Michael A. Gilchrist, Ph. D - Publications

Affiliations: 
Ecology and Evolutionary Biology The University of Tennessee, Knoxville, TN, United States 

21 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2018 Beaulieu JM, O'Meara BC, Zaretzki R, Landerer C, Chai J, Gilchrist MA. Population Genetics Based Phylogenetics Under Stabilizing Selection for an Optimal Amino Acid Sequence: A Nested Modeling Approach. Molecular Biology and Evolution. PMID 30521036 DOI: 10.1093/Molbev/Msy222  0.388
2015 Kubatko L, Shah P, Herbei R, Gilchrist MA. A codon model of nucleotide substitution with selection on synonymous codon usage. Molecular Phylogenetics and Evolution. PMID 26358614 DOI: 10.1016/J.Ympev.2015.08.026  0.541
2015 Gilchrist MA, Chen WC, Shah P, Landerer CL, Zaretzki R. Estimating Gene Expression and Codon-Specific Translational Efficiencies, Mutation Biases, and Selection Coefficients from Genomic Data Alone. Genome Biology and Evolution. 7: 1559-79. PMID 25977456 DOI: 10.1093/Gbe/Evv087  0.542
2013 Sullivan AM, Zhao X, Suzuki Y, Ochiai E, Crutcher S, Gilchrist MA. Evidence for finely-regulated asynchronous growth of Toxoplasma gondii cysts based on data-driven model selection. Plos Computational Biology. 9: e1003283. PMID 24244117 DOI: 10.1371/Journal.Pcbi.1003283  0.307
2011 Shah P, Gilchrist MA. Explaining complex codon usage patterns with selection for translational efficiency, mutation bias, and genetic drift. Proceedings of the National Academy of Sciences of the United States of America. 108: 10231-6. PMID 21646514 DOI: 10.1073/Pnas.1016719108  0.553
2010 Shah P, Gilchrist MA. Effect of correlated tRNA abundances on translation errors and evolution of codon usage bias. Plos Genetics. 6: e1001128. PMID 20862306 DOI: 10.1371/Journal.Pgen.1001128  0.524
2010 Shah P, Gilchrist MA. Is thermosensing property of RNA thermometers unique? Plos One. 5: e11308. PMID 20625392 DOI: 10.1371/Journal.Pone.0011308  0.46
2010 Roy B, Vaughn JN, Kim BH, Zhou F, Gilchrist MA, Von Arnim AG. The h subunit of eIF3 promotes reinitiation competence during translation of mRNAs harboring upstream open reading frames. Rna (New York, N.Y.). 16: 748-61. PMID 20179149 DOI: 10.1261/Rna.2056010  0.361
2010 Zaretzki RL, Gilchrist MA, Briggs WM, Armagan A. Bias correction and Bayesian analysis of aggregate counts in SAGE libraries. Bmc Bioinformatics. 11: 72. PMID 20128916 DOI: 10.1186/1471-2105-11-72  0.335
2009 Gilchrist MA, Shah P, Zaretzki R. Measuring and detecting molecular adaptation in codon usage against nonsense errors during protein translation. Genetics. 183: 1493-505. PMID 19822731 DOI: 10.1534/Genetics.109.108209  0.524
2007 Gilchrist MA, Qin H, Zaretzki R. Modeling SAGE tag formation and its effects on data interpretation within a Bayesian framework. Bmc Bioinformatics. 8: 403. PMID 17945026 DOI: 10.1186/1471-2105-8-403  0.351
2007 Coombs D, Gilchrist MA, Ball CL. Evaluating the importance of within- and between-host selection pressures on the evolution of chronic pathogens. Theoretical Population Biology. 72: 576-91. PMID 17900643 DOI: 10.1016/J.Tpb.2007.08.005  0.335
2007 Ball CL, Gilchrist MA, Coombs D. Modeling within-host evolution of HIV: mutation, competition and strain replacement. Bulletin of Mathematical Biology. 69: 2361-85. PMID 17554585 DOI: 10.1007/S11538-007-9223-Z  0.323
2006 Gilchrist MA, Sulsky DL, Pringle A. Identifying fitness and optimal life-history strategies for an asexual filamentous fungus. Evolution; International Journal of Organic Evolution. 60: 970-9. PMID 16817537 DOI: 10.1111/J.0014-3820.2006.Tb01175.X  0.534
2006 Gilchrist MA, Coombs D. Evolution of virulence: interdependence, constraints, and selection using nested models. Theoretical Population Biology. 69: 145-53. PMID 16198387 DOI: 10.1016/J.Tpb.2005.07.002  0.353
2006 Gilchrist MA, Wagner A. A model of protein translation including codon bias, nonsense errors, and ribosome recycling. Journal of Theoretical Biology. 239: 417-34. PMID 16171830 DOI: 10.1016/J.Jtbi.2005.08.007  0.398
2004 Nelson PW, Gilchrist MA, Coombs D, Hyman JM, Perelson AS. An age-structured model of hiv infection that allows for variations in the production rate of viral particles and the death rate of productively infected cells. Mathematical Biosciences and Engineering : Mbe. 1: 267-88. PMID 20369971 DOI: 10.3934/Mbe.2004.1.267  0.306
2004 Gilchrist MA, Coombs D, Perelson AS. Optimizing within-host viral fitness: infected cell lifespan and virion production rate. Journal of Theoretical Biology. 229: 281-8. PMID 15207481 DOI: 10.1016/J.Jtbi.2004.04.015  0.353
2004 Gilchrist MA, Salter LA, Wagner A. A statistical framework for combining and interpreting proteomic datasets. Bioinformatics (Oxford, England). 20: 689-700. PMID 15033876 DOI: 10.1093/Bioinformatics/Btg469  0.318
2003 Hickerson MJ, Gilchrist MA, Takebayashi N. Calibrating a molecular clock from phylogeographic data: moments and likelihood estimators. Evolution; International Journal of Organic Evolution. 57: 2216-25. PMID 14628910 DOI: 10.1111/J.0014-3820.2003.Tb00234.X  0.319
2003 Coombs D, Gilchrist MA, Percus J, Perelson AS. Optimal viral production. Bulletin of Mathematical Biology. 65: 1003-23. PMID 14607286 DOI: 10.1016/S0092-8240(03)00056-9  0.314
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