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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.

(last updated: Oct 12, 2019)

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Resource NameResource TypeDescriptionKeywordsResource IDProper CitationParent OrganizationRelated ConditionFunding AgencyRelationReferenceWebsite StatusAlternate IDsAlternate URLsOld URLs
XplorMedResource, analysis service resource, data analysis service, service resource, production service resourceServer that allows you to explore a set of abstracts derived from a MEDLINE search. The system gives you the main associations between the words in groups of abstracts. Then, you can select a subset of your abstracts based on selected groups of related words and iterate your analysis on them. The only input needed is a set of abstracts (in one of the currently accepted input formats) or a definition of how to obtain them. XplorMed is recommended for cases in which you do not know exactly what are you expecting to find. Your interests may be modified by the results obtained, or you may want to inquire new questions as the analysis develops. Also, the results may suggest you additional words that should be used to expand your query in MEDLINE (e.g., unexpected abbreviations of a protein name, or synonyms of a disease).abstract, literature-research, information retrieval, part-of-speech, bioinformatics, text-mining, literatureSCR_002549(XplorMed, RRID:SCR_002549)University of Ottawa; Ontario; Canada related to: MEDLINE, PubMedReferences (3)Last checked downnif-0000-21425http://www.ogic.ca/projects/xplormed/
Europe PubMed CentralResource, bibliography, data access protocol, database, web service, software resource, data or information resourceFree access to biomedical literature resources including all of PubMed and PubMed Central, agricultural abstracts (from AGRICOLA), over 4 million international life science patents abstracts, National Health Service (NHS) clinical guidelines, and is supplemented with Chinese Biological Abstracts and the Citeseer database. As well as powerful search of abstracts and full text articles, it also includes: * article citations and sort order based on citation count * data citations mined from full text articles * links to and from related databases and institutional repositories * a tool to create bibliographies linked to your ORCID * named entity recognition of keywords and text-mining-based applications showcased in Europe PMC Labs * Tools for recipients of grants from one of the Europe PMC funders to deposit full-text manuscripts and link them to those specific grants. * Web services for programmatic access to all the above bibliographic information and 50,000 grants. * Search by publication date, relevance, or the number of times an article has been cited. * Links to public databases such as UniProt, Protein Data Bank (PDBe), and the European Nucleotide Archive (ENA) are provided. * Through textmining technologies, you can highlight and browse keywords such as gene names, organisms and diseases. * Search 40,000 biomedical research grants awarded to the 18,000 PIs supported by the Europe PMC funders. * Roadtest new tools based on Europe PMC content in Europe PMC labs. * In Europe PMC plus, PIs supported by the Europe PMC funders can link grants to publication information, view article citation and download statistics, and submit manuscripts.biomedical, literature, publication, health, life science, patent, clinical guideline, grant, text mining, author identification, archiving, open access, gold standardSCR_005901(Europe PubMed Central, RRID:SCR_005901)European Bioinformatics Institute , Mimas , National Centre for Text Mining Wellcome Trustrelated to: PubMed, PubMed Central, AGRICOLA, ORCID - Open Researcher and Contributor ID, EvidenceFinder, uses: EvidenceFinder, BioLexicon, listed by: FORCE11PMID:21062818Last checked upnlx_149472http://ukpmc.ac.uk/
Chilibot: Gene and Protein relationships from MEDLINEResource, data analysis service, database, analysis service resource, production service resource, service resource, data or information resourceData analysis service that searches PubMed literature database (abstracts) about specific relationships between proteins, genes, or keywords using a NLP-based text-mining approach. The results are returned as a graph. The synonym database used in Chilibot is available, without fee, for academic use only. Several different search methods are supported including: * searching for relationship between two genes, proteins or keywords * searching for relationships between many genes, proteins, or keywords * searching for relationships between two lists of genes, proteins, or keywords Advanced options include: * Automated hypothesis generation (graph) * Restricting context using keywords * Providing your own synonyms * Modifying synonyms provided by Chilibot * Color coding nodes with gene expression values * Special search: modulationdrug, gene, literature, natural language processing, protein, text-mining, network, keyword, biological concept, graphSCR_001705(Chilibot: Gene and Protein relationships from MEDLINE, RRID:SCR_001705)University of Tennessee Health Science Center; Tennessee; USA PHSrelated to: PubMed, listed by: OMICtools, 3DVCPMID:15473905Last checked upnif-0000-10196, OMICS_01176
