Bioinformatics, Statistical Proteomics and Genomics and Systems Biology

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Peer-Reviewed Publications

 
154: Caetano-Anolles K, Seo M, Rodriguez-Zas S, Oh JD, Han JY, Lee K, Park TS, Shin S, Jiao Jiao Z, Ghosh M, Jeong DK, Cho S, Kim H, Song KD, Lee HK. Comprehensive Identification of Sexual Dimorphism-Associated Differentially Expressed Genes in Two-Way Factorial Designed RNA-Seq Data on Japanese Quail (Coturnix coturnixjaponica). PLoS One. 2015 Sep 29;10(9):e0139324. doi:10.1371/journal.pone.0139324. eCollection 2015. PubMed PMID: 26418419; PubMed Central PMCID: PMC4587967.
 
153: L. M. Shoup, T. B. Wilson, D. González-Peña, F. A. Ireland, S. Rodriguez-Zas, T. L. Felix and D. W. Shike. Beef cow prepartum supplement level and age at weaning: II. Effects of developmental programming on performance and carcass composition of steer progeny. JAS. 2015 Sep 15. Vol. 93 No. 10, p. 4936-4947. doi:10.2527/jas.2014-8565.
 
152: Gonzalez-Pena D, Knox RV, Rodriguez-Zas SL. Contribution of semen trait selection, artificial insemination technique, and semen dose to the profitability of pig production systems: A simulation study. Theriogenology. 2015 Sep 12. pii: S0093-691X(15)00485-9. doi: 10.1016/j.theriogenology.2015.09.014. [Epub ahead of print] PubMed PMID: 26435262.
 
151: Moisá SJ, Shike DW, Shoup L, Rodriguez-Zas SL, Loor JJ. Maternal Plane of Nutrition during Late Gestation and Weaning Age Alter Angus × Simmental Offspring Longissimus Muscle Transcriptome and Intramuscular Fat. PLoS One. 2015 Jul 8;10(7):e0131478. doi: 10.1371/journal.pone.0131478. eCollection 2015. PubMed PMID: 26153887; PubMed Central PMCID: PMC4496061.
 
150: Shahzad K, Akbar H, Vailati-Riboni M, Basiricò L, Morera P, Rodriguez-Zas SL, Nardone A, Bernabucci U, Loor JJ. The effect of calving in the summer on the hepatic transcriptome of Holstein cows during the peripartal period. J Dairy Sci. 2015 Aug;98(8):5401-13. doi: 10.3168/jds.2015-9409. PubMed PMID: 26074246.
 
149: Andrea Minuti, Zheng Zhou, Daniel E. Graugnard, Sandra L. Rodriguez-Zas, Alejandro R. Palladino, Felipe C. Cardoso, Erminio Trevisi, Juan J. Loor. Acute mammary and liver transcriptome responses after an intramammary Escherichia coli lipopolysaccharide challenge in postpartal dairy cows. Physiological Reports. 2015 Apr;28 Vol. 3 no. e12388 DOI: 10.14814/phy2.12388
 
148: González-Peña D, Knox RV, MacNeil MD, Rodriguez-Zas SL. Genetic gain and economic values of selection strategies including semen traits in three- and four-way crossbreeding systems for swine production. J Anim Sci. 2015 Mar;93(3):879-91. doi: 10.2527/jas.2014-8035. PubMed PMID: 26020866.
 
147: Minuti A, Zhou Z, Graugnard DE, Rodriguez-Zas SL, Palladino AR, Cardoso FC, Trevisi E, Loor JJ. Acute mammary and liver transcriptome responses after an intramammary Escherichia coli lipopolysaccharide challenge in postpartal dairy cows. Physiol Rep. 2015 Apr;3(4). pii: e12388. doi: 10.14814/phy2.12388. PubMed PMID: 25921778; PubMed Central PMCID: PMC4425984.
 
146: Daigneault BW, McNamara KA, Purdy PH, Krisher RL, Knox RV, Rodriguez-Zas SL, Miller DJ. Enhanced fertility prediction of cryopreserved boar spermatozoa using novel sperm function assessment. Andrology. 2015 May;3(3):558-68. doi: 10.1111/andr.12035. Epub 2015 Apr 24. PubMed PMID: 25914302.
 
145: Caetano-Anollés K, Mishra S, Rodriguez-Zas SL. Synergistic and antagonistic interplay between myostatin gene expression and physical activity levels on gene expression patterns in triceps Brachii muscles of C57/BL6 mice. PLoS One. 2015 Feb 24;10(2):e0116828. doi: 10.1371/journal.pone.0116828. eCollection 2015. PubMed PMID: 25710176; PubMed Central PMCID: PMC4339580.
 
144: Nixon SE, González-Peña D, Lawson MA, McCusker RH, Hernandez AG, O'Connor JC, Dantzer R, Kelley KW, Rodriguez-Zas SL. Analytical workflow profiling gene expression in murine macrophages. J Bioinform Comput Biol. 2015 Apr;13(2):1550010. doi: 10.1142/S0219720015500109. Epub 2015 Jan 14. PubMed PMID: 25708305; PubMed Central PMCID: PMC4539142.
 
143: Akhtar MN, Southey BR, Andrén PE, Sweedler JV, Rodriguez-Zas SL. Identification of best indicators of peptide-spectrum match using a permutation resampling approach. J Bioinform Comput Biol. 2014 Oct;12(5):1440001. doi:10.1142/S0219720014400010. PubMed PMID: 25362838; PubMed Central PMCID: PMC4243829.
 
142: Liang ZS, Mattila HR, Rodriguez-Zas SL, Southey BR, Seeley TD, Robinson GE. Comparative brain transcriptomic analyses of scouting across distinct behavioural and ecological contexts in honeybees. Proc Biol Sci. 2014 Dec 22;281(1797). pii: 20141868. doi: 10.1098/rspb.2014.1868. PubMed PMID: 25355476; PubMed Central PMCID: PMC4240991.
 
141: Akhtar MN, Southey BR, Andrén PE, Sweedler JV, Rodriguez-Zas SL. Accurate assignment of significance to neuropeptide identifications using Monte Carlo k-permuted decoy databases. PLoS One. 2014 Oct 17;9(10):e111112. doi:10.1371/journal.pone.0111112. eCollection 2014. PubMed PMID: 25329667; PubMed Central PMCID: PMC4201571.
 
140: Rodriguez-Zas SL, Nixon SE, Lawson MA, Mccusker RH, Southey BR, O'Connor JC,  Dantzer R, Kelley KW. Advancing the understanding of behaviors associated with Bacille Calmette Guérin infection using multivariate analysis. Brain Behav Immun. 2015 Feb;44:176-86. doi: 10.1016/j.bbi.2014.09.018. Epub 2014 Oct 7. PubMed PMID: 25300921; PubMed Central PMCID: PMC4275396.
 
139: Shahzad K, Bionaz M, Trevisi E, Bertoni G, Rodriguez-Zas SL, Loor JJ. Integrative analyses of hepatic differentially expressed genes and blood biomarkers during the peripartal period between dairy cows overfed or restricted-fed energy prepartum. PLoS One. 2014 Jun 10;9(6):e99757. doi:10.1371/journal.pone.0099757. eCollection 2014. PubMed PMID: 24914544; PubMed Central PMCID: PMC4051754.
 
138: Akbar H, Cardoso FC, Meier S, Burke C, McDougall S, Mitchell M, Walker C, Rodriguez-Zas SL, Everts RE, Lewin HA, Roche JR, Loor JJ. Postpartal subclinical endometritis alters transcriptome profiles in liver and adipose tissue of dairy cows. Bioinform Biol Insights. 2014 Feb 19;8:45-63. doi: 10.4137/BBI.S13735. eCollection 2014. PubMed PMID: 24578603; PubMed Central PMCID: PMC3934763.
 
137: Gonzalez-Peña D, Knox RV, Pettigrew J, Rodriguez-Zas SL. Impact of pig insemination technique and semen preparation on profitability. J Anim Sci. 2014 Jan;92(1):72-84. doi: 10.2527/jas.2013-6836. Epub 2013 Dec 18. PubMed PMID: 24352964.
 
