SciCrunch Platform
RRID: SCR_003115
Description: Community portal for researchers intended to provide information on common sources of data to the research community and data about Research Resource Identifiers (RRIDs), which can be used in scientific publications. Central service where RRIDs can be searched and created. Designed to help communities of researchers create their own portals to provide access to resources, databases and tools of relevance to their research areas. Adds value to existing scientific resources by increasing their discoverability, accessibility, visibility, utility and interoperability, regardless of their current design or capabilities and without need for extensive redesign of their components or information models. Resources can be searched and discovered at multiple levels of integration, from superficial discovery based on limited description of resource at SciCrunch Resource Registry, to deep content query at SciCrunch Data Federation.
SciGraph
RRID: SCR_017576
Description: SciGraph is a turnkey solution for ontology web services. The SciGraph loader converts OWL ontologies into a Neo4j property graph and then SciGraph services provide a suite of API endpoints on top of that graph, including autocomplete, terminology lookup, graph traversal queries, and more.
SciCrunch Resource Registry
RRID: SCR_005400
Description: Interactive portal for finding and submitting biomedical resources. Resources within the SciCrunch Resource Registry have assigned RRIDs which are used to cite resources in scientific manuscripts. The SciCrunch Resource Registry, formerly the NIF Registry, allows one to add new resources and if you are associated with a resource, allows editing resources after registration.
RRIDs
RRID: SCR_004098
Description: Portal providing identifiers for Antibodies, Model Organisms, and Tools (software, databases, services) created in support of the Resource Identification Initiative, which aims to promote research resource identification, discovery, and reuse. The portal offers a central location for obtaining and exploring Research Resource Identifiers (RRIDs) - persistent and unique identifiers for referencing a research resource. A critical goal of the RII is the widespread adoption of RRIDs to cite resources in the biomedical literature and other places that reference their generation or use. RRIDs use established community identifiers where they exist, and are cross-referenced in their system where more than one identifier exists for a single resource.
InterLex
RRID: SCR:016178
Description: InterLex is a dynamic lexicon of biomedical terms being constructed to help improve the way that biomedical scientists communicate about their data and provide more powerful means of integrating that data across distributed resources. A primary goal of interlex is to provide a stable layer on top of the many other existing terminologies, lexicons, and ontologies (i.e. provide a way to federate ontologies for data applications) and to provide a set of inter-lexical and inter-data-lexical mappings. InterLex was built on the foundation of NeuroLex (see Larson and Martone 2013 Neurolex: An online framework for neuroscience knowledge. Frontiers in Neuroinformatics, 7:18) and contains all of the existing NeuroLex terms.
NIF Ontology
RRID: SCR:005414
Description: NIFSTD is a neuroscience ontology that maintains an extensive set of terms and concepts important for the domains of neuroscience and biology.
Resolver
Description: NIFSTD is a neuroscience ontology that maintains an extensive set of terms and concepts important for the domains of neuroscience and biology.
Antibody Registry
RRID: SCR_006397
Description: NIFSTD is a neuroscience ontology that maintains an extensive set of terms and concepts important for the domains of neuroscience and biology.
Other Tools and Services
Neuron Phenotype Ontology
RRID: SCR_017403
Description: An ontology for describing the complex phenotypes of neurons.
Resource Reports
RRID: SCR_019227
Description: A dkNET service that provides a detailed overview of individual research resources along with citation metrics from the biomedical literature, community feedback and alerts, information about who used the resource, and information about what resources have been used together. It is powered by Resource Information Network, the only integrated data set and analytics platform combining Research Resource Identifiers (RRIDs), text mining and data aggregation. Users can identify key resources while also tracking resource use and performance.
Authentication Reports
RRID: SCR_019226
Description: A dkNET service that assists researchers in preparing authentication plans for cell lines or antibodies to comply with the NIH Submission Policy when submitting a proposal or publication. An automated tool to enable researchers to create a customized report based on the cell lines and antibodies they plan to use. These customized reports provide additional information such as known problems with a particular cell line or antibody.
DISCO
RRID: SCR_004586
Description: DISCO is an information integration approach designed to facilitate interoperation among Internet resources. It consists of a set of tools and services that allows resource providers who maintain information to share it with automated systems such as NIF. NIF is then able to harvest the information and keep those sets of information up-to-date.
Antibody Watch
Description: Antibody-Watch aims to automatically alert scientist users of problematic antibodies by extracting statements about antibody specificity reported in the literature. Antibodies are widely used reagents to test for expression of proteins and other antigens. However, they might not always reliably produce results when they do not specifically bind to the target proteins that their providers designed them for, leading to unreliable research results. While many proposals have been developed to deal with the problem of antibody specificity, it is still challenging to cover the millions of antibodies that are available to researchers. We have developed a text mining system to automatically generate alerts to users of problematic antibodies by extracting statements about antibody specificity reported in the literature. The extracted alerts can be used to construct an "Antibody Watch" knowledge base containing supporting statements of problematic antibodies. This text mining system is a deep neural network and its performance has been validated with a corpus of more than two thousand articles that reported uses of antibodies. The validation evaluation shows that our system can reach 0.914 in F-score.
Resource Information Network
Description: An integrated data set and analytics platform combining Research Resource Identifiers (RRIDs), text mining and data aggregation.