Curator Dashboard

A lightweight provenance vocabulary to provide terms to enable practitioners of data publishing to publish their data responsibly. It is closely based on the community provenance data model, the Open Provenance Model (OPM). Since release 1.0 OPMV becomes a profile of OPM. OPMV can be used together with other provenance-related RDF/OWL vocabularies/ontologies, such as Dublin Core, FOAF, the Changeset Vocabulary, and the Provenance Vocabulary. As being grounded on OPM, the OPMV aims to assist the interoperability between provenance information on the Semantic Web. The Open Provenance Model Vocabulary is defined as an OWL-DL ontology and it is partitioned into a core ontology and supplementary modules. In order to avoid making the core ontology too complex, the core module only implements structures defined in OPM and the supplementary modules provide less frequently used terms and a broad range of specializations of the core terms. * Classes: Agent, Artifact, Process * Properties: used, wasControlledBy, wasDerivedFrom, wasEncodedBy, wasEndedAt, wasGeneratedAt, wasGeneratedBy, wasPerformedAt, wasPerformedBy, wasStartedAt, wasTriggeredBy, wasUsedAt

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• SciCrunch
• 15 years ago - by Anonymous

Database of biomedical literature citations, harvested from the reference lists of all open access articles in PubMed Central that reference ~20% of all PubMed Central papers (approx. 3.4 million papers), including all the highly cited papers in every biomedical field. All the data are freely available for download and reuse. The web site allows these bibliographic records and citations to be browsed, individual articles to be selected, and its citation network to be visualized in a variety of displays. Details of each selected reference, and the data and diagrams for its citation network, may be downloaded in a variety of formats, while the entire Open Citations Corpus can be downloaded from our source data page in several formats including RDF and BibJSON. Their aim for the future is to work with publishers to make available the reference lists from many more current and recent journal articles, starting with the biomedical literature, and to make the citations contained within them available as Open Linked Data in the manner demonstrated by the existing exemplar data available here.

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• SciCrunch
• 15 years ago - by Anonymous

Public research university in Denton, Texas.

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• SciCrunch
• 16 years ago - submitted by Andrea Stagg

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. The aim of the study is to estimate the importance of genetic (primary) and environmental factors for economic behavior by conducting a series of standard behavioral economics experiments on a sample of twins from the Swedish Twin Registry.

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• SciCrunch
• 15 years ago - by Anonymous

Format for creating, finding, using and citing nanopublications. A nanopublication has two basic elements: * The Assertion: An assertion is a minimal unit of thought, expressing a relationship between two concepts (called the Subject and the Object) using a third concept (called the Predicate). * The Provenance: This is metadata providing some context about the assertion. Provenance means, ''''how this came to be'''' and includes Supporting metadata (like methods) and Attribution metadata (such as authors, institutions, time-stamps, grants, links to DOIs, URLs). Nanopublications can be serialized using existing ontologies and RDF, allowing nanopublications to be machine readable and opening the door to universal interoperability. In turn, this allows extremely large, heterogeneous and decentralized data to be analyzed for the discovery of new associations that would otherwise be beyond the capacity of human reasoning. Nanopublication infrastructure is administered by the Concept Web Alliance, and are based on open standards. They anticipate the community-driven evolution of nanopublication formats to fit the changing needs of authors and publishers.

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• SciCrunch
• 15 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 29, 2016. The study Genetic Regulation of the End-Stage Clotting Process that leads to Thrombotic Stroke (EuroClot) aims specifically to identify the major genes involved in variations of the end-stage clotting process and investigate the role of these novel genes (and existing candidate genes) in the pathogenesis of stroke across Europe. EuroClot will study stroke intermediate phenotypes in 4500 twins from GenomEUtwin project involving 8 countries and 1000 subjects from extended families from the GAIT2 (Spain) and EuroHead (Finland) studies. Types of samples * EDTA whole blood * DNA * Plasma * Serum Number of sample donors: 601 (sample collection completed)

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• SciCrunch
• 15 years ago - by Anonymous

Data resource catalog that collates metadata on bioinformatics Web-based data resources including databases, ontologies, taxonomies and catalogues. An entry includes information such as resource identifier(s), name, description and URL. ''''Query'''' lines are defined for each resource that describe what type(s) of data are available, in what format, how (by what identifier) the data can be retrieved and from where (URL). DRCAT was developed to provide more extensive data integration for EMBOSS, but it has many applications beyond EMBOSS. DRCAT entries (including ''''Query'''' lines) are annotated with terms from the EDAM ontology of common bioinformatics concepts.