135: Naeem A, Drackley JK, Lanier JS, Everts RE, Rodriguez-Zas SL, Loor JJ. Ruminal epithelium transcriptome dynamics in response to plane of nutrition and age in young Holstein calves. Funct Integr Genomics. 2014 Mar;14(1):261-73. doi:10.1007/s10142-013-0351-2. Epub 2013 Dec 7. PubMed PMID: 24318765.
 
135: Retallick KM, Faulkner DB, Rodriguez-Zas SL, Nkrumah JD, Shike DW. Relationship among performance, carcass, and feed efficiency characteristics, and their ability to predict economic value in the feedlot. J Anim Sci. 2013 Dec;91(12):5954-61. doi: 10.2527/jas.2013-6156. PubMed PMID: 24265328.
 
134. Knox RV, Rodriguez Zas SL, Sloter NL, McNamara KA, Gall TJ, Levis DG, Safranski TJ, Singleton WL. An analysis of survey data by size of the breeding herd for the reproductive management practices of North American sow farms. J Anim Sci. 2013 Jan;91(1):433-45. doi: 10.2527/jas.2012-5189. Epub 2012 Oct 24. PMID: 23097401
 
133: Serão NV, González-Peña D, Beever JE, Bollero GA, Southey BR, Faulkner DB, Rodriguez-Zas SL. Bivariate genome-wide association analysis of the growth and intake components of feed efficiency. PLoS One. 2013 Oct 29;8(10):e78530. doi:10.1371/journal.pone.0078530. eCollection 2013. PubMed PMID: 24205251; PubMed Central PMCID: PMC3812149.
 
132: Retallick KM, Faulkner DB, Rodriguez-Zas SL, Nkrumah JD, Shike DW. Relationship among performance, carcass, and feed efficiency characteristics and their ability to predict economic value in the feedlot. J Anim Sci. 2013 Oct 28. [Epub ahead of print] PubMed PMID: 24166995.
 
131: Serão NV, González-Peña D, Beever JE, Faulkner DB, Southey BR, Rodriguez-Zas SL. Single nucleotide polymorphisms and haplotypes associated with feed efficiency in beef cattle. BMC Genet. 2013 Sep 25;14:94. doi:10.1186/1471-2156-14-94. PubMed PMID: 24066663; PubMed Central PMCID: PMC3819741.
 
130: Retallick KM, Faulkner DB, Rodriguez-Zas SL, Nkrumah JD, Shike DW. The effect of breed and individual heterosis on the feed efficiency, performance, and carcass characteristics of feedlot steers. J Anim Sci. 2013 Nov;91(11):5161-6. doi: 10.2527/jas.2012-6155. Epub 2013 Sep 17. PubMed PMID: 24045475.
 
129: Fazal Z, Southey BR, Sweedler JV, Rodriguez-Zas SL. Multifactorial Understanding of Ion Abundance in Tandem Mass Spectrometry Experiments. J Proteomics Bioinform. 2013 Jan 29;6(2):23-29. PubMed PMID: 24031159; PubMed Central PMCID: PMC3768159.
 
128: Moisá SJ, Shike DW, Graugnard DE, Rodriguez-Zas SL, Everts RE, Lewin HA, Faulkner DB, Berger LL, Loor JJ. Bioinformatics analysis of transcriptome dynamics during growth in angus cattle longissimus muscle. Bioinform Biol Insights. 2013 Aug 4;7:253-70. doi: 10.4137/BBI.S12328. eCollection 2013. PubMed  PMID: 23943656; PubMed Central PMCID: PMC3738383.
 
127: Zhao W, Shahzad K, Jiang M, Graugnard DE, Rodriguez-Zas SL, Luo J, Loor JJ, Hurley WL. Bioinformatics and Gene Network Analyses of the Swine Mammary Gland Transcriptome during Late Gestation. Bioinform Biol Insights. 2013 Jul 14;7:193-216. doi: 10.4137/BBI.S12205. Print 2013. PubMed PMID: 23908586; PubMed Central PMCID: PMC3728096.
 
126: Wheeler MM, Ament SA, Rodriguez-Zas SL, Robinson GE. Brain gene expression changes elicited by peripheral vitellogenin knockdown in the honey bee. Insect Mol Biol. 2013 Oct;22(5):562-73. doi: 10.1111/imb.12043. Epub 2013 Jul 24. PubMed PMID: 23889463.
 
125: Kadegowda AK, Khan MJ, Piperova LS, Teter BB, Rodriguez-Zas SL, Erdman RA, Loor JJ. Trans-10, cis 12-Conjugated Linoleic Acid-Induced Milk Fat Depression Is Associated with Inhibition of PPARγ Signaling and Inflammation in Murine Mammary Tissue. J Lipids. 2013;2013:890343. doi: 10.1155/2013/890343. Epub 2013 May 14. PubMed PMID: 23762566; PubMed Central PMCID: PMC3666273.
 
124: Delfino KR, Rodriguez-Zas SL. Transcription factor-microRNA-target gene networks associated with ovarian cancer survival and recurrence. PLoS One. 2013;8(3):e58608. doi: 10.1371/journal.pone.0058608. Epub 2013 Mar 12. PubMed PMID: 23554906; PubMed Central PMCID: PMC3595291.
 
123: Akbar H, Bionaz M, Carlson DB, Rodriguez-Zas SL, Everts RE, Lewin HA, Drackley JK, Loor JJ. Feed restriction, but not l-carnitine infusion, alters the liver transcriptome by inhibiting sterol synthesis and mitochondrial oxidative phosphorylation and increasing gluconeogenesis in mid-lactation dairy cows. J Dairy Sci. 2013 Apr;96(4):2201-13. doi: 10.3168/jds.2012-6036. Epub 2013 Feb 22. PubMed PMID: 23462174.
 
122: Kelley KW, O'Connor JC, Lawson MA, Dantzer R, Rodriguez-Zas SL, McCusker RH. Aging leads to prolonged duration of inflammation-induced depression-like behavior caused by Bacillus Calmette-Guérin. Brain Behav Immun. 2013 Aug;32:63-9. doi: 10.1016/j.bbi.2013.02.003. Epub 2013 Feb 26. PubMed PMID: 23454036; PubMed Central PMCID: PMC3686980.
 
121: Sadeque A, Serão NV, Southey BR, Delfino KR, Rodriguez-Zas SL. Identification and characterization of alternative exon usage linked glioblastoma multiforme survival. BMC Med Genomics. 2012 Dec 4;5:59. doi: 10.1186/1755-8794-5-59. PubMed PMID: 23206951; PubMed Central PMCID: PMC3548711.
 
120: Porter KI, Southey BR, Sweedler JV, Rodriguez-Zas SL. First survey and functional annotation of prohormone and convertase genes in the pig. BMC Genomics. 2012 Nov 15;13:582. doi: 10.1186/1471-2164-13-582. PubMed PMID: 23153308; PubMed Central PMCID: PMC3499383.
 
118: Groenen MA, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF,
Rogel-Gaillard C, Park C, Milan D, Megens HJ, Li S, Larkin DM, Kim H, Frantz LA, 
Caccamo M, Ahn H, Aken BL, Anselmo A, Anthon C, Auvil L, Badaoui B, Beattie CW,
Bendixen C, Berman D, Blecha F, Blomberg J, Bolund L, Bosse M, Botti S, Bujie Z, 
Bystrom M, Capitanu B, Carvalho-Silva D, Chardon P, Chen C, Cheng R, Choi SH,
Chow W, Clark RC, Clee C, Crooijmans RP, Dawson HD, Dehais P, De Sapio F, Dibbits
B, Drou N, Du ZQ, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler
KE, Fredholm M, Fritz E, Gilbert JG, Giuffra E, Gorodkin J, Griffin DK, Harrow
JL, Hayward A, Howe K, Hu ZL, Humphray SJ, Hunt T, Hornshøj H, Jeon JT, Jern P,
Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim JH, Kim KW, Kim TH,
Larson G, Lee K, Lee KT, Leggett R, Lewin HA, Li Y, Liu W, Loveland JE, Lu Y,
Lunney JK, Ma J, Madsen O, Mann K, Matthews L, McLaren S, Morozumi T, Murtaugh
MP, Narayan J, Nguyen DT, Ni P, Oh SJ, Onteru S, Panitz F, Park EW, Park HS,
Pascal G, Paudel Y, Perez-Enciso M, Ramirez-Gonzalez R, Reecy JM, Rodriguez-Zas
S, Rohrer GA, Rund L, Sang Y, Schachtschneider K, Schraiber JG, Schwartz J,
Scobie L, Scott C, Searle S, Servin B, Southey BR, Sperber G, Stadler P, Sweedler
JV, Tafer H, Thomsen B, Wali R, Wang J, Wang J, White S, Xu X, Yerle M, Zhang G, 
Zhang J, Zhang J, Zhao S, Rogers J, Churcher C, Schook LB. Analyses of pig
genomes provide insight into porcine demography and evolution. Nature. 2012 Nov
15;491(7424):393-8. doi: 10.1038/nature11622. PubMed PMID: 23151582; PubMed
Central PMCID: PMC3566564.
 
