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Found 715 result(s)

NCBI Influenza Virus Resource

NCBI Flu

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This resource allows users to search for and compare influenza virus genomes and gene sequences taken from GenBank. It also provides a virus sequence annotation tool and links to other influenza resources: NIAID project, JCVI Flu, Influenza research database, CDC Flu, Vaccine Selection and WHO Flu. NOTE: The redirects that are planned for completion by May 2024 will NOT impact the Influenza Virus Resource in any way. The Influenza Virus Resource will continue to be available, serving up data to support our Flu-research community.

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.

NCBI Clone DB

NCBI clone registry

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<<<!!!<<< NCBI announced plans to retire the Clone DB web interface. Pursuant to this retirement, starting on May 27, 2019, all web pages associated with Clone DB and CloneFinder will redirect to this blog post https://ncbiinsights.ncbi.nlm.nih.gov/?s=clone+db. Links to Clone DB from the NCBI home page will also be going away. >>>!!!>>>

PRISM Dataverse

University of Calgary Data Repository

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PRISM Dataverse is the institutional data repository of the University of Calgary, which has its purpose in digital archiving and sharing of research data from researchers. PRISM Dataverse is a data repository hosted through Borealis, a service of the Ontario Council of University Libraries and supported by University of Calgary's Libraries and Cultural Resources. PRISM Dataverse enables scholars to easily deposit data, create data-specific metadata for searchability and publish their datasets.

TOXMAP

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<<<!!!<<< The repository is no longer available. >>>!!!>>> Selected TOXMAP data can be accesse from the following sites: U.S. EPA Toxics Release Program (TRI) (https://www.epa.gov/toxics-release-inventory-tri-program) U.S. EPA Superfund Program (https://www.epa.gov/superfund) U.S. EPA Facilities Registry System (FRS) (https://www.epa.gov/frs) U.S. EPA Clean Air Markets Program (https://www.epa.gov/airmarkets) U.S. EPA Geospatial Applications (https://www.epa.gov/geospatial/epa-geospatial-applications) U.S. NIH NCI Surveillance, Epidemiology, and End Results Program (SEER) (https://seer.cancer.gov/) Government of Canada National Pollutant Release Inventory (NPRI) (https://www.canada.ca/en/services/environment/pollution-waste-management/national-pollutant-release-inventory.html) U.S. Census Bureau (https://www.census.gov/) U.S. Nuclear Regulatory Commission (NRC) (https://www.nrc.gov/) >>>!!!>>>

CancerData.org

Sharing data for cancer research

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The CancerData site is an effort of the Medical Informatics and Knowledge Engineering team (MIKE for short) of Maastro Clinic, Maastricht, The Netherlands. Our activities in the field of medical image analysis and data modelling are visible in a number of projects we are running. CancerData is offering several datasets. They are grouped in collections and can be public or private. You can search for public datasets in the NBIA (National Biomedical Imaging Archive) image archives without logging in.

RIN Data Repository

Badan Riset dan Inovasi Nasional Dataverse

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The Repositori Ilmiah Nasional (RIN) is a means for storing, preserving, citing, analyzing and sharing research data. RIN acts as an online media in managing, storing and sharing research data. Researchers, data writers, publishers, data distributors, and affiliated institutions all receive academic credit and web visibility. Researchers, agencies, and funders have full control over research data.

The Monarch Initiative

Monarch Initiative

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As with most biomedical databases, the first step is to identify relevant data from the research community. The Monarch Initiative is focused primarily on phenotype-related resources. We bring in data associated with those phenotypes so that our users can begin to make connections among other biological entities of interest. We import data from a variety of data sources. With many resources integrated into a single database, we can join across the various data sources to produce integrated views. We have started with the big players including ClinVar and OMIM, but are equally interested in boutique databases. You can learn more about the sources of data that populate our system from our data sources page https://monarchinitiative.org/about/sources.

