Tag: evolutionary biology

The InParanoid database provides a user interface to orthologs inferred by the InParanoid algorithm. InParanoid release 8 is based on the 66 reference proteomes that the 'Quest for Orthologs' community has agreed on using, plus 207 additional proteom ...

The OMA (“Orthologous MAtrix”) project is a method and database for the inference of orthologs among complete genomes. The distinctive features of OMA are its broad scope and size, high quality of inferences, feature-rich web interface, availability ...

OrthoDB presents a catalog of eukaryotic orthologous protein-coding genes. Orthology refers to the last common ancestor of the species under consideration, and thus OrthoDB explicitly delineates orthologs at each radiation along the species phylogeny ...

COVDB contains cell culture, animal model, and clinical data on compounds with a proven or potential anti-coronavirus activity.

MetaPhOrs is a public repository of phylogeny-based orthologs and paralogs that were computed using phylogenetic trees available in twelve public repositories. Currently, over 117,131,162 of unique homologs are deposited in MetaPhOrs database. These ...

Database of homologous genes from Ensembl organisms and Ensembl families, structured under ACNUC sequence database management system.

MitoZoa is a specialized database collecting complete and nearly-complete (longer than 7 kb) mtDNA entries of metazoan species, excluding Placozoa. MitoZoa contains curated entries, whose gene annotation has been significantly improved using a semi-a ...

Ortholog groups and trees for 66 proteomes inferred by Hieranoid 2

A database of global evaluation of SARS-CoV-2/hCoV-19 sequences. If you used GESS for scientific publication, we would appreciate citations to the following paper:.

Exploring antibiotic resistance gene abundance and distribution in TARA Oceans samples.

The evolutionary history of topological variations in the CPA/AT transporters. Structural models, topology information and other details are presented in a searchable database, CPAfold

The Spirochetes Genome Browser

Computational prediction of animal microRNA genes

The Actinobacteriophage Database.

A database of positive selection projects in ADOPS format.

Fuzzle 2.0 is a database of evolutionary related protein fragments.

Database of circadian and ultradian transcripts in control tissues of kingdom-wide species.

MycoWiki is organizes data under a relational database and provides access to curated and state-of-the-art information on the genes and proteins of M. pneumoniae.

This is the Schizosaccharomyces japonicus genome database.

Genomicus-fungi is a genome browser that enables users to navigate in fungi genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

Genomicus-protists is a genome browser that enables users to navigate in protists genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

Genomicus-metazoa is a genome browser that enables users to navigate in metazoa genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

Comprehensive analysis of SSRs and database construction using all complete gene-coding sequences in major horticultural and representative plants.

An Open-Access Repository for Monitoring SARS-CoV-2 Variations and Evolution.

DupScan is a database for visualizing and predicting vertebrate synteny and genome duplication.

Genomicus-tunicates is a genome browser that enables users to navigate in tunicates genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time. It uses ANISEED (htt ...

User interface to data from high-throughput sequencing studies of fungal communities across terrestrial biomes. Includes sequencing data, sample locations, sample metadata.

A resource for decoding the interactome, expression, evolution, epitranscriptome and disease variations of Pol III-transcribed ncRNAs.

Genomicus-Plants is a genome browser that enables users to navigate in plants genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

AnimalTraits is a curated database containing body mass, metabolic rate and brain size measurements across a wide range of terrestrial animal taxa.

Rcompadre and Rage are two R packages to facilitate the use of the COMPADRE and COMADRE databases and calculation of life history traits from matrix population models. It is an R package to facilitate working with the COM(P)ADRE Plant and Animal Matr ...

A simple access point to view gene family assignments, annotations and phylogenetic data for insect immune-related genes and gene families.

A data hub for long genes. Long genes harbor specific genomic and epigenomic features and have been implicated in many human diseases. LongGeneDB is an interactive, visual database containing genomic information of 992 long genes (>200 kb) in 15 spe ...

Plant Repeat Database (Plantre) provides re-annotated repeat sequences of plant using a uniform pipeline. The current version of plantrep contains 206.04Gb of 396,041,410 repeats from 459 species that were divided into 15 clades based on their phylog ...

Esc (Immune escape variants in SARS-CoV-2) is a comprehensive and manually curated compendium of genetic variants in SARS-CoV-2 associated with immune escape. The data on variants and associations have been compiled from published literature as well ...

Sift-PUL database is a public repository providing predicted PULs with specific functional annotations. The key difference between sift-PUL and other PUL databases (e.g. PULDB, CGCs and dbCAN-PUL) is the functional annotation for each predicted PUL.