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Found 32 result(s)
The PLANKTON*NET data provider at the Alfred Wegener Institute for Polar and Marine Research is an open access repository for plankton-related information. It covers all types of phytoplankton and zooplankton from marine and freshwater areas. PLANKTON*NET's greatest strength is its comprehensiveness as for the different taxa image information as well as taxonomic descriptions can be archived. PLANKTON*NET also contains a glossary with accompanying images to illustrate the term definitions. PLANKTON*NET therefore presents a vital tool for the preservation of historic data sets as well as the archival of current research results. Because interoperability with international biodiversity data providers (e.g. GBIF) is one of our aims, the architecture behind the new planktonnet@awi repository is observation centric and allows for mulitple assignment of assets (images, references, animations, etc) to any given observation. In addition, images can be grouped in sets and/or assigned tags to satisfy user-specific needs . Sets (and respective images) of relevance to the scientific community and/or general public have been assigned a persistant digital object identifier (DOI) for the purpose of long-term preservation (e.g. set ""Plankton*Net celebrates 50 years of Roman Treaties"", handle: 10013/de.awi.planktonnet.set.495)"
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.
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Avibase is an extensive database information system about all birds of the world, containing over 60 million records about 10,000 species and 22,000 subspecies of birds, including distribution information, taxonomy, synonyms in several languages and more. This site is managed by Denis Lepage and hosted by Bird Studies Canada, the Canadian copartner of Birdlife International. Avibase has been a work in progress since 1992 and I am now pleased to offer it as a service to the bird-watching and scientific community.
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The Alberta Food Composition Database (AFCDB) is the first comprehensive resource on food constituents, chemistry and biology dedicated to major Alberta-grown produce. It provides information on both macronutrients and micronutrients, including many of the constituents that give foods their flavor, color, taste, texture and aroma. Users can view the contents of the AFCDB from the “FoodView” (listing foods by their chemical composition) or the “ChemView” (listing chemicals by their food sources).
UniProtKB/Swiss-Prot is the manually annotated and reviewed section of the UniProt Knowledgebase (UniProtKB). It is a high quality annotated and non-redundant protein sequence database, which brings together experimental results, computed features and scientific conclusions. Since 2002, it is maintained by the UniProt consortium and is accessible via the UniProt website.
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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.
Tropicos® was originally created for internal research but has since been made available to the world’s scientific community. All of the nomenclatural, bibliographic, and specimen data accumulated in MBG’s electronic databases during the past 30 years are publicly available here.
!!! >>> the repository is offline >>> !!! GOBASE is a taxonomically broad organelle genome database that organizes and integrates diverse data related to mitochondria and chloroplasts. GOBASE is currently expanding to include information on representative bacteria that are thought to be specifically related to the bacterial ancestors of mitochondria and chloroplasts
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BCCM/MUCL is a generalist fungal culture collection of over 30000 filamentous fungi, yeasts and arbuscular mycorrhizal fungi including type, reference and test strains. It provides curated documentation and information on these bioresourced in its database. The collections activities include the distribution of its holdings, the accession of new material in its public, safe and patent domains, and services valorising its holdings and/or expertise to cultivate, isolate and identify fungal diversity in natural and anthropological ecosystems, agro-food (food and feed transformation and spoilage), and fungal-plant interactions.
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MetaCrop is a database that summarizes diverse information about metabolic pathways in crop plants and allows automatic export of information for the creation of detailed metabolic models. MetaCrop is a database that contains manually curated, highly detailed information about metabolic pathways in crop plants, including location information, transport processes and reaction kinetics.
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.
