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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 5, 2019)

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Resource NameResource TypeDescriptionKeywordsResource IDProper CitationParent OrganizationRelated ConditionFunding AgencyRelationReferenceWebsite StatusAlternate IDsAlternate URLsOld URLs
Causal Cognition GroupResource, topical portal, training resource, graduate program resource, undergraduate program resource, portal, degree granting program, data or information resourceAt the Website of the Causal Cognition Group (CCG) of the University of M??laga, you may read information about our group, its members, our research, main activities, and more. Our main interests are cognitive psychology and learning, and more recently cognitive neuroscience, physiological correlates of learning and cognitive control. This site is in constant evolution... though there are things that hardly change: Cognitio rei per causas.computational neuroscience, cognitive neuroscience, learning, cognitive control, erp, eeg, cognitive psychology, neuroscienceSCR_004780(Causal Cognition Group, RRID:SCR_004780)University of Malaga; Andalusia; Spain European Union, Junta de Andalucia, Spanish Ministry of ScienceLast checked upnlx_143899
InteroPorcResource, source code, data analysis service, data analysis software, data processing software, database, analysis service resource, software application, production service resource, service resource, software resource, data or information resourceAutomatic prediction tool to infer protein-protein interaction networks, it is applicable for lots of species using orthology and known interactions. The interoPORC method is based on the interolog concept and combines source interaction datasets from public databases as well as clusters of orthologous proteins (PORC) available on Integr8. Users can use this page to ask InteroPorc for all species present in Integr8. Some results are already computed and users can run InteroPorc to investigate any other species. Currently, the following databases are processed and merged (with datetime of the last available public release for each database used): IntAct, MINT, DIP, and Integr8.orthology, prediction, protein interaction, tool, sequenced genome, proteinprotein interaction, inferred interaction, molecular interaction, interaction, proteinSCR_002067(InteroPorc, RRID:SCR_002067)CEA; Gif sur Yvette; France European Union, French Atomic Energy Commission, French National Agency of Research, Marie Curie Fellowshiprelated to: Integr8 : Access to complete genomes and proteomes, IntAct, MINT, Database of Interacting Proteins, PSICQUIC RegistryPMID:18508856Last checked upnif-0000-20816
VideoLectures.NETResource, narrative resource, training material, video resource, data or information resourceAward-winning free and open access educational video lectures repository. The lectures are given by distinguished scholars and scientists at the most important and prominent events like conferences, summer schools, workshops and science promotional events from many fields of Science. The portal is aimed at promoting science, exchanging ideas and fostering knowledge sharing by providing high quality didactic contents not only to the scientific community but also to the general public. All lectures, accompanying documents, information and links are systematically selected and classified through the editorial process taking into account also users' comments.artificial science, machine learning, network, science, semantic, lecture, biology, chemistry, computers, computer science. environment, health sciences, life science, mathematics, medicine, physics, thechnologySCR_001972(VideoLectures.NET, RRID:SCR_001972)Jozef Stefan Institute; Ljubljana; Slovenia European UnionLast checked upnif-0000-10544