Electron Microscopy Public Image Archive

EMPIAR

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EMPIAR, the Electron Microscopy Public Image Archive, is a public resource for raw, 2D electron microscopy images. Here, you can browse, upload, download and reprocess the thousands of raw, 2D images used to build a 3D structure. The purpose of EMPIAR is to provide an easy access to the state-of-the-art raw data to facilitate methods development and validation, which will lead to better 3D structures. It complements the Electron Microscopy Data Bank (EMDB), where 3D images are stored, and uses the fault-tolerant Aspera platform for data transfers

MGnify

formerly: EBI Metagenomics

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MGnify (formerly: EBI Metagenomics) offers an automated pipeline for the analysis and archiving of microbiome data to help determine the taxonomic diversity and functional & metabolic potential of environmental samples. Users can submit their own data for analysis or freely browse all of the analysed public datasets held within the repository. In addition, users can request analysis of any appropriate dataset within the European Nucleotide Archive (ENA). User-submitted or ENA-derived datasets can also be assembled on request, prior to analysis.

International Mouse Phenotyping Consortium

IMPC

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The IMPC is a confederation of international mouse phenotyping projects working towards the agreed goals of the consortium: To undertake the phenotyping of 20,000 mouse mutants over a ten year period, providing the first functional annotation of a mammalian genome. Maintain and expand a world-wide consortium of institutions with capacity and expertise to produce germ line transmission of targeted knockout mutations in embryonic stem cells for 20,000 known and predicted mouse genes. Test each mutant mouse line through a broad based primary phenotyping pipeline in all the major adult organ systems and most areas of major human disease. Through this activity and employing data annotation tools, systematically aim to discover and ascribe biological function to each gene, driving new ideas and underpinning future research into biological systems; Maintain and expand collaborative “networks” with specialist phenotyping consortia or laboratories, providing standardized secondary level phenotyping that enriches the primary dataset, and end-user, project specific tertiary level phenotyping that adds value to the mammalian gene functional annotation and fosters hypothesis driven research; and Provide a centralized data centre and portal for free, unrestricted access to primary and secondary data by the scientific community, promoting sharing of data, genotype-phenotype annotation, standard operating protocols, and the development of open source data analysis tools. Members of the IMPC may include research centers, funding organizations and corporations.

Ensembl Metazoa

e!EnsemblMetazoa

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Ensembl Metazoa is a genome-centric portal for metazoan species of scientific interest.

DataSpace@HKUST

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Created and managed by the Library, DataSpace@HKUST is the data repository and workspace service for HKUST research community. Faculty members and research postgraduate students can use the platform to store, share, organize, preserve and publish research data. It is built on Dataverse, an open source web application developed at Harvard’s Institute for Quantitative Social Science. Using Dataverse architecture, the repository hosts multiple "dataverses". Each dataverse contains datasets; while each dataset may contain multiple data files and the corresponding descriptive metadata.

Environmental Dataset Gateway

EPA's official open data catalog

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<<<!!!<<< This repository is no longer available. The Environmental Dataset Gateway (EDG) has provided access to EPA's Open Data resources. Metadata records contributed by EPA Regions, Program Offices, and Research Laboratories that link to geospatial and non-geospatial resources (e.g., data, Web services, or applications) are now discoverable through Data.gov. https://www.re3data.org/repository/r3d100010078 >>>!!!>>>

Open Science OVGU

Repository for Research Data and Publications of OVGU

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With Open Science OVGU the Otto-von-Guericke University provides its scientists with a research data repository. Measurement data, laboratory values, survey data, methodical test procedures, etc. can be archived in Open Science OVGU and made available to the scientific community via Open Access.

Movebank Data Repository

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This data repository allows users to publish animal tracking datasets that have been uploaded to Movebank (https://www.movebank.org/ ). Published datasets have gone through a submission and review process, and are typically associated with a written study published in an academic journal. All animal tracking data in this repository are available to the public.