118: Knox RV, Rodriguez-Zas SL, Sloter NL, McNamara KA, Gall TJ, Levis DG, Safranski TJ, Singleton WL. An analysis of survey data by size of the breeding herd for the reproductive management practices of North American sow farms. J Anim Sci. 2013 Jan;91(1):433-45. doi: 10.2527/jas.2012-5189. Epub 2012 Oct 24. PubMed PMID: 23097401.
 
117: Akhtar MN, Southey BR, Andrén PE, Sweedler JV, Rodriguez-Zas SL. Evaluation of database search programs for accurate detection of neuropeptides in tandem mass spectrometry experiments. J Proteome Res. 2012 Dec 7;11(12):6044-55. doi: 10.1021/pr3007123. Epub 2012 Nov 6. PubMed PMID: 23082934; PubMed Central PMCID: PMC3516866.
 
116: Salak-Johnson JL, DeDecker AE, Horsman MJ, Rodriguez-Zas SL. Space allowance for gestating sows in pens: behavior and immunity. J Anim Sci. 2012 Sep;90(9):3232-42. doi: 10.2527/jas.2011-4531. Epub 2012 Aug 7. PubMed PMID: 22871940.
 
115: Ament SA, Blatti CA, Alaux C, Wheeler MM, Toth AL, Le Conte Y, Hunt GJ, Guzmán-Novoa E, Degrandi-Hoffman G, Uribe-Rubio JL, Amdam GV, Page RE Jr, Rodriguez-Zas SL, Robinson GE, Sinha S. New meta-analysis tools reveal common transcriptional regulatory basis for multiple determinants of behavior. Proc Natl Acad Sci U S A. 2012 Jun 26;109(26):E1801-10. doi: 10.1073/pnas.1205283109. Epub 2012 Jun 12. PubMed PMID: 22691501; PubMed Central PMCID: PMC3387076.
 
114: Piantoni P, Daniels KM, Everts RE, Rodriguez-Zas SL, Lewin HA, Hurley WL, Akers RM, Loor JJ. Level of nutrient intake affects mammary gland gene expression profiles in preweaned Holstein heifers. J Dairy Sci. 2012 May;95(5):2550-61. doi:10.3168/jds.2011-4539. PubMed PMID: 22541482.
 
113: Ament SA, Wang Y, Chen CC, Blatti CA, Hong F, Liang ZS, Negre N, White KP, Rodriguez-Zas SL, Mizzen CA, Sinha S, Zhong S, Robinson GE. The transcription factor ultraspiracle influences honey bee social behavior and behavior-related gene expression. PLoS Genet. 2012;8(3):e1002596. doi: 10.1371/journal.pgen.1002596. Epub 2012 Mar 29. PubMed PMID: 22479195; PubMed Central PMCID: PMC3315457.
 
112: Bionaz M, Periasamy K, Rodriguez-Zas SL, Hurley WL, Loor JJ. A novel dynamic impact approach (DIA) for functional analysis of time-course omics studies: validation using the bovine mammary transcriptome. PLoS One. 2012;7(3):e32455. doi: 10.1371/journal.pone.0032455. Epub 2012 Mar 16. PubMed PMID: 22438877; PubMed Central PMCID: PMC3306320.
 
111: Bionaz M, Periasamy K, Rodriguez-Zas SL, Everts RE, Lewin HA, Hurley WL, Loor JJ. Old and new stories: revelations from functional analysis of the bovine mammary transcriptome during the lactation cycle. PLoS One. 2012;7(3):e33268. doi: 10.1371/journal.pone.0033268. Epub 2012 Mar 12. PubMed PMID: 22428004; PubMed Central PMCID: PMC3299771.
 
100: Liang ZS, Nguyen T, Mattila HR, Rodriguez-Zas SL, Seeley TD, Robinson GE. Molecular determinants of scouting behavior in honey bees. Science. 2012 Mar 9;335(6073):1225-8. doi: 10.1126/science.1213962. PubMed PMID: 22403390.
 
109: Monaco E, Bionaz M, Rodriguez-Zas S, Hurley WL, Wheeler MB. Transcriptomics comparison between porcine adipose and bone marrow mesenchymal stem cells during in vitro osteogenic and adipogenic differentiation. PLoS One. 2012;7(3):e32481. doi: 10.1371/journal.pone.0032481. Epub 2012 Mar 7. PubMed PMID: 22412878; PubMed Central PMCID: PMC3296722.
 
108: Wilson SM, Goldwasser MS, Clark SG, Monaco E, Bionaz M, Hurley WL, Rodriguez-Zas S, Feng L, Dymon Z, Wheeler MB. Adipose-derived mesenchymal stem cells enhance healing of mandibular defects in the ramus of swine. J Oral Maxillofac Surg. 2012 Mar;70(3):e193-203. doi: 10.1016/j.joms.2011.10.029. PubMed PMID: 22374062.
 
107: Rodriguez-Zas SL, Southey BR, Shemesh Y, Rubin EB, Cohen M, Robinson GE, Bloch G. Microarray analysis of natural socially regulated plasticity in circadian rhythms of honey bees. J Biol Rhythms. 2012 Feb;27(1):12-24. doi:10.1177/0748730411431404. PubMed PMID: 22306970; PubMed Central PMCID: PMC3313495.
 
106: Chen K, Hawken R, Flickinger GH, Rodriguez-Zas SL, Rund LA, Wheeler MB, Abrahamsen M, Rutherford MS, Beever JE, Schook LB. Association of the porcine transforming growth factor beta type I receptor (TGFBR1) gene with growth and carcass traits. Anim Biotechnol. 2012;23(1):43-63. doi:10.1080/10495398.2011.630897. PubMed PMID: 22292700.
 
105: Zayed A, Naeger NL, Rodriguez-Zas SL, Robinson GE. Common and novel transcriptional routes to behavioral maturation in worker and male honey bees. Genes Brain Behav. 2012 Apr;11(3):253-61. doi: 10.1111/j.1601-183X.2011.00750.x. Epub 2011 Dec 5. PubMed PMID: 22050787.
 
104: Ament SA, Chan QW, Wheeler MM, Nixon SE, Johnson SP, Rodriguez-Zas SL, Foster LJ, Robinson GE. Mechanisms of stable lipid loss in a social insect. J Exp Biol. 2011 Nov 15;214(Pt 22):3808-21. doi: 10.1242/jeb.060244. PubMed PMID: 22031746; PubMed Central PMCID: PMC3202514.
 
103: Chandrasekaran S, Ament SA, Eddy JA, Rodriguez-Zas SL, Schatz BR, Price ND, Robinson GE. Behavior-specific changes in transcriptional modules lead to distinct and predictable neurogenomic states. Proc Natl Acad Sci U S A. 2011 Nov 1;108(44):18020-5. doi: 10.1073/pnas.1114093108. Epub 2011 Sep 29. PubMed PMID: 21960440; PubMed Central PMCID: PMC3207651.
 