Biobanking and Biomolecular Resources Research Infrastructure (BBMRI)Resource, topical portal, database, biomaterial supply resource, portal, material resource, data or information resourceBBMRI is a pan-European and internationally broadly accessible research infrastructure and a network of existing and de novo biobanks and biomolecular resources. The infrastructure will include samples from patients and healthy persons, representing different European populations (with links to epidemiological and health care information), molecular genomic resources and biocomputational tools to optimally exploit this resource for global biomedical research. During the past 3 years BBMRI has grown into a 53-member consortium with over 280 associated organizations (largely biobanks) from over 30 countries, making it the largest research infrastructure project in Europe. During the preparatory phase the concept of a functional pan-European biobank was formulated and has now been presented to Member States of the European Union and for associated states for approval and funding. BBMRI will form an interface between specimens and data (from patients and European populations) and top-level biological and medical research. This can only be achieved through a distributed research infrastructure with operational units in all participating Member States. BBMRI will be implemented under the ERIC (European Research Infrastructure Consortium) legal entity. BBMRI-ERIC foresees headquarters (central coordination) in Graz, Austria, responsible for coordination of the activities of National Nodes established in participating countries. BBMRI is in the process of submitting its application to the European Commission for a legal status under the ERIC regulation, with an expected start date at the end of 2011. Major synergism, gain of statistical power and economy of scale will be achieved by interlinking, standardizing and harmonizing - sometimes even just cross-referencing - a large variety of well-qualified, up-to date, existing and de novo national resources. The network should cover (1) major European biobanks with blood, serum, tissue or other biological samples, (2) molecular methods resource centers for human and model organisms of biomedical relevance, (3) and biocomputing centers to ensure that databases of samples in the repositories are dynamically linked to existing databases and to scientific literature as well as to statistical expertise. Catalog of European Biobanks Username: guest / Password: catalogue The catalogue is intended to be used as a reference for scientists seeking information about biological samples and data suitable for their research. The BBMRI catalogue of European Biobanks provides a high-level description of Europe''s biobanks characteristics using a portal solution managing metadata and aggregate data of biobanks. The catalogue can be queried by country, by biobank, by ICD-groups, by specimen types, by specific strengths, by funding and more. A search function is available for all data.blood, serum, tissue, dna, cdna, rna, plasma, cell line, bodily fluid, urine, blood cell isolate, buffy coat, patient, healthy, normal, cryopreserved, paraffin embedded, clinical dataSCR_004226(Biobanking and Biomolecular Resources Research Infrastructure (BBMRI), RRID:SCR_004226)Medical University of Graz; Graz; Austria All, Patient, Healthy, NormalEuropean Unionrelated to: BioResource Impact Factor, German Biobank Registry, BioMedBridges, Biological Resource Centre - National Institute for Cancer Research, listed by: One Mind Biospecimen Bank ListingLast checked downnlx_24389
VectorBaseResource, service resource, data or information resource, data repository, storage service resource, databaseBioinformatics Resource Center for invertebrate vectors. Provides web-based resources to scientific community conducting basic and applied research on organisms considered potential agents of biowarfare or bioterrorism or causing emerging or re-emerging diseases.blast, clustalw, hmmer, vector, genomics, genome, sequence, population, insecticide resistance, annotation, microarray, gene expression, anatomy, pathogen, human, transcript, transcriptome, protein, proteome, mitochondria sequence, bioinformatics resource center, pathogen, arthropoda, vector control, ontology, software, source code, mitochondrial sequence, data analysis service, image collectionSCR_005917(VectorBase, RRID:SCR_005917)European Bioinformatics Institute , University of Notre Dame; Indiana; USA European Union, Evimalar network of excellence, INFRAVEC, NIAIDrelated to: ClustalW2, AnoBase: An Anopheles database, Hmmer, recommended by: National Library of Medicine, BRAIN Initiative, listed by: re3data.orgReferences (5)Last checked downnif-0000-03624
