Research Output per year
Research Output 1997 2019
- 1 - 50 out of 193 results
- Publication Year, Title (descending)
2019
Hepatic betaine-homocysteine methyltransferase and methionine synthase activity and intermediates of the methionine cycle are altered by choline supply during negative energy balance in Holstein cows
Coleman, D. N., Vailati-Riboni, M., Elolimy, A. A., Cardoso, F., Rodriguez-Zas, S. L., Miura, M., Pan, Y-X. & Loor, J. J., Sep 1 2019, In : Journal of Dairy Science. 102, 9, p. 8305-8318 14 p.Research output: Contribution to journal › Article
Betaine-Homocysteine S-Methyltransferase
betaine-homocysteine S-methyltransferase
5-Methyltetrahydrofolate-Homocysteine S-Methyltransferase
methionine synthase
choline
Jersey steer ruminal papillae histology and nutrigenomics with diet changes
Novak, T. E., Rodriguez-Zas, S. L., Southey, B. R., Starkey, J. D., Stockler, R. M., Alfaro, G. F. & Moisá, S. J., Jan 1 2019, (Accepted/In press) In : Journal of Animal Physiology and Animal Nutrition.Research output: Contribution to journal › Article
Open Access
Nutrigenomics
nutrigenomics
Jersey
histology
Histology
Long-term N fertilization imbalances potential N acquisition and transformations by soil microbes
Huang, L., Riggins, C. W., Rodriguez-Zas, S. L., Zabaloy, M. C. & Villamil, M. B., Nov 15 2019, In : Science of the Total Environment. 691, p. 562-571 10 p.Research output: Contribution to journal › Article
Open Access
Nitrification
maize
Soils
Genes
Denitrification
Markov chain Monte Carlo simulation of a Bayesian mixture model for gene network inference
Ko, Y., Kim, J. & Rodriguez-Zas, S. L., May 1 2019, In : Genes and Genomics. 41, 5, p. 547-555 9 p.Research output: Contribution to journal › Article
Markov Chains
Gene Regulatory Networks
Markov processes
Genes
Biological Phenomena
Opioid-Induced Hyperalgesia Is Associated with Dysregulation of Circadian Rhythm and Adaptive Immune Pathways in the Mouse Trigeminal Ganglia and Nucleus Accumbens
Zhang, P., Moye, L. S., Southey, B. R., Dripps, I., Sweedler, J. V., Pradhan, A. & Rodriguez-Zas, S. L., Jan 1 2019, In : Molecular Neurobiology.Research output: Contribution to journal › Article
Trigeminal Nuclei
Trigeminal Ganglion
Hyperalgesia
Nucleus Accumbens
Circadian Rhythm
2018
Bioinformatics for prohormone and neuropeptide discovery
Southey, B. R., Romanova, E. V., Rodriguez-Zas, S. L. & Sweedler, J. V., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 71-96 26 p. (Methods in Molecular Biology; vol. 1719).Research output: Chapter in Book/Report/Conference proceeding › Chapter
Computational Biology
Neuropeptides
Peptide Hormones
Post Translational Protein Processing
Proteomics
Brain region-dependent gene networks associated with selective breeding for increased voluntary wheel-running behavior
Zhang, P., Rhodes, J. S., Garland, T., Perez, S. D., Southey, B. R. & Rodriguez-Zas, S. L., Aug 1 2018, In : PLoS One. 13, 8, e0201773.Research output: Contribution to journal › Article
Gene Regulatory Networks
selection methods
wheels
Running
Brain
Disruption of microglia histone acetylation and protein pathways in mice exhibiting inflammation-associated depression-like symptoms
Rodriguez-Zas, S. L., Wu, C., Southey, B. R., O'Connor, J. C., Nixon, S. E., Garcia, R., Zavala, C., Lawson, M., McCusker, R. H., Romanova, E. V., Sweedler, J. V., Kelley, K. W. & Dantzer, R., Nov 1 2018, In : Psychoneuroendocrinology. 97, p. 47-58 12 p.Research output: Contribution to journal › Article
