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ABCDEFGHIJKLMNOPQRSTUVWXYZAAABACADAEAFAGAHAIAJ
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has this fieldRegistry/ToolRegistry/ToolRegistry/ToolRegistry/ToolToolToolToolToolToolToolRegistry/toolToolToolToolTool repositoryTool repositoryTool repository
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no field found
http://www.biojs.io/d/cttv.genome
https://www.biocatalogue.org/
https://toolshed.g2.bx.psu.edu/
https://galaxyproject.org/
http://www.bridgedb.org/
https://github.com/ISA-tools/OntoMaton
http://www.ebi.ac.uk/spot/zooma/about.html
http://www.rightfield.org.uk/
http://www.taverna.org.uk/
https://www.bioconductor.org/packages/release/BiocViews.html#___Software
http://www.bridgedb.org/
http://bioinformatics.hsanmartino.it/clima2/
http://mobidb.bio.unipd.it/
https://www.france-bioinformatique.fr/en/services/tools
http://rainbio.france-bioinformatique.fr/rainbio/
http://protein.bio.unipd.it/services
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partial matchBioToolsBioJSRafaBiocatalogueAleš & BraneGalaxy tools shedGalaxyBridgeDBRafaOntomatonFedericoZoomaNormanRightFieldAnnaTavernaBioconductorUtrDBFlavioCLIMA 2PaoloMobiDBIvanIFBDomRAINBioJonathan
BioComputing UP
Ivan
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Schema.org/SoftwareApplication FieldPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContentPropertyContent
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Linkhttp://schema.org/SoftwareApplicationhttps://github.com/bio-tools/biotoolsSchema/tree/master/biotools-2.0-beta-02
https://www.biocatalogue.org/services/3844
https://docs.galaxyproject.org/en/latest/dev/schema.html
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summaryAcronymUTRdbAcronymCLIMA 2.1
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namesummary/namenamecttv.genomeNameDisorder Atlastool.nameConvert FASTQ to FASTAnameBiojs-CytoscapenameBridgeDb
Repository name
OntoMatontitleZOOMATitleRightFieldNameUTRdb databaseNameCell Line Integrated Molecular AuthenticationNameMobiDBABSYNTENameBWAName
BioComputing UP services
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softwareVersionsummary/versionVersion0.0.15id.version1.0.0SoftwareVersionversion: 2.7.10Version2.1.1
Lastest Release
V2.0Version:2.0.0Version0.22Release10.0Version2.1.201505Version"2.0"Raw version0.6.2
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none - maybe citation?summary/doiCitations of this serviceNo info yetcitation10.1093/bioinformatics/btq281
Recommended citation
Wolstencroft K, Owen S, Horridge M, Krebs O, Mueller W, Snoep JL, du Preez F, Goble CA (2011), RightField: Embedding ontology annotation in spreadsheets, Bioinformatics (2011) 15;27(14):pp2021-2
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no matchsummary/shortDescriptionDescriptionOntoMaton facilitates ontology search and tagging functionalities within Google Spreadsheets. http://isa-tools.org
Description
PUBMED: 21622664, DOI: 10.1093/bioinformatics/btr312
SubtitleA database of protein disorder and mobility annotations
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descriptionsummary/descriptiondescriptionLightweight genome browser for CTTV targets based on TnT GenomeDescriptionDisorder Atlas is a web-based service that facilitates the interpretation of intrinsic disorder predictions using proteome-based descriptive statistics. This service is also equipped to facilitate large-scale systematic exploratory searches for proteins encompassing disorder features of interest, and further allows users to browse the prevalence of multiple disorder features at the proteome level. Disorder Atlas is freely available for non-commercial users at http://www.disorderatlas.org.descriptiondescriptionGraph theory (a.k.a. network) library for analysis and visualisationdescriptionBridgeDb is a framework for finding and mapping equivalent database identifiers. It has many facets: it is both a framework, live services, and are identifier mapping files for genes, proteins, and metabolites.descriptionZOOMA is an application for discovering optimal ontology mappings, developed by the Samples, Phenotypes and Ontologies Team at EBI. It can be used to automatically annotate "properties" (plain text, descriptive values about biological entities) with "semantic tags" (ontology classes).descriptionUTRdb is a curated database of 5' and 3' untranslated sequences of eukaryotic mRNAs, derived from several sources of primary data. Experimentally validated functional motifs .....AboutMobiDB was designed to offer a centralized resource for annotations of intrinsic protein disorder. The database features three levels of annotation: manually curated, indirect and predicted. As shown in the figure below, the different sources present a clear tradeoff between quality and coverage. By combining them all into a consensus annotation, MobiDB aims at giving the best possible picture of the "disorder landscape" of a given protein of interest.Description
Web service designed to display local syntenies in completely sequenced prokaryotic chromosomes.
Description...
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about?summary/homepageBase URLhttp://www.disorderatlas.orgurlhttp://www.biojs.io/d/cytoscapeRepo URLhttps://github.com/ISA-tools/OntoMatonRepo URLhttps://github.com/myGrid/RightFieldhomepagehttp://utrdb.ba.itb.cnr.it/Homepagehttp://mobidb.bio.unipd.it/Homepage
http://protein.bio.unipd.it/services
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sameAssummary/mirrorAnnual visitors
974 visits en 2015.
