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Introduction

Welcome to InterMine! 👋#

Before diving into details on the BlueGenes user interface and its capabilities, let us introduce some background information about the InterMine software.

Disparate data in, unified data out#

InterMine is a data warehouse system that integrates biological data sources, making it easy to query and analyse data. It is an open-source project that is available for use under the open-source LGPL license. InterMine was developed by the Micklem lab at the University of Cambridge with the Wellcome Trust's support; complementary projects have been funded by the National Human Genome Research Institute (NIH/NHGRI) and the Biotechnology and Biological Sciences Research Council (BBSRC). InterMine includes an attractive, user-friendly interface, known as BlueGenes, that works ‘out of the box’ and can be easily customised for your specific needs, as well as a powerful, scriptable web-service API to allow programmatic access to your data.

What is InterMine?

There's an InterMine for (almost) anyone!#

There are many different InterMines worldwide, covering a broad range of model organisms and life science research areas, including:

  • FlyMine - a data warehouse of integrated fruit fly genetic, genomic and proteomic data
  • HumanMine - an integrated database of Homo sapiens genomic data
  • MouseMine - an integrated data warehouse of mouse genomic data, developed by MGI
  • YeastMine - an integrated data warehouse of yeast genomic data, developed by SGD
  • ZebrafishMine - an integrated data warehouse of zebrafish genomic data, developed by ZFIN
  • RatMine - an integrated data warehouse of rat genomic data, developed by RGD
  • TargetMine - a data warehouse for candidate gene prioritisation and drug target discovery, developed at NIBIO, Japan.
  • ThaleMine - a data warehouse for Arabidopsis thaliana Col-0 for the ARAPORT project
  • PhytoMine - an integrated data warehouse of over 50 plant genomes from Phytozome.

For the full list of InterMines, please see the registry.

InterMine features#

Benefiting from over a decade of data warehousing experience and input from a wide range of research collaborators, InterMine is still in active development and is used by many major model organism databases, among others. InterMine features include:

  • Sophisticated data integration facilities
  • Fast, flexible querying across several data sources at once
  • User-friendly web interface and analysis tools
  • An extensive set of APIs and web tools
  • Highly developed and extensible system
  • One platform to many organisms and data types without visiting several sites
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