Microglia
Acetylation
Histones
Depression
Inflammation
Gene network dysregulation in the trigeminal ganglia and nucleus accumbens of a model of chronic migraine-associated hyperalgesia
Jeong, H., Moye, L. S., Southey, B. R., Hernandez, A. G., Dripps, I., Romanova, E. V., Rubakhin, S., Sweedler, J. V., Pradhan, A. A. & Rodriguez-Zas, S. L., Dec 18 2018, In : Frontiers in Systems Neuroscience. 12, 63.Research output: Contribution to journal › Article
Trigeminal Nuclei
Trigeminal Ganglion
Gene Regulatory Networks
Hyperalgesia
Nucleus Accumbens
Interplay Between Amphetamine and Activity Level in Gene Networks of the Mouse Striatum
Goncalves, T. M., Southey, B. R. & Rodriguez-Zas, S. L., Dec 1 2018, In : Bioinformatics and Biology Insights. 12Research output: Contribution to journal › Article
Gene Networks
Gene Regulatory Networks
Amphetamine
Mouse
Genes
Striatal transcriptome of a mouse model of ADHD reveals a pattern of synaptic remodeling
Sorokina, A. M., Saul, M., Goncalves, T. M., Gogola, J. V., Majdak, P., Rodriguez-Zas, S. L. & Rhodes, J. S., Aug 1 2018, In : PloS one. 13, 8, e0201553.Research output: Contribution to journal › Article
Corpus Striatum
Attention Deficit Disorder with Hyperactivity
Transcriptome
transcriptome
Genes
2017
Prepartal Energy Intake Alters Blood Polymorphonuclear Leukocyte Transcriptome During the Peripartal Period in Holstein Cows
Agrawal, A., Khan, M. J., Graugnard, D. E., Vailati-Riboni, M., Rodriguez-Zas, S. L., Osorio, J. S. & Loor, J. J., Apr 27 2017, In : Bioinformatics and Biology Insights. 11Research output: Contribution to journal › Article
Leukocytes
Nutrition
Energy Intake
Transcriptome
Blood
Transcriptional changes in mesenteric and subcutaneous adipose tissue from Holstein cows in response to plane of dietary energy
Moisá, S. J., Ji, P., Drackley, J. K., Rodriguez-Zas, S. L. & Loor, J. J., Dec 4 2017, In : Journal of Animal Science and Biotechnology. 8, 1, 85.Research output: Contribution to journal › Article
Subcutaneous Fat
adipose tissue
Adipose Tissue
Holstein
Tissue
2016
Cerebellum transcriptome of mice bred for high voluntary activity offers insights into locomotor control and reward-dependent behaviors
Caetano-Anollés, K., Rhodes, J. S., Garland, T., Perez, S. D., Hernandez, A. G., Southey, B. R. & Rodriguez-Zas, S. L., Nov 1 2016, In : PloS one. 11, 11, e0167095.Research output: Contribution to journal › Article
cerebellum
Reward
Transcriptome
transcriptome
Cerebellum
Characterization of genomic variants associated with scout and recruit behavioral castes in honey bees using whole-genome sequencing
Southey, B. R., Zhu, P., Carr-Markell, M. K., Liang, Z. S., Zayed, A., Li, R., Robinson, G. E. & Rodriguez-Zas, S. L., Jan 1 2016, In : PloS one. 11, 1, e0146430.Research output: Contribution to journal › Article
Honey
Bees
Social Class
honey bees
Genes
Comprehensive identification of sexually dimorphic genes in diverse cattle tissues using RNA-seq
Seo, M., Caetano-Anolles, K., Rodriguez-Zas, S. L., Ka, S., Jeong, J. Y., Park, S., Kim, M. J., Nho, W. G., Cho, S., Kim, H. & Lee, H. J., Jan 27 2016, In : BMC genomics. 17, 1, 81.Research output: Contribution to journal › Article
RNA
Genes
Gene Expression
Sex Characteristics
Biological Phenomena
Contribution of semen trait selection, artificial insemination technique, and semen dose to the profitability of pig production systems: A simulation study
