Filter
Subjects
Content Types
Countries
AID systems
API
Data access
Data access restrictions
Database access
Database licenses
Data licenses
Data upload
Data upload restrictions
Enhanced publication
Institution responsibility type
Institution type
Keywords
Metadata standards
PID systems
Provider types
Quality management
Repository languages
Software
Syndications
Repository types
Versioning
-
*at the end of a keyword allows wildcard searches -
"quotes can be used for searching phrases -
+represents an AND search (default) -
|represents an OR search -
-represents a NOT operation -
(and)implies priority -
~Nafter a word specifies the desired edit distance (fuzziness) -
~Nafter a phrase specifies the desired slop amount
- ← Previous
- 1 (current)
- Next →
Found 20 result(s)
Content type(s)
Country
Phytozome is the Plant Comparative Genomics portal of the Department of Energy's Joint Genome Institute. Families of related genes representing the modern descendants of ancestral genes are constructed at key phylogenetic nodes. These families allow easy access to clade-specific orthology/paralogy relationships as well as insights into clade-specific novelties and expansions.
Subject(s)
Content type(s)
Country
This is a animal and human genome database that uses the BioMart software.
Subject(s)
Content type(s)
Country
PlasmoDB is a genome database for the genus Plasmodium, a set of single-celled eukaryotic pathogens that cause human and animal diseases, including malaria.
Subject(s)
Content type(s)
Country
The European Bioinformatics Institute (EBI) has a long-standing mission to collect, organise and make available databases for biomolecular science. It makes available a collection of databases along with tools to search, download and analyse their content. These databases include DNA and protein sequences and structures, genome annotation, gene expression information, molecular interactions and pathways. Connected to these are linking and descriptive data resources such as protein motifs, ontologies and many others. In many of these efforts, the EBI is a European node in global data-sharing agreements involving, for example, the USA and Japan.
Subject(s)
Country
BioGPS is a gene portal built with two guiding principles in mind -- customizability and extensibility. It is a complete resource for learning about gene and protein function. A free extensible and customizable gene annotation portal, a complete resource for learning about gene and protein function.
Content type(s)
Country
The UniProtKB Sequence/Annotation Version Archive (UniSave) has the mission of providing freely to the scientific community a repository containing every version of every Swiss-Prot/TrEMBL entry in the UniProt Knowledge Base (UniProtKB). This is achieved by archiving, every release, the entry versions within the current release. The primary usage of this service is to provide open access to all entry versions of all entries. In addition to viewing their content, one can also filter, download and compare versions.
Country
BioSamples stores and supplies descriptions and metadata about biological samples used in research and development by academia and industry. Samples are either 'reference' samples (e.g. from 1000 Genomes, HipSci, FAANG) or have been used in an assay database such as the European Nucleotide Archive (ENA) or ArrayExpress.
Country
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.
Subject(s)
Content type(s)
Country
Patients-derived tumor xenograft (PDX) mouse models are an important oncology research platform to study tumor evolution, drug response and personalised medicine approaches.
We have expanded to organoids and cell lines and are now called CancerModels.Org
Subject(s)
Content type(s)
Country
GenBase is a genetic sequence database that accepts user submissions (mRNA, genomic DNAs, ncRNA, or small genomes such as organelles, viruses, plasmids, phages from any organism) and integrates data from INSDC.
Subject(s)
Content type(s)
Country
This repository accepts data from life science researchers and service units in Sweden. The repository is operated by SciLifeLab, which is the national infrastructure for life science and environmental research in Sweden. This repository replaces NBIS DOI repository: https://doi.org/10.17616/R3CW52
Subject(s)
Content type(s)
Country
AmoebaDB belongs to the EuPathDB family of databases and is an integrated genomic and functional genomic database for Entamoeba and Acanthamoeba parasites. In its first iteration (released in early 2010), AmoebaDB contains the genomes of three Entamoeba species (see below). AmoebaDB integrates whole genome sequence and annotation and will rapidly expand to include experimental data and environmental isolate sequences provided by community researchers . The database includes supplemental bioinformatics analyses and a web interface for data-mining.
Subject(s)
Country
Gramene is a platform for comparative genomic analysis of agriculturally important grasses, including maize, rice, sorghum, wheat and barley. Relationships between cereals are queried and displayed using controlled vocabularies (Gene, Plant, Trait, Environment, and Gramene Taxonomy) and web-based displays, including the Genes and Quantitative Trait Loci (QTL) modules.