Mouse Genome Informatics

MGI

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MGI is the international database resource for the laboratory mouse, providing integrated genetic, genomic, and biological data to facilitate the study of human health and disease. The projects contributing to this resource are: Mouse Genome Database (MGD) Project, Gene Expression Database (GXD) Project, Mouse Tumor Biology (MTB) Database Project, Gene Ontology (GO) Project at MGI, MouseMine Project, MouseCyc Project at MGI

KTISIS

ΚΤΙΣΙΣ

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Ktisis is an open access institutional repository gathering any digital material relating to the various activities of the Cyprus University of Technology, especially original research material produced by the members of the University. Defined in this framework, Ktisis demonstrates the intellectual life and the research activities of the University, preserving, spreading and promoting the scientific research to the local and international community. Ktisis was named after the symbol of the Cyprus University of Technology depicting Ktisis, the spirit of creation.

LSHTM Data Compass

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LSHTM Data Compass is a curated digital repository of research outputs that have been produced by staff and students at the London School of Hygiene & Tropical Medicine and their collaborators. It is used to share outputs intended for reuse, including: qualitative and quantitative data, software code and scripts, search strategies, and data collection tools.

UniProtKB

UniProtKnowledgebase

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The UniProt Knowledgebase (UniProtKB) is the central hub for the collection of functional information on proteins, with accurate, consistent and rich annotation. In addition to capturing the core data mandatory for each UniProtKB entry (mainly, the amino acid sequence, protein name or description, taxonomic data and citation information), as much annotation information as possible is added. This includes widely accepted biological ontologies, classifications and cross-references, and clear indications of the quality of annotation in the form of evidence attribution of experimental and computational data. 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). The UniProt Metagenomic and Environmental Sequences (UniMES) database is a repository specifically developed for metagenomic and environmental data. The UniProt Knowledgebase,is an expertly and richly curated protein database, consisting of two sections called UniProtKB/Swiss-Prot and UniProtKB/TrEMBL.

Portal de Datos Abiertos UNAM, Colecciones Universitarias

UNAM Open Data Portal

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The UNAM opens the door to share millions of open data for the benefit of education and research. With this portal (www.datosabiertos.unam.mx) the university shares records of digital collections, academic research projects, repositories and publications to generate new knowledge. This way, it works as an online access point to search university collections authorized for their use, reuse and free redistribution by anyone, without copyright restrictions, patents or other control mechanisms, as long as the Terms of Free Use for UNAM Open Data are respected. The UNAM Open Data Portal contains data, digital objects and geospatial layers of biological collections, artistic work, music, veterinary medicine, university projects, among others. It allows databases to be consulted and downloaded in open and structured formats. One of the most outstanding collections is the National Herbarium of Mexico (MEXU), with almost two million records and high resolution images of plants around the world, mainly collected in Mexico. MEXU is the largest herbarium in the country and in Latin America; it’s among one of the ten most active herbariums in the world.

ADS

Arctic Data archive System

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The arctic data archive system (ADS) collects observation data and modeling products obtained by various Japanese research projects and gives researchers to access the results. By centrally managing a wide variety of Arctic observation data, we promote the use of data across multiple disciplines. Researchers use these integrated databases to clarify the mechanisms of environmental change in the atmosphere, ocean, land-surface and cryosphere. That ADS will be provide an opportunity of collaboration between modelers and field scientists, can be expected.

DIGITAL.CSIC

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DIGITAL.CSIC is the institutional repository of the Spanish National Research Council (CSIC). Designed for organising, archiving, preserving and disseminating via open access the scientific output generated as a product of the CSIC research activities by CSIC researchers

VirHostNet

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VirHostNet is a bioinformatic information system dedidacted to the biocuration, data integration, reproducible systems-level analysis and visualisation of Virus / Host protein-protein interactions Network based on graph theory. VirHostNet is an open and gold standard knowledgebase shared in PSI MITAB 2.5 format using the PSICQUIC webservice and distributed through the NDEx platform. VirHostNet is FAIR and is recognized as a COVID-19 ressource by Elixir bio.tools, the European Virus Bioinformatics Center and FAIRsharing.org.

DEG

Database of Essential Genes

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DEG hosts records of currently available essential genomic elements, such as protein-coding genes and non-coding RNAs, among bacteria, archaea and eukaryotes. Essential genes in a bacterium constitute a minimal genome, forming a set of functional modules, which play key roles in the emerging field, synthetic biology.