TY  - JOUR
A1  - Aylor, David L.
A1  - Valdar, William
A1  - Foulds-Mathes, Wendy
A1  - Buus, Ryan J.
A1  - Verdugo, Ricardo A.
A1  - Baric, Ralph S.
A1  - Ferris, Martin T.
A1  - Frelinger, Jeff A.
A1  - Heise, Mark
A1  - Frieman, Matt B.
A1  - Gralinski, Lisa E.
A1  - Bell, Timothy A.
A1  - Didion, John D.
A1  - Hua, Kunjie
A1  - Nehrenberg, Derrick L.
A1  - Powell, Christine L.
A1  - Steigerwalt, Jill
A1  - Xie, Yuying
A1  - Kelada, Samir N.P.
A1  - Collins, Francis S.
A1  - Yang, Ivana V.
A1  - Schwartz, David A.
A1  - Branstetter, Lisa A.
A1  - Chesler, Elissa J.
A1  - Miller, Darla R.
A1  - Spence, Jason
A1  - Liu, Eric Yi
A1  - McMillan, Leonard
A1  - Sarkar, Abhishek
A1  - Wang, Jeremy
A1  - Wang, Wei
A1  - Zhang, Qi
A1  - Broman, Karl W.
A1  - Korstanje, Ron
A1  - Durrant, Caroline
A1  - Mott, Richard
A1  - Iraqi, Fuad A.
A1  - Pomp, Daniel
A1  - Threadgill, David
A1  - Pardo-Manuel de Villena, Fernando
A1  - Churchill, Gary A.
T1  - Genetic analysis of complex traits in the emerging Collaborative Cross
Y1  - 2011/08/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1213 
EP  - 1222 
DO  - 10.1101/gr.111310.110 
VL  - 21 
IS  - 8 
UR  - http://genome.cshlp.org/content/21/8/1213.abstract 
N2  - The Collaborative Cross (CC) is a mouse recombinant inbred strain panel that is being developed as a resource for mammalian systems genetics. Here we describe an experiment that uses partially inbred CC lines to evaluate the genetic properties and utility of this emerging resource. Genome-wide analysis of the incipient strains reveals high genetic diversity, balanced allele frequencies, and dense, evenly distributed recombination sites—all ideal qualities for a systems genetics resource. We map discrete, complex, and biomolecular traits and contrast two quantitative trait locus (QTL) mapping approaches. Analysis based on inferred haplotypes improves power, reduces false discovery, and provides information to identify and prioritize candidate genes that is unique to multifounder crosses like the CC. The number of expression QTLs discovered here exceeds all previous efforts at eQTL mapping in mice, and we map local eQTL at 1-Mb resolution. We demonstrate that the genetic diversity of the CC, which derives from random mixing of eight founder strains, results in high phenotypic diversity and enhances our ability to map causative loci underlying complex disease-related traits. 
ER  -