Genes to Cognition - Biological ResourcesResource, biomaterial supply resource, material resource, organism supplierBiological resources, including gene-targeting vectors, ES cell lines, antibodies, and transgenic mice, generated for its phenotyping pipeline as part of the Genes to Cognition research program are freely-available to interested researchers. Available Transgenic Mouse Lines: *Hras1 (H-ras) knockout,C57BL/6J *Dlg4 (PSD-95) knockout,129S5 *Dlg4 (PSD-95) knockout,C57BL/6J *Dlg3 (SAP102) knockout with hprt mutation,129S5 *Dlg3 (SAP102) knockout (wild-type for hprt,C57BL/6J *Syngap1 (SynGAP) knockout (from 8.24 clone), C57BL/6J *Dlg4 (PSD-95) guanylate kinase domain deletion, C57BL/6J *Ptk2 (FAK) knockout,C57BL/6Jtransgenic, mutant mouse strain, c57bl/6j, 129s5, transgenic mouse line, vector, es cell line, transgenic mouseSCR_001675(Genes to Cognition - Biological Resources, RRID:SCR_001675)University of Edinburgh; Scotland; United Kingdom BBSRC, EPSRC, European Union, Framework Programme, Gatsby Charitable Foundation, Human Frontiers Science Programme, MRC, NSF, Wellcome Trustlisted by: One Mind Biospecimen Bank ListingLast checked downnif-0000-10163
DTU Center for Biological Sequence AnalysisResource, topical portal, data access protocol, production service resource, analysis service resource, training resource, data analysis service, data set, web service, service resource, portal, software resource, data or information resourceThe Center for Biological Sequence Analysis of the Technical University of Denmark conducts basic research in the field of bioinformatics and systems biology and directs its research primarily towards topics related to the elucidation of the functional aspects of complex biological mechanisms. A large number of computational methods have been produced, which are offered to others via WWW servers. Several data sets are also available. The center also has experimental efforts in gene expression analysis using DNA chips and data generation in relation to the physical and structural properties of DNA. The on-line prediction services at CBS are available as interactive input forms. Most of the servers are also available as stand-alone software packages with the same functionality. In addition, for some servers, programmatic access is provided in the form of SOAP-based Web Services. The center also educates engineering students in biotechnology and systems biology and offers a wide range of courses in bioinformatics, systems biology, human health, microbiology and nutrigenomics.nucleotide, sequence, amino acid, dna, microarray, molecule, immunology, protein function, protein structure, protein, post-translational, whole genome, sequence analysisSCR_003590(DTU Center for Biological Sequence Analysis, RRID:SCR_003590)Technical University of Denmark; Lyngby; Denmark Danish Center for Scientific Computing, Danish National Research Foundation, Danish Research Councils, European Union, NIH, Novo Nordisk Foundation, Villum Kann Rasmussen FoundationLast checked upnlx_12329
Digital Repository Infrastructure Vision for European ResearchResource, service resource, data or information resource, data repository, storage service resource, databaseCohesive, robust and flexible, pan-European infrastructure for digital repositories, offering sophisticated services and functionalities for researchers, administrators and the general public. Access the network of freely accessible digital repositories with content across academic disciplines with over 3,500,000 scientific publications, found in journal articles, dissertations, books, lectures, reports, etc., harvested regularly from more than 295 repositories, from 38 countries. DRIVER has established a network of relevant experts and Open Access repositories. DRIVER-II will consolidate these efforts and transform the initial testbed into a fully functional, state-of-the art service, extending the network to a larger confederation of repositories. It aims to optimize the way the e-Infrastructure is used to store knowledge, add value to primary research data and information making secondary research more