Guilherme Rosa, PhD, Associate Professor
Co-Project Director
University of Wisconsin – Madison

Manuscripts

Morota G, Koyama M, Rosa GJ, Weigel KA, Gianola D.
Predicting complex traits using a diffusion kernel on genetic markers with an application to dairy cattle and wheat data.
Genet Sel Evol. 2013 Jun 13;45:17. doi: 10.1186/1297-9686-45-17. PubMed PMID: 23763755; PubMed Central PMCID: PMC3706293.

Valente BD, Rosa GJ, Gianola D, Wu XL, Weigel K.
Is structural equation modeling advantageous for the genetic improvement of multiple traits?
Genetics. 2013 Jul;194(3):561-72. doi: 10.1534/genetics.113.151209. Epub 2013 Apr 22. PubMed PMID: 23608193; PubMed Central PMCID: PMC3697964.

Peñagaricano F, Weigel KA, Rosa GJ, Khatib H.
Inferring quantitative trait pathways associated with bull fertility from a genome-wide association study.
Front Genet. 2013 Jan 11;3:307. doi: 10.3389/fgene.2012.00307. eCollection 2012. PubMed PMID: 23335935; PubMed Central PMCID: PMC3542705.

Rosa GJ, Valente BD.
Breeding and Genetics Symposium: inferring causal effects from observational data in livestock.
J Anim Sci. 2013 Feb;91(2):553-64. doi: 10.2527/jas.2012-5840. Epub 2012 Dec 10. Review. PubMed PMID: 23230107.
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Morota G, Valente BD, Rosa GJ, Weigel KA, Gianola D.
An assessment of linkage disequilibrium in Holstein cattle using a Bayesian network.
J Anim Breed Genet. 2012 Dec;129(6):474-87. doi: 10.1111/jbg.12002. Epub 2012 Sep 13. PubMed PMID: 23148973

Wu XL, Sun C, Beissinger TM, Rosa GJ, Weigel KA, Gatti Nde L, Gianola D.
Parallel Markov chain Monte Carlo – bridging the gap to high-performance Bayesian computation in animal breeding and genetics.
Genet Sel Evol. 2012 Sep 25;44:29. doi: 10.1186/1297-9686-44-29. PubMed PMID: 23009363; PubMed Central PMCID: PMC3517397.

Rosa GJ.
Grand challenge in livestock genomics: for food, for medicine, for the environment, for knowledge.
Front Genet. 2011 Jul 11;2:34. doi: 10.3389/fgene.2011.00034. eCollection 2011. PubMed PMID: 22303330; PubMed Central PMCID: PMC3268588.
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Long N, Gianola D, Rosa GJ, Weigel KA.
Dimension reduction and variable selection for genomic selection: application to predicting milk yield in Holsteins.
J Anim Breed Genet. 2011 Aug;128(4):247-57. doi: 10.1111/j.1439-0388.2011.00917.x. Epub 2011 Mar 28. PubMed PMID: 21749471.

Long N, Gianola D, Rosa GJ, Weigel KA.
Application of support vector regression to genome-assisted prediction of quantitative traits.
Theor Appl Genet. 2011 Nov;123(7):1065-74. doi: 10.1007/s00122-011-1648-y. Epub 2011 Jul 8. PubMed PMID: 21739137.

Long N, Gianola D, Rosa GJ, Weigel KA.
Marker-assisted prediction of non-additive genetic values.
Genetica. 2011 Jul;139(7):843-54. doi: 10.1007/s10709-011-9588-7. Epub 2011 Jun 15. PubMed PMID: 21674154.

Long N, Gianola D, Rosa GJ, Weigel KA.
Long-term impacts of genome-enabled selection.
J Appl Genet. 2011 Nov;52(4):467-80. doi: 10.1007/s13353-011-0053-1. Epub 2011 May 17. PubMed PMID: 21584728.

Rosa GJ, Valente BD, de los Campos G, Wu XL, Gianola D, Silva MA.
Inferring causal phenotype networks using structural equation models.
Genet Sel Evol. 2011 Feb 10;43:6. doi: 10.1186/1297-9686-43-6. PubMed PMID: 21310061; PubMed Central PMCID: PMC3056759.
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Vazquez AI, Rosa GJ, Weigel KA, de los Campos G, Gianola D, Allison DB.
Predictive ability of subsets of single nucleotide polymorphisms with and without parent average in US Holsteins.
J Dairy Sci. 2010 Dec;93(12):5942-9. doi: 10.3168/jds.2010-3335. Erratum in: J Dairy Sci. 2011 Jan;94(1):537. PubMed PMID: 21094768; PubMed Central PMCID: PMC3207239.

