153 lines
13 KiB
XML
153 lines
13 KiB
XML
<?xml version="1.0" encoding="utf-8"?>
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<!--re3data.org Schema for the Description of Research Data Repositories. Version 2.2, December 2014. doi:10.2312/re3.006-->
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<r3d:re3data xmlns:r3d="http://www.re3data.org/schema/2-2" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.re3data.org/schema/2-2 http://schema.re3data.org/2-2/re3dataV2-2.xsd">
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<r3d:repository>
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<r3d:re3data.orgIdentifier>r3d100011936</r3d:re3data.orgIdentifier>
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<r3d:repositoryName language="eng">DEPOD</r3d:repositoryName>
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<r3d:additionalName language="eng">DEPhOsphorylation Database</r3d:additionalName>
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<r3d:repositoryURL>http://depod.bioss.uni-freiburg.de/</r3d:repositoryURL>
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<r3d:repositoryIdentifier>FAIRsharing_doi:10.25504/FAIRsharing.q9j2e3</r3d:repositoryIdentifier>
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<r3d:repositoryIdentifier>MIR:00000428</r3d:repositoryIdentifier>
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<r3d:description language="eng">DEPOD - the human DEPhOsphorylation Database (version 1.1) is a manually curated database collecting human active phosphatases, their experimentally verified protein and non-protein substrates and dephosphorylation site information, and pathways in which they are involved. It also provides links to popular kinase databases and protein-protein interaction databases for these phosphatases and substrates. DEPOD aims to be a valuable resource for studying human phosphatases and their substrate specificities and molecular mechanisms; phosphatase-targeted drug discovery and development; connecting phosphatases with kinases through their common substrates; completing the human phosphorylation/dephosphorylation network.</r3d:description>
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<r3d:repositoryContact>depod@bioss.uni-freiburg.de</r3d:repositoryContact>
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<r3d:type>disciplinary</r3d:type>
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<r3d:size updated="2019-03-11">241 human active and 13 inactive phosphatases in total; 194 phosphatases have substrate data; 336 protein substrates; 83 non-protein substrates; 1.215 dephosphorylation interactions; 299 KEGG pathways; 876 Reactome pathways</r3d:size>
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<r3d:startDate></r3d:startDate>
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<r3d:endDate></r3d:endDate>
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<r3d:repositoryLanguage>eng</r3d:repositoryLanguage>
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<r3d:subject subjectScheme="DFG">2 Life Sciences</r3d:subject>
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<r3d:subject subjectScheme="DFG">201 Basic Biological and Medical Research</r3d:subject>
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<r3d:subject subjectScheme="DFG">20103 Cell Biology</r3d:subject>
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<r3d:subject subjectScheme="DFG">20107 Bioinformatics and Theoretical Biology</r3d:subject>
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<r3d:subject subjectScheme="DFG">21 Biology</r3d:subject>
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<r3d:missionStatementURL>http://depod.bioss.uni-freiburg.de/about.php</r3d:missionStatementURL>
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<r3d:contentType contentTypeScheme="parse">Images</r3d:contentType>
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<r3d:contentType contentTypeScheme="parse">Networkbased data</r3d:contentType>
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<r3d:contentType contentTypeScheme="parse">Raw data</r3d:contentType>
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<r3d:contentType contentTypeScheme="parse">Scientific and statistical data formats</r3d:contentType>
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<r3d:contentType contentTypeScheme="parse">Standard office documents</r3d:contentType>
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<r3d:contentType contentTypeScheme="parse">other</r3d:contentType>
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<r3d:providerType>dataProvider</r3d:providerType>
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<r3d:keyword>bioinformatics</r3d:keyword>
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<r3d:keyword>enzyme</r3d:keyword>
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<r3d:keyword>non-protein substrates</r3d:keyword>
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<r3d:keyword>phosphatase</r3d:keyword>
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<r3d:keyword>protein substrates</r3d:keyword>
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<r3d:keyword>proteomics</r3d:keyword>
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<r3d:institution>
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<r3d:institutionName language="eng">EMBL</r3d:institutionName>
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<r3d:institutionAdditionalName language="eng">European Molecular Biology Laboratory</r3d:institutionAdditionalName>
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<r3d:institutionCountry>EEC</r3d:institutionCountry>
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<r3d:responsibilityType>funding</r3d:responsibilityType>
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<r3d:institutionType>non-profit</r3d:institutionType>
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<r3d:institutionURL>https://www.embl.org/</r3d:institutionURL>