effective, provide a valuable asset for industry, and help bridging research and education. The objectives of DRIVER-II, the second phase of the project, include efforts to expand, enrich, and strengthen the results of DRIVER, in the following areas: * strategic geographic and community expansion by means of the DRIVER confederation * establish a robust, scalable repository infrastructure accompanied by an open source software package D-Net * broader coverage of content through the use of enhanced publications * advanced end-user functionality to support scientific exploration of complex digital objects * larger outreach and advocacy programs * continued repository support * guidelines for interoperability in the larger European digital library communitydigital, publication, repository, scholarly information, publication, primary data, educational material, digital repository, infrastructure, interoperability, networkingSCR_002752(Digital Repository Infrastructure Vision for European Research, RRID:SCR_002752)University of Athens; Athens; Greece European UnionLast checked upnif-0000-24122
Zebrafish Brain AtlasResource, reference atlas, service resource, storage service resource, atlas, image repository, data repository, data or information resourceCollates and curates neuroanatomical data and information generated both in-house and by community to communicate current state of knowledge about neuroanatomical structures in developing zebrafish. Most of data come from high resolution confocal imaging of intact brains in which neuroanatomical structures are labelled by combinations of transgenes and antibodies. Community repository for image based data related to neuroanatomy of zebrafish.brain, neuroanatomy, developing, transgene, antibody, confocal, section, reconstruction, high-resolution, developmental stage, embryo, brain structure, confocal imaging, comparative anatomy, transgenic, 3d spatial image, video, embryonic zebrafish, development, annotation, narrative resource, training material, cell repositorySCR_000606(Zebrafish Brain Atlas, RRID:SCR_000606)University College London; London; United Kingdom BBSRC, European Union, Wellcome Trustrecommends: Zebrafish Anatomical Ontology, listed by: One Mind Biospecimen Bank ListingLast checked upnlx_149455
EnsemblResource, data analysis service, data access protocol, database, web service, production service resource, analysis service resource, catalog, service resource, software resource, data or information resourceCollection of genome databases for vertebrates and other eukaryotic species with DNA and protein sequence search capabilities. Used to automatically annotate genome, integrate this annotation with other available biological data and make data publicly available via web. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species.collection, genome, dataset, database, vertebrate, eukaryotic, DNA, protein, sequence, search, automaticly, annotate, dataSCR_002344(Ensembl, RRID:SCR_002344)European Bioinformatics Institute , Wellcome Trust Sanger Institute; Hinxton; United Kingdom BBSRC, EMBL, European Union, FP6, FP7, MRC, NHGRI, Wellcome Trustrelated to: Ensembl Genomes, GermOnline, CandiSNPer, Human Splicing Finder, NGS-SNP, Sanger Mouse Resources Portal, DECIPHER, Ensembl Genomes, PeptideAtlas, AnimalTFDB, Bgee: a dataBase for Gene Expression Evolution, FlyMine, Rat Gene Symbol Tracker, UniParc at the EBI, go-db-perl, UniParc, G:Profiler, RIKEN integrated database of mammals, VBASE2, p300db, used by: NIF Data Federation, Animal QTLdb, Monarch Initiative, ChannelPedia, Blueprint Epigenome, HmtPhenome, listed by: OMICtools, Biositemaps,, LabWorm, works_with: Genotate, CellPhoneDB, Open Regulatory Annotation DatabaseReferences (2)Last checked upnif-0000-21145, OMICS_01647