Gonzalez-Pena, D., Knox, R. V. & Rodriguez-Zas, S. L., Jan 15 2016, In : Theriogenology. 85, 2, p. 335-344 10 p.Research output: Contribution to journal › Article
Artificial Insemination
Semen
artificial insemination
profitability
semen
Differential transcriptome networks between IDO1-Knockout and wild-type mice in brain microglia and macrophages
Gonzalez-Pena, D., Nixon, S. E., Southey, B. R., Lawson, M. A., McCusker, R. H., Hernandez, A. G., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Jun 1 2016, In : PloS one. 11, 6, e0157727.Research output: Contribution to journal › Article
Indoleamine-Pyrrole 2,3,-Dioxygenase
Macrophages
neuroglia
Microglia
Transcriptome
Microglia transcriptome changes in a model of depressive behavior after immune challenge
Gonzalez-Pena, D., Nixon, S. E., O'Connor, J. C., Southey, B. R., Lawson, M. A., McCusker, R. H., Borras, T., Machuca, D., Hernandez, A. G., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Mar 1 2016, In : PloS one. 11, 3, e0150858.Research output: Contribution to journal › Article
neuroglia
Microglia
Transcriptome
transcriptome
Genes
Prepartum body condition score and plane of nutrition affect the hepatic transcriptome during the transition period in grazing dairy cows
Vailati-Riboni, M., Meier, S., Burke, C. R., Kay, J. K., Mitchell, M. D., Walker, C. G., Crookenden, M. A., Heiser, A., Rodriguez-Zas, S. L., Roche, J. R. & Loor, J. J., Nov 2 2016, In : BMC genomics. 17, 1, 854.Research output: Contribution to journal › Article
Transcriptome
Liver
Lactation
Amino Acids
Carbohydrates
Transcriptomic profiling of central nervous system regions in three species of honey bee during dance communication behavior
Sarma, M. S., Rodriguez-Zas, S. L., Hong, F., Zhong, S. & Robinson, G. E., Apr 19 2016, Animal Behavior: An Evolutionary Approach. Apple Academic Press, p. 210-230 21 p.Research output: Chapter in Book/Report/Conference proceeding › Chapter
bee dances
Honey
Bees
Neurology
transcriptomics
2015
Acute mammary and liver transcriptome responses after an intramammary escherichia coli lipopolysaccharide challenge in postpartal dairy cows
Minuti, A., Zhou, Z., Graugnard, D. E., Rodriguez-Zas, S. L., Palladino, A. R., Cardoso, F., Trevisi, E. & Loor, J. J., Jan 1 2015, In : Physiological Reports. 3, 4, e12388.Research output: Contribution to journal › Article
Transcriptome
Lipopolysaccharides
Breast
Escherichia coli
Liver
Advancing the understanding of behaviors associated with Bacille Calmette Guérin infection using multivariate analysis
Rodriguez-Zas, S. L., Nixon, S. E., Lawson, M. A., Mccusker, R. H., Southey, B. R., O'Connor, J. C., Dantzer, R. & Kelley, K. W., Feb 1 2015, In : Brain, Behavior, and Immunity. 44, p. 176-186 11 p.Research output: Contribution to journal › Article
Multivariate Analysis
Depression
Infection
Therapeutics
Sucrose
Analytical workflow profiling gene expression in murine macrophages
Nixon, S. E., Gonzalez-Peña, D., Lawson, M. A., McCusker, R. H., Hernandez, A. G., O'Connor, J. C., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Apr 25 2015, In : Journal of Bioinformatics and Computational Biology. 13, 2, 1550010.Research output: Contribution to journal › Article
Workflow
Macrophages
Gene Expression Profiling
Gene expression
RNA
Beef cow prepartum supplement level and age at weaning: II. Effects of developmental programming on performance and carcass composition of steer progeny