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• SciCrunch
• 15 years ago - by Anonymous

Shuttleworth Foundation is supporting exceptional people to change the world. We provide funding for dynamic leaders who are at the forefront of social change. We identify amazing people, give them a fellowship grant, and multiply the money they put into their projects by a factor of ten or more. We are looking for social innovators who are helping to change the world for the better and are looking for some support through an innovative social investment model.

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• SciCrunch
• 15 years ago - by Anonymous

An ontology to describe Dictyostelium where the structural makeup of Dictyostelium and its composing parts including the different cell types, throughout its life cycle is defined. There are two main goals for this new tool: (1) promote the consistent annotation of Dictyostelium-specific events, such as phenotypes (already in use), and in the future, of gene expression information; and (2) encourage researchers to use the same terms with the same intended meaning. To this end, all terms are defined. The complete ontology can be browsed using EBI''s ontology browser tool. (http://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=DDANAT)

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• SciCrunch
• 16 years ago - by Anonymous

Distributed repository of anatomo-functional data and of simulation algorithms, fully integrated into a seamless simulation environment and directly accessible. This infrastructure will be used to create the physiome of the human musculo-skeletal system.

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• SciCrunch
• 14 years ago - by Anonymous

Set of (mostly) C programs that run on X11+Unix-based platforms (Linux, Mac OS X, Solaris, etc.) for processing, analyzing, and displaying functional MRI (FMRI) data defined over 3D volumes and over 2D cortical surface meshes. AFNI is freely distributed as source code plus some precompiled binaries.

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• SciCrunch
• 17 years ago - by Anonymous

Catalogue to: 1, centralize community-developed bioscience standards, linking to policies, other portals, open access resources and lists of tools and databases implementing the standards; 2. develop and maintain a set of criteria for assessing the usability and popularity of the standards, also the interoperability and relations among them; 3. foster interoperability, addressing overlaps and duplication of efforts that hamper their wider uptake and interfere with the creation of standards-compliant systems. Research community, funding agencies, and journals participate in the development of reporting standards for the bioscience domain to ensure that shared experiments are reported with enough information to be comprehensible and (in principle) reproducible, compared or integrated. Similar trends in both the regulatory arena and commercial science. The BioSharing catalogue classifies standards into three types: * reporting requirements (minimal information checklists to report of the same core set of information) * terminological artifacts (such as controlled vocabularies and ontologies to describe the information) * exchange formats (to communicate the information) You can sort columns and browse the reporting guidelines content, or you can view all the standards, or reporting guidelines, or terminological artifacts or exchange formats only. Contribute and help build the catalogue.

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• SciCrunch
• 15 years ago - by Anonymous

An R-package for estimating absolute protein quantities from label-free liquid chromatography tandem mass spectrometry (LC-MS/MS) proteomics data. It supports the commonly used absolute label-free protein abundance estimation methods (TopN, iBAQ, APEX, NSAF and SCAMPI) for LC-MS/MS proteomics data, quantifying on either MS1-, MS2-levels or spectral counts together with validation algorithms to enable automated data analysis and error estimation. Specifically, they used Monte-carlo cross-validation and bootstrapping for model selection and imputation of proteome-wide absolute protein quantity estimation.

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• SciCrunch
• 12 years ago - by Anonymous

The Database of Immunoglobulins and Integrated Tools (DIG IT) is an integrated resource storing sequences of annotated immunoglobulin variable domains of NCBI database and enriched with tools for searching and analyzing them. It contains 145759 heavy chain sequences and 71404 light chain sequences (47168 kappa type and 24236 lambda type) with assigned canonical structures for the hypervariable loops and the data on the type of antigen as well as the pairing information of immunoglobulin heavy and light chains (9672 total pairs). The user can input the immunoglobulin variable domain sequence (amino acid or nucleotide) of interest (heavy chain variable domain sequence; light chain variable domain sequence or both) to retrieve the closest sequences (sorted according to e-value) with complete annotation. The user can also directly query the database by antigen type, canonical structure, germline family in accordance to the requirements.