102: Cohen-Zinder M, Donthu R, Larkin DM, Kumar CG, Rodriguez-Zas SL, Andropolis KE, Oliveira R, Lewin HA. Multisite haplotype on cattle chromosome 3 is associated with quantitative trait locus effects on lactation traits. Physiol Genomics. 2011 Nov 7;43(21):1185-97. doi: 10.1152/physiolgenomics.00253.2010. Epub 2011 Sep 6. PubMed PMID: 21896633.
 
101: Kohman RA, Rodriguez-Zas SL, Southey BR, Kelley KW, Dantzer R, Rhodes JS. Voluntary wheel running reverses age-induced changes in hippocampal gene expression. PLoS One. 2011;6(8):e22654. doi: 10.1371/journal.pone.0022654. Epub 2011 Aug 8. PubMed PMID: 21857943; PubMed Central PMCID: PMC3152565.
 
100: Delfino KR, Serão NV, Southey BR, Rodriguez-Zas SL. Therapy-, gender- and race-specific microRNA markers, target genes and networks related to glioblastoma recurrence and survival. Cancer Genomics Proteomics. 2011 Jul-Aug;8(4):173-83. PubMed PMID: 21737610; PubMed Central PMCID: PMC3321577.
 
99: Serão NV, Delfino KR, Southey BR, Beever JE, Rodriguez-Zas SL. Cell cycle and aging, morphogenesis, and response to stimuli genes are individualized biomarkers of glioblastoma progression and survival. BMC Med Genomics. 2011 Jun 7;4:49. doi: 10.1186/1755-8794-4-49. PubMed PMID: 21649900; PubMed Central PMCID: PMC3127972.
 
98: Lutz CC, Rodriguez-Zas SL, Fahrbach SE, Robinson GE. Transcriptional response to foraging experience in the honey bee mushroom bodies. Dev Neurobiol. 2012 Feb;72(2):153-66. doi: 10.1002/dneu.20929. PubMed PMID: 21634017; PubMed Central  PMCID: PMC3256269.
 
97: Naeger NL, Van Nest BN, Johnson JN, Boyd SD, Southey BR, Rodriguez-Zas SL, Moore D, Robinson GE. Neurogenomic signatures of spatiotemporal memories in time-trained forager honey bees. J Exp Biol. 2011 Mar 15;214(Pt 6):979-87. doi:10.1242/jeb.053421. PubMed PMID: 21346126; PubMed Central PMCID: PMC4074293.
 
96: Knox RV, Willenburg KL, Rodriguez-Zas SL, Greger DL, Hafs HD, Swanson ME. Synchronization of ovulation and fertility in weaned sows treated with intravaginal triptorelin is influenced by timing of administration and follicle size. Theriogenology. 2011 Jan 15;75(2):308-19. doi:10.1016/j.theriogenology.2010.09.001. Epub 2010 Oct 30. PubMed PMID: 21040957.
 
95: Ko Y, Zhai C, Rodriguez-Zas SL. Discovery of gene network variability across samples representing multiple classes. Int J Bioinform Res Appl. 2010;6(4):402-17. PubMed PMID: 20940126; PubMed Central PMCID: PMC3321607.
 
94: Adams HA, Southey BR, Everts RE, Marjani SL, Tian CX, Lewin HA, Rodriguez-Zas SL. Transferase activity function and system development process are critical in cattle embryo development. Funct Integr Genomics. 2011 Mar;11(1):139-50. doi:10.1007/s10142-010-0189-9. Epub 2010 Sep 16. PubMed PMID: 20844914; PubMed Central PMCID: PMC3053413.
 
93: Moyes KM, Drackley JK, Morin DE, Rodriguez-Zas SL, Everts RE, Lewin HA, Loor JJ. Predisposition of cows to mastitis in non-infected mammary glands: effects of dietary-induced negative energy balance during mid-lactation on immune-related genes. Funct Integr Genomics. 2011 Mar;11(1):151-6. doi:10.1007/s10142-010-0186-z. Epub 2010 Aug 31. PubMed PMID: 20809086.
 
92: Sen Sarma M, Rodriguez-Zas SL, Gernat T, Nguyen T, Newman T, Robinson GE. Distance-responsive genes found in dancing honey bees. Genes Brain Behav. 2010 Oct;9(7):825-30. doi: 10.1111/j.1601-183X.2010.00622.x. Epub 2010 Sep 1. PubMed PMID: 20618450.
 
91: Piantoni P, Bionaz M, Graugnard DE, Daniels KM, Everts RE, Rodriguez-Zas SL, Lewin HA, Hurley HL, Akers M, Loor JJ. Functional and gene network analyses of transcriptional signatures characterizing pre-weaned bovine mammary parenchyma or fat pad uncovered novel inter-tissue signaling networks during development. BMC Genomics. 2010 May 26;11:331. doi: 10.1186/1471-2164-11-331. PubMed PMID: 20504330; PubMed Central PMCID: PMC2890563.
 
90: Xie F, London SE, Southey BR, Annangudi SP, Amare A, Rodriguez-Zas SL, Clayton DF, Sweedler JV. The zebra finch neuropeptidome: prediction, detection and expression. BMC Biol. 2010 Apr 1;8:28. doi: 10.1186/1741-7007-8-28. PubMed PMID: 20359331; PubMed Central PMCID: PMC2873334.
 
89: Toth AL, Varala K, Henshaw MT, Rodriguez-Zas SL, Hudson ME, Robinson GE. Brain transcriptomic analysis in paper wasps identifies genes associated with behaviour across social insect lineages. Proc Biol Sci. 2010 Jul 22;277(1691):2139-48. doi: 10.1098/rspb.2010.0090. Epub 2010 Mar 17. PubMed PMID: 20236980; PubMed Central PMCID: PMC2880150.
 
88: Moyes KM, Drackley JK, Morin DE, Rodriguez-Zas SL, Everts RE, Lewin HA, Loor JJ. Mammary gene expression profiles during an intramammary challenge reveal potential mechanisms linking negative energy balance with impaired immune response. Physiol Genomics. 2010 Apr 1;41(2):161-70. doi:10.1152/physiolgenomics.00197.2009. Epub 2010 Jan 26. PubMed PMID: 20103698; PubMed Central PMCID: PMC4073896.
 
87: Soria-Guerra RE, Rosales-Mendoza S, Chang S, Haudenshield JS, Padmanaban A, Rodriguez-Zas S, Hartman GL, Ghabrial SA, Korban SS. Transcriptome analysis of resistant and susceptible genotypes of Glycine tomentella during Phakopsora pachyrhizi infection reveals novel rust resistance genes. Theor Appl Genet. 2010 May;120(7):1315-33. doi: 10.1007/s00122-009-1258-0. Epub 2010 Jan 8. PubMed PMID: 20058146.
 
86: Delfino KR, Southey BR, Sweedler JV, Rodriguez-Zas SL. Genome-wide census and expression profiling of chicken neuropeptide and prohormone convertase genes. Neuropeptides. 2010 Feb;44(1):31-44. doi: 10.1016/j.npep.2009.11.002. Epub 2009 Dec 14. PubMed PMID: 20006904; PubMed Central PMCID: PMC2814002.
 
85: Moyes KM, Drackley JK, Morin DE, Bionaz M, Rodriguez-Zas SL, Everts RE, Lewin HA, Loor JJ. Gene network and pathway analysis of bovine mammary tissue challenged with Streptococcus uberis reveals induction of cell proliferation and inhibition of PPARgamma signaling as potential mechanism for the negative relationships between immune response and lipid metabolism. BMC Genomics. 2009 Nov 19;10:542. doi: 10.1186/1471-2164-10-542. PubMed PMID: 19925655; PubMed Central PMCID: PMC2784807.
 
84: Alaux C, Sinha S, Hasadsri L, Hunt GJ, Guzmán-Novoa E, DeGrandi-Hoffman G, Uribe-Rubio JL, Southey BR, Rodriguez-Zas S, Robinson GE. Honey bee aggression supports a link between gene regulation and behavioral evolution. Proc Natl Acad Sci U S A. 2009 Sep 8;106(36):15400-5. doi: 10.1073/pnas.0907043106. Epub 2009 Aug 21. PubMed PMID: 19706434; PubMed Central PMCID: PMC2730357.
 
