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Found 33 result(s)

Research Compendia

Researchcompendia

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>>>>!!!<<< As stated 2017-06-27 The website http://researchcompendia.org is no longer available; repository software is archived on github https://github.com/researchcompendia >>>!!!<<< The ResearchCompendia platform is an attempt to use the web to enhance the reproducibility and verifiability—and thus the reliability—of scientific research. we provide the tools to publish the "actual scholarship" by hosting data, code, and methods in a form that is accessible, trackable, and persistent. Some of our short term goals include: To expand and enhance the platform including adding executability for a greater variety of coding languages and frameworks, and enhancing output presentation. To expand usership and to test the ResearchCompendia model in a number of additional fields, including computational mathematics, statistics, and biostatistics. To pilot integration with existing scholarly platforms, enabling researchers to discover relevant Research Compendia websites when looking at online articles, code repositories, or data archives.

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

datastore by Universität Münster

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datastore is the cross-domain research data repository of the University Münster (Germany). In datastore, scientific members of the University Münster can publish their research data following the FAIR principles, including the assignment of a DOI for each dataset as a persistent identifier.

Madrigal Database

Cedar Madrigal

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The OpenMadrigal project seeks to develop and support an on-line database for geospace data. The project has been led by MIT Haystack Observatory since 1980, but now has active support from Jicamarca Observatory and other community members. Madrigal is a robust, World Wide Web based system capable of managing and serving archival and real-time data, in a variety of formats, from a wide range of ground-based instruments. Madrigal is installed at a number of sites around the world. Data at each Madrigal site is locally controlled and can be updated at any time, but shared metadata between Madrigal sites allow searching of all Madrigal sites at once from any Madrigal site. Data is local; metadata is shared.

Database of Interacting Proteins

DIP

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The DIP database catalogs experimentally determined interactions between proteins. It combines information from a variety of sources to create a single, consistent set of protein-protein interactions. The data stored within the DIP database were curated, both, manually by expert curators and also automatically using computational approaches that utilize the the knowledge about the protein-protein interaction networks extracted from the most reliable, core subset of the DIP data. Please, check the reference page to find articles describing the DIP database in greater detail. The Database of Ligand-Receptor Partners (DLRP) is a subset of DIP (Database of Interacting Proteins). The DLRP is a database of protein ligand and protein receptor pairs that are known to interact with each other. By interact we mean that the ligand and receptor are members of a ligand-receptor complex and, unless otherwise noted, transduce a signal. In some instances the ligand and/or receptor may form a heterocomplex with other ligands/receptors in order to be functional. We have entered the majority of interactions in DLRP as full DIP entries, with links to references and additional information

GLOBE

Global Collaboration Engine

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GLOBE (Global Collaboration Engine) is an online collaborative environment that enables land change researchers to share, compare and integrate local and regional studies with global data to assess the global relevance of their work.

Merritt

UC3Merritt

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Merritt is a curation repository for the preservation of and access to the digital research data of the ten campus University of California system and external project collaborators. Merritt is supported by the University of California Curation Center (UC3) at the California Digital Library (CDL). While Merritt itself is content agnostic, accepting digital content regardless of domain, format, or structure, it is being used for management of research data, and it forms the basis for a number of domain-specific repositories, such as the ONEShare repository for earth and environmental science and the DataShare repository for life sciences. Merritt provides persistent identifiers, storage replication, fixity audit, complete version history, REST API, a comprehensive metadata catalog for discovery, ATOM-based syndication, and curatorially-defined collections, access control rules, and data use agreements (DUAs). Merritt content upload and download may each be curatorially-designated as public or restricted. Merritt DOIs are provided by UC3's EZID service, which is integrated with DataCite. All DOIs and associated metadata are automatically registered with DataCite and are harvested by Ex Libris PRIMO and Thomson Reuters Data Citation Index (DCI) for high-level discovery. Merritt is also a member node in the DataONE network; curatorially-designated data submitted to Merritt are automatically registered with DataONE for additional replication and federated discovery through the ONEMercury search/browse interface.

Candida Genome Database

CGD

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Candida Genome Database, a resource for genomic sequence data and gene and protein information for Candida albicans and related species. CGD is based on the Saccharomyces Genome Database. The Candida Genome Database (CGD) provides online access to genomic sequence data and manually curated functional information about genes and proteins of the human pathogen Candida albicans and related species. C. albicans is the best studied of the human fungal pathogens. It is a common commensal organism of healthy individuals, but can cause debilitating mucosal infections and life-threatening systemic infections, especially in immunocompromised patients. C. albicans also serves as a model organism for the study of other fungal pathogens.

Deposita Dados

Repositório Comum de Dados de Pesquisa

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The Common Research Data Repository (Deposita Dados) is a database for archiving, publishing, disseminating, preserving and sharing digital research data and its mission is to promote, support and facilitate the adoption of open access to the datasets of Brazilian researchers linked to scientific institutions that do not yet have their own research data repositories and/or of Brazilian researchers who have executed their datasets through scientific collaboration in foreign teaching and research institutions.

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***

DR-NTU (Data)

Data repository - Nanyang Technological University

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DR-NTU (Data) is the institutional open access research data repository for Nanyang Technological University (NTU), Singapore. NTU researchers are encouraged to use DR-NTU (Data) to deposit, publish and archive their final research data in order to make their research data discoverable, accessible and reusable.

depositar

研究資料寄存所

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depositar — taking the term from the Portuguese/Spanish verb for to deposit — is an online repository for research data. The site is built by the researchers for the researchers. You are free to deposit, discover, and reuse datasets on depositar for all your research purposes.

Internet Archive

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The Internet Archive includes texts, audio, moving images, software, and archived web pages.

