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Found 87 result(s)

Integrated Marine Observing System Ocean Data Portal

IMOS Ocean Portal

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>>>!!!<<< duplicate >>>!!!<<< see https://www.re3data.org/repository/r3d100010914 At 2016-05-29 sees the official merger of the IMOS eMarine Information Infrastructure (eMII) Facility and the Australian Ocean Data Network (AODN) into a single entity. The marine information Facility of IMOS is now the AODN. Enabling open access to marine data is core business for IMOS. The IMOS data will continue to be discoverable alongside a wider collection of Australian marine and climate data via the new-look AODN Portal. Visit the AODN Portal at https://portal.aodn.org.au/. - All IMOS data is open access and can be discovered, accessed and downloaded via the Australian Ocean Data Network (AODN) Portal.

IMGT/LIGM-DBI

International ImMunoGeneTics information system / Laboratoire d'ImmunoGénétique Moléculaire-Database

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IMGT/LIGM-DB is a comprehensive database of Immunoglobulins (IG) and T cell Receptors (TR) from human and other vertebrates, with translation for fully annotated sequences.

Copernicus Marine Environment Monitoring Service

CMEMS

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The Copernicus Marine Environment Monitoring Service (CMEMS) provides regular and systematic reference information on the physical and biogeochemical state, variability and dynamics of the ocean and marine ecosystems for the global ocean and the European regional seas. The observations and forecasts produced by the service support all marine applications, including: Marine safety; Marine resources; Coastal and marine environment; Weather, seasonal forecasting and climate. For instance, the provision of data on currents, winds and sea ice help to improve ship routing services, offshore operations or search and rescue operations, thus contributing to marine safety. The service also contributes to the protection and the sustainable management of living marine resources in particular for aquaculture, sustainable fisheries management or regional fishery organisations decision-making process. Physical and marine biogeochemical components are useful for water quality monitoring and pollution control. Sea level rise is a key indicator of climate change and helps to assess coastal erosion. Sea surface temperature elevation has direct consequences on marine ecosystems and appearance of tropical cyclones. As a result of this, the service supports a wide range of coastal and marine environment applications. Many of the data delivered by the service (e.g. temperature, salinity, sea level, currents, wind and sea ice) also play a crucial role in the domain of weather, climate and seasonal forecasting.

Bacterial and Viral Bioinformatics Resource Center

BV-BRC

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The Bacterial and Viral Bioinformatics Resource Center (BV-BRC) is an information system designed to support research on bacterial and viral infectious diseases. BV-BRC combines two long-running BRCs: PATRIC, the bacterial system, and IRD/ViPR, the viral systems.

Mouse Models of Human Cancer database

MMHCdb

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The Mouse Tumor Biology (MTB) Database supports the use of the mouse as a model system of hereditary cancer by providing electronic access to: Information on endogenous spontaneous and induced tumors in mice, including tumor frequency & latency data, Information on genetically defined mice (inbred, hybrid, mutant, and genetically engineered strains of mice) in which tumors arise, Information on genetic factors associated with tumor susceptibility in mice and somatic genetic-mutations observed in the tumors, Tumor pathology reports and images, References, supporting MTB data and Links to other online resources for cancer.

Berkeley Drosophila Genome Project

BDGP

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The goals of the Drosophila Genome Center are to finish the sequence of the euchromatic genome of Drosophila melanogaster to high quality and to generate and maintain biological annotations of this sequence. In addition to genomic sequencing, the BDGP is 1) producing gene disruptions using P element-mediated mutagenesis on a scale unprecedented in metazoans; 2) characterizing the sequence and expression of cDNAs; and 3) developing informatics tools that support the experimental process, identify features of DNA sequence, and allow us to present up-to-date information about the annotated sequence to the research community.

International Earth Rotation and Reference Systems Service

IERS

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The IERS provides data on Earth orientation, on the International Celestial Reference System/Frame, on the International Terrestrial Reference System/Frame, and on geophysical fluids. It maintains also Conventions containing models, constants and standards.

