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Found 27 result(s)

Ag Data Commons

USDA’s Open Research Data

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Ag Data Commons provides access to a wide variety of open data relevant to agricultural research. We are a centralized repository for data already on the web, as well as for new data being published for the first time. While compliance with the U.S. Federal public access and open data directives is important, we aim to surpass them. Our goal is to foster innovative data re-use, integration, and visualization to support bigger, better science and policy.

Animal QTLdb

Animal Quantitative Trait Loci

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This Animal Quantitative Trait Loci (QTL) database (Animal QTLdb) is designed to house all publicly available QTL and trait mapping data (i.e. trait and genome location association data; collectively called "QTL data" on this site) on livestock animal species for easily locating and making comparisons within and between species. New database tools are continuely added to align the QTL and association data to other types of genome information, such as annotated genes, RH / SNP markers, and human genome maps. Besides the QTL data from species listed below, the QTLdb is open to house QTL/association date from other animal species where feasible. Note that the JAS along with other journals, now require that new QTL/association data be entered into a QTL database as part of their publication requirements.

Array Express

functional genomics data

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ArrayExpress is one of the major international repositories for high-throughput functional genomics data from both microarray and high-throughput sequencing studies, many of which are supported by peer-reviewed publications. Data sets are submitted directly to ArrayExpress and curated by a team of specialist biological curators. In the past (until 2018) datasets from the NCBI Gene Expression Omnibus database were imported on a weekly basis. Data is collected to MIAME and MINSEQE standards.

Atlantic Canada Conservation Data Centre

AC CDC

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The Atlantic Canada Conservation Data Centre (ACCDC) maintains comprehensive lists of plant and animal species. The Atlantic CDC has geo-located records of species occurrences and records of extremely rare to uncommon species in the Atlantic region, including New Brunswick, Nova Scotia, Prince Edward Island, Newfoundland, and Labrador. The Atlantic CDC also maintains biological and other types of data in a variety of linked databases.

Canadian Biodiversity Information Facility

Système canadien d'information sur la biodiversité

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!!! <<< the repository is offline >>> !!! The CBIF provides primary data on biological species of interest to Canadians. CBIF supports a wide range of social and economic decisions including efforts to conserve our biodiversity in healthy ecosystems, use our biological resources in sustainable ways, and monitor and control pests and diseases. Tools provided by the CBIF include the Integrated Taxonomic Information System (ITIS), Species Access Network, Online Mapping, and the SpeciesBank, including Butterflies of Canada. The CBIF is a member of the Global Biodiversity Information Facility (GBIF).

CSIRO Data Access Portal

CSIRO DAP

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The CSIRO Data Access Portal provides access to data published by CSIRO across a range of disciplines to facilitate sharing and reuse of data held by CSIRO.

datastore by Universität Münster

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datastore is the cross-domain research data repository of the University Münster (Germany). In datastore, scientific members of the University Münster can publish their research data following the FAIR principles, including the assignment of a DOI for each dataset as a persistent identifier.

DRYAD

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Dryad is an open data publishing platform and a community committed to the open availability and routine re-use of all research data. We publish data in any format and any discipline. All Dryad data undergoes a curation process and is published under a CC0 waiver to promote reuse.

eBird

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eBird is among the world’s largest biodiversity-related science projects, with more than 1 billion records, more than 100 million bird sightings contributed annually by eBirders around the world, and an average participation growth rate of approximately 20% year over year. A collaborative enterprise with hundreds of partner organizations, thousands of regional experts, and hundreds of thousands of users, eBird is managed by the Cornell Lab of Ornithology. eBird data document bird distribution, abundance, habitat use, and trends through checklist data collected within a simple, scientific framework. Birders enter when, where, and how they went birding, and then fill out a checklist of all the birds seen and heard during the outing. Data can be accessed from the Science tab on the website.

Ensembl

e!

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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.

Environmental Information Data Centre

EIDC

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The Environmental Information Data Centre (EIDC) is part of the Natural Environment Research Council's (NERC) Environmental Data Service and is hosted by the UK Centre for Ecology & Hydrology (UKCEH). We manage nationally-important datasets concerned with the terrestrial and freshwater sciences.

