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Found 28 result(s)

EMBL-EBI

European Molecular Biology Laboratory - European Bioinformatics Institute

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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.

IMEx

The International Molecular Exchange Consortium

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The IMEx consortium is an international collaboration between a group of major public interaction data providers who have agreed to share curation effort and develop and work to a single set of curation rules when capturing data from both directly deposited interaction data or from publications in peer-reviewed journals, capture full details of an interaction in a “deep” curation model, perform a complete curation of all protein-protein interactions experimentally demonstrated within a publication, make these interaction available in a single search interface on a common website, provide the data in standards compliant download formats, make all IMEx records freely accessible under the Creative Commons Attribution License

Endangered Languages Archive

ELAR

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The Endangered Languages Archive (ELAR) is a digital repository for preserving multimedia collections of endangered languages from all over the world, making them available for future generations. In ELAR’s collections you can find recordings of every-day conversations, instructions on how to build fish traps or boats, explanations of kinship systems and the use of medicinal plants, and learn about art forms like string figures and sand drawings. ELAR’s collections are unique records of local knowledge systems encoded in their languages, described by the holders of the knowledge themselves.

The Universal Protein Resource

UniProt

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The Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data. The UniProt databases are the UniProt Knowledgebase (UniProtKB), the UniProt Reference Clusters (UniRef), and the UniProt Archive (UniParc).

West African Vegetation

A vegetation data network for West Africa

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This is a database for vegetation data from West Africa, i.e. phytosociological and dendrometric relevés as well as floristic inventories. The West African Vegetation Database has been developed in the framework of the projects “SUN - Sustainable Use of Natural Vegetation in West Africa” and “Biodiversity Transect Analysis in Africa” (BIOTA, https://www.biota-africa.org/).

AlphaFold

AlphaFold Protein Structure Database

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AlphaFold DB provides open access to protein structure predictions for the human proteome and 20 other key organisms to accelerate scientific research.

GENCODE

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GENCODE is a scientific project in genome research and part of the ENCODE (ENCyclopedia Of DNA Elements) scale-up project. The GENCODE consortium was initially formed as part of the pilot phase of the ENCODE project to identify and map all protein-coding genes within the ENCODE regions (approx. 1% of Human genome). Given the initial success of the project, GENCODE now aims to build an “Encyclopedia of genes and genes variants” by identifying all gene features in the human and mouse genome using a combination of computational analysis, manual annotation, and experimental validation, and annotating all evidence-based gene features in the entire human genome at a high accuracy.

CATH

CATH-Gene3D

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The CATH database is a hierarchical domain classification of protein structures in the Protein Data Bank. Protein structures are classified using a combination of automated and manual procedures. There are four major levels in the CATH hierarchy; Class, Architecture, Topology and Homologous superfamily.

SeaDataNet

Pan-European Infrastructure for ocean & marine data management

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SeaDataNet is a standardized system for managing the large and diverse data sets collected by the oceanographic fleets and the automatic observation systems. The SeaDataNet infrastructure network and enhance the currently existing infrastructures, which are the national oceanographic data centres of 35 countries, active in data collection. The networking of these professional data centres, in a unique virtual data management system provide integrated data sets of standardized quality on-line. As a research infrastructure, SeaDataNet contributes to build research excellence in Europe.

eartH2Observe

Global Earth Observation for Integrated Water Resource Assessment

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EartH2Observe brings together the findings from European FP projects DEWFORA, GLOWASIS, WATCH, GEOWOW and others. It will integrate available global earth observations (EO), in-situ datasets and models and will construct a global water resources re-analysis dataset of significant length (several decades). The resulting data will allow for improved insights on the full extent of available water and existing pressures on global water resources in all parts of the water cycle. The project will support efficient and globally consistent water management and decision making by providing comprehensive multi-scale (regional, continental and global) water resources observations. It will test new EO data sources, extend existing processing algorithms and combine data from multiple satellite missions in order to improve the overall resolution and reliability of EO data included in the re-analysis dataset. The resulting datasets will be made available through an open Water Cycle Integrator data portal https://wci.earth2observe.eu/ : the European contribution to the GEOSS/WCI approach. The datasets will be downscaled for application in case-studies at regional and local levels, and optimized based on identified European and local needs supporting water management and decision making . Actual data access: https://wci.earth2observe.eu/data/group/earth2observe

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.

European Nucleotide Archive

ENA

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The European Nucleotide Archive (ENA) captures and presents information relating to experimental workflows that are based around nucleotide sequencing. A typical workflow includes the isolation and preparation of material for sequencing, a run of a sequencing machine in which sequencing data are produced and a subsequent bioinformatic analysis pipeline. ENA records this information in a data model that covers input information (sample, experimental setup, machine configuration), output machine data (sequence traces, reads and quality scores) and interpreted information (assembly, mapping, functional annotation). Data arrive at ENA from a variety of sources. These include submissions of raw data, assembled sequences and annotation from small-scale sequencing efforts, data provision from the major European sequencing centres and routine and comprehensive exchange with our partners in the International Nucleotide Sequence Database Collaboration (INSDC). Provision of nucleotide sequence data to ENA or its INSDC partners has become a central and mandatory step in the dissemination of research findings to the scientific community. ENA works with publishers of scientific literature and funding bodies to ensure compliance with these principles and to provide optimal submission systems and data access tools that work seamlessly with the published literature.