Subject(s)
Content type(s)
Country
The Allen Brain Atlas provides a unique online public resource integrating extensive gene expression data, connectivity data and neuroanatomical information with powerful search and viewing tools for the adult and developing brain in mouse, human and non-human primate
Content type(s)
Country
The Rat Genome Database is a collaborative effort between leading research institutions involved in rat genetic and genomic research. Its goal, as stated in RFA: HL-99-013 is the establishment of a Rat Genome Database, to collect, consolidate, and integrate data generated from ongoing rat genetic and genomic research efforts and make these data widely available to the scientific community. A secondary, but critical goal is to provide curation of mapped positions for quantitative trait loci, known mutations and other phenotypic data.
Subject(s)
Content type(s)
Country
<<<!!!<<< The ArkDB is now CLOSED
With apologies to anyone who still relies on the ArkDB data system or map-drawing tools, we've had to take the difficult decision to shut down the ArkDB system. We've not been funded to maintain it for many years now and have kept it in the air as best we could with the time that we had available but recent changes in personnel and continuing updates to the underpinning libraries mean that the effort required to keep it going outweighs the perceived benefits.
If you feel that this is the wrong decision, please contact us to let us know and we'll see what we can do together
You can always contact us on our Roslin Bioinformatics email address (roslin.bioinformatics@roslin.ed.ac.uk)
The Roslin Bioinformatics Team
21st November 2018 >>>!!!>>>
Subject(s)
Content type(s)
Country
EuPathDB (formerly ApiDB) is an integrated database covering the eukaryotic pathogens in the genera Acanthamoeba, Annacaliia, Babesia, Crithidia, Cryptosporidium, Edhazardia, Eimeria, Encephalitozoon, Endotrypanum, Entamoeba, Enterocytozoon, Giardia, Gregarina, Hamiltosporidium, Leishmania, Nematocida, Neospora, Nosema, Plasmodium, Theileria, Toxoplasma, Trichomonas, Trypanosoma and Vavraia, Vittaforma). While each of these groups is supported by a taxon-specific database built upon the same infrastructure, the EuPathDB portal offers an entry point to all of these resources, and the opportunity to leverage orthology for searches across genera.
Subject(s)
Content type(s)
Country
Giardia lamblia is a significant, environmentally transmitted, human pathogen and an amitochondriate protist. It is a major contributor to the enormous worldwide burden of human diarrheal diseases, yet the basic biology of this parasite is not well understood. No virulence factor has been identified. The Giardia lamblia genome contains only 12 million base pairs distributed onto five chromosomes. Its analysis promises to provide insights about the origins of nuclear genome organization, the metabolic pathways used by parasitic protists, and the cellular biology of host interaction and avoidance of host immune systems.
Since the divergence of Giardia lamblia lies close to the transition between eukaryotes and prokaryotes in universal ribosomal RNA phylogenies, it is a valuable, if not unique, model for gaining basic insights into genetic innovations that led to formation of eukaryotic cells. In evolutionary terms, the divergence of this organism is at least twice as ancient as the common ancestor for yeast and man. A detailed study of its genome will provide insights into an early evolutionary stage of eukaryotic chromosome organization as well as other aspects of the prokaryotic / eukaryotic divergence.
Subject(s)
Content type(s)
Country
EcoCyc is a scientific database for the bacterium Escherichia coli K-12 MG1655. The EcoCyc project performs literature-based curation of the entire genome, and of transcriptional regulation, transporters, and metabolic pathways.
Subject(s)
Content type(s)
The Ensembl project produces genome databases for vertebrates and other eukaryotic species. Ensembl is a joint project between the European Bioinformatics Institute (EBI) and the Wellcome Trust Sanger Institute (WTSI) to develop a software system that produces and maintains automatic annotation on selected genomes.The Ensembl project was started in 1999, some years before the draft human genome was completed. Even at that early stage it was clear that manual annotation of 3 billion base pairs of sequence would not be able to offer researchers timely access to the latest data. The goal of Ensembl was therefore to automatically annotate the genome, integrate this annotation with other available biological data and make all this publicly available via the web. Since the website's launch in July 2000, many more genomes have been added to Ensembl and the range of available data has also expanded to include comparative genomics, variation and regulatory data. Ensembl is a joint project between European Bioinformatics Institute (EBI), an outstation of the European Molecular Biology Laboratory (EMBL), and the Wellcome Trust Sanger Institute (WTSI). Both institutes are located on the Wellcome Trust Genome Campus in Hinxton, south of the city of Cambridge, United Kingdom.
- Current projects
- EOSC FAIR-IMPACT
- re3data COREF
-
To the extent possible under law,
re3data.org
has waived all copyright and related or neighboring rights to
the database entries of re3data.org.
-
Except where otherwise noted, content on this site is licensed under a
Creative Commons Attribution 4.0 International License
.
- Cite this service: re3data.org - Registry of Research Data Repositories. https://doi.org/10.17616/R3D last accessed: 2024-05-17