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<r3d:institutionIdentifier>ROR:03mstc592</r3d:institutionIdentifier>
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<r3d:responsibilityStartDate></r3d:responsibilityStartDate>
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<r3d:responsibilityEndDate></r3d:responsibilityEndDate>
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<r3d:institutionContact>https://www.embl.org/contact/</r3d:institutionContact>
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</r3d:institution>
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<r3d:institution>
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<r3d:institutionName language="eng">EMBL Hamburg, Wilmanns Group</r3d:institutionName>
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<r3d:institutionAdditionalName language="eng">European Molecular Biology Laboratory Hamburg, Wilmanns Group</r3d:institutionAdditionalName>
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<r3d:institutionCountry>DEU</r3d:institutionCountry>
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<r3d:responsibilityType>general</r3d:responsibilityType>
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<r3d:institutionType>non-profit</r3d:institutionType>
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<r3d:institutionURL>https://www.embl.org/groups/wilmanns/</r3d:institutionURL>
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<r3d:responsibilityStartDate></r3d:responsibilityStartDate>
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<r3d:responsibilityEndDate></r3d:responsibilityEndDate>
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<r3d:institutionContact>matthias.wilmanns@embl-hamburg.de</r3d:institutionContact>
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</r3d:institution>
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<r3d:institution>
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<r3d:institutionName language="eng">EMBL-EBI, Thornton group</r3d:institutionName>
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<r3d:institutionAdditionalName language="eng">European Molecular Biology Laboratory, European Bioinformatics Institute, Thornton group</r3d:institutionAdditionalName>
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<r3d:institutionCountry>GBR</r3d:institutionCountry>
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<r3d:responsibilityType>general</r3d:responsibilityType>
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<r3d:institutionType>non-profit</r3d:institutionType>
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<r3d:institutionURL>https://www.ebi.ac.uk/research-beta/thornton/</r3d:institutionURL>
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<r3d:responsibilityStartDate></r3d:responsibilityStartDate>
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<r3d:responsibilityEndDate></r3d:responsibilityEndDate>
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<r3d:institutionContact>thornton@ebi.ac.uk</r3d:institutionContact>
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</r3d:institution>
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<r3d:institution>
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<r3d:institutionName language="eng">European Commission, Marie Skłodowska-Curie Actions</r3d:institutionName>
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<r3d:institutionAdditionalName language="eng">Marie Skłodowska-Curie Actions</r3d:institutionAdditionalName>
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<r3d:institutionCountry>EEC</r3d:institutionCountry>
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<r3d:responsibilityType>funding</r3d:responsibilityType>
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<r3d:institutionType>non-profit</r3d:institutionType>
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<r3d:institutionURL>https://marie-sklodowska-curie-actions.ec.europa.eu/</r3d:institutionURL>
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<r3d:responsibilityStartDate></r3d:responsibilityStartDate>
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<r3d:responsibilityEndDate></r3d:responsibilityEndDate>
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<r3d:institutionContact>https://marie-sklodowska-curie-actions.ec.europa.eu/contact</r3d:institutionContact>
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</r3d:institution>
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<r3d:institution>
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<r3d:institutionName language="eng">European Molecular Biology Laboratory, Postdoctoral Programme</r3d:institutionName>
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<r3d:institutionAdditionalName language="eng">EIPOD</r3d:institutionAdditionalName>
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<r3d:institutionAdditionalName language="eng">EMBL, Interdisciplinary Postdocs initiative</r3d:institutionAdditionalName>
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<r3d:institutionCountry>EEC</r3d:institutionCountry>
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<r3d:responsibilityType>funding</r3d:responsibilityType>
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<r3d:institutionType>non-profit</r3d:institutionType>
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<r3d:institutionURL>https://www.embl.org/about/info/postdoctoral-programme/eipod4-fellowship-programme/</r3d:institutionURL>
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<r3d:responsibilityStartDate></r3d:responsibilityStartDate>
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<r3d:responsibilityEndDate></r3d:responsibilityEndDate>
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<r3d:institutionContact>eipod@embl.org</r3d:institutionContact>
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</r3d:institution>
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<r3d:institution>