83: Alaux C, Duong N, Schneider SS, Southey BR, Rodriguez-Zas S, Robinson GE. Modulatory communication signal performance is associated with a distinct neurogenomic state in honey bees. PLoS One. 2009 Aug 20;4(8):e6694. doi: 10.1371/journal.pone.0006694. PubMed PMID: 19693278; PubMed Central PMCID: PMC2725773.
 
82: Sen Sarma M, Rodriguez-Zas SL, Hong F, Zhong S, Robinson GE. Transcriptomic profiling of central nervous system regions in three species of honey bee during dance communication behavior. PLoS One. 2009 Jul 29;4(7):e6408. doi: 10.1371/journal.pone.0006408. PubMed PMID: 19641619; PubMed Central PMCID: PMC2713418.
 
81: Ayroles JF, Hughes KA, Rowe KC, Reedy MM, Rodriguez-Zas SL, Drnevich JM, Cáceres CE, Paige KN. A genomewide assessment of inbreeding depression: gene number, function, and mode of action. Conserv Biol. 2009 Aug;23(4):920-30. doi:10.1111/j.1523-1739.2009.01186.x. PubMed PMID: 19627320.
 
80: Dong S, Replogle KL, Hasadsri L, Imai BS, Yau PM, Rodriguez-Zas S, Southey BR, Sweedler JV, Clayton DF. Discrete molecular states in the brain accompany changing responses to a vocal signal. Proc Natl Acad Sci U S A. 2009 Jul 7;106(27):11364-9. doi: 10.1073/pnas.0812998106. Epub 2009 Jun 18. PubMed PMID: 19541599; PubMed Central PMCID: PMC2708759.
 
79: Ko Y, Zhai C, Rodriguez-Zas S. Inference of gene pathways using mixture Bayesian networks. BMC Syst Biol. 2009 May 19;3:54. doi: 10.1186/1752-0509-3-54. PubMed PMID: 19454027; PubMed Central PMCID: PMC2701418.
 
78: Southey BR, Rodriguez-Zas SL, Sweedler JV. Characterization of the prohormone complement in cattle using genomic libraries and cleavage prediction approaches. BMC Genomics. 2009 May 16;10:228. doi: 10.1186/1471-2164-10-228. PubMed PMID: 19445702; PubMed Central PMCID: PMC2698874.
 
77: Bovine Genome Sequencing and Analysis Consortium, Elsik CG, Tellam RL, Worley
KC, Gibbs RA, Muzny DM, Weinstock GM, Adelson DL, Eichler EE, Elnitski L, Guigó
R, Hamernik DL, Kappes SM, Lewin HA, Lynn DJ, Nicholas FW, Reymond A, Rijnkels M,
Skow LC, Zdobnov EM, Schook L, Womack J, Alioto T, Antonarakis SE, Astashyn A,
Chapple CE, Chen HC, Chrast J, Câmara F, Ermolaeva O, Henrichsen CN, Hlavina W,
Kapustin Y, Kiryutin B, Kitts P, Kokocinski F, Landrum M, Maglott D, Pruitt K,
Sapojnikov V, Searle SM, Solovyev V, Souvorov A, Ucla C, Wyss C, Anzola JM,
Gerlach D, Elhaik E, Graur D, Reese JT, Edgar RC, McEwan JC, Payne GM, Raison JM,
Junier T, Kriventseva EV, Eyras E, Plass M, Donthu R, Larkin DM, Reecy J, Yang
MQ, Chen L, Cheng Z, Chitko-McKown CG, Liu GE, Matukumalli LK, Song J, Zhu B,
Bradley DG, Brinkman FS, Lau LP, Whiteside MD, Walker A, Wheeler TT, Casey T,
German JB, Lemay DG, Maqbool NJ, Molenaar AJ, Seo S, Stothard P, Baldwin CL,
Baxter R, Brinkmeyer-Langford CL, Brown WC, Childers CP, Connelley T, Ellis SA,
Fritz K, Glass EJ, Herzig CT, Iivanainen A, Lahmers KK, Bennett AK, Dickens CM,
Gilbert JG, Hagen DE, Salih H, Aerts J, Caetano AR, Dalrymple B, Garcia JF, Gill 
CA, Hiendleder SG, Memili E, Spurlock D, Williams JL, Alexander L, Brownstein MJ,
Guan L, Holt RA, Jones SJ, Marra MA, Moore R, Moore SS, Roberts A, Taniguchi M,
Waterman RC, Chacko J, Chandrabose MM, Cree A, Dao MD, Dinh HH, Gabisi RA, Hines 
S, Hume J, Jhangiani SN, Joshi V, Kovar CL, Lewis LR, Liu YS, Lopez J, Morgan MB,
Nguyen NB, Okwuonu GO, Ruiz SJ, Santibanez J, Wright RA, Buhay C, Ding Y,
Dugan-Rocha S, Herdandez J, Holder M, Sabo A, Egan A, Goodell J, Wilczek-Boney K,
Fowler GR, Hitchens ME, Lozado RJ, Moen C, Steffen D, Warren JT, Zhang J, Chiu R,
Schein JE, Durbin KJ, Havlak P, Jiang H, Liu Y, Qin X, Ren Y, Shen Y, Song H,
Bell SN, Davis C, Johnson AJ, Lee S, Nazareth LV, Patel BM, Pu LL, Vattathil S,
Williams RL Jr, Curry S, Hamilton C, Sodergren E, Wheeler DA, Barris W, Bennett
GL, Eggen A, Green RD, Harhay GP, Hobbs M, Jann O, Keele JW, Kent MP, Lien S,
McKay SD, McWilliam S, Ratnakumar A, Schnabel RD, Smith T, Snelling WM,
Sonstegard TS, Stone RT, Sugimoto Y, Takasuga A, Taylor JF, Van Tassell CP,
Macneil MD, Abatepaulo AR, Abbey CA, Ahola V, Almeida IG, Amadio AF, Anatriello
E, Bahadue SM, Biase FH, Boldt CR, Carroll JA, Carvalho WA, Cervelatti EP, Chacko
E, Chapin JE, Cheng Y, Choi J, Colley AJ, de Campos TA, De Donato M, Santos IK,
de Oliveira CJ, Deobald H, Devinoy E, Donohue KE, Dovc P, Eberlein A, Fitzsimmons
CJ, Franzin AM, Garcia GR, Genini S, Gladney CJ, Grant JR, Greaser ML, Green JA, 
Hadsell DL, Hakimov HA, Halgren R, Harrow JL, Hart EA, Hastings N, Hernandez M,
Hu ZL, Ingham A, Iso-Touru T, Jamis C, Jensen K, Kapetis D, Kerr T, Khalil SS,
Khatib H, Kolbehdari D, Kumar CG, Kumar D, Leach R, Lee JC, Li C, Logan KM,
Malinverni R, Marques E, Martin WF, Martins NF, Maruyama SR, Mazza R, McLean KL, 
Medrano JF, Moreno BT, Moré DD, Muntean CT, Nandakumar HP, Nogueira MF, Olsaker
I, Pant SD, Panzitta F, Pastor RC, Poli MA, Poslusny N, Rachagani S, Ranganathan 
S, Razpet A, Riggs PK, Rincon G, Rodriguez-Osorio N, Rodriguez-Zas SL, Romero NE,
Rosenwald A, Sando L, Schmutz SM, Shen L, Sherman L, Southey BR, Lutzow YS,
Sweedler JV, Tammen I, Telugu BP, Urbanski JM, Utsunomiya YT, Verschoor CP,
Waardenberg AJ, Wang Z, Ward R, Weikard R, Welsh TH Jr, White SN, Wilming LG,
Wunderlich KR, Yang J, Zhao FQ. The genome sequence of taurine cattle: a window
to ruminant biology and evolution. Science. 2009 Apr 24;324(5926):522-8. doi:
10.1126/science.1169588. PubMed PMID: 19390049; PubMed Central PMCID: PMC2943200.
 
76: Alaux C, Le Conte Y, Adams HA, Rodriguez-Zas S, Grozinger CM, Sinha S, Robinson GE. Regulation of brain gene expression in honey bees by brood pheromone. Genes Brain Behav. 2009 Apr;8(3):309-19. doi:10.1111/j.1601-183X.2009.00480.x. PubMed PMID: 19220482.
 
