Diversity Outbred Genotype Data

 

Description

 

Diversity Outbred mice have been genotyped on the Mouse Universal Genotyping Array (MUGA) and the MegaMUGA. The MUGA contains 7,854 markers with a mean spacing of 329 kB. The MegaMUGA contains 77,808 markers with a mean spacing of 33 Kb.

Datasets

 

Raw Genotype Data

These directories contain the raw files produced by GeneSeek (Lincoln, NE).

MUGA files

MegaMUGA files

Array Intensities and Genotypes

The directories below contain the X and Y intensities and allele calls for the MUGA and MegaMUGA.

MUGA

MegaMUGA

Reconstructed Genotypes

Each file is a binary Rdata file that contains a matrix of genotype probabilities produced by the hidden Markov model in DOQTL. Dimensions are number of markers (rows) by 36 genotypes (columns).

MUGA genome reconstructions

MegaMUGA genome reconstructions

Reference

 

Use of these data should cite the following references:

Quantitative Trait Locus Mapping Methods for Diversity Outbred Mice
Daniel M. Gatti, Karen L. Svenson, Andrey Shabalin, Long-Yang Wu, William Valdar, Petr Simecek, Neal Goodwin, Riyan Cheng, Daniel Pomp, Abraham Palmer, Elissa J. Chesler, Karl W. Broman, Gary A. Churchill
G3, 2104. [in press]

Files marked "Chesler":

High-precision genetic mapping of behavioral traits in the diversity outbred mouse population.

Logan RW, Robledo RF, Recla JM, Philip VM, Bubier JA, Jay JJ, Harwood C, Wilcox T, Gatti DM, Bult CJ, Churchill GA, Chesler EJ.
Genes Brain Behav. 2013 Jun;12(4):424-37. doi: 10.1111/gbb.12029. Epub 2013 Mar 20.
PMID:23433259

Files marked "CJB":

Precise genetic mapping and integrative bioinformatics in Diversity Outbred mice reveals Hydin as a novel pain gene.

Recla JM, Robledo RF, Gatti DM, Bult CJ, Churchill GA, Chesler EJ.
Mamm Genome. 2014 Apr 5. [Epub ahead of print]
PMID:24700285

 

Diversity Outbred

Diversity Outbred Mice

 

JAX Mice & Services

The Diversity Outbred (J:DO) stock is maintained and supplied by The Jackson Laboratory.

JAX® Mice & Services
Strain and Ordering Information