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Imputation-Based Fine-Mapping Suggests That Most QTL in an Outbred Chicken Advanced Intercross Body Weight Line Are Due to Multiple, Linked Loci.

Brandt M, Ahsan M, Honaker CF, Siegel PB, Carlborg Ö.

G3 (Bethesda). 2017 Jan 5;7(1):119-128. doi: 10.1534/g3.116.036012.


Mapping QTL Contributing to Variation in Posterior Lobe Morphology between Strains of Drosophila melanogaster.

Hackett JL, Wang X, Smith BR, Macdonald SJ.

PLoS One. 2016 Sep 8;11(9):e0162573. doi: 10.1371/journal.pone.0162573.


Genome-wide association study of behavioral, physiological and gene expression traits in outbred CFW mice.

Parker CC, Gopalakrishnan S, Carbonetto P, Gonzales NM, Leung E, Park YJ, Aryee E, Davis J, Blizard DA, Ackert-Bicknell CL, Lionikas A, Pritchard JK, Palmer AA.

Nat Genet. 2016 Aug;48(8):919-26. doi: 10.1038/ng.3609.


The Genetic Basis of Baculum Size and Shape Variation in Mice.

Schultz NG, Ingels J, Hillhouse A, Wardwell K, Chang PL, Cheverud JM, Lutz C, Lu L, Williams RW, Dean MD.

G3 (Bethesda). 2016 May 3;6(5):1141-51. doi: 10.1534/g3.116.027888.


Hnrnph1 Is A Quantitative Trait Gene for Methamphetamine Sensitivity.

Yazdani N, Parker CC, Shen Y, Reed ER, Guido MA, Kole LA, Kirkpatrick SL, Lim JE, Sokoloff G, Cheng R, Johnson WE, Palmer AA, Bryant CD.

PLoS Genet. 2015 Dec 10;11(12):e1005713. doi: 10.1371/journal.pgen.1005713.


Integration of genome-wide association and extant brain expression QTL identifies candidate genes influencing prepulse inhibition in inbred F1 mice.

Sittig LJ, Carbonetto P, Engel KA, Krauss KS, Palmer AA.

Genes Brain Behav. 2016 Feb;15(2):260-70. doi: 10.1111/gbb.12262.


Standing genetic variation as a major contributor to adaptation in the Virginia chicken lines selection experiment.

Sheng Z, Pettersson ME, Honaker CF, Siegel PB, Carlborg Ö.

Genome Biol. 2015 Oct 1;16:219. doi: 10.1186/s13059-015-0785-z.


Using whole-genome sequences of the LG/J and SM/J inbred mouse strains to prioritize quantitative trait genes and nucleotides.

Nikolskiy I, Conrad DF, Chun S, Fay JC, Cheverud JM, Lawson HA.

BMC Genomics. 2015 May 28;16:415. doi: 10.1186/s12864-015-1592-3.


Permutation testing in the presence of polygenic variation.

Abney M.

Genet Epidemiol. 2015 May;39(4):249-58. doi: 10.1002/gepi.21893.


Genome-wide association study for posthitis in the free-living population of European bison (Bison bonasus).

Oleński K, Tokarska M, Hering D, Puckowska P, Ruść A, Pertoldi C, Kamiński S.

Biol Direct. 2015 Jan 14;10:2. doi: 10.1186/s13062-014-0033-6.


Host genetics and diet, but not immunoglobulin A expression, converge to shape compositional features of the gut microbiome in an advanced intercross population of mice.

Leamy LJ, Kelly SA, Nietfeldt J, Legge RM, Ma F, Hua K, Sinha R, Peterson DA, Walter J, Benson AK, Pomp D.

Genome Biol. 2014;15(12):552.


A graphical weighted power improving multiplicity correction approach for SNP selections.

Saunders G, Fu G, Stevens JR.

Curr Genomics. 2014 Oct;15(5):380-9. doi: 10.2174/138920291505141106103959.


A SUPER powerful method for genome wide association study.

Wang Q, Tian F, Pan Y, Buckler ES, Zhang Z.

PLoS One. 2014 Sep 23;9(9):e107684. doi: 10.1371/journal.pone.0107684.


Quantitative trait locus mapping methods for diversity outbred mice.

Gatti DM, Svenson KL, Shabalin A, Wu LY, Valdar W, Simecek P, Goodwin N, Cheng R, Pomp D, Palmer A, Chesler EJ, Broman KW, Churchill GA.

G3 (Bethesda). 2014 Sep 18;4(9):1623-33. doi: 10.1534/g3.114.013748.


High-resolution genetic mapping of complex traits from a combined analysis of F2 and advanced intercross mice.

Parker CC, Carbonetto P, Sokoloff G, Park YJ, Abney M, Palmer AA.

Genetics. 2014 Sep;198(1):103-16. doi: 10.1534/genetics.114.167056.


Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cross population.

Marriage TN, King EG, Long AD, Macdonald SJ.

Genetics. 2014 Sep;198(1):45-57. doi: 10.1534/genetics.114.162107.


Discovery and refinement of muscle weight QTLs in B6 × D2 advanced intercross mice.

Carbonetto P, Cheng R, Gyekis JP, Parker CC, Blizard DA, Palmer AA, Lionikas A.

Physiol Genomics. 2014 Aug 15;46(16):571-82. doi: 10.1152/physiolgenomics.00055.2014.


Quantitative trait loci for energy balance traits in an advanced intercross line derived from mice divergently selected for heat loss.

Leamy LJ, Elo K, Nielsen MK, Thorn SR, Valdar W, Pomp D.

PeerJ. 2014 May 27;2:e392. doi: 10.7717/peerj.392.


Fine-mapping QTLs in advanced intercross lines and other outbred populations.

Gonzales NM, Palmer AA.

Mamm Genome. 2014 Aug;25(7-8):271-92. doi: 10.1007/s00335-014-9523-1. Review.


Annexin A6 modifies muscular dystrophy by mediating sarcolemmal repair.

Swaggart KA, Demonbreun AR, Vo AH, Swanson KE, Kim EY, Fahrenbach JP, Holley-Cuthrell J, Eskin A, Chen Z, Squire K, Heydemann A, Palmer AA, Nelson SF, McNally EM.

Proc Natl Acad Sci U S A. 2014 Apr 22;111(16):6004-9. doi: 10.1073/pnas.1324242111.

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