Kidney and Urinary Pathway Knowledge BaseResource, data analysis service, production service resource, analysis service resource, data set, service resource, storage service resource, data repository, data or information resourceA collection of omics datasets (mRNA, proteins and miRNA) that have been extracted from PubMed and other related renal databases, all related to kidney physiology and pathology giving KUP biologists the means to ask queries across many resources in order to aggregate knowledge that is necessary for answering biological questions. Some microarray raw datasets have also been downloaded from the Gene Expression Omnibus and analyzed by the open-source software GeneArmada. The Semantic Web technologies, together with the background knowledge from the domain's ontologies, allows both rapid conversion and integration of this knowledge base. SPARQL endpoint The KUPKB Network Explorer will help you visualize the relationships among molecules stored in the KUPKB. A simple spreadsheet template is available for users to submit data to the KUPKB. It aims to capture a minimal amount of information about the experiment and the observations made.kidney, urinary, urine, pathway, molecule, visualizer, gene, protein, mirna, metabolite, mrna, microarray, ortholog, rdf, renal cell, anatomy, animal model, disease, sparql, proteomics, ontology, biomarker, gene expression, physiology, pathologySCR_001746(Kidney and Urinary Pathway Knowledge Base, RRID:SCR_001746)University of Manchester; Manchester; United Kingdom , National Institute of Health and Medical Research; Rennes; France Kidney diseaseEuropean Union, FP7, ICT-2007.4.4 e-LICO projectrelated to: NIDDK Information Network, Gene Expression Omnibus, Gene Ontology, KEGG, submitted by: NIDDK Information NetworkPMID:21624162Last checked downnlx_154134
Colon Therapy Research Consortium (COLTHERES)Resource, organization portal, portal, consortium, data or information resourceThe Colon Therapy Research (COLTHERES) consortium brings together clinical centers and translational researchers funded in the European Union to define and perform biomarker driven clinical trials to improve cancer therapy outcomes. This 4-year consortium will use comprehensively molecularly-annotated colon cancers as a "test-bed" to define specific biomarkers of response or resistance to signaling pathway agents.translational, clinical, colon cancer, colon, biomarkersSCR_013690(Colon Therapy Research Consortium (COLTHERES), RRID:SCR_013690)European UnionLast checked down
EPILEPSIE databaseResource, data or information resource, databaseA comprehensive database for human surface and intracranial EEG data that is suitable for a broad range of applications e.g. of time series analyses of brain activity. Currently, the EU database contains annotated EEG datasets from more than 200 patients with epilepsy, 50 of them with intracranial recordings with up to 122 channels. Each dataset provides EEG data for a continuous recording time of at least 96 hours (4 days) at a sample rate of up to 2500 Hz. Clinical patient information and MR imaging data supplement the EEG data. The total duration of EEG recordings included execeeds 30000 hours. The database is composed of different modalities: Binary files with EEG recording / MR imaging data and Relational database for supplementary meta data.seizure, electroencephalography, mri, eeg recording, metadata, intracranial, surface, time series analyses, brain activity, brain, clinical, image collectionSCR_003179(EPILEPSIE database, RRID:SCR_003179)University of Freiburg; Baden-Wurttemberg; Germany EpilepsyBMBF, European Union, Excellence Initiative of the German Federal and State Governments, German Science Foundationlisted by: NeuroImaging Tools and Resources Collaboratory (NITRC)PMID:22738131Last checked upnlx_156892
ProDomResource, data analysis service, production service resource, analysis service resource, database, service resource, data or information resourceComprehensive set of protein domain families automatically generated from UniProt Knowledge Database. Automated clustering of homologous domains generated from global comparison of all available protein sequences.set, protein, domain, family, automatically, generated, UniProt, database, homologous, sequence, compareSCR_006969(ProDom, RRID:SCR_006969)PRABI European Union, ‘Programme de Bio-Informatique InterOrganismes, Re´seau des Ge´nopolesrelated to: Universal Protein Resource, InterPro, listed by: OMICtoolsReferences (2)Last checked upnif-0000-03342, OMICS_01698