FlyBase

A Database of Drosophila Genes and Genomes

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FlyBase is a database of genetic, genomic and functional data for Drosophila species, with a focus on the model organism Drosophila melanogaster.FlyBase contains a complete annotation of the Drosophila melanogaster genome that is updated several times per year.It also includes a searchable bibliography of research on Drosophila genetics in the last century. The site also provides a large database of images illustrating the full genome, and several movies detailing embryogenesis.

Xenbase

Xenopus Genomics Database

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Xenbase's mission is to provide the international research community with a comprehensive, integrated and easy to use web based resource that gives access the diverse and rich genomic, expression and functional data available from Xenopus research. Xenbase also provides a critical data sharing infrastructure for many other NIH-funded projects, and is a focal point for the Xenopus community. In addition to our primary goal of supporting Xenopus researchers, Xenbase enhances the availability and visibility of Xenopus data to the broader biomedical research community.

SILVA

A comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data.

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SILVA is a comprehensive, quality-controlled web resource for up-to-date aligned ribosomal RNA (rRNA) gene sequences from the Bacteria, Archaea and Eukaryota domains alongside supplementary online services. In addition to data products, SILVA provides various online tools such as alignment and classification, phylogenetic tree calculation and viewer, probe/primer matching, and an amplicon analysis pipeline. With every full release a curated guide tree is provided that contains the latest taxonomy and nomenclature based on multiple references. SILVA is an ELIXIR Core Data Resource.

Radiation Belt Storm Probes Ion Composition Experiment

RBSPICE

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Originally named the Radiation Belt Storm Probes (RBSP), the mission was re-named the Van Allen Probes, following successful launch and commissioning. For simplicity and continuity, the RBSP short-form has been retained for existing documentation, file naming, and data product identification purposes. The RBSPICE investigation including the RBSPICE Instrument SOC maintains compliance with requirements levied in all applicable mission control documents.

dbSNP

SNV

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The NCBI Short Genetic Variations database, commonly known as dbSNP, catalogs short variations in nucleotide sequences from a wide range of organisms. These variations include single nucleotide variations, short nucleotide insertions and deletions, short tandem repeats and microsatellites. Short Genetic Variations may be common, thus representing true polymorphisms, or they may be rare. Some rare human entries have additional information associated withthem, including disease associations, genotype information and allele origin, as some variations are somatic rather than germline events. ***NCBI will phase out support for non-human organism data in dbSNP and dbVar beginning on September 1, 2017***

The Microbial Protein Interaction Database

MPIDB

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>>>!!!<<< as stated 2017-06-09 MPIDB is no longer available under URL http://www.jcvi.org/mpidb/about.php >>>!!!<<< The microbial protein interaction database (MPIDB) aims to collect and provide all known physical microbial interactions. Currently, 24,295 experimentally determined interactions among proteins of 250 bacterial species/strains can be browsed and downloaded. These microbial interactions have been manually curated from the literature or imported from other databases (IntAct, DIP, BIND, MINT) and are linked to 26,578 experimental evidences (PubMed ID, PSI-MI methods). In contrast to these databases, interactions in MPIDB are further supported by 68,346 additional evidences based on interaction conservation, protein complex membership, and 3D domain contacts (iPfam, 3did). We do not include (spoke/matrix) binary interactions infered from pull-down experiments.

NCBI HomoloGene

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The HomoloGene database provides a system for the automated detection of homologs among annotated genes of genomes across multiple species. These homologs are fully documented and organized by homology group. HomoloGene processing uses proteins from input organisms to compare and sequence homologs, mapping back to corresponding DNA sequences.

Berkeley Drosophila Genome Project insitu

BDGP insitu homepage

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In early 2010 we updated the site to facilitate more rapid transfer of our data to the public database and focus our efforts on the core mission of providing expression pattern images to the research community. The original database https://www.fruitfly.org/index.html reproduced functions available on FlyBase, complicating our updates by the requirement to re-synchronize with FlyBase updates. Our expression reports on the new site still link to FlyBase gene reports, but we no longer reproduce FlyBase functions and therefore can update expression data on an ongoing basis instead of more infrequent major releases. All the functions relating to the expression patterns remain and we soon will add an option to search expression patterns by image similarity, in addition to annotation term searches. In a transitional phase we will leave both the old and the new sites up, but the newer data (post Release 2) will appear only on the new website. We welcome any feedback or requests for additional features. - The goals of the Drosophila Genome Center are to finish the sequence of the euchromatic genome of Drosophila melanogaster to high quality and to generate and maintain biological annotations of this sequence. In addition to genomic sequencing, the BDGP is 1) producing gene disruptions using P element-mediated mutagenesis on a scale unprecedented in metazoans; 2) characterizing the sequence and expression of cDNAs; and 3) developing informatics tools that support the experimental process, identify features of DNA sequence, and allow us to present up-to-date information about the annotated sequence to the research community.