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• SciCrunch
• 15 years ago - by Anonymous

Large, ongoing, multifactorial study based on nation-wide ascertainment of patients with schizophrenia and bipolar disorder through the Swedish Twin Registry to include both neuroimaging data, neurocognitive function, molecular genetic data and early adverse environmental factors in the same model in a genetic sensitive design. Swedish schizophrenia research will benefit from this large study database of in total 240 affected and healthy twin pairs collected over a 5 year period. The specific aims are: * To elucidate neural endophenotypes for schizophrenia and bipolar disorder and to clarify the extent of overlap in these features between the two syndromes. * To investigate candidate genes and genomic regions for linkage and association with neural endophenotypes for schizophrenia and bipolar disease. * To determine the contributions of adverse prenatal and perinatal conditions to neural changes associated with schizophrenia and bipolar disease. Types of samples * EDTA whole blood * DNA * RNA Number of sample donors: 251 (June 2010)

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• SciCrunch
• 15 years ago - by Anonymous

This study will include 5000 individuals recruited from The National Quality Register for Bipolar Disorder (Bipol��R) and The National Patient Register (Patientregistret) from which subjects with two or more hospitalizations with bipolar disorder will be eligible for inclusion. Bipolar disorder (manodepressive illness) is an often devastating neuropsychiatric disorder associated with considerable morbidity, mortality, human suffering, and societal costs. Genetic epidemiological studies provide indirect evidence of the importance of inheritance as bipolar disorder is clearly familial. Sample types * EDTA whole blood * DNA * Plasma Number of sample donors: 915 (June 2010)

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• SciCrunch
• 15 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 29, 2016. Study to investigate symptoms of Attention Deficit Hyperactivity Disorder (ADHD) according to DSM-IV in adults with special focus on attention deficit. Information is used from the Swedish Twin study of Adults: genes and Environment (STAGE) from the Swedish Twin Registry. ADHD-discordant and concordant samples of pairs of twins for ADHD are selected from STAGE for studies of brain structure and function with Functional Magnetic Resonance Imaging (fMRI).

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• SciCrunch
• 15 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on January 19,2022. The St G??ran Bipolar Study (SBP) is a prospective naturalistic study of patients suffering from bipolar disorder. Consenting patients are enrolled when diagnosed with any of Bipolar I, II, NOS disorder, cyclothymia, or schizoaffective disorder. At baseline, medical and social history is meticulously reviewed and the clinical diagnosis is established using a structured diagnostic instrument. Types of samples * EDTA whole blood * DNA * Plasma * Serum * Cerebrospinal fluid Number of sample donors: 371 (June 2010)

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• SciCrunch
• 15 years ago - by Anonymous

An Antibody supplier

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• SciCrunch
• 14 years ago - by Anonymous

SynDB is an online resource of proteins known or predicted to be related to the synapse or synaptic activity, and extensive information on the proteins'' functions, sequences, structures, expression, pathways, interactions, and disease associations. It is intended to be a repository of current knowledge and data as well as a starting point for future proteomics research in neurobiology. SynDB is the first focused database of the molecular biology of the synapse proteome. It contains the most comprehensive collection of proteins (13809 unique proteins spanning 1979 species and 104 protein domains, Aug 2006) that are known or predicted to be associated with synaptic activities. It integrates extensive information on protein functions, sequences, structures, expression, pathways, interactions, and disease associations. SynDB was generated using a combination of automated approaches, including keyword- and domain-based searches, and manual curation. It serves as a starting point for future neurobiology, neuropharmacology, and neuroinformatics research. Synapse ontology is a set of standard vocabulary which help to describe all synaptic gene products in a consistant way. As in common ontology, synapse ontolgy is composed of all the terms in a hierarchical structure, but specifically restricted to the function and structure annotation of synapse related gene products. Synapse ontology is a callaborative fruit of bioinformatists and neural biologists. Synapse ontolgy is aimed to describe all the synaptic molecules in terms of structure/biochemistry of synapse and physiology/function at synapse in a specied-independent manner. The controled vocabularies are hierarchically structured, so you can browser the related gene products in different levels: for example, you can find all the gene products of synaptic vesicle cycling or ion channels and receptors, or you can zoom in on all the gene products playing roles in the priming step of synaptic vesicle cycling.

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• SciCrunch
• 17 years ago - by Anonymous