Shoup, L. M., Wilson, T. B., González-Peña, D., Ireland, F. A., Rodriguez-Zas, S. L., Felix, T. L. & Shike, D. W., Oct 1 2015, In : Journal of animal science. 93, 10, p. 4936-4947 12 p.Research output: Contribution to journal › Article
beef cows
carcass composition
Weaning
weaning
Insulin
Comprehensive identification of sexual dimorphism-associated differentially expressed genes in two-way factorial designed RNA-seq data on Japanese quail (Coturnix coturnix japonica)
Caetano-Anolles, K., Seo, M., Rodriguez-Zas, S. L., Oh, J. D., Han, J. Y., Lee, K., Park, T. S., Shin, S., Jiao, Z. J., Ghosh, M., Jeong, D. K., Cho, S., Kim, H., Song, K. D. & Lee, H. K., Sep 29 2015, In : PloS one. 10, 9, e0139324.Research output: Contribution to journal › Article
Coturnix
Sex Characteristics
sexual dimorphism
Genes
RNA
Diet and endocrine effects on behavioral maturation-related gene expression in the pars intercerebralis of the honey bee brain
Wheeler, M. M., Ament, S. A., Rodriguez-Zas, S. L., Southey, B. & Robinson, G. E., Dec 1 2015, In : Journal of Experimental Biology. 218, 24, p. 4005-4014 10 p.Research output: Contribution to journal › Article
Honey
Bees
juvenile hormones
honey
bee
Enhanced fertility prediction of cryopreserved boar spermatozoa using novel sperm function assessment
Daigneault, B. W., Mcnamara, K. A., Purdy, P. H., Krisher, R. L., Knox, R. V., Rodriguez-Zas, S. L. & Miller, D. J., May 1 2015, In : Andrology. 3, 3, p. 558-568 11 p.Research output: Contribution to journal › Article
Fertility
Spermatozoa
Artificial Insemination
Acrosome
Herpes Zoster
Genetic gain and economic values of selection strategies including semen traits in three- and four-way crossbreeding systems for swine production
González-Peña, D., Knox, R. V., Macneil, M. D. & Rodriguez-Zas, S. L., Mar 31 2015, In : Journal of animal science. 93, 3, p. 879-891 13 p.Research output: Contribution to journal › Article
Genetic Hybridization
Semen
economic valuation
genetic improvement
semen
Maternal plane of nutrition during late gestation and weaning age alter Angus × Simmental offspring longissimus muscle transcriptome and intramuscular fat
Moisá, S. J., Shike, D. W., Shoup, L., Rodriguez-Zas, S. L. & Loor, J. J., Jul 8 2015, In : PloS one. 10, 7, e0131478.Research output: Contribution to journal › Article
Simmental
intramuscular fat
feeding level
Angus
Nutrition
Prepartum supplement level and age at weaning: I. Effects on pre- and postpartum beef cow performance and calf performance through weaning
Shoup, L. M., Kloth, A. C., Wilson, T. B., González-Peña, D., Ireland, F. A., Rodriguez-Zas, S. L., Felix, T. L. & Shike, D. W., Oct 1 2015, In : Journal of animal science. 93, 10, p. 4926-4935 10 p.Research output: Contribution to journal › Article
beef cows
Weaning
Postpartum Period
weaning
calves
Synergistic and antagonistic interplay between myostatin gene expression and physical activity levels on gene expression patterns in triceps brachii muscles of C57/BL6 mice
Caetano-Anollés, K., Mishra, S. & Rodriguez-Zas, S. L., Feb 24 2015, In : PloS one. 10, 2, e0116828.Research output: Contribution to journal › Article
Myostatin
myostatin
Gene expression
physical activity
Muscle
The effect of calving in the summer on the hepatic transcriptome of Holstein cows during the peripartal period
Shahzad, K., Akbar, H., Vailati-Riboni, M., Basiricò, L., Morera, P., Rodriguez-Zas, S. L., Nardone, A., Bernabucci, U. & Loor, J. J., Aug 1 2015, In : Journal of Dairy Science. 98, 8, p. 5401-5413 13 p.Research output: Contribution to journal › Article