Italian Centre for Astronomical Archive

IA2

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The long-term goal of this project is to implement a new strategy for preserving and providing access to the Astrophysical data heritage. IA2 is an ambitious Italian Astrophysical research infrastructure project that aims at co-ordinating different national initiatives to improve the quality of astrophysical data services. It aims at co-ordinating these developments and facilitating access to this data for research purposes. The first working target, is the implementation of the TNG Long-Term Archive (LTA). Its feasibility was demonstrated by the LTA pilot project prototype, funded by CNAA in 2001 and completed successfully in July 2002. The implementation of the TNG archive implies: − interfacing with the Centro "Galileo Galilei" (CGG) for the acquisition of TNG data; − long-term storage of scientific, technical and auxiliary data from the TNG; − providing accessibility by the CGG staff and by the scientific community to original and derived data; − providing tools to support the life cycle of observing proposals. The second target of the proposal aims at ensuring harmonization with other projects related to archiving of data of astrophysical interest, with particular reference to projects involving the Italian astronomical community (LBT, VST, GSC-II, DPOSS, …), to the Italian Solar and Solar System Physics community (SOLAR, SOLRA, ARTHEMIS which form SOLARNET – a future node of EGSO) and to the national and international coordination efforts fostering the idea of a multiwavelength Virtual Astronomical Observatory, and the use of the archived data through the Italian Astronomical Grid.

InnateDB

A Knowlede Resource for Innate Immunity Interactions & Pathways

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InnateDB is a publicly available database of the genes, proteins, experimentally-verified interactions and signaling pathways involved in the innate immune response of humans, mice and bovines to microbial infection. The database captures an improved coverage of the innate immunity interactome by integrating known interactions and pathways from major public databases together with manually-curated data into a centralised resource. The database can be mined as a knowledgebase or used with our integrated bioinformatics and visualization tools for the systems level analysis of the innate immune response.

Canadensys repository

Database of Vascular Plants of Canada

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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.

CORA. Repositori de Dades de Recerca

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The CORA. Repositori de dades de Recerca is a repository of open, curated and FAIR data that covers all academic disciplines. CORA. Repositori de dades de Recerca is a shared service provided by participating Catalan institutions (Universities and CERCA Research Centers). The repository is managed by the CSUC and technical infrastructure is based on the Dataverse application, developed by international developers and users led by Harvard University (https://dataverse.org).

UniProtKB/Swiss-Prot

UniProt Knowledgebase

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<<<!!!<<< See UniProt entry https://www.re3data.org/repository/r3d100011521 >>>!!!>>> 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.

GenomeRNAi

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GenomeRNAi is a database containing phenotypes from RNA interference (RNAi) screens in Drosophila and Homo sapiens. In addition, the database provides an updated resource of RNAi reagents and their predicted quality.

Open PHACTS

Open Pharmacological Space

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<<<!!!<<< The Open PHACTS Linked Data API and associated infrastructure was closed down in March 2019 to allow the team to focus on the next phase. http://www.openphactsfoundation.org/open-phacts-platform-update-march-2019/ >>>!!!>>>

Research Data Australia

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Research Data Australia is the data discovery service of the Australian Research Data Commons (ARDC). The ARDC is supported by the Australian Government through the National Collaborative Research Infrastructure Strategy Program. Research Data Australia helps you find, access, and reuse data for research from over one hundred Australian research organisations, government agencies, and cultural institutions. We do not store the data itself here but provide descriptions of, and links to, the data from our data publishing partners.

Arca Dados

Arca Data

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Arca Data is Fiocruz's official repository for archiving, publishing, disseminating, preserving and sharing digital research data produced by the Fiocruz community or in partnership with other research institutes or bodies, with the aim of promoting new research, ensuring the reproducibility or replicability of existing research and promoting an Open and Citizen Science. Its objective is to stimulate the wide circulation of scientific knowledge, strengthening the institutional commitment to Open Science and free access to health information, in addition to providing transparency and fostering collaboration between researchers, educators, academics, managers and graduate students, to the advancement of knowledge and the creation of solutions that meet the demands of society.

Europeana collections

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Europeana is the trusted source of cultural heritage brought to you by the Europeana Foundation and a large number of European cultural institutions, projects and partners. It’s a real piece of team work. Ideas and inspiration can be found within the millions of items on Europeana. These objects include: Images - paintings, drawings, maps, photos and pictures of museum objects Texts - books, newspapers, letters, diaries and archival papers Sounds - music and spoken word from cylinders, tapes, discs and radio broadcasts Videos - films, newsreels and TV broadcasts All texts are CC BY-SA, images and media licensed individually.

HomoMINT

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<<<!!!<<< This repository is no longer available. >>>!!!>>>

virus mentha

the interactome browser

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virus mentha archives evidence about viral interactions collected from different sources and presents these data in a complete and comprehensive way. Its data comes from manually curated protein-protein interaction databases that have adhered to the IMEx consortium. virus mentha is a resource that offers a series of tools to analyse selected proteins in the context of a network of interactions. Protein interaction databases archive protein-protein interaction (PPI) information from published articles. However, no database alone has sufficient literature coverage to offer a complete resource to investigate "the interactome". virus mentha's approach generates every week a consistent interactome (graph). Most importantly, the procedure assigns to each interaction a reliability score that takes into account all the supporting evidence. virus mentha offers direct access to viral families such as: Orthomyxoviridae, Orthoretrovirinae and Herpesviridae plus, it offers the unique possibility of searching by host organism. The website and the graphical application are designed to make the data stored in virus mentha accessible and analysable to all users.virus mentha superseeds VirusMINT. The Source databases are: MINT, DIP, IntAct, MatrixDB, BioGRID.