FAIRDOMHub

The SEEK datafiles

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The FAIRDOMHub is built upon the SEEK software suite, which is an open source web platform for sharing scientific research assets, processes and outcomes. FAIRDOM (Web Site) will establish a support and service network for European Systems Biology. It will serve projects in standardizing, managing and disseminating data and models in a FAIR manner: Findable, Accessible, Interoperable and Reusable. FAIRDOM is an initiative to develop a community, and establish an internationally sustained Data and Model Management service to the European Systems Biology community. FAIRDOM is a joint action of ERA-Net EraSysAPP and European Research Infrastructure ISBE.

Liverpool COVID-19 Drug Interactions

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The COVID-19 pandemic has affected every country in the world. It is well documented that those most susceptible to the worst outcomes of COVID-19 are the immunocompromised and those with underlying comorbidities. Therefore, patients requiring treatment for COVID-19 will also be on additional medication, posing a risk for drug-drug interactions (DDIs). In order to address this, the Liverpool Drug Interactions website team developed this freely available drug interactions resource to provide information on the likelihood of interactions between the experimental agents used for the treatment of COVID-19 and commonly prescribed co-medications.

Protein Data Bank in Europe

PDBe

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PDBe is the European resource for the collection, organisation and dissemination of data on biological macromolecular structures. In collaboration with the other worldwide Protein Data Bank (wwPDB) partners - the Research Collaboratory for Structural Bioinformatics (RCSB) and BioMagResBank (BMRB) in the USA and the Protein Data Bank of Japan (PDBj) - we work to collate, maintain and provide access to the global repository of macromolecular structure data. We develop tools, services and resources to make structure-related data more accessible to the biomedical community.

NASC

The European Arabidopsis Stock Centre

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The Nottingham Arabidopsis Stock Centre (NASC) provides seed and information resources to Europe researchers.

The University of Oxford Text Archive

OTA

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The University of Oxford Text Archive develops, collects, catalogues and preserves electronic literary and linguistic resources for use in Higher Education, in research, teaching and learning. We also give advice on the creation and use of these resources, and are involved in the development of standards and infrastructure for electronic language resources.

Immuno Polymorphism Database

IPD

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Established by the HLA Informatics Group of the Anthony Nolan Research Institute, IPD provides a centralized system for studying the immune system's polymorphism in genes. The IPD maintains databases concerning the sequences of human Killer-cell Immunoglobulin-like Receptors (KIR), sequences of the major histocompatibility complex in a number of species, human platelet antigens (HPA), and tumor cell lines. Each subject has related, credible news, current research and publications, and a searchable database for highly specific, research grade genetic information.

Gendered Innovation Open Data Repository

formerly: Gender Observatory Data Repository (GO-DaRe)

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The Data Repository of the H2020/TINNGO Project (https://www.tinngo.eu/) is used to store large volumes of gendered innovation related data, acquired from 10 national hubs of a pan-European Gender Observatory, Living Labs and other sources.

EUROCAT

European Surveillance of Congenital Anomalies

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A European network of population-based registries for the epidemiologic surveillance of congenital anomalies.

European Social Survey

ESS Data

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The European Social Survey (the ESS) is a biennial multi-country survey covering over 30 nations. The first round was fielded in 2002/2003, the fifth in 2010/2011. The questionnaire includes two main sections, each consisting of approximately 120 items; a 'core' module which remains relatively constant from round to round, plus two or more 'rotating' modules, repeated at intervals. The core module aims to monitor change and continuity in a wide range of social variables, including media use; social and public trust; political interest and participation; socio-political orientations; governance and efficacy; moral; political and social values; social exclusion, national, ethnic and religious allegiances; well-being; health and security; human values; demographics and socio-economics

1000 Genomes

Thousand Genomes

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The 1000 Genomes Project is an international collaboration to produce an extensive public catalog of human genetic variation, including SNPs and structural variants, and their haplotype contexts. This resource will support genome-wide association studies and other medical research studies. The genomes of about 2500 unidentified people from about 25 populations around the world will be sequenced using next-generation sequencing technologies. The results of the study will be freely and publicly accessible to researchers worldwide. The International Genome Sample Resource (IGSR) has been established at EMBL-EBI to continue supporting data generated by the 1000 Genomes Project, supplemented with new data and new analysis.

WATCH

WATer and Global CHange

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<<<!!!<<< The repository is no longer available. You can find the data using https://www.re3data.org/repository/r3d100010199 and searching for WATCH. Further information see: https://catalogue.ceh.ac.uk/documents/ba6e8ddd-22a9-457d-acf4-d63cd34f2dda >>>!!!>>>

CLARIN-UK

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CLARIN-UK is a consortium of centres of expertise involved in research and resource creation involving digital language data and tools. The consortium includes the national library, and academic departments and university centres in linguistics, languages, literature and computer science.

ChEMBL

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ChEMBL is a database of bioactive drug-like small molecules, it contains 2-D structures, calculated properties (e.g. logP, Molecular Weight, Lipinski Parameters, etc.) and abstracted bioactivities (e.g. binding constants, pharmacology and ADMET data). The data is abstracted and curated from the primary scientific literature, and cover a significant fraction of the SAR and discovery of modern drugs We attempt to normalise the bioactivities into a uniform set of end-points and units where possible, and also to tag the links between a molecular target and a published assay with a set of varying confidence levels. Additional data on clinical progress of compounds is being integrated into ChEMBL at the current time.