InterMine is an open source data warehouse system, licensed under the LGPL 2.1. InterMine is used to create databases of biological data accessed by sophisticated web query tools. InterMine can be used to create databases from a single data set or can integrate multiple sources of data. Support is provided for several common biological formats and there is a framework for adding other data. InterMine includes a user-friendly web interface that works 'out of the box' and can be easily customised.[1][2]
InterMine
Content
Description
Open source data warehouse system for the integration and analysis of biological data.
InterMine makes it easy to integrate multiple data sources into a single data warehouse. It has a core data model based on the sequence ontology and supports several biological data formats, allowing sysadmins to configure which organisms or data files are required. It is easy to extend the data model and integrate other data, with a web service API, clients in seven different languages, and an XML format to help import custom data.
As an active open source project, InterMine maintains a developer mailing list and thorough developer and user documentation.
Web clients allow users to access the data programatically with minimal effort, and are available for perl, python, ruby, javascript, Java, and R. Data can also be queried via a native Android app.
Web applicationedit
The InterMine web application allows creation of custom bioinformatics queries, includes template queries (web forms to run 'canned' queries). Users can upload and operate on lists of data. It is possible to configure/create widgets to analyse lists with graphs and enrichment statistics.
An admin user can publish new template queries, change report pages and create public lists at any time without any programming. Many aspects of the web app can be configured and branded.
Current projects (not exhaustive list)edit
An up-to-date list of projects can be viewed at the InterMine Registry
^Smith, Richard N.; Aleksic, Jelena; et al. (1 December 2012). "InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data". Bioinformatics. 28 (23): 3163–3165. doi:10.1093/bioinformatics/bts577. ISSN 1367-4803. PMC3516146. PMID 23023984.
External linksedit
InterMine
Department of Genetics, University of Cambridge
Wellcome Trust
InterMine API Documentation
December 15, 2023
intermine, open, source, data, warehouse, system, licensed, under, lgpl, used, create, databases, biological, data, accessed, sophisticated, query, tools, used, create, databases, from, single, data, integrate, multiple, sources, data, support, provided, sever. InterMine is an open source data warehouse system licensed under the LGPL 2 1 InterMine is used to create databases of biological data accessed by sophisticated web query tools InterMine can be used to create databases from a single data set or can integrate multiple sources of data Support is provided for several common biological formats and there is a framework for adding other data InterMine includes a user friendly web interface that works out of the box and can be easily customised 1 2 InterMineContentDescriptionOpen source data warehouse system for the integration and analysis of biological data OrganismsvariedAccessWebsitehttp www intermine org Download URLhttps github com intermine intermineWeb service URLhttp iodocs apps intermine org MiscellaneousLicenseLGPL 2 1Data releasefrequencyQuarterlyVersion1 6 6BookmarkableentitiesYesInterMine makes it easy to integrate multiple data sources into a single data warehouse It has a core data model based on the sequence ontology and supports several biological data formats allowing sysadmins to configure which organisms or data files are required It is easy to extend the data model and integrate other data with a web service API clients in seven different languages and an XML format to help import custom data As an active open source project InterMine maintains a developer mailing list and thorough developer and user documentation Contents 1 Supported data formats 2 Clients 3 Web application 4 Current projects not exhaustive list 5 References 6 External linksSupported data formats editChado GFF3 FASTA GO amp gene association files UniProt XML PSI XML protein interactions Protein Structure Initiative InParanoid orthologs EnsemblClients editWeb clients allow users to access the data programatically with minimal effort and are available for perl python ruby javascript Java and R Data can also be queried via a native Android app Web application editThe InterMine web application allows creation of custom bioinformatics queries includes template queries web forms to run canned queries Users can upload and operate on lists of data It is possible to configure create widgets to analyse lists with graphs and enrichment statistics An admin user can publish new template queries change report pages and create public lists at any time without any programming Many aspects of the web app can be configured and branded Current projects not exhaustive list editAn up to date list of projects can be viewed at the InterMine Registry Generic Model Organism Database modENCODE Archived 2010 12 27 at the Wayback Machine FlyMine HumanMine RatMine YeastMine TargetMine MitoMiner permanent dead link MouseMine ZebrafishMine WormMine INDIGO ThaleMine TargetMine PhytoMine MedicMine BovineMine HymenopteraMine SoyMine BeanMine ChickpeaMine LegumeMine PeanutMine Shaare Wheat3Bmine PlanMine GrapeMine RepetDB XenMine CHOMineReferences edit Home intermine org Smith Richard N Aleksic Jelena et al 1 December 2012 InterMine a flexible data warehouse system for the integration and analysis of heterogeneous biological data Bioinformatics 28 23 3163 3165 doi 10 1093 bioinformatics bts577 ISSN 1367 4803 PMC 3516146 PMID 23023984 External links editInterMine Department of Genetics University of Cambridge Wellcome Trust InterMine API Documentation Retrieved from https en wikipedia org w index php title InterMine amp oldid 1135366271, wikipedia, wiki, book, books, library,