Gene OntologyResource, organization portal, consortium, portal, project portal, knowledge environment resource, data or information resourceComputable knowledge regarding functions of genes and gene products. GO resources include biomedical ontologies that cover molecular domains of all life forms as well as extensive compilations of gene product annotations to these ontologies that provide largely species-neutral, comprehensive statements about what gene products do. Used to standardize representation of gene and gene product attributes across species and databases.gene, product, annotation, molecular, function, cellular, biological, role, database, query, obo, gold standardSCR_002811(Gene Ontology, RRID:SCR_002811)European Union, NHGRIrelated to: GenNav, SynaptomeDB, High-Throughput GoMiner, Onto-Design, OnEx - Ontology Evolution Explorer, Avadis, GONUTS, PiNGO, Automated Microarray Pipeline, categoryCompare, globaltest, Semantic Measures Library, WegoLoc, AnimalTFDB, MEME Suite - Motif-based sequence analysis tools, Arabidopsis Hormone Database, DAVID, Arabidopsis thaliana Protein Interactome Database, TM4 Microarray Software Suite - TIGR MultiExperiment Viewer, pSTIING, GoMiner, FunSimMat, GeneSpeed- A Database of Unigene Domain Organization , Centre for Modeling Human Disease Gene Trap Resource, Patterns of Gene Expression in Drosophila Embryogenesis, Babelomics, BioPerl, GeneCruiser, GOLEM An interactive, graphical gene-ontology visualization, navigation, and analysis tool, GOToolBox Functional Investigation of Gene Datasets, Cotton EST Database, MouseNET, PLANTTFDB, T-profiler, Physico-Chemical Process, Integrated Molecular Interaction Database, SEGS, GOCat, Quantitative Enrichment of Sequence Tags, Neural-Immune Gene Ontology, INMEX, StRAnGER, QuickGO, Repository of molecular brain neoplasia data, Cardiovascular Gene Ontology Annotation Initiative, PANTHER, Short Time-series Expression Miner (STEM), DATFAP, GORetriever, Gene Ontology Browsing Utility (GOBU), GeneTools, GOSlimViewer, go-moose, Network Ontology Analysis, Onto-Compare, Onto-Express, OntoVisT, STRAP, CGAP GO Browser, COBrA, Gene Class Expression, GeneInfoViz, GOfetcher, GoFish, GOProfiler, GOanna, Manatee, Pandora - Protein ANnotation Diagram ORiented Analysis, TAIR Keyword Browser, Wandora, GOTaxExplorer, Onto-Miner, Onto-Translate, ToppGene Suite , DBD - Slim Gene Ontology, ONTO-PERL, Blip: Biomedical Logic Programming, OWL API, CLENCH, BiNGO: A Biological Networks Gene Ontology tool, CateGOrizer, FuSSiMeG: Functional Semantic Similarity Measure between Gene-Products, ProteInOn, GeneMerge, GraphWeb, ClueGO, CLASSIFI - Cluster Assignment for Biological Inference, GOHyperGAll, FuncAssociate: The Gene Set Functionator, GOdist, FuncExpression, FunCluster, FIVA - Functional Information Viewer and Analyzer, GARBAN, GOEx - Gene Ontology Explorer, SGD Gene Ontology Slim Mapper, GOArray, SNPsandGO, GoSurfer, GOtcha, MAPPFinder, GoAnnotator, MetaGeneProfiler, OntoGate, ProfCom - Profiling of complex functionality, SerbGO, SOURCE, Ontologizer, THEA - Tools for High-throughput Experiments Analysis, Generic GO Term Mapper, GREAT: Genomic Regions Enrichment of Annotations Tool, GoBean - a Java application for Gene Ontology enrichment analysis, TXTGate, GO-Module, IT-GOM: Integrated Tool for IC-based GO Semantic Similarity Measures, G-SESAME - Gene Semantic Similarity Analysis and Measurement Tools, MalaCards, FSST - Functional Similarity Search Tool, Expression Profiler, GOChase, GoPubMed, Whatizit, REViGO, WEGO - Web Gene Ontology Annotation Plot, Blast2GO, InterProScan, PubSearch, TrED, CharProtDB: Characterized Protein Database, VirHostNet: Virus-Host Network, Pathbase, GO Online SQL Environment (GOOSE), Neurobehavior Ontology, InterSpecies Analysing Application using Containers, KOBAS, ConceptWiki, GeneTerm Linker, Bioconductor, ErmineJ, Gene Ontology For Functional Analysis (GOFFA), MGI GO Browser, Comparative Toxicogenomics Database, GOEAST - Gene Ontology Enrichment Analysis Software Toolkit, Ontology Lookup Service, LexGrid, WebGestalt: WEB-based GEne SeT AnaLysis Toolkit, G:Profiler, OwlSim, GOrilla: Gene Ontology Enrichment Analysis and Visualization Tool, YeTFaSCo, FastSemSim, RamiGO, AutismKB, GeneCodis, FunSpec, FunNet - Transcriptional Networks Analysis, PhenoM - Phenomics of yeast Mutants, agriGO, GOblet, DynGO, SeqExpress, ProbeExplorer, ECgene: Gene Modeling with