PubBrainResource, data analysis service, production service resource, analysis service resource, database, service resource, data or information resourceA literature search and visualization tool that allows end users to enter any PubMed query and see that query rendered as a heatmap illustrating which regions of interest are most commonly mentioned within the search results. To use PubBrain, simply enter any valid PubMed search in the search box.neuroanatomySCR_005387(PubBrain, RRID:SCR_005387)Poldracklab Portal NCRR, NIDCR, NIMHrelated to: PubMed, listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)Last checked upnlx_144484http://www.nitrc.org/projects/pubbrain
Ensembl VariationResource, data analysis service, production service resource, analysis service resource, database, service resource, data or information resourcePublic database that stores areas of genome that differ between individual genomes (variants) and, where available, associated disease and phenotype information. Different types of variants for several species: single nucleotide polymorphisms (SNPs), short nucleotide insertions and/or deletions, and longer variants classified as structural variants (including CNVs). Effects of variants on the Ensembl transcripts and regulatory features for each species are predicted. You can run same analysis on your own data using Variant Effect Predictor. These data are integrated with other data sources in Ensembl, and can be accessed using the API or website. For several different species in Ensembl, they import variation data (SNPs, CNVs, allele frequencies, genotypes, etc) from a variety of sources (e.g. dbSNP). Imported variants and alleles are subjected to quality control process to flag suspect data. In human, they calculate linkage disequilibrium for each variant, by population.genome, disease, phenotype, genomic variant, single nucleotide polymorphism nucleotide, insertion, deletion, structural variant, copy number variation, inversion, translocation, somatic variant, allele frequency, genotype, disease phenotype, inherited diseaseSCR_001630(Ensembl Variation, RRID:SCR_001630)Ensembl related to: dbSNP, Database of Genomic Variants Archive, PubMed, Animal QTLdb, OMIA - Online Mendelian Inheritance in Animals, used by: Monarch InitiativeReferences (4)Last checked downnlx_153897
MEDLINEResource, data or information resource, bibliography, databaseA premier bibliographic database that contains over 18 million references to journal articles in life sciences with a concentration on biomedicine. A distinctive feature is that the records are indexed with NLM Medical Subject Headings (MeSH). PubMed provides free access to MEDLINE and links to full text articles when possible. The great majority of journals are selected for MEDLINE based on the recommendation of the Literature Selection Technical Review Committee (LSTRC), an NIH-chartered advisory committee of external experts analogous to the committees that review NIH grant applications. Some additional journals and newsletters are selected based on NLM-initiated reviews, e.g., history of medicine, health services research, AIDS, toxicology and environmental health, molecular biology, and complementary medicine, that are special priorities for NLM or other NIH components. These reviews generally also involve consultation with an array of NIH and outside experts or, in some cases, external organizations with which NLM has special collaborative arrangements. MEDLINE is the primary component of PubMed, part of the Entrez series of databases provided by the NLM National Center for Biotechnology Information (NCBI). MEDLINE may also be searched via the NLM Gateway. Time coverage: generally 1946 to the present, with some older material. Source: Currently, citations from approximately 5,516 worldwide journals in 39 languages; 60 languages for older journals. Citations for MEDLINE are created by the NLM, international partners, and collaborating organizations.software, biomedicine, gold standardSCR_002185(MEDLINE, RRID:SCR_002185)National Library of Medicine related to: KLEIO, FACTA+., MeSH, XplorMed, MeSH, MuGeX, EBIMed, MEDIE, GREC Corpus, GENIA Project: Mining literature for knowledge in molecular biology, PubMed, Automated recognition of brain region mentions in neuroscience literature., PubMed, PIE the search, Coremine Medical, Whatizit, Cochrane Central Register of Controlled Trials, used by: CoPub, DisGeNET, Molecular Imaging and Contrast Agent Database, listed by: 3DVCLast checked upnlx_53277