REBASE

The Restriction Enzyme Database

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The Restriction Enzyme Database is a collection of information about restriction enzymes, methylases, the microorganisms from which they have been isolated, recognition sequences, cleavage sites, methylation specificity, the commercial availability of the enzymes, and references - both published and unpublished observations (dating back to 1952). REBASE is updated daily and is constantly expanding.

TreeGenes

A forest tree genome database

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TreeGenes is a genomic, phenotypic, and environmental data resource for forest tree species. The TreeGenes database and Dendrome project provide custom informatics tools to manage the flood of information.The database contains several curated modules that support the storage of data and provide the foundation for web-based searches and visualization tools. GMOD GUI tools such as CMAP for genetic maps and GBrowse for genome and transcriptome assemblies are implemented here. A sample tracking system, known as the Forest Tree Genetic Stock Center, sits at the forefront of most large-scale projects. Barcode identifiers assigned to the trees during sample collection are maintained in the database to identify an individual through DNA extraction, resequencing, genotyping and phenotyping. DiversiTree, a user-friendly desktop-style interface, queries the TreeGenes database and is designed for bulk retrieval of resequencing data. CartograTree combines geo-referenced individuals with relevant ecological and trait databases in a user-friendly map-based interface. ---- The Conifer Genome Network (CGN) is a virtual nexus for researchers working in conifer genomics. The CGN web site is maintained by the Dendrome Project at the University of California, Davis.

Comprehensive R Archive Network

CRAN

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CRAN is a network of ftp and web servers around the world that store identical, up-to-date, versions of code and documentation for R. R is ‘GNU S’, a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc. Please consult the R project homepage for further information.

IAU Minor Planet Center

MPC

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The MPC is responsible for the designation of minor bodies in the solar system: minor planets; comets, in conjunction with the Central Bureau for Astronomical Telegrams (CBAT); and natural satellites (also in conjunction with CBAT). The MPC is also responsible for the efficient collection, computation, checking and dissemination of astrometric observations and orbits for minor planets and comets

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

IMGT/HLA Database

IPD-IMGT/HLA

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The IPD-IMGT/HLA Database provides a specialist database for sequences of the human major histocompatibility complex (MHC) and includes the official sequences named by the WHO Nomenclature Committee For Factors of the HLA System. The IPD-IMGT/HLA Database is part of the international ImMunoGeneTics project (IMGT). The database uses the 2010 naming convention for HLA alleles in all tools herein. To aid in the adoption of the new nomenclature, all search tools can be used with both the current and pre-2010 allele designations. The pre-2010 nomenclature designations are only used where older reports or outputs have been made available for download.

ExAC Browser

Exome Aggregation Consortium Browser

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<<<!!!<<< The ExAC browser is no longer available ExAC data is available in the gnomAD browser https://gnomad.broadinstitute.org/ or for download https://gnomad.broadinstitute.org/downloads#exac-variants. >>>!!!>>>

Electron Microscopy Data Bank

EMDB

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The Electron Microscopy Data Bank (EMDB) is a public repository for electron microscopy density maps of macromolecular complexes and subcellular structures. It covers a variety of techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography.

Ensembl Bacteria

e!EnsemblBacteria

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This site provides access to complete, annotated genomes from bacteria and archaea (present in the European Nucleotide Archive) through the Ensembl graphical user interface (genome browser). Ensembl Bacteria contains genomes from annotated INSDC records that are loaded into Ensembl multi-species databases, using the INSDC annotation import pipeline.

Ensembl Protists

e!EnsemblProtists

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EnsemblProtists is a genome-centric portal for protists species.