75: Brockmann A, Annangudi SP, Richmond TA, Ament SA, Xie F, Southey BR, Rodriguez-Zas SR, Robinson GE, Sweedler JV. Quantitative peptidomics reveal brain peptide signatures of behavior. Proc Natl Acad Sci U S A. 2009 Feb 17;106(7):2383-8. doi: 10.1073/pnas.0813021106. Epub 2009 Jan 28. PubMed PMID: 19179284; PubMed Central PMCID: PMC2632711.
 
74: Southey BR, Sweedler JV, Rodriguez-Zas SL. A python analytical pipeline to identify prohormone precursors and predict prohormone cleavage sites. Front Neuroinform. 2008 Dec 16;2:7. doi: 10.3389/neuro.11.007.2008. eCollection 2008. PubMed PMID: 19169350; PubMed Central PMCID: PMC2610252.
 
73: Marjani SL, Le Bourhis D, Vignon X, Heyman Y, Everts RE, Rodriguez-Zas SL, Lewin HA, Renard JP, Yang X, Tian XC. Embryonic gene expression profiling using microarray analysis. Reprod Fertil Dev. 2009;21(1):22-30. Review. PubMed PMID: 19152742.
 
72: Adams HA, Southey BR, Robinson GE, Rodriguez-Zas SL. Meta-analysis of genome-wide expression patterns associated with behavioral maturation in honey bees. BMC Genomics. 2008 Oct 24;9:503. doi: 10.1186/1471-2164-9-503. PubMed PMID: 18950506; PubMed Central PMCID: PMC2582039.
 
71: Smith SL, Everts RE, Sung LY, Du F, Page RL, Henderson B, Rodriguez-Zas SL, Nedambale TL, Renard JP, Lewin HA, Yang X, Tian XC. Gene expression profiling of single bovine embryos uncovers significant effects of in vitro maturation, fertilization and culture. Mol Reprod Dev. 2009 Jan;76(1):38-47. doi:10.1002/mrd.20927. Erratum in: Mol Reprod Dev. 2009 May;76(5):523. PubMed PMID: 18449896.
 
70: Replogle K, Arnold AP, Ball GF, Band M, Bensch S, Brenowitz EA, Dong S, Drnevich J, Ferris M, George JM, Gong G, Hasselquist D, Hernandez AG, Kim R, Lewin HA, Liu L, Lovell PV, Mello CV, Naurin S, Rodriguez-Zas S, Thimmapuram J, Wade J, Clayton DF. The Songbird Neurogenomics (SoNG) Initiative: community-based tools and strategies for study of brain gene function and evolution. BMC Genomics. 2008 Mar 18;9:131. doi: 10.1186/1471-2164-9-131. PubMed PMID: 18366674; PubMed Central PMCID: PMC2329646.
 
69: Southey BR, Sweedler JV, Rodriguez-Zas SL. Prediction of neuropeptide cleavage sites in insects. Bioinformatics. 2008 Mar 15;24(6):815-25. doi: 10.1093/bioinformatics/btn044. Epub 2008 Feb 5. PubMed PMID: 18252740.
 
68: Rodriguez-Zas SL, Ko Y, Adams HA, Southey BR. Advancing the understanding of the embryo transcriptome co-regulation using meta-, functional, and gene network analysis tools. Reproduction. 2008 Feb;135(2):213-24. doi: 10.1530/REP-07-0391. PubMed PMID: 18239050.
 
67: Rodriguez-Zas SL, Schellander K, Lewin HA. Biological interpretations of transcriptomic profiles in mammalian oocytes and embryos. Reproduction. 2008 Feb;135(2):129-39. doi: 10.1530/REP-07-0426. Review. PubMed PMID: 18239044.
 
66: Tegge AN, Southey BR, Sweedler JV, Rodriguez-Zas SL. Comparative analysis of neuropeptide cleavage sites in human, mouse, rat, and cattle. Mamm Genome. 2008 Feb;19(2):106-20. doi: 10.1007/s00335-007-9090-9. Epub 2008 Jan 23. PubMed PMID: 18213482.
 
65: Everts RE, Chavatte-Palmer P, Razzak A, Hue I, Green CA, Oliveira R, Vignon X, Rodriguez-Zas SL, Tian XC, Yang X, Renard JP, Lewin HA. Aberrant gene expression patterns in placentomes are associated with phenotypically normal and abnormal cattle cloned by somatic cell nuclear transfer. Physiol Genomics. 2008 Mar 14;33(1):65-77. Epub 2007 Dec 18. PubMed PMID: 18089771.
 
64: Meyers SN, Rodriguez-Zas SL, Beever JE. Fine-mapping of a QTL influencing pork tenderness on porcine chromosome 2. BMC Genet. 2007 Oct 12;8:69. PubMed PMID: 17935628; PubMed Central PMCID: PMC2213680.
 
63: Loor JJ, Everts RE, Bionaz M, Dann HM, Morin DE, Oliveira R, Rodriguez-Zas SL, Drackley JK, Lewin HA. Nutrition-induced ketosis alters metabolic and signaling gene networks in liver of periparturient dairy cows. Physiol Genomics. 2007 Dec 19;32(1):105-16. Epub 2007 Oct 9. PubMed PMID: 17925483.
 
62: Yeater KM, Chandra J, Cheng G, Mukherjee PK, Zhao X, Rodriguez-Zas SL, Kwast KE, Ghannoum MA, Hoyer LL. Temporal analysis of Candida albicans gene expression during biofilm development. Microbiology. 2007 Aug;153(Pt 8):2373-85. PubMed PMID: 17660402.
 
61: Salak-Johnson JL, Niekamp SR, Rodriguez-Zas SL, Ellis M, Curtis SE. Space allowance for dry, pregnant sows in pens: body condition, skin lesions, and performance. J Anim Sci. 2007 Jul;85(7):1758-69. Epub 2007 Mar 19. PubMed PMID: 17371790.
 
60: Hummon AB, Richmond TA, Verleyen P, Baggerman G, Huybrechts J, Ewing MA, Vierstraete E, Rodriguez-Zas SL, Schoofs L, Robinson GE, Sweedler JV. From the genome to the proteome: uncovering peptides in the Apis brain. Science. 2006 Oct 27;314(5799):647-9. PubMed PMID: 17068263.
 
59: Whitfield CW, Ben-Shahar Y, Brillet C, Leoncini I, Crauser D, Leconte Y, Rodriguez-Zas S, Robinson GE. Inaugural Article: Genomic dissection of behavioral maturation in the honey bee. Proc Natl Acad Sci U S A. 2006 Oct 31;103(44):16068-75. Epub 2006 Oct 25. PubMed PMID: 17065327; PubMed Central PMCID: PMC1622924.
 
58. Honeybee Genome Sequencing Consortium. Insights into social insects from the genome of the honey bee Apis mellifera. Nature 2006 Oct  443;931-949. doi:10.1038/nature05260
 
57: Rodriguez-Zas SL, Southey BR, Whitfield CW, Robinson GE. Semiparametric approach to characterize unique gene expression trajectories across time. BMC Genomics. 2006 Sep 13;7:233. PubMed PMID: 16970825; PubMed Central PMCID: PMC1592090.
 
56: Rodriguez-Zas SL, Davis CB, Ellinger PN, Schnitkey GD, Romine NM, Connor JF, Knox RV, Southey BR. Impact of biological and economic variables on optimal parity for replacement in swine breed-to-wean herds. J Anim Sci. 2006 Sep;84(9):2555-65. PubMed PMID: 16908661.
 
55: Southey BR, Amare A, Zimmerman TA, Rodriguez-Zas SL, Sweedler JV. NeuroPred: a tool to predict cleavage sites in neuropeptide precursors and provide the masses of the resulting peptides. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W267-72. PubMed PMID: 16845008; PubMed Central PMCID: PMC1538825.
 