MeSHResource, data or information resource, controlled vocabularyA controlled vocabulary thesaurus that consists of sets of terms naming descriptors in a hierarchical structure that permits searching at various levels of specificity. MeSH, in machine-readable form, is provided at no charge via electronic means. MeSH descriptors are arranged in both an alphabetic and a hierarchical structure. At the most general level of the hierarchical structure are very broad headings such as Anatomy or Mental Disorders. More specific headings are found at more narrow levels of the twelve-level hierarchy, such as Ankle and Conduct Disorder. There are 27,149 descriptors in 2014 MeSH. There are also over 218,000 entry terms that assist in finding the most appropriate MeSH Heading, for example, Vitamin C is an entry term to Ascorbic Acid. In addition to these headings, there are more than 219,000 headings called Supplementary Concept Records (formerly Supplementary Chemical Records) within a separate thesaurus. The MeSH thesaurus is used by NLM for indexing articles from 5,400 of the world''''s leading biomedical journals for the MEDLINE/PubMED database. It is also used for the NLM-produced database that includes cataloging of books, documents, and audiovisuals acquired by the Library. Each bibliographic reference is associated with a set of MeSH terms that describe the content of the item. Similarly, search queries use MeSH vocabulary to find items on a desired topic.umls, database, health, thesaurus, medical, gold standardSCR_004750(MeSH, RRID:SCR_004750)National Library of Medicine related to: MEDLINE, Public Health Image Library, MEDLINE, DermAtlas., Coremine Medical, Unified Medical Language System, I3-CRB: Interoperable IT Infrastructure for Biological Resources Centres / Biobanks - France, Robert Hoehndorf Version of MeSH, PharmGKB Ontology, Linked Neuron Data, PubMed, used by: Nowomics, Cytokine Registry, listed by: BioPortalLast checked upnlx_75424http://purl.bioontology.org/ontology/MESH
NCBI StructureResource, data or information resource, databaseDatabase of three-dimensional structures of macromolecules that allows the user to retrieve structures for specific molecule types as well as structures for genes and proteins of interest. Three main databases comprise Structure-The Molecular Modeling Database; Conserved Domains and Protein Classification; and the BioSystems Database. Structure also links to the PubChem databases to connect biological activity data to the macromolecular structures. Users can locate structural templates for proteins and interactively view structures and sequence data to closely examine sequence-structure relationships. * Macromolecular structures: The three-dimensional structures of biomolecules provide a wealth of information on their biological function and evolutionary relationships. The Molecular Modeling Database (MMDB), as part of the Entrez system, facilitates access to structure data by connecting them with associated literature, protein and nucleic acid sequences, chemicals, biomolecular interactions, and more. It is possible, for example, to find 3D structures for homologs of a protein of interest by following the Related Structure link in an Entrez Protein sequence record. * Conserved domains and protein classification: Conserved domains are functional units within a protein that act as building blocks in molecular evolution and recombine in various arrangements to make proteins with different functions. The Conserved Domain Database (CDD) brings together several collections of multiple sequence alignments representing conserved domains, in addition to NCBI-curated domains that use 3D-structure information explicitly to define domain boundaries and provide insights into sequence/structure/function relationships. * Small molecules and their biological activity: The PubChem project provides information on the biological activities of small molecules and is a component of NIH''''s Molecular Libraries Roadmap Initiative. PubChem includes three databases: PCSubstance, PCBioAssay, and PCCompound. The PubChem data are linked to other data types (illustrated example) in the Entrez system, making it possible, for example, to retrieve information about a compound and then Link