BioCyc database allows users to (i) have a comprehensive view of all reactions and pathways predicted to take place within the cell in the cellular…

The Sulfolobus database

OMIC_03218

The Sulfolobus database

This database contains the three sequenced Sulfolobus genomes.

This database contains the three sequenced Sulfolobus genomes.

The Zebrafish Model Organism Database

OMIC_01666

The Zebrafish Model Organism Database
ZFIN

The central resource for zebrafish genetic, genomic, phenotypic and developmental data.

The central resource for zebrafish genetic, genomic, phenotypic and developmental data.

TIGR Maize Database

OMIC_04499

TIGR Maize Database

A repository of publicly available maize genomic sequences.

A repository of publicly available maize genomic sequences.

ToxoDB

OMIC_03168

ToxoDB

A genome and functional genomic database for the protozoan parasite Toxoplasma gondii.

A genome and functional genomic database for the protozoan parasite Toxoplasma gondii.

Trematode.net

OMIC_06354

Trematode.net

A site dedicated to the dissemination of data from flukes, flatworm parasites of the…

A site dedicated to the dissemination of data from flukes, flatworm parasites of the class Trematoda, phylum Platyhelminthes. Trematode.net is an independent component of Helminth.net and currently hosts data from 16 species, with information…

TrichDB

OMIC_03162

TrichDB

House the genome databases for Trichomonas vaginalis.

House the genome databases for Trichomonas vaginalis.

TriTrypDB

OMIC_03144

TriTrypDB

An integrated database providing access to genome-scale datasets for kinetoplastid…

An integrated database providing access to genome-scale datasets for kinetoplastid parasites, and supporting a variety of complex queries driven by research and development needs.

TropGeneDB

OMIC_03259

TropGeneDB

A database that manages genomic, genetic and phenotypic information about tropical crops.

A database that manages genomic, genetic and phenotypic information about tropical crops.

TuBerculosis DataBase

OMIC_03220

TuBerculosis DataBase
TBDB

An online database providing integrated access to genome sequence, expression data and…

An online database providing integrated access to genome sequence, expression data and literature curation for tuberculosis (TB). TBDB currently houses genome assemblies for numerous strains of Mycobacterium tuberculosis (MTB) as well assemblies for…

Type-III-Secretion-System related database

OMIC_05160

Type-III-Secretion-System related database
T3DB

Aimed to annotate all bacterial T3SS related structure, effector, regulator, and…

Aimed to annotate all bacterial T3SS related structure, effector, regulator, and auxiliary genes.

UCSC Archaeal Genome Browser

OMIC_03221

UCSC Archaeal Genome Browser

Offers a graphical web-based resource for exploration and discovery within archaeal and…

Offers a graphical web-based resource for exploration and discovery within archaeal and other selected microbial genomes.

UTRome.org

OMIC_03145

UTRome.org

An open-access database to provide a rich and comprehensive resource for 3’UTR…

An open-access database to provide a rich and comprehensive resource for 3’UTR biology in the well-characterized, experimentally tractable model system Caenorhabditis elegans.

VectorBase

OMIC_03146

VectorBase

A National Institute of Allergy and Infectious Diseases supported Bioinformatics Resource…

A National Institute of Allergy and Infectious Diseases supported Bioinformatics Resource Center (BRC) for invertebrate vectors of human pathogens. VectorBase currently hosts the genomes of 35 organisms including a number of non-vectors for…

VibrioBase

OMIC_08070

VibrioBase

A useful resource platform, providing all basic features of a sequence database with the…

A useful resource platform, providing all basic features of a sequence database with the addition of unique analysis tools which could be valuable for the Vibrio research community. VibrioBase currently houses a total of 252 Vibrio genomes developed…

VIDA

OMIC_03085

VIDA

Contains a collection of homologous protein families derived from open reading frames…

Contains a collection of homologous protein families derived from open reading frames from complete and partial virus genomes.

VIPERdb

OMIC_03086

VIPERdb

A database for icosahedral virus capsid structures.

A database for icosahedral virus capsid structures.

Viral Bioinformatics Resource Center

OMIC_03088

Viral Bioinformatics Resource Center
VBRC

Provides bioinformatics resources to support scientific research directed at viruses…

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

Viral Genomes

OMIC_03078

Viral Genomes

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

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 reference genome sequences.