Alternative Splicing, Organelle DB, Gemma, Candidate Genes to Inherited Diseases, Proteome Analyst PA-GOSUB, Network Analysis, Visualization and Graphing TORonto, GOstat, Onto-Express To Go (OE2GO), Tk-GO, EGAN: Exploratory Gene Association Networks, Spotfire, GOMO - Gene Ontology for Motifs, GFINDer: Genome Function INtegrated Discoverer, Generic GO Term Finder, Agile Protein Interactomes DataServer, AgingDB, UBERON, Algal Functional Annotation Tool, gsGator, Flash Gviewer, Cerebellar Development Transcriptome Database, PlantNATsDB - Plant Natural Antisense Transcripts DataBase, EASE: the Expression Analysis Systematic Explorer, PiGenome, L2L Microarray Analysis Tool, MeGO, CELDA Ontology, Diabetes Disease Portal, MatrixDB, Kidney and Urinary Pathway Knowledge Base, MouseCyc, Candida Genome Database, Honey Bee Brain EST Project, ECO, FlyMine, Gramene, 3D-Interologs, Biomine, UniProtKB, NCBI BioSystems Database, EBIMed, Coremine Medical, EMAGE Gene Expression Database, GeneMANIA, Yeast Search for Transcriptional Regulators And Consensus Tracking, GeneTrail, Magic, Mouse Genome Informatics (MGI), FlyBase, InterPro, InnateDB, canSAR, HPRD - Human Protein Reference Database, CRCView, Integrated Manually Extracted Annotation, LegumeIP, Renal Disease Portal, PhenoGO, DOAF, OBO, used by: NIF Data Federation, GreenPhylDB, LIPID MAPS Proteome Database, Aging Portal, Monarch Initiative, ChannelPedia, Open PHACTS, CoPub, PhenoGO, Database for Annotation Visualization and Integrated Discovery, MitoMiner, dcGO, Pathway Analysis Tool for Integration and Knowledge Acquisition, barleyGO, SynGO, Functional Annotation, listed by: BioPortal, OBO, OMICtools, affiliated with: Mouse Genome Informatics: The Gene Ontology Project, works_with: topGO, DIANA-mirPathReferences (2)Last checked upnif-0000-02915, OMICS_02278
orienTMResource, analysis service resource, data analysis service, service resource, production service resourceA computer software that utilizes an initial definition of transmembrane segments to predict the topology of transmembrane proteins from their sequence. It uses position-specific statistical information for amino acid residues which belong to putative non-transmembrane segments derived from a statistical analysis of non-transmembrane regions of membrane proteins stored in the SwissProt database. Its accuracy compares well with that of other popular existing methods.topology, prediction, transmembrane, protein, segment, algorithm, transmembrane proteinSCR_006218(orienTM, RRID:SCR_006218)University of Athens Biophysics and Bioinformatics Laboratory European Unionrelated to: waveTM, DAM-BioPMID:11477216Last checked upnlx_151764
Biocatalogue - The Life Science Web Services RegistryResource, web service, software resource, data or information resource, data access protocol, databaseCrowd-curated catalog of life sciences Web services with over 2400 service entries, thereby enabling users (people and programs) to discover and use these services easily. It provides a platform with several (standardized) interfaces and a suite of tools for registration of services by the community of users as well as empowers the community to extend and enhance the system. BioCatalogue provides a centralized biological web services market place which is accessible to the world as it is searchable and indexable to search engines. Additionally, it provides a quality of service standard for biological web services thereby enabling services to be classified and checked for availability, reliability and other quality measures. Primary goals: * Provide a single registration point for Web Service providers and a single search site for scientists and developers. * Providers, Expert curators and Users will provide oversight, monitor the catalog and provide high quality annotations for services. * BioCatalogue is a place where the community can find contacts and meet the experts and maintainers of these services.biological, web, life science, programmatic access, bioinformatics, registry, annotationSCR_001679(Biocatalogue - The Life Science Web Services Registry, RRID:SCR_001679)European Bioinformatics Institute , University of Manchester; Manchester; United Kingdom EMBO, European Unionrelated to: MetaLocGramN, myExperiment, bioDBcorePMID:20484378Last checked upnif-0000-10167