to its biological activity data, retrieve 3D protein structures bound to the compound and interactively view their active sites, and find biosystems that include the compound as a component. * Biological Systems: A biosystem, or biological system, is a group of molecules that interact directly or indirectly, where the grouping is relevant to the characterization of living matter. The NCBI BioSystems Database provides centralized access to biological pathways from several source databases and connects the biosystem records with associated literature, molecular, and chemical data throughout the Entrez system. BioSystem records list and categorize components (illustrated example), such as the genes, proteins, and small molecules involved in a biological system. The companion FLink icon FLink tool, in turn, allows you to input a list of proteins, genes, or small molecules and retrieve a ranked list of biosystems.macromolecule, conserved domain, protein classification, protein, small molecule, biological activity, molecule, biosystem, biological system, structure, gene, alignment, biomolecule, interaction, function, evolution, 3d spatial image, visualization, gold standardSCR_004218(NCBI Structure, RRID:SCR_004218)NCBI related to: PubChem, NCBI BioSystems Database, Conserved Domain Database, Molecular Modeling DataBase, CBLAST, NCBI Structure: Cn3D, IBIS: Inferred Biomolecular Interactions Server, Vector Alignment Search Tool, PubMed, listed by: re3data.orgLast checked upnlx_23947http://www.ncbi.nlm.nih.gov/sites/entrez?db=structure
CiteAbResource, data or information resource, databaseCitation-ranked antibody search engine that provides a simple way to find antibodies that work. They use the number of citations as a transparent method to rank antibodies. Nobody can pay to be ranked higher. They are always looking for more commercial and academic antibodies to make CiteAb better. There is no charge to list.antibody, search engine, citationSCR_009653(CiteAb, RRID:SCR_009653)University of Bath; North East Somerset; United Kingdom related to: PubMed, listed by: FORCE11Last checked upnlx_156037http://www.force11.org/node/4768
DaToResource, data or information resource, databaseA biological database and software tool catalog based on text mined and human annotated url mentions in PubMed abstracts. Data are annotated as to the author''''s country of origin and url status is checked.metadata, catalog, text miningSCR_010280(DaTo, RRID:SCR_010280)Zhejiang University; Zhejiang; China National Natural Science Foundation of Chinarelated to: Cytoscape, PubMedLast checked upnlx_157296
Automated recognition of brain region mentions in neuroscience literature.Resource, data set, data or information resourceFreely available corpus of manually annotated brain region mentions created to facilitate text mining of neuroscience literature. The corpus contains 1,377 abstracts with 18,242 brain region annotations. Interannotator agreement was evaluated for a subset of the documents, and was 90.7% and 96.7% for strict and lenient matching respectively. We observed a large vocabulary of over 6,000 unique brain region terms and 17,000 words. For automatic extraction of brain region mentions we evaluated simple dictionary methods and complex natural language processing techniques. The dictionary methods based on neuroanatomical lexicons recalled 36% of the mentions with 57% precision. The best performance was achieved using a conditional random field (CRF) with a rich feature set. Features were based on morphological, lexical, syntactic and contextual information. The CRF recalled 76% of mentions at 81% precision, by counting partial matches recall and precision increase to 86% and 92% respectively. We suspect a large amount of error is due to coordinating conjunctions, previously unseen words and brain regions of less commonly studied organisms. We found context windows, lemmatization and abbreviation expansion to be the most informative techniques. We encourage you to test new methods and applications of the dataset. Please contact us if you do, we would like to hear about and link to your work. The abstracts are from PubMed/Medline, specifically The Journal of Comparative Neurology.brain region, annotation, journal of comparative neurology, neuroanatomy, brainSCR_002731(Automated recognition of brain region mentions in neuroscience literature., RRID:SCR_002731)University of British Columbia; British Columbia; Canada related to: PubMed, MEDLINE, listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)PMID:19750194Last checked upnif-0000-24027http://www.nitrc.org/projects/whitetext/