>>>!!!Bacterial (BCSDB) and Plant&Fungal (PFCSDB) carbohydrate structure databases have been merged into a single database, CSDB!!!<<< BCSDB database is aimed at provision of structural, bibliographic, taxonomic and related information on bacterial carbohydrate structures. Two key points of this service are: covering - is above 90% in the scope of bacterial carbohydrates. This means the negative search answer remains valuable scientific information. And consistence - we manually check the data, and aim at hight quality error-free content. The main source of data is a retrospective literature analysis. About 25% of data were imported from CCSD (Carbbank, ceased in 1997, University of Georgia, Athens; structures published before 1995) with subsequent manual curation and approval. Current coverage is displayed in red on the top of the left menu. The time lag between publication of new data and their deposition ~ 1 year. The scope is "bacterial carbohydrates" and covers nearly all structures of this class published up to 2016. Bacterial means that a structure has been found in bacteria or obtained by modification of those found in bacteria. Carohydrate means a structure composed of any residues linked by glycosidic, ester, amidic, ketal, phospho- or sulpho-diester bonds, in which at least one residue is a sugar or its derivative.
<<<!!!<<< This repository is no longer available. >>>!!!>>> BioVeL is a virtual e-laboratory that supports research on biodiversity issues using large amounts of data from cross-disciplinary sources. BioVeL supports the development and use of workflows to process data. It offers the possibility to either use already made workflows or create own. BioVeL workflows are stored in MyExperiment - Biovel Group http://www.myexperiment.org/groups/643/content. They are underpinned by a range of analytical and data processing functions (generally provided as Web Services or R scripts) to support common biodiversity analysis tasks. You can find the Web Services catalogued in the BiodiversityCatalogue.
TAED is a database of phylogenetically indexed gene families. It contains multiple sequence alignments from MAFFT1, maximum likelihood phylogenetic trees from PhyML2, bootstrap values for each node, dN/dS ratios for each lineage from the free ratios model in PAML3, and labels for each node of speciation or duplication from gene tree/species tree reconciliation using SoftParsMap4. The phylogenetic indexing enables simultaneous viewing of lineages with high dN/dS that occurred along the same species tree branches. Resources from the Protein Data Bank (PDB) and the Kyoto Encyclopedia of Genes and Genomes (KEGG)5, have been incorporated into the TAED analysis to detect substitutions along each branch within the phylogenetic tree and to assess selection within pathways.
The International Plant Names Index (IPNI) is a database of the names and associated basic bibliographical details of seed plants, ferns and lycophytes. Its goal is to eliminate the need for repeated reference to primary sources for basic bibliographic information about plant names. The data are freely available and are gradually being standardized and checked. IPNI is a dynamic resource, depending on direct contributions by all members of the botanical community. IPNI is the product of a collaboration between The Royal Botanic Gardens, Kew, The Harvard University Herbaria, and the Australian National Herbarium.
The Catalogue of Life is the most comprehensive and authoritative global index of species currently available. It consists of a single integrated species checklist and taxonomic hierarchy. The Catalogue holds essential information on the names, relationships and distributions of over 1.8 million species. This figure continues to rise as information is compiled from diverse sources around the world.
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LIAS is a global information system for Lichenized and Non-Lichenized Ascomycetes. It includes several interoperable data repositories. In recent years, the two core components ‘LIAS names’ and ‘LIAS light’ have been much enlarged. LIAS light is storing phenotypic trait data. They includes > 10,700 descriptions (about 2/3 of all known lichen species), each with up to 75 descriptors comprising 2,000 traits (descriptor states and values), including 800 secondary metabolites. 500 traits may have biological functions and more than 1,000 may have phylogenetic relevance. LIAS is thus one of the most comprehensive trait databases in organismal biology. The online interactive identification key for more than 10,700 lichens is powered by the Java applet NaviKey and has been translated into 19 languages (besides English) in cooperation with lichenologists worldwide. The component ‘LIAS names’ is a platform for managing taxonomic names and classifications with currently >50,000 names, including the c. 12,000 accepted species and recognized synonyms. The LIAS portal contents, interfaces, and databases run on servers of the IT Center of the Bavarian Natural History Collections and are maintained there. 'LIAS names' and ‘LIAS light’ also deliver content data to the Catalogue of Life, acting as the Global Species Database (GSD) for lichens. LIAS gtm is a database for visualising the geographic distribution of lichen traits. LIAS is powered by the Diversity Workbench database framework with several interfaces for data management and publication. The LIAS long-term project was initiated in the early 1990s and has since been continued with funding from the DFG, the BMBF, and the EU.