Weigel KA, de Los Campos G, Vazquez AI, Rosa GJ, Gianola D, Van Tassell CP.
Accuracy of direct genomic values derived from imputed single nucleotide polymorphism genotypes in Jersey cattle.
J Dairy Sci. 2010 Nov;93(11):5423-35. doi: 10.3168/jds.2010-3149. PubMed PMID: 20965358.

De los Campos G, Gianola D, Rosa GJ, Weigel KA, Crossa J.
Semi-parametric genomic-enabled prediction of genetic values using reproducing kernel Hilbert spaces methods.
Genet Res (Camb). 2010 Aug;92(4):295-308. doi: 10.1017/S0016672310000285. PubMed PMID: 20943010.

Long N, Gianola D, Rosa GJ, Weigel KA, Kranis A, González-Recio O.
Radial basis function regression methods for predicting quantitative traits using SNP markers.
Genet Res (Camb). 2010 Jun;92(3):209-25. doi: 10.1017/S0016672310000157. PubMed PMID: 20667165.

Huang W, Kirkpatrick BW, Rosa GJ, Khatib H.
A genome-wide association study using selective DNA pooling identifies candidate markers for fertility in Holstein cattle.
Anim Genet. 2010 Dec;41(6):570-8. doi: 10.1111/j.1365-2052.2010.02046.x. PubMed PMID: 20394602.

de Maturana EL, de los Campos G, Wu XL, Gianola D, Weigel KA, Rosa GJ.
Modeling relationships between calving traits: a comparison between standard and recursive mixed models.
Genet Sel Evol. 2010 Jan 25;42:1. doi: 10.1186/1297-9686-42-1. PubMed PMID: 20100345; PubMed Central PMCID: PMC2830933.

Wu XL, Gianola D, Rosa GJ, Weigel KA.
Bayesian model averaging for evaluation of candidate gene effects.
Genetica. 2010 Mar;138(3):395-407. doi: 10.1007/s10709-009-9433-4. Epub 2010 Jan 5. PubMed PMID: 20049510.

Vazquez AI, Bates DM, Rosa GJ, Gianola D, Weigel KA.
Technical note: an R package for fitting generalized linear mixed models in animal breeding.
J Anim Sci. 2010 Feb;88(2):497-504. doi: 10.2527/jas.2009-1952. Epub 2009 Oct 9. PubMed PMID: 19820058.

Weigel KA, de los Campos G, González-Recio O, Naya H, Wu XL, Long N, Rosa GJ, Gianola D.
Predictive ability of direct genomic values for lifetime net merit of Holstein sires using selected subsets of single nucleotide polymorphism markers.
J Dairy Sci. 2009 Oct;92(10):5248-57. doi: 10.3168/jds.2009-2092. PubMed PMID: 19762843.

Vazquez AI, Weigel KA, Gianola D, Bates DM, Perez-Cabal MA, Rosa GJ, Chang YM.
Poisson versus threshold models for genetic analysis of clinical mastitis in US Holsteins.
J Dairy Sci. 2009 Oct;92(10):5239-47. doi: 10.3168/jds.2009-2085. PubMed PMID: 19762842.

Forni S, Gianola D, Rosa GJ.
Predictive ability and covariance parameters of dynamic linear models for analysis of longitudinal traits.
J Anim Sci. 2009 Dec;87(12):3854-64. doi: 10.2527/jas.2008-1515. Epub 2009 Aug 14. PubMed PMID: 19684263.

Forni S, Gianola D, Rosa GJ, de Los Campos G.
A dynamic linear model for genetic analysis of longitudinal traits.
J Anim Sci. 2009 Dec;87(12):3845-53. doi: 10.2527/jas.2008-1514. Epub 2009 Aug 14. PubMed PMID: 19684262.

de Maturana EL, Gianola D, Rosa GJ, Weigel KA.
Predictive ability of models for calving difficulty in US Holsteins.
J Anim Breed Genet. 2009 Jun;126(3):179-88. doi: 10.1111/j.1439-0388.2008.00792.x. PubMed PMID: 19646146.

Driver AM, Huang W, Gajic S, Monson RL, Rosa GJ, Khatib H.
Short communication: Effects of the progesterone receptor variants on fertility traits in cattle.
J Dairy Sci. 2009 Aug;92(8):4082-5. doi: 10.3168/jds.2009-2013. PubMed PMID: 19620692.

de Maturana EL, Wu XL, Gianola D, Weigel KA, Rosa GJ.
Exploring biological relationships between calving traits in primiparous cattle with a Bayesian recursive model.
Genetics. 2009 Jan;181(1):277-87. doi: 10.1534/genetics.108.094888. Epub 2008 Nov 3. PubMed PMID: 18984571; PubMed Central PMCID: PMC2621175.

Presentations

P. J. Pinedo, G. J. M. Rosa, W. W. Thatcher, and J.E.P. Santos
Genomic Selection for Improved Fertility of Dairy Cows.  Accompanying Slides.