Raw nameBWA 0.6.2
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installUrlsummary/repositoryReleasehttps://github.com/ISA-tools/OntoMaton/releasesReleasehttps://github.com/myGrid/RightField/releasesUnique visitors304 last yearURI
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no matchsummary/socialMedia
Access conditions
web server + web service, http://archaea.u-psud.fr/absynte Gratuit pour u-psud.
Other URIs
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featureListfunction/operationCommand
npm install cytoscape
facilitates ontology search and tagging functionalities within Google Spreadsheets
FunctionCell line identification through STR profile
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no matchfunction/input/datasourceGoogle SpreadsheetsinputExcel spreadsheetSTR profileHelp (input)Search box, rest apiDownloads820
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no matchfunction/input/formattargetGoogle Spreadsheetsformatxls
LiIst of loci/values
Search box format (help)
UniProt text query
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no matchfunction/output/dataoutputs.dataoutputExcel spreadsheet
Aligned STR profiles
OutputMobiDB Consensus
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no matchfunction/output/format
outputs.data#format
fastaformatxls
Lists of loci/values plus score
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no matchfunction/commentDataAccessWeb,REST,downolad
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applicationCategorylabels/toolTypeTypeRESTTypeDatabaseSubtitleDatabase
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genre?labels/topicTopicTranscriptomicsSubtitleProtein disorderkeywords
NGS, WEG-S, WGS, Mutations, Annotation, Filtration
Topic
Repeats Structure Sequence Function Modeling Disorder Aggregation
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no matchlabels/goTermId
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no matchlabels/soTermId
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no matchlabels/taxidtaxid2759
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operatingSystemlabels/operatingSystem
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no matchlabels/language
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licenselabels/licenseLicenceApache 2.0License(s)No info yetlicenseMITLicenseCreative CommonsLicense url
http://protein.bio.unipd.it/LICENSE
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no matchlabels/statusstatusMatureStatus
New/Active or inactive
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applicationSuitelabels/collection
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no matchrelation/biotoolsID
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no matchrelation/type
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no matchimageLogohttps://avatars.githubusercontent.com/u/8728108?v=3LogoLogo
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no matchimage/urlLogo URLhttp://bioinformatics.hsanmartino.it/clima2/clima2_logo.pngLogo URLhttp://mobidb.bio.unipd.it/img/mobidb_logo_w.pngLogo URL
https://www.france-bioinformatique.fr/sites/default/files/outils-logo/glsearch-mini_1.png
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no matchimage/diskFormat
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no matchimage/containerFormat
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downloadURLdownloaddownloads88613Download
Download center
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downloadURLdownload/urlDownloadhttps://github.com/bridgedb/BridgeDb/releases/tag/release_2.1.1Download url
http://protein.bio.unipd.it/download/
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fileFormatdownload/type
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download/comment
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softwareHelpdocumentationDocumentation URLNone
Training material
If you are new to ZOOMA, take a look at our getting started guide.Help
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softwareHelp:urldocumentation/urlLinkhttps://github.com/cytoscape/cytoscape.jsDocumentationHelp pagehttp://bioinformatics.hsanmartino.it/clima2/clima2_help.phpHelp urlhttp://mobidb.bio.unipd.it/help
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softwareHelp:genre?documentation/typeRepositoryGitHub
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softwareHelp:description/reviewdocumentation/commentCommentview code
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citationpublicationPublication about this serviceVincent, M., Whidden, M., and Schnell, S. (2016). Quantitative proteome-based guidelines for intrinsic disorder characterization. Biophysical Chemistry 213, 6-16. DOI: 10.1016/j.bpc.2016.03.005PublicationsThe BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. van Iersel MP, Pico AR, Kelder T, Gao J, Ho I, Hanspers K, Conklin BR, Evelo CT. BMC Bioinformatics. 2010 Jan 4;11(1):5.PublicationEamonn Maguire, Alejandra González-Beltrán, Patricia L. Whetzel, Susanna-Assunta Sansone, and Philippe Rocca-Serra
OntoMaton: a Bioportal powered ontology widget for Google Spreadsheets
Bioinformatics 2013 29: 525-527.
Pubicationhttp://nar.oxfordjournals.org/content/early/2014/10/31/nar.gku982.abstract?sid=f4925df4-5bec-4701-b897-4d18e7fbbc12Citation8
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citation:publication/doidoi10.1093/nar/gkp902doi10.1093/nar/gkn730
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no matchpublication/pmidPMID19880380PMID18927105
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no matchpublication/pmcidPMCPMC2808995
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accountablePersoncontactContact infoSantiago Schnel, E-mail: schnells@umich.eduContact
CNR ITB-Bari staff
FootnoteMobiDB created by BiocomputingUP Lab, University of Padua, Italy.