Chernobyl Tissue BankResource, biomaterial supply resource, material resourceThe CTB (Chernobyl Tissue Bank) is an international cooperation that collects, stores and disseminates biological samples from tumors and normal tissues from patients for whom the aetiology of their disease is known - exposure to radioiodine in childhood following the accident at the Chernobyl power plant. The main objective of this project is to provide a research resource for both ongoing and future studies of the health consequences of the Chernobyl accident. It seeks to maximize the amount of information obtained from small pieces of tumor by providing multiple aliquots of RNA and DNA extracted from well documented pathological specimens to a number of researchers world-wide and to conserve this valuable material for future generations of scientists. It exists to promote collaborative, rather than competitive, research on a limited biological resource. Tissue is collected to an approved standard operating procedure (SOP) and is snap frozen; the presence or absence of tumor is verified by frozen section. A representative paraffin block is also obtained for each case. Where appropriate, we also collect fresh and paraffin-embedded tissue from loco-regional metastases. Currently we do not issue tissue but provide extracted nucleic acid, paraffin sections and sections from tissue microarrays from this material. The project is coordinated from Imperial College, London and works with Institutes in the Russian Federation (the Medical Radiological Research Centre in Obninsk) and Ukraine (the Institute of Endocrinology and Metabolism in Kiev) to support local scientists and clinicians to manage and run a tissue bank for those patients who have developed thyroid tumors following exposure to radiation from the Chernobyl accident. Belarus was also initially included in the project, but is currently suspended for political reasons.SCR_010662(Chernobyl Tissue Bank, RRID:SCR_010662)Imperial College London; London; United Kingdom Tumor, Normal, Exposure to radioiodine in childhood following the accident at the Chernobyl power plantEuropean Union, NCI, Sasakawa Memorial Health Foundationlisted by: One Mind Biospecimen Bank ListingLast checked upnlx_70828
Recombinase (cre) ActivityResource, data or information resource, databaseCurated data about all recombinase-containing transgenes and knock-ins developed in mice providing a comprehensive resource delineating known activity patterns and allows users to find relevant mouse resources for their studies.cre, recombinase, transgene, knock-in, allele, expression, activity pattern, mutagenesis, promoter, driver, image, tissue, specificity assaySCR_006585(Recombinase (cre) Activity, RRID:SCR_006585)Mouse Genome Informatics (MGI) European Union, NCRR, NICHDrelated to: International Mouse Strain Resource, CREATE, JAX Cre Repository, Allen Institute for Brain Science, CRE Driver Network, Pleiades Promoter Project: Genomic Resources Advancing Therapies for Brain Disorders, EUCOMMTOOLSLast checked upnlx_152803, SCR_017520
Arabidopsis ReactomeResource, data or information resource, databaseCurated database of core pathways and reactions in plant biology that covers biological pathways ranging from the basic processes of metabolism to high-level processes such as cell cycle regulation. While it is targeted at Arabidopsis pathways, it also includes many biological events from other plant species. This makes the database relevant to the large number of researchers who work on other plants. Arabidopsis Reactome currently contains both in-house curated pathways as well as imported pathways from AraCyc and KEGG databases. All the curated information is backed up by its provenance: either a literature citation or an electronic inference based on sequence similarity. Their ontology ensures that the various events are linked in an appropriate spatial and temporal context.pathway, reaction, biological processSCR_002063(Arabidopsis Reactome, RRID:SCR_002063)John Innes Centre; Norwich; United Kingdom European Unionuses: AraCyc, KEGG, listed by: 3DVCLast checked downnif-0000-20812
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