Transcriptome
transcriptome
calving
Holstein
cows
2014
Accurate assignment of significance to neuropeptide identifications using monte carlo K-permuted decoy databases
Akhtar, M. N., Southey, B. R., Andrén, P. E., Sweedler, J. V. & Rodriguez-Zas, S. L., Oct 17 2014, In : PloS one. 9, 10, e111112.Research output: Contribution to journal › Article
neuropeptides
Neuropeptides
Databases
testing
peptides
Advanced statistical analysis of RNA-Seq differential gene expression profiles of animal gene-environment interactions
Caetano-Anollés, K., Nixon, S., Mishra, S. & Rodriguez-Zas, S. L., Jan 1 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 43-47 5 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Gene-Environment Interaction
RNA
Transcriptome
Gene expression
Statistical methods
Comparative brain transcriptomic analyses of scouting across distinct behavioural and ecological contexts in honeybees
Liang, Z. S., Mattila, H. R., Rodriguez-Zas, S. L., Southey, B. R., Seeley, T. D. & Robinson, G. E., Oct 29 2014, In : Proceedings of the Royal Society B: Biological Sciences. 281, 1797, 20141868.Research output: Contribution to journal › Article
honeybee
transcriptomics
honey bees
brain
Brain
Evaluation of significance level assignment of database search programs using monte carlo permutation approach
Akhtar, M. N., Southey, B. R., Andrén, P. E., Sweedler, J. V. & Rodriguez-Zas, S. L., Jan 1 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 103-107 5 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Databases
Peptides
Neuropeptides
Tandem Mass Spectrometry
Mass spectrometry
Identification of best indicators of peptide-spectrum match using a permutation resampling approach
Akhtar, M. N., Southey, B. R., Andrén, P. E., Sweedler, J. V. & Rodriguez-Zas, S. L., Oct 30 2014, In : Journal of Bioinformatics and Computational Biology. 12, 5, 1440001.Research output: Contribution to journal › Article
Peptides
Databases
Software
Impact of bias correction methods and increasing the biological samples in transcriptomic analysis
González-Peña, D., Nixon, S. E., Southey, B. R., Lawson, M. A., McCusker, R. H., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Jan 1 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 115-118 4 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
RNA
Sample Size
Indoleamine-Pyrrole 2,3,-Dioxygenase
RNA Sequence Analysis
Macrophages
Impact of pig insemination technique and semen preparation on profitability
Gonzalez-Peña, D., Knox, R. V., Pettigrew, J. & Rodriguez-Zas, S. L., Jan 1 2014, In : Journal of animal science. 92, 1, p. 72-84 13 p.Research output: Contribution to journal › Article
Insemination
Semen
insemination
profitability
Semen Preservation
Integrative analyses of hepatic differentially expressed genes and blood biomarkers during the peripartal period between dairy cows overfed or restricted-fed energy prepartum
Shahzad, K., Bionaz, M., Trevisi, E., Bertoni, G., Rodriguez-Zas, S. L. & Loor, J. J., Jun 10 2014, In : PloS one. 9, 6, e99757.Research output: Contribution to journal › Article
Dairies
Biomarkers
Liver
biomarkers
Blood
Postpartal subclinical endometritis alters transcriptome profiles in liver and adipose tissue of dairy cows
Akbar, H., Cardoso, F., Meier, S., Burke, C., McDougall, S., Mitchell, M., Walker, C., Rodriguez-Zas, S. L., Everts, R. E., Lewin, H. A., Roche, J. R. & Loor, J. J., Feb 19 2014, In : Bioinformatics and Biology Insights. 8, p. 45-63 19 p.Research output: Contribution to journal › Article