European Zebrafish Resource Center

EZRC

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The EZRC at KIT houses the largest experimental fish facility in Europe with a capacity of more than 300,000 fish. Zebrafish stocks are maintained mostly as frozen sperm. Frequently requested lines are also kept alive as well as a selection of wildtype strains. Several thousand mutations in protein coding genes generated by TILLING in the Stemple lab of the Sanger Centre, Hinxton, UK and lines generated by ENU mutagenesis by the Nüsslein-Volhard lab in addition to transgenic lines and mutants generated by KIT groups or brought in through collaborations. We also accept submissions on an individual basis and ship fish upon request to PIs in Europe and elsewhere. EZRC also provides screening services and technologies such as imaging and high-throughput sequencing. Key areas include automation of embryo handling and automated image acquisition and processing. Our platform also involves the development of novel microscopy techniques (e.g. SPIM, DSLM, robotic macroscope) to permit high-resolution, real-time imaging in 4D. By association with the ComPlat platform, we can support also chemical screens and offer libraries with up to 20,000 compounds in total for external users. As another service to the community the EZRC provides plasmids (cDNAs, transgenes, Talen, Crispr/cas9) maintained by the Helmholtz repository of Bioparts (HERBI) to the scientific community. In addition the fish facility keeps a range of medaka stocks, maintained by the Loosli group.

FlyReactome

a curated knowledgebase of drosophila melanogaster pathways

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<<<!!!<<< This repository is no longer available. This record is out dated >>>!!!>>>- eir fields, maintained by the FlyReactome staff.

IUCN Red List of Threatened Species

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The IUCN Red List of Threatened Species provides taxonomic, conservation status and distribution data on plants and animals that are critically endangered, endangered and vulnerable. Data are available in Esri File Geodatabase format, Esri Shapefile format, and Excel format.

megx.net

Marine Ecological GenomiX

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<<<!!!<<< This repository is no longer open to the public !!! >>>!!!>>>

NCBI Gene

Gene

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The Gene database provides detailed information for known and predicted genes defined by nucleotide sequence or map position. Gene supplies gene-specific connections in the nexus of map, sequence, expression, structure, function, citation, and homology data. Unique identifiers are assigned to genes with defining sequences, genes with known map positions, and genes inferred from phenotypic information. These gene identifiers are used throughout NCBI's databases and tracked through updates of annotation. Gene includes genomes represented by NCBI Reference Sequences (or RefSeqs) and is integrated for indexing and query and retrieval from NCBI's Entrez and E-Utilities systems.

NCBI Probe

Probe

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<<<!!!<<< NCBI has retired the Probe Database >>>!!!>>>

NCBI Protein Clusters

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The Entrez Protein Clusters database contains annotation information, publications, structures and analysis tools for related protein sequences encoded by complete genomes. The data available in the Protein Clusters Database is generated from prokaryotic genomic studies and is intended to assist researchers studying micro-organism evolution as well as other biological sciences. Available genomes include plants and viruses as well as organelles and microbial genomes.

Ocean Networks Canada

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Ocean Networks Canada maintains several observatories installed in three different regions in the world's oceans. All three observatories are cabled systems that can provide power and high bandwidth communiction paths to sensors in the ocean. The infrastructure supports near real-time observations from multiple instruments and locations distributed across the Arctic, NEPTUNE and VENUS observatory networks. These observatories collect data on physical, chemical, biological, and geological aspects of the ocean over long time periods, supporting research on complex Earth processes in ways not previously possible.

Pain Genes Database

PainGenesdb

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<<<!!!<<< The data are no longer accessible. Message: Adobe Flash Player is no longer supported >>>!!!>>>

Pig Expression Data Explorer

PEDE

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The Pig Expression Data Explorer (PEDE) database system stores full-length cDNA libraries of swine data accesible via keyword and ID searches. Data is publically available, and may specifically interest genetic researchers interested in disease sucsceptibly, and major and minor porcine specific antigens.

PlasmoDB

Plasmodium Genomics Resource

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

The Paleobiology Database

PaleoDB

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The Paleobiology Database (PaleoBioDB) is a non-governmental, non-profit public resource for paleontological data. It has been organized and operated by a multi-disciplinary, multi-institutional, international group of paleobiological researchers. Its purpose is to provide global, collection-based occurrence and taxonomic data for organisms of all geological ages, as well data services to allow easy access to data for independent development of analytical tools, visualization software, and applications of all types. The Database’s broader goal is to encourage and enable data-driven collaborative efforts that address large-scale paleobiological questions.

UCSC Genome Browser

University of California Santa Cruz Genome Bioinformatics

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It is an interactive website offering access to genome sequence data from a variety of vertebrate and invertebrate species and major model organisms, integrated with a large collection of aligned annotations. The Browser is a graphical viewer optimized to support fast interactive performance and is an open-source, web-based tool suite built on top of a MySQL database for rapid visualization, examination, and querying of the data at many levels.

VENUS in the Salish Sea

VENUS

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>>>!!!<<<VENUS coastal network, is now part of the Ocean Networks Canada Observatory>>>!!!<<< VENUS is a cabled undersea laboratory for ocean researchers and explorers. VENUS delivers real time information from seafloor instruments via fibre optic cables to the University of Victoria, BC. You can see ocean data live, recent and archived as well as learn more about on-going research