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RatMine specifications


Unique identifier OMICS_03813
Name RatMine
Restrictions to use None
Maintained Yes


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus

RatMine citations


INDIGO – INtegrated Data Warehouse of MIcrobial GenOmes with Examples from the Red Sea Extremophiles

PLoS One
PMCID: 3855842
PMID: 24324765
DOI: 10.1371/journal.pone.0082210

[…] one of the frameworks that allows construction of such data warehouses. It has previously been applied to developing data warehouses of model genomes resulting in resources such as FlyMine, modMine, RatMine, YeastMine, etc. For more details on InterMine features and comparison to similar systems, see reference [] and its supplementary materials.Here, we introduce INDIGO (Integrated Data Warehouse […]


Analysis of disease associated objects at the Rat Genome Database

PMCID: 3689439
PMID: 23794737
DOI: 10.1093/database/bat046

[…] a with ontologies/controlled vocabularies, RGD has also developed and adapted a variety of online tools to facilitate curation () and assist researchers in analyzing their data (). Among these tools, RatMine (http://ratmine.mcw.edu/ratmine/begin.do), built on ‘InterMine’ technology (), provides flexible options for searching, extracting and using data from RGD and other sources such as Ensembl, Un […]


InterMOD: integrated data and tools for the unification of model organism research

Sci Rep
PMCID: 3647165
PMID: 23652793
DOI: 10.1038/srep01802

[…] Model organism-specific InterMine instance development and maintenance: H.M., S.N. and J.R. for MouseMine; A.V., P.J., S.T. and E.W. for RatMine; J.D.W., T.H., Q.T. and L.S. for WormMine; K.K., R.B., G.B., B.H. and J.M.C. for YeastMine; S.A.T.M., C.P. and M.W. for ZFINMine; J.S., R.L., J.A., R.N.S. and G.M. for FlyMine; J.S. coordinate […]


Chromosome substitution modulates resistance to ischemia reperfusion injury in Brown Norway rats

PMCID: 3561482
PMID: 23235564
DOI: 10.1038/ki.2012.391

[…] ment of either disease-ontology or gene-ontology (GO) annotations. No specific disease or GO enrichment was found for any of the protective chromosomes using the enrichment analysis available through RatMine (http://ratmine.mcw.edu). RatMine, a data warehouse that is powered by InterMine, houses biological data including large-scale functional genomic and proteomic datasets for a wide range of mod […]


RGD: A comparative genomics platform

Hum Genomics
PMCID: 3222152
PMID: 21296746
DOI: 10.1186/1479-7364-5-2-124

[…] e tools to assist researchers in analysing the data in RGD and that produced in their own laboratories. These include the genome viewer, genome browsers for both rat and human, the rat SNPlotyper and RatMine (Figure ).GViewer provides users with a genome-wide view of rat genes and QTL retrieved from ontology-based searches. Single-term or Boolean searches across one or more ontologies allow for fl […]


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