Endometritis
Dairies
Transcriptome
Liver
Adipose Tissue
Ruminal epithelium transcriptome dynamics in response to plane of nutrition and age in young Holstein calves
Naeem, A., Drackley, J. K., Lanier, J. S., Everts, R. E., Rodriguez-Zas, S. L. & Loor, J. J., Jan 1 2014, In : Functional and Integrative Genomics. 14, 1, p. 261-273 13 p.Research output: Contribution to journal › Article
Transcriptome
Epithelium
Proteins
Fats
Basal Metabolism
Transcriptomic analysis by RNA-Seq and gene enrichment analysis
Nixon, S. E., González-Peña, D., Lawson, M. A., McCusker, R. H., O'Connor, J. C., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Jan 1 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 27-31 5 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
RNA
Genes
Gene Expression Profiling
Binomial Distribution
Biological Phenomena
Understanding the impact of fractionation and dynamic exclusion on proteomics
Zavala, C., Nixon, S., Southey, B. R., Wu, C., Romanova, E. V., Sweedler, J. V. & Rodriguez-Zas, S. L., Jan 1 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 93-96 4 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
Fractionation
Proteomics
Proteins
Peptides
Databases
2013
Aging leads to prolonged duration of inflammation-induced depression-like behavior caused by Bacillus Calmette-Guérin
Kelley, K. W., O'Connor, J. C., Lawson, M. A., Dantzer, R., Rodriguez-Zas, S. L. & McCusker, R. H., Jan 1 2013, In : Brain, Behavior, and Immunity. 32, p. 63-69 7 p.Research output: Contribution to journal › Article
Bacillus
Depression
Inflammation
Tryptophan
Infection
An analysis of survey data by size of the breeding herd for the reproductive management practices of North American sow farms
Knox, R. V., Rodriguez-Zas, S. L., Sloter, N. L., McNamara, K. A., Gall, T. J., Levis, D. G., Safranski, T. J. & Singleton, W. L., Jan 1 2013, In : Journal of animal science. 91, 1, p. 433-445 13 p.Research output: Contribution to journal › Article
Practice Management
Breeding
sows
herds
farms
Bioinformatics analysis of transcriptome dynamics during growth in Angus cattle longissimus muscle
Moisá, S. J., Shike, D. W., Graugnard, D. E., Rodriguez-Zas, S. L., Everts, R. E., Lewin, H. A., Faulkner, D. B., Berger, L. L. & Loor, J. J., Jan 1 2013, In : Bioinformatics and Biology Insights. 7, p. 253-270 18 p.Research output: Contribution to journal › Article
Gene Expression Profiling
Bioinformatics
Computational Biology
Muscle
Genes
Bioinformatics and gene network analyses of the swine mammary gland transcriptome during late gestation
Zhao, W., Shahzad, K., Jiang, M., Graugnard, D. E., Rodriguez-Zas, S. L., Luo, J., Loor, J. J. & Hurley, W. L., Jul 19 2013, In : Bioinformatics and Biology Insights. 7, p. 193-216 24 p.Research output: Contribution to journal › Article
Interleukin-4 Receptors
Gene Networks
Gene Regulatory Networks
Human Mammary Glands
Bioinformatics
Bivariate genome-wide association analysis of the growth and intake components of feed efficiency
Serão, N. V. L., González-Peña, D., Beever, J. E., Bollero, G. A., Southey, B. R., Faulkner, D. B. & Rodriguez-Zas, S. L., Jan 1 2013, In : PloS one. 8, 10, p. e78530Research output: Contribution to journal › Article
Genome-Wide Association Study
Polymorphism
single nucleotide polymorphism
Single Nucleotide Polymorphism
feed conversion