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Protist genome databases | Annotation

The modern definition of the term ‘protist’ refers to unicellular eukaryotes that are either free-living or parasitic, sometimes forming colonies, but without clear differentiation into tissues. This includes all eukaryotes other than…
GenBank
Dataset

GenBank

A comprehensive database that contains publicly available nucleotide sequences…

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

Ensembl
Dataset

Ensembl

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

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…

EuMicrobedbLite
Dataset

EuMicrobedbLite

A light weight comprehensive genome resource and sequence analysis platform for…

A light weight comprehensive genome resource and sequence analysis platform for oomycete organisms. EuMicrobedbLite is a successor of the VBI Microbial Database (VMD) that was built using the Genome…

Global Ocean…
Dataset

Global Ocean Microbiome

Provides global biodiversity resources for larger organismal size spectra.…

Provides global biodiversity resources for larger organismal size spectra. Global Ocean Microbiome is a gene catalogue and analysis of ocean microbes in their environmental context across three depth…

RefSeq
Dataset

RefSeq Reference Sequence

Maintains and curates a publicly available database of annotated genomic,…

Maintains and curates a publicly available database of annotated genomic, transcript, and protein sequence records. The RefSeq project leverages the data submitted to the International Nucleotide…

Gene
Dataset

Gene

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

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

EuPathDB
Dataset

EuPathDB

Allows users to search eukaryotic pathogens. EuPathDB includes visualization…

Allows users to search eukaryotic pathogens. EuPathDB includes visualization and analysis tools to better understand data mining. It assists users to discover meaningful biological relationships. It…

Guillardia…
Dataset

Guillardia theta

A database offering assembly and gene annotation of Guillardia theta, a…

A database offering assembly and gene annotation of Guillardia theta, a cryptomonad alga. It is an example of a cell-within-a-cell, being composed of a flagellate host cell, complete with…

Phytozome
Dataset

Phytozome

Provides a centralized hub for plant genome and gene family data and analysis.…

Provides a centralized hub for plant genome and gene family data and analysis. Phytozome is a comparative hub which provides a view of the evolutionary history of every plant gene at the level of…

DictyBase
Dataset

DictyBase

Provides information about the model organism of the social amoeba…

Provides information about the model organism of the social amoeba Dictyostelium discoideum. Dictybase contains the complete genome sequence and expression data for the organism. It offers an…

ParameciumDB
Dataset

ParameciumDB

Provides data about the model organism Paramecium tetraurelia. ParameciumDB was…

Provides data about the model organism Paramecium tetraurelia. ParameciumDB was created by using components of the Generic Model Organism Database (GMOD). It offers data about gene expression data…

TrichDB
Dataset

TrichDB

Genome databases for Trichomonas vaginalis. Genomic-scale data available via…

Genome databases for Trichomonas vaginalis. Genomic-scale data available via TrichDB may be queried based on BLAST searches, annotation keywords and gene ID searches, GO terms, sequence motifs and…

proGenomes
Dataset

proGenomes

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

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

Ensembl Genomes
Dataset

Ensembl Genomes

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

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

MicrobesOnline
Dataset

MicrobesOnline

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

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

TriTrypDB
Dataset

TriTrypDB

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

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.

ToxoDB
Dataset

ToxoDB

A genome and functional genomic database for the protozoan parasite Toxoplasma…

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

JGI
Web

JGI Joint Genome Institute

Provides unified access to all Joint Genome Institute (JGI) genomic databases…

Provides unified access to all Joint Genome Institute (JGI) genomic databases and analytical tools. JGI allows the user to search, download and explore multiple data sets available for all Department…

IMG/M
Dataset

IMG/M Integrated Microbial Genomes with Microbiome Samples

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

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

GeneDB
Dataset

GeneDB

A genome database for prokaryotic and eukaryotic pathogens and closely related…

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

PR2 Database
Dataset

PR2 Database Protist Ribosomal reference database

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

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

TBestDB
Dataset

TBestDB Taxonomically Broad EST DataBase

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

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

TGD
Dataset

TGD Tetrahymena Genome Database

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

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

HGTree
Dataset

HGTree

Provides pre-calculated horizontal gene transfer (HGT) events in prokaryotic…

Provides pre-calculated horizontal gene transfer (HGT) events in prokaryotic genomes (Archaea and Bacteria). HGTree defines lateral gene transfer by comparing the gene tree for each orthologous gene…

