at The Jackson Laboratory

      Home       About             Help      

Home >
Approaches to using MPD
Use this page as a starting point if you're considering ways of looking at the data in MPD.

Look up data for one or two strains

    • Find data for a particular strain or strain panel/set.   Find phenotype, SNP/variation, or gene expression data for a certain strain, or list phenotypes and probesets where a certain strain is a high-end or low-end outlier.

    • Compare two strains   For two strains of interest see how they compare in phenotypes, polymorphisms, and expression.

Phenotype strain survey data

    • Tools and views   [Demo]   Web-based tools for plotting, correlations, criteria-fit, finding outliers, downloading selected data, and looking at ratios and differences. Normally you navigate to phenotype data of interest, or go to your cart, then click on Apply Tools.

    • Ontologies   MPD phenotype strain survey data have been mapped to MP, VT, and MA ontology terms. Find phenotype data by ontology term, or navigate the ontologies and term-specific linkouts to other resources.

    • Your collection   While browsing MPD collect phenotype measurements into your shopping cart. Then go to your cart (at top of page) to work with them.

    • Create user vectors and find correlated objects. To create a "user vector" you can input strain averages from your own assays, or take the ratio or difference of two existing MPD phenotype measurements. Then with this vector you can list correlated phenotype measurements and gene expression data from across MPD.

    • GWAS study   Genome-wide association studies of selected MPD phenotypes were run by the ZarLab at UCLA using EMMA.

    • Sex differences   List measured traits by average amount of sex difference. Or if you have a set of measurements, you can use Apply Tools to list the strains that exhibit the most sex difference.

    • Aging studies   MPD has comprehensive characterization of elderly mice.

    • Sampling variation over time   Several studies measured seasonal variation of C57BL/6J mice in various phenotypes.

Genotype variation strain survey data

Gene expression strain survey data

    • Correlations and outliers. Mathematical correlations between phenotypes and gene expression probesets, and finding probesets where certain strains are outliers.

    • Differential expression analysis   Studies are available comparing treatments vs. controls, females vs. males, or cell types. Treatments include high-fat diet, LPS, TCE, OxPAPC.

    • Gene sets   (see description above)

Data downloads

Our Help Desk is happy to assist you in your work. Let us know how we can help.
Our video demo / tutorial series is also available.


Contact us
About MPD
Also at JAX
Terms of Use