Gautheret Daniel
Contact
Department of Biomedical Sciences, University of Padua
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accountablePersoncontact/emailEmail addressschnells [at] umich.eduContactFor questions and to provide feedback, please contact spot-ontology-support@ebi.ac.uk.email
bigstaff@ba.itb.cnr.it
emailpaolo.romano@hsanmartino.it
Gautheret Daniel
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accountablePersoncontact/urlContact URL
bioinformatics.ba.itb.cnr.it
Contact urlhttp://mobidb.bio.unipd.it/contactContact url
http://www.biomed.unipd.it/
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accountablePersoncontact/nameAuthorMiguel PignatelliMembers responsible for this serviceSantiago SchnellDevelopersChristian BrenninkmeijerContact namePaolo Romano
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accountablePersoncontact/tel
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accountablePersoncontact/type
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creator or editor (can be person or organization)
creditProviderUniversity of Michigan Medical School
Recommended citation
Wolstencroft K, Owen S, Horridge M, Krebs O, Mueller W, Snoep JL, du Preez F, Goble CA (2011), RightField: Embedding ontology annotation in spreadsheets, Bioinformatics (2011) 15;27(14):pp2021-2
creditCNR-ITB, BariCiteCiting MobiDB
Emilio Potenza, Tomás Di Domenico, Ian Walsh, and Silvio C.E. Tosatto: MobiDB 2.0: an improved database of intrinsically disordered and mobile proteins Nucl. Acids Res. (2014) doi:10.1093/nar/gku982
Platform
Provided by eBio
Credit
2016 © BioComputing UP. All Rights Reserved.
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Person:urlcredit/orcidId
PUBMED: 21622664, DOI: 10.1093/bioinformatics/btr312
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Organization:urlcredit/gridId
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P/O:name (person or organization)credit/nameSubmitter/SourceSantiago SchnellISA Team
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P/O:url (person or organization)credit/urlhttp://isa-tools.org/Credit doidoi:10.1093/nar/gku982Platform
https://www.france-bioinformatique.fr/en/platforms/ebio
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implied from P or O type being usedcredit/entityUniversity of Oxford's e-Research CentreFootnoteMobiDB created by BiocomputingUP Lab, University of Padua, Italy.
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no matchcredit/role
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applicationSubCategoryno matchkeywordscttv, tnt, genome browsers, nps, variation, diseaseCostDisorder Atlas is freely available for non-commercial users. Individuals seeking to use Disorder Atlas for commercial purposes should contact schnells@umich.edu.keywordsgraph,graph-theory,network,node,edge,vertex,link,analysis,visualisation,visualization,requirejs,amd,commonjs,npm,nodejs,bower,jqueryToolsBridgeDb PluginsRelease Date:01-04-2016
Contact Institute
IRCSS AOU San Martino IST
Part of collection (url)
http://protein.bio.unipd.it/services
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availableOnDeviceno matchSource codehttps://github.com/CTTV/targetGenomeBrowserUsage conditionsNo info yetmodified25 days agoWebservicehttp://webservice.bridgedb.org/Build number:e6fd70607441ec4aea8a2a3a81f2b6bb3b66c706
Contact Service
Bioinformatics
External crossreferences
MobiDB is cross-linked by UniProt DisProt PDB SIFTS PFAM STRING
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countriesNotSupportedno matchContributors1Tagsintrinsically disordered protein | protein sequence | protein structure | proteomicscreatedfour years agoUp since:3:57:12 PM on 10/11/2016
Publication authors
Romano P et al.
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countriesSupportedno matchOppen issues1Favourited byNo onereleases75bug reportingFor bug reports and feature requests, please use our JIRA bug tracker.Publication title
Cell Line Data Base: structure and recent improvements towards molecular authentication of human cell lines
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fileSizeno matchForks2Similar servicesPDBjSOAPX, GashApiService, TFmodelleropen-issues163
target audience
You should use ZOOMA if you have data that has been described with any series of keywords. ZOOMA provides a mechanism to search for these keywords, using typing or context information or combinations of co-occuring keywords to improve accuracy, and automatically annotate your data to ontology terms.
Publication journal
Nucl Acids Res
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memoryRequirementsno matchCommits46Number of annotations11starts2545
Publication issue
37(Database issue):D925-D932
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permissionsno matchDownloads2329Example workflows using this serviceNo info yetwatchers160
Publication year
2009
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processorRequirementsno matchRating2 startsHow to cite this serviceVincent M, Schnell, S. 2016. Disorder Atlas: A web service for the proteome-based interpretation of intrinsic disorder predictions. bioRxiv DOI: 10.1101/060699commit3084
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releaseNotesno matchWatchers1ELIXIR DescriptionNo info yetcontributors30
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screenshotno matchReleases15LocationAnn Arbor, Michigan, United Statesforks376
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softwareAddOnno matchBug trackerhttps://github.com/biojs/io-ratingsCategories (additional)Text Mining, Named Entity Recognition, Literature retrievalExample
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softwareRequirementsno matchExamplesMonitoring statusPASSEDExternal links
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storageRequirementsno matchLast modifieddateMonitoring descriptionAll tests were successful for this service
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supportingDatano matchCreateddate
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aboutno match
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