Linked Neuron DataResource, data set, data or information resourceNeuroscience data and knowledge from multiple scales and multiple data sources that has been extracted, linked, and organized to support comprehensive understanding of the brain. The core is the CAS Brain Knowledge base, a very large scale brain knowledge base based on automatic knowledge extraction and integration from various data and knowledge sources. The LND platform provides services for neuron data and knowledge extraction, representation, integration, visualization, semantic search and reasoning over the linked neuron data. Currently, LND extracts and integrates semantic data and knowledge from the following resources: PubMed, INCF-CUMBO, Allen Reference Atlas, NIF, NeuroLex, MeSH, DBPedia/Wikipedia, etc.neuron, brain, neuroscience, protein, gene, neurotransmitterSCR_003658(Linked Neuron Data, RRID:SCR_003658)Chinese Academy of Sciences; Beijing; China related to: Common Upper Mammalian Brain Ontology, Allen Reference Atlas - Mouse Brain, Neuroscience Information Framework, PubMed, NeuroLex, MeSH, DBpediaLast checked upnlx_157812
Integrated Auto-Extracted AnnotationResource, data set, data or information resourceA virtual database that indexes both BioNOT for negation data, and the Resource Discovery Pipeline: an automated resource discovery and semi-automated type characterization with text-mining scripts that facilitate curation team efforts to discover, integrate and display new content. This virtual database currently indexes the following resources: * BioNOT, http://snake.ims.uwm.edu/bionot/index.php?searchterm=mecp2+autism&submit=Search * Resource Discovery Pipeline, http://lucene1.neuinfo.org/nif_resource/current/annotation, negative dataSCR_005892(Integrated Auto-Extracted Annotation, RRID:SCR_005892)Integrated NIDA, NIH Blueprint for Neuroscience Researchrelated to: BioNOT, NIF Registry Automated Crawl Data, PubMed, used by: NIF Data FederationPMID:22434839Last checked downnlx_149462http://neuinfo.org/nif/nifgwt.html?query=nlx_149462
Integrated Manually Extracted AnnotationResource, data set, data or information resourceA virtual database of annotations made by 50 database providers (April 2014) - and growing (see below), that map data to publication information. All NIF Data Federation sources can be part of this virtual database as long as they indicate the publications that correspond to data records. The format that NIF accepts is the PubMed Identifier, category or type of data that is being linked to, and a data record identifier. A subset of this data is passed to NCBI, as LinkOuts (links at the bottom of PubMed abstracts), however due to NCBI policies the full data records are not currently associated with PubMed records. Database providers can use this mechanism to link to other NCBI databases including gene and protein, however these are not included in the current data set at this time. (To view databases available for linking see, http://www.ncbi.nlm.nih.gov/books/NBK3807/#files.Databases_Available_for_Linking ) The categories that NIF uses have been standardized to the following types: * Resource: Registry * Resource: Software * Reagent: Plasmid * Reagent: Antibodies * Data: Clinical Trials * Data: Gene Expression * Data: Drugs * Data: Taxonomy * Data: Images * Data: Animal Model * Data: Microarray * Data: Brain connectivity * Data: Volumetric observation * Data: Value observation * Data: Activation Foci * Data: Neuronal properties * Data: Neuronal reconstruction * Data: Chemosensory receptor * Data: Electrophysiology * Data: Computational model * Data: Brain anatomy * Data: Gene annotation * Data: Disease annotation * Data: Cell Model * Data: Chemical * Data: Pathways For more information refer to Create a LinkOut file, http://neuinfo.org/nif_components/disco/interoperation.shtm Participating resources ( http://disco.neuinfo.org/webportal/discoLinkoutServiceSummary.do?id=4 ): * Addgene http://www.addgene.org/pgvec1 * Animal Imaging Database http://aidb.crbs.ucsd.edu * Antibody Registry http://www.neuinfo.org/products/antibodyregistry/ * Avian Brain Circuitry Database http://www.behav.org/abcd/abcd.php * BAMS Connectivity http://brancusi.usc.edu/ * Beta Cell Biology Consortium http://www.betacell.org/ * bioDBcore http://biodbcore.org/ * BioGRID http://thebiogrid.org/ * BioNumbers http://bionumbers.hms.harvard.edu/ * Brain Architecture Management System http://brancusi.usc.edu/bkms/ * Brede Database http://hendrix.imm.dtu.dk/services/jerne/brede/ * Cell Centered Database http://ccdb.ucsd.edu * CellML Model Repository http://www.cellml.org/models * CHEBI http://www.ebi.ac.uk/chebi/ * Clinical Trials Network (CTN) Data Share http://www.ctndatashare.org/ * Comparative Toxicogenomics Database http://ctdbase.org/ * Coriell