ViralORFeome

OMIC_03089

ViralORFeome

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

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 navigate through virus genome sequences, to design…

ViralZone

OMIC_03090

ViralZone

A knowledge repository that allows users to learn about viruses including their virion…

A knowledge repository that allows users to learn about viruses including their virion structure, replication cycle and host-virus interactions.

Virulence Factor DataBase

OMIC_04498

Virulence Factor DataBase
VFDB

Provides up-to-date knowledge of virulence factors (VFs) of various bacterial pathogens.…

Provides up-to-date knowledge of virulence factors (VFs) of various bacterial pathogens. We recently improved two aspects of the infrastructural dataset of VFDB: (i) removed the redundancy introduced by previous releases and generated two…

Virus Pathogen database and analysis Resource

OMIC_03087

Virus Pathogen database and analysis Resource
ViPR

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

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) program.

Virus Variation Resource

OMIC_03091

Virus Variation Resource

A comprehensive, web-based resource designed to support the retrieval and display of…

A comprehensive, web-based resource designed to support the retrieval and display of large virus sequence datasets.

wFleaBase

OMIC_03148

wFleaBase

This web service provides gene and genomic information for species of the genus Daphnia -…

This web service provides gene and genomic information for species of the genus Daphnia – commonly known as the water flea.

WheatGenome.info

OMIC_09706

WheatGenome.info

An integrated database resource which includes multiple web-based applications. These…

An integrated database resource which includes multiple web-based applications. These include a GBrowse2-based wheat genome viewer with BLAST search portal, TAGdb for searching wheat second-generation genome sequence data, wheat autoSNPdb, links to…

Worm Developmental Dynamics Database

OMIC_03147

Worm Developmental Dynamics Database
WDDD

Stores a collection of quantitative information about cell division dynamics in early…

Stores a collection of quantitative information about cell division dynamics in early Caenorhabditis elegans embryos with single genes silenced by RNA-mediated interference.

Worm ORFeome DataBase

OMIC_03149

Worm ORFeome DataBase
WorfDB

Serves as a central data repository enabling the scientific community to search for…

Serves as a central data repository enabling the scientific community to search for availability and quality of cloned ORFs.

WormBase

OMIC_01664

WormBase

A central repository for research data on the biology, genetics and genomics of…

A central repository for research data on the biology, genetics and genomics of Caenorhabditis elegans and other nematodes. The project has evolved from its original remit to collect and integrate all data for a single species, and now extends to…

WormBook

OMIC_03150

WormBook

A comprehensive, open-access collection of original, peer-reviewed chapters covering…

A comprehensive, open-access collection of original, peer-reviewed chapters covering topics related to the biology of Caenorhabditis elegans and other nematodes.

WormQTL

OMIC_03151

WormQTL

Public archive and analysis web portal for natural variation data in Caenorhabditis spp.

Public archive and analysis web portal for natural variation data in Caenorhabditis spp.

xBASE

OMIC_04223

xBASE

A genome database aimed at helping laboratory-based bacteriologists make best use of…

A genome database aimed at helping laboratory-based bacteriologists make best use of bacterial genome sequence data, with a particular emphasis on comparative genomics. xBASE provides comprehensive coverage of all bacterial genomes and features an…

Xenbase

OMIC_01665

Xenbase

A model organism database that provides genomic, molecular, cellular and developmental…

A model organism database that provides genomic, molecular, cellular and developmental biology content to biomedical researchers working with the frog, Xenopus and Xenopus data to workers using other model organisms.

Yeast Gene Order Browser

OMIC_03114

Yeast Gene Order Browser
YGOB

Facilitate visual comparisons and computational analysis of synteny relationships in…

Facilitate visual comparisons and computational analysis of synteny relationships in yeasts.

Yeast Resource Center Public Data Repository

OMIC_03113

Yeast Resource Center Public Data Repository
YRC PDR

Serves as a single point of access for the experimental data produced from many…

Serves as a single point of access for the experimental data produced from many collaborations typically studying Saccharomyces cerevisiae (baker’s yeast).

YeastMine

OMIC_03814

YeastMine

A multifaceted search and retrieval environment that provides access to diverse data…

A multifaceted search and retrieval environment that provides access to diverse data types.

Yersinia database

OMIC_07482

Yersinia database
YersiniaBase

A genome and annotation database for Yersinia spp., a rod-shaped, Gram-negative and…

A genome and annotation database for Yersinia spp., a rod-shaped, Gram-negative and facultative anaerobe. YersiniaBase offers free access to wide range of genomic data and analysis tools for the analysis of Yersinia.