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Found 34 result(s)
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Chempound is a new generation repository architecture based on RDF, semantic dictionaries and linked data. It has been developed to hold any type of chemical object expressible in CML and is exemplified by crystallographic experiments and computational chemistry calculations. In both examples, the repository can hold >50k entries which can be searched by SPARQL endpoints and pre-indexing of key fields. The Chempound architecture is general and adaptable to other fields of data-rich science.
The Chempound software is hosted at http://bitbucket.org/chempound and is available under the Apache License, Version 2.0
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>>>!!!<<< SMD has been retired.
After approximately fifteen years of microarray-centric research service, the Stanford Microarray Database has been retired. We apologize for any inconvenience; please read below for possible resolutions to your queries.
If you are looking for any raw data that was directly linked to SMD from a manuscript, please search one of the public repositories.
NCBI Gene Expression Omnibus
EBI ArrayExpress
All published data were previously communicated to one (or both) of the public repositories.
Alternatively, data for publications between 1997 and 2004 were likely migrated to the Princeton University MicroArray Database, and are accessible there.
If you are looking for a manuscript supplement (i.e. from a domain other than smd.stanford.edu), perhaps try searching the Internet Archive: Wayback Machine https://archive.org/web/ . >>>!!!<<<
The Stanford Microarray Database (SMD) is a DNA microarray research database that provides a large amount of data for public use.
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The Open Archive for Miscellaneous Data (OMIX) database is a data repository developed and maintained by the National Genomics Data Center (NGDC). The database specializes in descriptions of biological studies, including genomic, proteomic, and metabolomic, as well as data that do not fit in the structured archives at other databases in NGDC. It can accept various types of studies described via a simple format and enables researchers to upload supplementary information and link to it from the publication.
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On this server you'll find 127 items of primary data of the University of Munich. Scientists / students of all faculties of LMU and of institutions that cooperate with the LMU are invited to deposit their research data on this platform.
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OMIM is a comprehensive, authoritative compendium of human genes and genetic phenotypes that is freely available and updated daily. OMIM is authored and edited at the McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, under the direction of Dr. Ada Hamosh. Its official home is omim.org.
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The Plant Metabolic Network (PMN) provides a broad network of plant metabolic pathway databases that contain curated information from the literature and computational analyses about the genes, enzymes, compounds, reactions, and pathways involved in primary and secondary metabolism in plants. The PMN currently houses one multi-species reference database called PlantCyc and 22 species/taxon-specific databases.
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Access to the York Region open data catalogue. Explore, combine, and download open data from York Region.
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>>>This repository is no longer available<<< Go-Geo is an online resource discovery tool which allows for the identification and retrieval of records describing the content, quality, condition and other characteristics of geospatial data that exist with UK tertiary education and beyond. The portal supports geospatial searching by interactive map, grid co-ordinates and place name, as well as the more traditional topic or keyword forms of searching. The portal is a key component of the UK academic Spatial Data Infrastructure.
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<<!! checked 20.03.2017 SumsDB was offline; for more information and archive see http://brainvis.wustl.edu/sumsdb/ >>
SumsDB (the Surface Management System DataBase) is a repository of brain-mapping data (surfaces & volumes; structural & functional data) from many laboratories.
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The Canadian Open Genetics Repository is a collaborative effort for the collection, storage, sharing and robust analysis of variants reported by medical diagnostics laboratories across Canada. As clinical laboratories adopt modern genomics technologies, the need for this type of collaborative framework is increasingly important. If you want to join COGR project and get data please send an email at cogr@opengenetics.ca and the introduction to the project will be arranged.
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BioInvestigation Index database enables storing and querying functionalities of experimental biological and biomedical metadata of Leibniz Institute of Plant Biochemistry
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nmrXiv is an open, FAIR and consensus-driven NMR spectroscopy data repository and analysis platform. We archive raw and processed NMR data, providing support for browsing, search, analysis, and dissemination of NMR data worldwide.
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BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. BiGG integrates several published genome-scale metabolic networks into one resource with standard nomenclature which allows components to be compared across different organisms. BiGG can be used to browse model content, visualize metabolic pathway maps, and export SBML files of the models for further analysis by external software packages. Users may follow links from BiGG to several external databases to obtain additional information on genes, proteins, reactions, metabolites and citations of interest.
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This interface provides access to several types of data related to the Chesapeake Bay. Bay Program databases can be queried based upon user-defined inputs such as geographic region and date range. Each query results in a downloadable, tab- or comma-delimited text file that can be imported to any program (e.g., SAS, Excel, Access) for further analysis. Comments regarding the interface are encouraged. Questions in reference to the data should be addressed to the contact provided on subsequent pages.