Cell Repositories http://ccr.coriell.org/ * CRCNS - Collaborative Research in Computational Neuroscience - Data sharing http://crcns.org * Drug Related Gene Database https://confluence.crbs.ucsd.edu/display/NIF/DRG * DrugBank http://www.drugbank.ca/ * FLYBASE http://flybase.org/ * Gene Expression Omnibus http://www.ncbi.nlm.nih.gov/geo/ * Gene Ontology Tools http://www.geneontology.org/GO.tools.shtml * Gene Weaver http://www.GeneWeaver.org * GeneDB http://www.genedb.org/Homepage * Glomerular Activity Response Archive http://gara.bio.uci.edu * GO http://www.geneontology.org/ * Internet Brain Volume Database http://www.cma.mgh.harvard.edu/ibvd/ * ModelDB http://senselab.med.yale.edu/modeldb/ * Mouse Genome Informatics Transgenes ftp://ftp.informatics.jax.org/pub/reports/MGI_PhenotypicAllele.rpt * NCBI Taxonomy Browser http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html * NeuroMorpho.Org http://neuromorpho.org/neuroMorpho * NeuronDB http://senselab.med.yale.edu/neurondb * SciCrunch Registry http://neuinfo.org/nif/nifgwt.html?tab=registry * NIF Registry Automated Crawl Data http://lucene1.neuinfo.org/nif_resource/current/ * NITRC http://www.nitrc.org/ * Nuclear Receptor Signaling Atlas http://www.nursa.org * Olfactory Receptor DataBase http://senselab.med.yale.edu/ordb/ * OMIM http://omim.org * OpenfMRI http://openfmri.org * PeptideAtlas http://www.peptideatlas.org * RGD http://rgd.mcw.edu * SFARI Gene: AutDB https://gene.sfari.org/autdb/Welcome.do * SumsDB http://sumsdb.wustl.edu/sums/ * Temporal-Lobe: Hippocampal - Parahippocampal Neuroanatomy of the Rat http://www.temporal-lobe.com/ * The Cell: An Image Library http://www.cellimagelibrary.org/ * Visiome Platform http://platform.visiome.neuroinf.jp/ * WormBase http://www.wormbase.org * YPED http://medicine.yale.edu/keck/nida/yped.aspx * ZFIN http://zfin.orgbiomedical, bibliographic, linkout, literatureSCR_008876(Integrated Manually Extracted Annotation, RRID:SCR_008876)Integrated related to: BAMS Connectivity, BioGRID, BioNumbers, PubMed, Brain Architecture Management System, CellML Model Repository, CHEBI, Comparative Toxicogenomics Database, Coriell Cell Repositories, Drug Related Gene Database, DrugBank, Gene Weaver, Internet Brain Volume Database, Cell Centered Database, Brede Database, ModelDB, NeuronDB, NeuroMorpho.Org, Nuclear Receptor Signaling Atlas , Cell Image Library (CIL), Animal Imaging Database, Olfactory Receptor DataBase, Glomerular Activity Response Archive, CRCNS, OMIM, Rat Genome Database (RGD), Visiome Platform, NIDA Data Share, bioDBcore, Addgene, Antibody Registry, Beta Cell Biology Consortium , FlyBase, SumsDB, SciCrunch Registry, Mouse Genome Informatics Transgenes, NCBI Taxonomy, OpenNeuro, PeptideAtlas, Temporal-Lobe: Hippocampal - Parahippocampal Neuroanatomy of the Rat, NIF Registry Automated Crawl Data, AutDB, Gene Expression Omnibus, Gene Ontology, Avian Brain Circuitry Database, Zebrafish Information Network, GeneDB, WormBase, YPED, used by: NIF Data Federation, listed by: NeuroImaging Tools and Resources Collaboratory (NITRC), Gene Ontology ToolsReferences (2)Last checked downnlx_149407http://neuinfo.org/nif/nifgwt.html?query=nlx_149407, https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_149407-1
NIF Registry Automated Crawl DataResource, data set, data or information resourceAn automatic pipeline based on an algorithm that identifies new resources in publications every month to assist the efficiency of NIF curators. The pipeline is also able to find the last time the resource's webpage was updated and whether the URL is still valid. This can assist the curator in knowing which resources need attention. Additionally, the pipeline identifies publications that reference existing NIF Registry resources as this is also of interest. These mentions are available through the Data Federation version of the NIF Registry, http://neuinfo.org/nif/nifgwt.html?query=nlx_144509 The RDF is based on an algorithm on how related it is to neuroscience. (hits of neuroscience related terms). Each potential resource gets assigned a score (based on how related it is to neuroscience) and the resources are then ranked and a list is generated.resource, mention, updateSCR_012862(NIF Registry Automated Crawl Data, RRID:SCR_012862)Neuroscience Information Framework NIDA, NIH Blueprint for Neuroscience Research, U.S. Department of Health and Human Servicesrelated to: PubMed Central, Integrated Auto-Extracted Annotation, Integrated Manually Extracted Annotation, PubMed, used by: NIF Data Federation, Integrated DatasetsPMID:22434839Last checked downnlx_144525http://lucene1.neuinfo.org/nif_resource/current/