54: Loor JJ, Dann HM, Guretzky NA, Everts RE, Oliveira R, Green CA, Litherland NB, Rodriguez-Zas SL, Lewin HA, Drackley JK. Plane of nutrition prepartum alters hepatic gene expression and function in dairy cows as assessed by longitudinal transcript and metabolic profiling. Physiol Genomics. 2006 Oct 3;27(1):29-41. Epub 2006 Jun 6. PubMed PMID: 16757553.
 
53: Amare A, Hummon AB, Southey BR, Zimmerman TA, Rodriguez-Zas SL, Sweedler JV. Bridging neuropeptidomics and genomics with bioinformatics: Prediction of mammalian neuropeptide prohormone processing. J Proteome Res. 2006 May;5(5):1162-7. PubMed PMID: 16674105; PubMed Central PMCID: PMC2548284.
 
52: Jackson AL, Breen SM, Rodriguez-Zas SL, Knox RV. Evaluation of methodology for administration of porcine FSH for use in estrus induction and for increasing  ovulation rate in prepubertal gilts. Theriogenology. 2006 Sep 1;66(4):1042-7. Epub 2006 Apr 18. PubMed PMID: 16620939.
 
51: Southey BR, Rodriguez-Zas SL, Sweedler JV. Prediction of neuropeptide prohormone cleavages with application to RFamides. Peptides. 2006 May;27(5):1087-98. Epub 2006 Feb 21. PubMed PMID: 16494967.
 
50: Sutherland MA, Niekamp SR, Rodriguez-Zas SL, Salak-Johnson JL. Impacts of chronic stress and social status on various physiological and performance measures in pigs of different breeds. J Anim Sci. 2006 Mar;84(3):588-96. PubMed PMID: 16478950.
 
49: Breen SM, Rodriguez-Zas SL, Knox RV. Effect of altering dose of PG600 on reproductive performance responses in prepubertal gilts and weaned sows. Anim Reprod Sci. 2006 Oct;95(3-4):316-23. Epub 2006 Feb 8. PubMed PMID: 16466868.
 
48. Pyatt NA, Berger LL, Faulkner DB, Walker PM, Rodriguez-Zas SL. 2005. Factors affecting carcass value and profitability in early weaned Simmental steers: dressed beef price, choice-select spread, and feed cost. Prof. Anim. Sci. 21:380-389.
 
47: Zou J, Rodriguez-Zas S, Aldea M, Li M, Zhu J, Gonzalez DO, Vodkin LO, DeLucia E, Clough SJ. Expression profiling soybean response to Pseudomonas syringae reveals new defense-related genes and rapid HR-specific downregulation of photosynthesis. Mol Plant Microbe Interact. 2005 Nov;18(11):1161-74. PubMed PMID: 16353551.
 
46: Smith SL, Everts RE, Tian XC, Du F, Sung LY, Rodriguez-Zas SL, Jeong BS, Renard JP, Lewin HA, Yang X. Global gene expression profiles reveal significant nuclear reprogramming by the blastocyst stage after cloning. Proc Natl Acad Sci US A. 2005 Dec 6;102(49):17582-7. Epub 2005 Nov 28. PubMed PMID: 16314565; PubMed  Central PMCID: PMC1308920.
 
45: Pyatt NA, Berger LL, Faulkner DB, Walker PM, Rodriguez-Zas SL. Factors affecting carcass value and profitability in early-weaned Simmental steers: II. Days on feed endpoints and sorting strategies. J Anim Sci. 2005 Dec;83(12):2926-37. PubMed PMID: 16282633.
 
44: Pyatt NA, Berger LL, Faulkner DB, Walker PM, Rodriguez-Zas SL. Factors affecting carcass value and profitability in early-weaned Simmental steers: I. Five-year average pricing. J Anim Sci. 2005 Dec;83(12):2918-25. PubMed PMID: 16282632.
 
43: Stearns TM, Beever JE, Southey BR, Ellis M, McKeith FK, Rodriguez-Zas SL. Evaluation of approaches to detect quantitative trait loci for growth, carcass, and meat quality on swine chromosomes 2, 6, 13, and 18. II. Multivariate and principal component analyses. J Anim Sci. 2005 Nov;83(11):2471-81. PubMed PMID: 16230643.
 
42: Sutherland MA, Rodriguez-Zas SL, Ellis M, Salak-Johnson JL. Breed and age affect baseline immune traits, cortisol, and performance in growing pigs. J Anim Sci. 2005 Sep;83(9):2087-95. PubMed PMID: 16100063.
 
41: Loor JJ, Dann HM, Everts RE, Oliveira R, Green CA, Guretzky NA, Rodriguez-Zas SL, Lewin HA, Drackley JK. Temporal gene expression profiling of liver from periparturient dairy cows reveals complex adaptive mechanisms in hepatic function. Physiol Genomics. 2005 Oct 17;23(2):217-26. Epub 2005 Aug 9. PubMed PMID: 16091418.
 
40: Breen SM, Rodriguez-Zas SL, Knox RV. Effect of PG600 and adjusted mating times on reproductive performance in weaned sows. Anim Reprod Sci. 2006 Jun;93(1-2):157-64. Epub 2005 Jul 27. PubMed PMID: 16054308.
 
39: Stearns TM, Beever JE, Southey BR, Ellis M, McKeith FK, Rodriguez-Zas SL. Evaluation of approaches to detect quantitative trait loci for growth, carcass, and meat quality on swine chromosomes 2, 6, 13, and 18. I. Univariate outbred F2 and sib-pair analyses. J Anim Sci. 2005 Jul;83(7):1481-93. PubMed PMID: 15956455.
 
38: Kim JJ, Rothschild MF, Beever J, Rodriguez-Zas S, Dekkers JC. Joint analysis of two breed cross populations in pigs to improve detection and characterization of quantitative trait loci. J Anim Sci. 2005 Jun;83(6):1229-40. PubMed PMID: 15890800.
 
37: Breen SM, Farris KL, Rodriguez-Zas SL, Knox RV. Effect of age and physical or fence-line boar exposure on estrus and ovulation response in prepubertal gilts administered PG600. J Anim Sci. 2005 Feb;83(2):460-5. PubMed PMID: 15644520.
 
36: Drnevich JM, Reedy MM, Ruedi EA, Rodriguez-Zas S, Hughes KA. Quantitative evolutionary genomics: differential gene expression and male reproductive success in Drosophila melanogaster. Proc Biol Sci. 2004 Nov 7;271(1554):2267-73. PubMed PMID: 15539352; PubMed Central PMCID: PMC1691852.
 
35: Knox RV, Breen SM, Willenburg KL, Roth S, Miller GM, Ruggiero KM, Rodriguez-Zas SL. Effect of housing system and boar exposure on estrus expression in weaned sows. J Anim Sci. 2004 Oct;82(10):3088-93. PubMed PMID: 15484962.
 
34: Southey BR, Rodriguez-Zas SL, Leymaster KA. Competing risks analysis of lamb mortality in a terminal sire composite population. J Anim Sci. 2004 Oct;82(10):2892-9. PubMed PMID: 15484939.
 
33: Raty S, Walters EM, Davis J, Zeringue H, Beebe DJ, Rodriguez-Zas SL, Wheeler MB. Embryonic development in the mouse is enhanced via microchannel culture. Lab Chip. 2004 Jun;4(3):186-90. Epub 2004 Mar 18. PubMed PMID: 15159776.
 
32. Yeater KM., Bollero GA, Bullock DJ, Rayburn AL, Rodriguez-Zas SL. 2004. The use of canonical discriminant analysis for selection of hairy vetch. Crop Sci. 44: 185-189.
 
31: Rodriguez-Zas SL, Southey BR, Knox RV, Connor JF, Lowe JF, Roskamp BJ. Bioeconomic evaluation of sow longevity and profitability. J Anim Sci. 2003 Dec;81(12):2915-22. PubMed PMID: 14677846.
 
30: Ford JA Jr, Kim SW, Rodriguez-Zas SL, Hurley WL. Quantification of mammary gland tissue size and composition changes after weaning in sows. J Anim Sci. 2003 Oct;81(10):2583-9. PubMed PMID: 14552387.
 