Biological collections are replete with taxonomic, geographic, temporal, numerical, and historical information. This information is crucial for understanding and properly managing biodiversity and ecosystems, but is often difficult to access. Canadensys, operated from the Université de Montréal Biodiversity Centre, is a Canada-wide effort to unlock the biodiversity information held in biological collections.
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"TaiBIF" stands for Taiwan Biodiversity Information Facility. It is the Taiwan portal of GBIF, and is in charge of integrating Taiwan's biodiversity information, including lists of species and local experts, illustrations of species, introduction of endemic species and invasive species, Taiwan's terrestrial and marine organisms, biodiversity literature, geographical and environmental information, information about relevant institutions, organizations, projects, and observation spots, the Catalog of Life (a list of Taiwanese endemic species), and publications.
The Landcare Research DataStore ('the DataStore') is the general data catalogue and repository for Environmental Research Data from Landcare Research. Much of Landcare Research’s research data is available through specific web pages, but many datasets sit outside these areas. This data repository provides a mechanism for our staff to deposit and document this wider range of datasets so that they may be discovered and potentially re-used.
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Morphbank :: Biological Imaging is a continuously growing database of images that scientists use for international collaboration, research and education. Images deposited in Morphbank :: Biological Imaging document a wide variety of research including: specimen-based research in comparative anatomy, morphological phylogenetics, taxonomy and related fields focused on increasing our knowledge about biodiversity.
The Barcode of Life Data Systems (BOLD) provides DNA barcode data. BOLD's online workbench supports data validation, annotation, and publication for specimen, distributional, and molecular data. The platform consists of four main modules: a data portal, a database of barcode clusters, an educational portal, and a data collection workbench. BOLD is the go-to site for DNA-based identification. As the central informatics platform for DNA barcoding, BOLD plays a crucial role in assimilating and organizing data gathered by the international barcode research community. Two iBOL (International Barcode of Life) Working Groups are supporting the ongoing development of BOLD.
The Arabidopsis Information Resource (TAIR) maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana . Data available from TAIR includes the complete genome sequence along with gene structure, gene product information, metabolism, gene expression, DNA and seed stocks, genome maps, genetic and physical markers, publications, and information about the Arabidopsis research community. Gene product function data is updated every two weeks from the latest published research literature and community data submissions. Gene structures are updated 1-2 times per year using computational and manual methods as well as community submissions of new and updated genes. TAIR also provides extensive linkouts from our data pages to other Arabidopsis resources.
<<<!!!<<< Bacterial (BCSDB) and Plant&Fungal (PFCSDB) carbohydrate structure databases have been merged into a single database, CSDB >>>!!!>>> This database is aimed at provision of structural, bibliographic, taxonomic and related information on plant and fungal carbohydrate structures. The main source of data is a retrospective literature analysis. About 4000 records were imported from CCSD (Carbbank, University of Georgia, Athens, plus NMR data from corresponding publications; structures published before 1995) with subsequent manual curation and approval. The scope is "plant and fungal carbohydrates" and is expected to cover nearly all structures of this class published until 2013. Plant and fungal means that a structure has been found in plants or fungi or obtained by modification of those found in these domains. Carohydrate means a structure composed of any residues linked by glycosidic, ester, amidic, ketal, phospho- or sulpho-diester bonds, in which at least one residue is a sugar or its derivative.
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The Biological Collection Access Service for Europe, BioCASE, is a transnational network of biological collections of all kinds. BioCASE enables widespread unified access to distributed and heterogeneous European collection and observational databases using open-source, system-independent software and open data standards and protocols.