NIF LiteratureResource, narrative resource, data or information resourceSimultaneous search across multiple literature indices, including PubMed and Open Access literature, it is one of the core resources of NIF accessed through the NIF search interface. Literature results are displayed under the Literature tab. Features: * Facet by Year, Author, and / or Journal * Option to search open access literature only * Sort by relevance or year * Snippets from the full text of the paper are included in search results where search term was found * LinkOuts are now provided for some papers. These mean that someone associated a reagent, piece of data, note/blog, etc., with this specific publication. * Searching within sections of articles is now possible within the open access literature. For more info, see, http://neuinfo.org/about/release_notes_4.5.shtm#search. * Annotate papers. Any user can submit a public comment or annotation of an open access paper through the DOMEO tool. For more information, see http://neuinfo.org/about/release_notes_4.5.shtm#annotateliterature, journal, pubmed, pubmed central, biomedical, open access, abstract, linkoutSCR_005401(NIF Literature, RRID:SCR_005401)Neuroscience Information Framework NIH Blueprint for Neuroscience Researchrelated to: NeuroMorpho.Org, NIF Web Services, DOMEO, PubMed, PubMed CentralLast checked downnlx_144510http://neuinfo.org/nif/nifgwt.html?query=*&tab=literature
Pubmed CommonsResource, narrative resource, discussion, forum, data or information resourceA forum where authors who have published in PubMed may comment on any publication in PubMed. Members of PubMed Commons are not anonymous and must agree to certain terms and guidelines concerning appropriate and inapproriate comments.forum, PubMed, commuicationSCR_014021(Pubmed Commons, RRID:SCR_014021)NIH, NLMrelated to: PubMed, Connected Researchers, listed by: Connected ResearchersLast checked down
ResearchGateResource, portal, data or information resource, community building portal, databaseA professional, social network and publication database geared to researchers where the latest field specific publications can be read, publications with other specialists can be discussed, and collaboration with colleagues is facilitated. They provide researchers with access to around 40 million abstracts and tens of thousands of Full texts, uploaded by the authors themselves. Researchers can search through 7 of the largest databases simultaneously, such as PubMed, IEEE & CiteSeer.social network, biology, literature, publication, bibliographic, abstract, collaborate, statistics, citationSCR_006505(ResearchGate, RRID:SCR_006505)related to: PubMed, listed by: FORCE11Last checked downnlx_143849
EBIMedResource, service resourceA web application that combines Information Retrieval and Extraction from Medline. EBIMed finds Medline abstracts in the same way PubMed does. Then it goes a step beyond and analyses them to offer a complete overview on associations between UniProt protein/gene names, GO annotations, Drugs and Species. The results are shown in a table that displays all the associations and links to the sentences that support them and to the original abstracts. By selecting relevant sentences and highlighting the biomedical terminology EBIMed enhances your ability to acquire knowledge, relate facts, discover implications and, overall, have a good overview economizing the effort in reading.protein, gene, annotation, drug, specie, association, databaseSCR_005314(EBIMed, RRID:SCR_005314)European Bioinformatics Institute related to: MEDLINE, PubMed, Gene Ontology, Universal Protein Resource, NCBI Taxonomy, MedlinePlus, listed by: OMICtoolsLast checked downOMICS_01180
Coremine MedicalResource, service resourceService to access comprehensive information on diseases, drugs, treatments and medical biology. It is ideal for those seeking an overview of a complex subject while allowing the possibility to drill down to specific details. Search results are presented in a dashboard format comprized of panels containing various categories of information ranging from introductory sources to the latest scientific articles.disease, drug, treatment, medical biology, text mining, health, medicine, biology, network, databaseSCR_005323(Coremine Medical, RRID:SCR_005323)PubGene European Union FP7, Innovation Norway, NLM, Research Council of Norwayrelated to: MeSH, Entrez Gene, MEDLINE, PubMed, DrugBank, Gene Ontology, Universal Protein Resource, listed by: OMICtoolsLast checked upOMICS_01179
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  1. RRID Portal Resources

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    Here are the facets that you can filter the data by.

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