29. Miller GM, Breen SM, Roth S, Willenburg KL, Rodriguez-Zas SL, Knox RV. 2003. Characterization of image and labor requirements for positive pregnancy diagnosis in swine using two methods of real-time ultrasound. J. Swine Health Prod. 11:233-239.
 
28: Southey BR, Rodriguez-Zas SL, Leymaster KA. Discrete time survival analysis  of lamb mortality in a terminal sire composite population. J Anim Sci. 2003 Jun;81(6):1399-405. PubMed PMID: 12817486.
 
27: Willenburg KL, Miller GM, Rodriguez-Zas SL, Knox RV. Influence of hormone supplementation to extended semen on artificial insemination, uterine contractions, establishment of a sperm reservoir, and fertility in swine. J Anim Sci. 2003 Apr;81(4):821-9. PubMed PMID: 12723068.
 
26: Chesler EJ, Wilson SG, Lariviere WR, Rodriguez-Zas SL, Mogil JS. Identification and ranking of genetic and laboratory environment factors influencing a behavioral trait, thermal nociception, via computational analysis of a large data archive. Neurosci Biobehav Rev. 2002 Dec;26(8):907-23. Review. PubMed PMID: 12667496.
 
25: Willenburg KL, Miller GM, Rodriguez-Zas SL, Knox RV. Effect of boar exposure at time of insemination on factors influencing fertility in gilts. J Anim Sci. 2003 Jan;81(1):9-15. PubMed PMID: 12597367.
 
24: Wilson SG, Smith SB, Chesler EJ, Melton KA, Haas JJ, Mitton B, Strasburg K, Hubert L, Rodriguez-Zas SL, Mogil JS. The heritability of antinociception: common pharmacogenetic mediation of five neurochemically distinct analgesics. J Pharmacol Exp Ther. 2003 Feb;304(2):547-59. PubMed PMID: 12538806.
 
23. Baker RL, Nagda S, Rodriguez-Zas SL, Southey, Audho BR, Aduda EO, and Thorpe W. 2003. Resistance and resilience to gastro-intestinal nematode parasites and relationships with productivity of Red Maasai, Dorper and Red Maasai x Dorper crossbred lambs in the sub-humid tropics. Anim. Sci. 76:119-136.
 
22: Rodriguez-Zas SL, Southey BR, Heyen DW, Lewin HA. Interval and composite interval mapping of somatic cell score, yield, and components of milk in dairy cattle. J Dairy Sci. 2002 Nov;85(11):3081-91. PubMed PMID: 12487475.
 
21: Rodriguez-Zas SL, Southey BR, Heyen DW, Lewin HA. Detection of quantitative trait loci influencing dairy traits using a model for longitudinal data. J Dairy Sci. 2002 Oct;85(10):2681-91. PubMed PMID: 12416823.
 
20: Chesler EJ, Wilson SG, Lariviere WR, Rodriguez-Zas SL, Mogil JS. Influences of laboratory environment on behavior. Nat Neurosci. 2002 Nov;5(11):1101-2. PubMed PMID: 12403996.
 
19: Boisot PO, Rodriguez-Zas SL, Shanks RD. Repeatability of objective measurements on the rear legs of dairy cows. J Dairy Sci. 2002 Sep;85(9):2344-51. PubMed PMID: 12362467.
 
18: Hickman DL, Beebe DJ, Rodriguez-Zas SL, Wheeler MB. Comparison of static and dynamic medium environments for culturing of pre-implantation mouse embryos. Comp Med. 2002 Apr;52(2):122-6. PubMed PMID: 12022391.
 
17: Knox RV, Miller GM, Willenburg KL, Rodriguez-Zas SL. Effect of frequency of boar exposure and adjusted mating times on measures of reproductive performance in weaned sows. J Anim Sci. 2002 Apr;80(4):892-9. PubMed PMID: 12002326.
 
16: Noble MS, Rodriguez-Zas S, Cook JB, Bleck GT, Hurley WL, Wheeler MB. Lactational performance of first-parity transgenic gilts expressing bovine alpha-lactalbumin in their milk. J Anim Sci. 2002 Apr;80(4):1090-6. PubMed PMID: 12002316.
 
15: Wilson SG, Chesler EJ, Hain H, Rankin AJ, Schwarz JZ, Call SB, Murray MR, West EE, Teuscher C, Rodriguez-Zas S, Belknap JK, Mogil JS. Identification of quantitative trait loci for chemical/inflammatory nociception in mice. Pain. 2002 Apr;96(3):385-91. PubMed PMID: 11973013.
 
14: Frank MT, Park C, Rodriguez-Zas S, Lewin HA. Homogeneity of recombination rate within a conserved region on BTA3 that contains QTL. Anim Genet. 2002 Feb;33(1):56-60. PubMed PMID: 11849138.
 
13: Wertz AE, Berger LL, Walker PM, Faulkner DB, McKeith FK, Rodriguez-Zas SL. Early-weaning and postweaning nutritional management affect feedlot performance, carcass merit, and the relationship of 12th-rib fat, marbling score, and feed efficiency among Angus and Wagyu heifers. J Anim Sci. 2002 Jan;80(1):28-37. PubMed PMID: 11831527.
 
12: Rodriguez-Zas SL, Southey BR. Analysis of nucleotide sequence data using mixed model methodology. Genet Epidemiol. 2001;21 Suppl 1:S638-42. PubMed PMID: 11793753.
 
11: Chesler EJ, Rodriguez-Zas SL, Mogil JS. Letter to Editor. In silico mapping of mouse quantitative trait loci. Science. 2001 Dec 21;294(5551):2423. PubMed PMID: 11752534.
 
10: Southey BR, Rodriguez-Zas SL, Leymaster KA. Survival analysis of lamb mortality in a terminal sire composite population. J Anim Sci. 2001 Sep;79(9):2298-306. PubMed PMID: 11583416.
 
9: Wertz E, Berge LL, Walker PM, Faulkner DB, McKeith FK, Rodriguez-Zas S. Early weaning and postweaning nutritional management affect feedlot performance of angus x simmental heifers and the relationship of 12th rib fat and marbling score to feed efficiency. J Anim Sci. 2001 Jul;79(7):1660-9. PubMed PMID: 11465351.
 
8. Knox RV, Rodriguez Zas SL. 2001. Factors influencing estrus and ovulation in weaned sows as determined by transrectal ultrasound. J. Anim. Sci. 79:2957-2963.
 
7: Helmink SK, Rodriguez-Zas SL, Shanks RD, Leighton EA. Estimated genetic parameters for growth traits of German shepherd dog and Labrador retriever dog guides. J Anim Sci. 2001 Jun;79(6):1450-6. PubMed PMID: 11424681.
 
6: Knox RV, Rodriguez-Zas SL, Miller GM, Willenburg KL, Robb JA. Administration of p.g. 600 to sows at weaning and the time of ovulation as determined by transrectal ultrasound. J Anim Sci. 2001 Apr;79(4):796-802. PubMed PMID: 11325182.
 
5: Knox RV, Tudor KW, Rodriguez-Zas SL, Robb JA. Effect of subcutaneous vs intramuscular administration of P.G. 600 on estrual and ovulatory responses of prepubertal gilts. J Anim Sci. 2000 Jul;78(7):1732-7. PubMed PMID: 10907814.
 
4. Rodriguez-Zas SL, Gianola D, Shook GE. 2000. An approximate Bayesian analysis of somatic cell score curves in Holstein. Acta Agric. Scand., Sect. A., Animal Science 50:291-299.
 
3. Rodriguez-Zas SL, Gianola D, Shook GE. 2000. Evaluation of models for somatic cell score lactation patterns in Holsteins. Livest. Prod. Sci. 67:19-30.
 
2: Rodriguez-Zas SL, Gianola D, Shook GE. Bayesian analysis via Gibbs sampling of susceptibility to intramammary infection in Holstein cattle. J Dairy Sci. 1998 Oct;81(10):2710-22. PubMed PMID: 9812276.
 
1: Rodriguez-Zas SL, Gianola D, Shook GE. Factors affecting susceptibility to intramammary infection and mastitis: an approximate Bayesian analysis. J Dairy Sci. 1997 Jan;80(1):75-85. PubMed PMID: 9120098.