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<r3d:institutionName language="eng">University of Freiburg, BIOSS Centre for Biological Signalling Studies, Köhn Group</r3d:institutionName>
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<r3d:institutionCountry>DEU</r3d:institutionCountry>
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<r3d:responsibilityType>general</r3d:responsibilityType>
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<r3d:responsibilityType>technical</r3d:responsibilityType>
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<r3d:institutionType>non-profit</r3d:institutionType>
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<r3d:institutionURL>https://www.bioss.uni-freiburg.de/intergrated-signalling-studies/home/</r3d:institutionURL>
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<r3d:responsibilityStartDate></r3d:responsibilityStartDate>
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<r3d:responsibilityEndDate></r3d:responsibilityEndDate>
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<r3d:institutionContact>https://www.bioss.uni-freiburg.de/de/prof-dr-maja-koehn/</r3d:institutionContact>
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</r3d:institution>
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<r3d:policy>
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<r3d:policyName>DEPOD User manual</r3d:policyName>
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<r3d:policyURL>http://depod.bioss.uni-freiburg.de/manual.php</r3d:policyURL>
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</r3d:policy>
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<r3d:policy>
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<r3d:policyName>Licence and Data-protection policy</r3d:policyName>
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<r3d:policyURL>http://depod.bioss.uni-freiburg.de/licence.php</r3d:policyURL>
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</r3d:policy>
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<r3d:policy>
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<r3d:policyName>Principles of Service Provision</r3d:policyName>
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<r3d:policyURL>https://www.ebi.ac.uk/services</r3d:policyURL>
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</r3d:policy>
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<r3d:policy>
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<r3d:policyName>Terms of Use</r3d:policyName>
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<r3d:policyURL>https://www.ebi.ac.uk/about/terms-of-use</r3d:policyURL>
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</r3d:policy>
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<r3d:databaseAccess>
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<r3d:databaseAccessType>open</r3d:databaseAccessType>
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</r3d:databaseAccess>
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<r3d:dataAccess>
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<r3d:dataAccessType>open</r3d:dataAccessType>
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</r3d:dataAccess>
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<r3d:dataLicense>
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<r3d:dataLicenseName>Copyrights</r3d:dataLicenseName>
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<r3d:dataLicenseURL>http://depod.bioss.uni-freiburg.de/licence.php</r3d:dataLicenseURL>
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</r3d:dataLicense>
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<r3d:dataLicense>
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<r3d:dataLicenseName>Copyrights</r3d:dataLicenseName>
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<r3d:dataLicenseURL>https://www.ebi.ac.uk/about/terms-of-use</r3d:dataLicenseURL>
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</r3d:dataLicense>
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<r3d:dataUpload>
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<r3d:dataUploadType>restricted</r3d:dataUploadType>
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<r3d:dataUploadRestriction>other</r3d:dataUploadRestriction>
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</r3d:dataUpload>
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<r3d:software>
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<r3d:softwareName>unknown</r3d:softwareName>
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</r3d:software>
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<r3d:versioning>yes</r3d:versioning>
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<r3d:pidSystem>none</r3d:pidSystem>
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<r3d:citationGuidelineURL>http://depod.bioss.uni-freiburg.de/about.php#cite</r3d:citationGuidelineURL>
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<r3d:aidSystem>none</r3d:aidSystem>
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<r3d:enhancedPublication>yes</r3d:enhancedPublication>
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<r3d:qualityManagement>yes</r3d:qualityManagement>
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<r3d:remarks>DEPOD was started as a part of the collaborative project between three groups: the Thornton Group (EMBL-EBI, Hinxton, UK), the Köhn Group (Faculty of Biology and BIOSS, University of Freiburg) and the Wilmanns Group (EMBL, Hamburg, Germany).
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The database is currently maintained and updated by Dr. Guangyou Duan, IMIA net based solutions and Köhn Group (Faculty of Biology and BIOSS, University of Freiburg).</r3d:remarks>
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<r3d:entryDate>2016-02-17</r3d:entryDate>
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<r3d:lastUpdate>2022-05-13</r3d:lastUpdate>
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</r3d:repository>
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</r3d:re3data> |