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<<<!!!<<< This repository is no longer available. It is part now of TERN Data Discovery Portal https://www.re3data.org/repository/r3d100012013 >>>!!!>>>
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The Saccharomyces Genome Database (SGD) provides comprehensive integrated biological information for the budding yeast Saccharomyces cerevisiae along with search and analysis tools to explore these data, enabling the discovery of functional relationships between sequence and gene products in fungi and higher organisms.
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dictyBase is an integrated genetic and literature database that contains published Dictyostelium discoideum literature, genes, expressed sequence tags (ESTs), as well as the chromosomal and mitochondrial genome sequences. Direct access to the genome browser, a Blast search tool, the Dictyostelium Stock Center, research tools, colleague databases, and much much more are just a mouse click away. Dictybase is a genome portal for the Amoebozoa. dictyBase is funded by a grant from the National Institute for General Medical Sciences.
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ANPERSANA is the digital library of IKER (UMR 5478), a research centre specialized in Basque language and texts. The online library platform receives and disseminates primary sources of data issued from research in Basque language and culture. As of today, two corpora of documents have been published. The first one, is a collection of private letters written in an 18th century variety of Basque, documented in and transcribed to modern standard Basque. The discovery of the collection, named Le Dauphin, has enabled the emerging of new questions about the history and sociology of writing in the domain of minority languages, not only in France, but also among the whole Atlantic Arc. The second of the two corpora is a selection of sound recordings about monodic chant in the Basque Country. The documents were collected as part of a PhD thesis research work that took place between 2003 and 2012. It's a total of 50 hours of interviews with francophone and bascophone cultural representatives carried out at either their workplace of the informers or in public areas. ANPERSANA is bundled with an advanced search engine. The documents have been indexed and geo-localized on an interactive map. The platform is engaged with open access and all the resources can be uploaded freely under the different Creative Commons (CC) licenses.
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Earth science data visualization and data delivery application.
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Central data management of the USGS for water data that provides access to water-resources data collected at approximately 1.5 million sites in all 50 States, the District of Columbia, Puerto Rico, the Virgin Islands, Guam, American Samoa and the Commonwealth of the Northern Mariana Islands. Includes data on water use and quality, groundwater, and surface water.
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OpenWorm aims to build the first comprehensive computational model of the Caenorhabditis elegans (C. elegans), a microscopic roundworm. With only a thousand cells, it solves basic problems such as feeding, mate-finding and predator avoidance. Despite being extremely well studied in biology, this organism still eludes a deep, principled understanding of its biology.
We are using a bottom-up approach, aimed at observing the worm behaviour emerge from a simulation of data derived from scientific experiments carried out over the past decade. To do so we are incorporating the data available in the scientific community into software models. We are engineering Geppetto and Sibernetic, open-source simulation platforms, to be able to run these different models in concert. We are also forging new collaborations with universities and research institutes to collect data that fill in the gaps
All the code we produce in the OpenWorm project is Open Source and available on GitHub.
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MassBank of North America (MoNA) is a metadata-centric, auto-curating repository designed for efficient storage and querying of mass spectral records. It intends to serve as a the framework for a centralized, collaborative database of metabolite mass spectra, metadata and associated compounds. MoNA currently contains over 200,000 mass spectral records from experimental and in-silico libraries as well as from user contributions.
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<odesi> is a digital repository for social science data, including polling data. Data collections are: Statistics Canada, Canadian Gallup Polls, CORA - Canadian Opinion Research Archive, ICPSR - Interuniversity Consortium for Political and Social Research.
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<<<!!!<<< This repository is no longer available. >>>!!!>>>
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Pathogen Portal is a repository linking to the Bioinformatics Resource Centers (BRCs) sponsored by the National Institute of Allergy and Infectious Diseases (NIAID) and maintained by The Virginia Bioinformatics Institute. The BRCs are providing web-based resources to scientific community conducting basic and applied research on organisms considered potential agents of biowarfare or bioterrorism or causing emerging or re-emerging diseases.
The Pathogen Portal supports and links to five Bioinformatics Resource Centers (BRCs). Each BRC specializes in a different group of pathogens, focusing on, but not limited to, pathogens causing (Re-)Emerging Infectious Diseases, and those in the NIAID Category A-C Priority Pathogen lists for biodefense research. The scope of the BRCs also includes Invertebrate Vectors of Human Disease.
Pathogen Portal covers EuPathDB, IRD, PATRIC, VectorBase and ViPR.
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- EOSC FAIR-IMPACT
- re3data COREF
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- Cite this service: re3data.org - Registry of Research Data Repositories. https://doi.org/10.17616/R3D last accessed: 2024-04-20
