The Mouse Universal Genotyping Array: From Substrains to Subspecies
View ORCID ProfileAndrew P. Morgan, Chen-Ping Fu, Chia-Yu Kao, Catherine E. Welsh, John P. Didion, Liran Yadgary, Leeanna Hyacinth, Martin T. Ferris, Timothy A. Bell, Darla R. Miller, Paola Giusti-Rodriguez, Randal J. Nonneman, Kevin D. Cook, Jason K. Whitmire, Lisa E. Gralinski, Mark Keller, Alan D. Attie, Gary A. Churchill, Petko Petkov, Patrick F. Sullivan, Jennifer R. Brennan, Leonard McMillan and Fernando Pardo-Manuel de Villena
G3: Genes, Genomes, Genetics February 1, 2016 vol. 6 no. 2 263-279; https://doi.org/10.1534/g3.115.022087
Open Access
Andrew P. Morgan
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Chen-Ping Fu
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Chia-Yu Kao
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Catherine E. Welsh
§Department of Mathematics and Computer Science, Rhodes College, Memphis, Tennessee 38112
John P. Didion
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Liran Yadgary
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Leeanna Hyacinth
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Martin T. Ferris
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Timothy A. Bell
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Darla R. Miller
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Paola Giusti-Rodriguez
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Randal J. Nonneman
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Kevin D. Cook
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Jason K. Whitmire
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Lisa E. Gralinski
**Department of Epidemiology, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Mark Keller
††Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
Alan D. Attie
††Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
Gary A. Churchill
‡‡The Jackson Laboratory, Bar Harbor, Maine 04609
Petko Petkov
‡‡The Jackson Laboratory, Bar Harbor, Maine 04609
Patrick F. Sullivan
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
§§Department of Psychiatry, University of North Carolina, Chapel Hill, North Carolina 27599
Jennifer R. Brennan
***Mutant Mouse Resource and Research Center, University of North Carolina, Chapel Hill, North Carolina 27599
Leonard McMillan
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Fernando Pardo-Manuel de Villena
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Data supplements
Supporting Information for Morgan et al., 2016
Files in this Data Supplement:
- Figure S1 - Genotype call rate as a function of phylogenetic position within the Mus genus. (.pdf, 98 KB)
- Figure S2 - Use of call rates on the Y chromosome and X chromosome (A) and hybridization intensity on the X chromosome (B) to infer sex. (.pdf, 9 KB)
- Table S1 - Sample manifest: list of 522 reference samples genotyped with GigaMUGA, of which 500 pass quality control. (.xlsx, 36 KB)
- Table S2 - Array manifest: list of 143,259 probes on GigaMUGA. Positions are in build mm10/GRCm38 of the mouse reference genome. (.zip, 5872 KB)
- Table S3 - Presence/absence probes validated for detection of genetically-engineered constructs. (.xlsx, 11 KB)
Related Data
PUBLICATION INFORMATION
ARTICLE CLASSIFICATION
The Mouse Universal Genotyping Array: From Substrains to Subspecies
View ORCID ProfileAndrew P. Morgan, Chen-Ping Fu, Chia-Yu Kao, Catherine E. Welsh, John P. Didion, Liran Yadgary, Leeanna Hyacinth, Martin T. Ferris, Timothy A. Bell, Darla R. Miller, Paola Giusti-Rodriguez, Randal J. Nonneman, Kevin D. Cook, Jason K. Whitmire, Lisa E. Gralinski, Mark Keller, Alan D. Attie, Gary A. Churchill, Petko Petkov, Patrick F. Sullivan, Jennifer R. Brennan, Leonard McMillan and Fernando Pardo-Manuel de Villena
G3: Genes, Genomes, Genetics February 1, 2016 vol. 6 no. 2 263-279; https://doi.org/10.1534/g3.115.022087
Open Access
Andrew P. Morgan
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Chen-Ping Fu
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Chia-Yu Kao
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Catherine E. Welsh
§Department of Mathematics and Computer Science, Rhodes College, Memphis, Tennessee 38112
John P. Didion
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Liran Yadgary
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Leeanna Hyacinth
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Martin T. Ferris
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Timothy A. Bell
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Darla R. Miller
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Paola Giusti-Rodriguez
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Randal J. Nonneman
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Kevin D. Cook
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Jason K. Whitmire
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Lisa E. Gralinski
**Department of Epidemiology, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Mark Keller
††Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
Alan D. Attie
††Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
Gary A. Churchill
‡‡The Jackson Laboratory, Bar Harbor, Maine 04609
Petko Petkov
‡‡The Jackson Laboratory, Bar Harbor, Maine 04609
Patrick F. Sullivan
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
§§Department of Psychiatry, University of North Carolina, Chapel Hill, North Carolina 27599
Jennifer R. Brennan
***Mutant Mouse Resource and Research Center, University of North Carolina, Chapel Hill, North Carolina 27599
Leonard McMillan
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Fernando Pardo-Manuel de Villena
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
The Mouse Universal Genotyping Array: From Substrains to Subspecies
View ORCID ProfileAndrew P. Morgan, Chen-Ping Fu, Chia-Yu Kao, Catherine E. Welsh, John P. Didion, Liran Yadgary, Leeanna Hyacinth, Martin T. Ferris, Timothy A. Bell, Darla R. Miller, Paola Giusti-Rodriguez, Randal J. Nonneman, Kevin D. Cook, Jason K. Whitmire, Lisa E. Gralinski, Mark Keller, Alan D. Attie, Gary A. Churchill, Petko Petkov, Patrick F. Sullivan, Jennifer R. Brennan, Leonard McMillan and Fernando Pardo-Manuel de Villena
G3: Genes, Genomes, Genetics February 1, 2016 vol. 6 no. 2 263-279; https://doi.org/10.1534/g3.115.022087
Open Access
Andrew P. Morgan
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Chen-Ping Fu
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Chia-Yu Kao
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Catherine E. Welsh
§Department of Mathematics and Computer Science, Rhodes College, Memphis, Tennessee 38112
John P. Didion
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Liran Yadgary
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Leeanna Hyacinth
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Martin T. Ferris
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Timothy A. Bell
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Darla R. Miller
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Paola Giusti-Rodriguez
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Randal J. Nonneman
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Kevin D. Cook
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Jason K. Whitmire
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Lisa E. Gralinski
**Department of Epidemiology, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
Mark Keller
††Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
Alan D. Attie
††Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
Gary A. Churchill
‡‡The Jackson Laboratory, Bar Harbor, Maine 04609
Petko Petkov
‡‡The Jackson Laboratory, Bar Harbor, Maine 04609
Patrick F. Sullivan
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
§§Department of Psychiatry, University of North Carolina, Chapel Hill, North Carolina 27599
Jennifer R. Brennan
***Mutant Mouse Resource and Research Center, University of North Carolina, Chapel Hill, North Carolina 27599
Leonard McMillan
‡Department of Computer Science, University of North Carolina, Chapel Hill, North Carolina 27599
Fernando Pardo-Manuel de Villena
*Department of Genetics, University of North Carolina, Chapel Hill, North Carolina 27599
†Lineberger Comprehensive Cancer Center and Carolina Center for Genome Sciences, University of North Carolina, Chapel Hill, North Carolina 27599
