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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
HapMap 3 and ENCODE 3Resource, data or information resource, databaseDraft release 3 for genome-wide SNP genotyping and targeted sequencing in DNA samples from a variety of human populations (sometimes referred to as the HapMap 3 samples). This release contains the following data: * SNP genotype data generated from 1184 samples, collected using two platforms: the Illumina Human1M (by the Wellcome Trust Sanger Institute) and the Affymetrix SNP 6.0 (by the Broad Institute). Data from the two platforms have been merged for this release. * PCR-based resequencing data (by Baylor College of Medicine Human Genome Sequencing Center) across ten 100-kb regions (collectively referred to as ENCODE 3) in 712 samples. Since this is a draft release, please check this site regularly for updates and new releases. The HapMap 3 sample collection comprises 1,301 samples (including the original 270 samples used in Phase I and II of the International HapMap Project) from 11 populations, listed below alphabetically by their 3-letter labels. Five of the ten ENCODE 3 regions overlap with the HapMap-ENCODE regions; the other five are regions selected at random from the ENCODE target regions (excluding the 10 HapMap-ENCODE regions). All ENCODE 3 regions are 100-kb in size, and are centered within each respective ENCODE region. The HapMap 3 and ENCORE 3 data are downloadable from the ftp site.human, gene, genotype, sequence, single nucleotide polymorphism, dna, softwareSCR_004563(HapMap 3 and ENCODE 3, RRID:SCR_004563)Baylor University; Texas; USA NHGRI, NIDCD, Wellcome Trustrelated to: NHGRI Sample Repository for Human Genetic Research, listed by: 3DVCLast checked downnlx_143820http://www.hgsc.bcm.tmc.edu/project-medseq-hm-hapmap3encode3.hgsc?pageLocation=hapmap3encode3
Genes to Cognition: Neuroscience Research ProgrammeResource, blog, topical portal, software application, narrative resource, portal, software resource, training material, data or information resourceA neuroscience research program that studies genes, the brain and behavior in an integrated manner, established to elucidate the molecular mechanisms of learning and memory, and shed light on the pathogenesis of disorders of cognition. Central to G2C investigations is the NMDA receptor complex (NRC/MASC), that is found at the synapses in the central nervous system which constitute the functional connections between neurons. Changes in the receptor and associated components are thought to be in a large part responsible for the phenomenon of synaptic plasticity, that may underlie learning and memory. G2C is addressing the function of synapse proteins using large scale approaches combining genomics, proteomics and genetic methods with electrophysiological and behavioral studies. This is incorporated with computational models of the organization of molecular networks at the synapse. These combined approaches provide a powerful and unique opportunity to understand the mechanisms of disease genes in behavior and brain pathology as well as provide fundamental insights into the complexity of the human brain. Additionally, Genes to Cognition makes available its biological resources, including gene-targeting vectors, ES cell lines, antibodies, and transgenic mice, generated for its phenotyping pipeline. The resources are freely-available to interested researchers.electrophysiological, es cell, functional, gene, gene-target vector, genetic, 1295s, allele, antibody, behavior, behavioral, brain, c57bl/6j, central nervous system, clone, cognition, computation, connection, deletion, disease, disorder, dlg3, dlg4, domain, genomic, guanylate kinase, hprt gene, hras1, human, knockout, learning, mechanism, memory, model, molecular, mouse, mutation, network, neuron, neuroscience, nmda receptor complex, pathogenesis, phenotyping, protein, proteomics, ptk2, strain, synapse, synaptic plasticity, syngap1, transgenic, modelSCR_007121(Genes to Cognition: Neuroscience Research Programme, RRID:SCR_007121)Wellcome Trust Sanger Institute; Hinxton; United Kingdom BBSRC, EPSRC, European Union, Framework Programme, Gatsby Charitable Foundation, Human Frontiers Science Programme, MRC, NSF, Wellcome Trustlisted by: 3DVCLast checked downnif-0000-10235
PomBaseResource, service resource, data or information resource, data repository, storage service resource, databaseModel organism database that provides organization of and access to scientific data for the fission yeast Schizosaccharomyces pombe. PomBase supports genomic sequence and features, genome-wide datasets and manual literature curation. PomBase also provides a community hub for researchers, providing genome statistics, a community curation interface, news, events, documentation, mailing lists, and welcomes data submissions.fission yeast, gene ontology, genome sequence, schizosaccharomyces pombe (4896), schizosaccharomyces pombe, dna, protein, cosmic assembly, intron, go, chromosome, telomere, centromere, mating region, data mapping, model organism, genomeSCR_006586(PomBase, RRID:SCR_006586)University of Cambridge; Cambridge; United Kingdom , European Bioinformatics Institute , University College London; London; United Kingdom Wellcome Trustrelated to: AmiGO, GeneDB Spombe, used by: NIF Data Federation, listed by: 3DVCPMID:22039153Last checked upnlx_144356http://www.sanger.ac.uk/Projects/S_pombe/
CellMLResource, narrative resource, interchange format, markup language, standard specification, data or information resourceThe CellML language is an open standard based on the XML markup language. The purpose of CellML is to store and exchange computer-based mathematical models. CellML allows scientists to share models even if they are using different model-building software. It also enables them to reuse components from one model in another, thus accelerating model building. Although CellML was originally intended for the description of biological models; CellML includes information about model structure (how the parts of a model are organizationally related to one another), mathematics (equations describing the underlying processes) and metadata (additional information about the model that allows scientists to search for specific models or model components in a database or other repository). The CellML team is committed to providing freely available tools for creating, editing, and using CellML models. We provide information regarding tools we are developing internally and links to external projects developing tools which utilize the CellML format. Please let us know if you have an open source CellML tool looking for a home on the internet, as we are able to offer limited hosting services on cellml.org.biological model, cell, mathematical model, mathematics, metadata, model structure, model, xml, annotation, mark up languageSCR_008061(CellML, RRID:SCR_008061)University of Auckland; Auckland; New Zealand aneurIST, Foundation for Research Science and Technology, International Union of Physiological Sciences: Physiome Project, Maurice Wilkins Centre for Molecular Biodiscovery, NZIMA, VPH NoE, Wellcome Trustrelated to: PathGuide: the pathway resource list, listed by: 3DVCReferences (7)Last checked upnif-0000-10448
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