AgBase
Dataset

AgBase

Provides resources to facilitate modeling of functional genomics data and…

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

Comparasite
Dataset

Comparasite

Contains full-length cDNA sequence data. Comparasite is an integrated database…

Contains full-length cDNA sequence data. Comparasite is an integrated database consisting of seven sub-databases of apicomplexa protozoa (Plasmodium falciparum, Plasmodium yoelii, Plasmodium vivax,…

The Diatom EST…
Dataset

The Diatom EST database

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

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

PEDANT
Dataset

PEDANT

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

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

Full-Malaria/Pa…
Dataset

Full-Malaria/Parasites

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

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.

PhytoPath
Dataset

PhytoPath

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

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…

MBGD
Dataset

MBGD Microbial genome database for comparative analysis

A comprehensive ortholog database for flexible comparative analysis of…

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…

MetaMicrobesOnl…
Dataset

MetaMicrobesOnline

Offers phylogenetic analysis of genes from microbial genomes and metagenomes.

Offers phylogenetic analysis of genes from microbial genomes and metagenomes.

ProtozoaDB
Dataset

ProtozoaDB Protozoa DataBase

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

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

NCBI Genome
Dataset

NCBI Genome

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

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

LeishDB
Dataset

LeishDB

Provides leishmania genomic information. LeishDB contains prediction and…

Provides leishmania genomic information. LeishDB contains prediction and annotation of L. braziliensis protein-coding genes and non-coding RNAs. It is able to store a myriad of annotation data from…

SilkPathDB
Dataset

SilkPathDB

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

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

reefgenomics
Dataset

reefgenomics

Aims to centralize genomic and transcriptomic data from marine organisms.…

Aims to centralize genomic and transcriptomic data from marine organisms. Besides providing convenient means to download sequences, reefgenomics provides a genome browser to explore available genomic…

EnchyBASE
Dataset

EnchyBASE

Contains genomic information about Enchytraeus albidus. EnchyBASE is a database…

Contains genomic information about Enchytraeus albidus. EnchyBASE is a database that helps users to access the sequences present in each of the libraries, as well as all the information related to…

PartiGeneDB
Dataset

PartiGeneDB

Provides a comprehensive resource facilitating comparative analyses.…

Provides a comprehensive resource facilitating comparative analyses. PartiGeneDB is a publicly available database resource allows researchers to access the partial genomes of organisms that may not…

SymbioGenomesDB
Dataset

SymbioGenomesDB

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

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…

GORBI
Dataset

GORBI

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

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

INSDC
Dataset
PlasmoDB
Dataset

PlasmoDB

Provides a resource for data analysis and visualization in a gene-by-gene or…

Provides a resource for data analysis and visualization in a gene-by-gene or genome-wide scale. PlasmoDB is a functional genomic database for Plasmodium spp. It belongs to a family of genomic…

GiardiaDB
Dataset

GiardiaDB

A genomic database for Giardia lamblia. GiardiaDB is based on the genome of the…

A genomic database for Giardia lamblia. GiardiaDB is based on the genome of the WBC6 clinical isolate of G. lamblia. It is accessed via the standard EuPathDB web interface, providing a wide variety…

CryptoDB
Dataset

CryptoDB

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

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

AmoebaDB
Dataset

AmoebaDB

Functional genomic databases serving the amoebozoa research communities.

Functional genomic databases serving the amoebozoa research communities.

ERGR
Dataset

ERGR Ethanol-Related Gene Resource

Gathers information about ethanol-related gene. ERGR is a database of…

Gathers information about ethanol-related gene. ERGR is a database of ethanol-related gene resource allowing to analyze a lot of the published ethanol-related gene studies. In this platform, the…

WikiGenomes
Dataset

WikiGenomes

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

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

PiroplasmaDB
Dataset

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.

CPGR
Dataset

CPGR Comprehensive Phytopathogen Genomics Resource

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

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

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