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Publications

Free full text links are provided where possible. Contact Dr. Thomas to request PDF versions. See Dr. Thomas's ResearchID profile for current citation rates.
  1. Michael A. Thomas, Gary W. Roemer, C. Josh Donlan, Brett G. Dickson, Marjorie Matocq, and Jason Malaney. 2013. Gene tweaking for conservation. Nature 501:485-486.
  2. Luobin Yang, Steve C. Chiu, Wei-keng Liao & Michael A. Thomas. 2011. High Performance Data Clustering: A Comparison Analysis of Performance for GPU, RASC, MPI, and OpenMP Implementations. Journal of Supercomputing, 2012:3 DOI:10.1007/s11227-013-0906-y.
  3. Sophie St-Hilaire, Victor O Ezike, Henrik Stryhn & Michael A Thomas. 2012. An ecological study on childhood autism. International Journal of Health Geographics 11:44. PMCID: PMC3504530. FULL TEXT
  4. Michael A. Thomas & Rebecca D. Klaper. 2012. Psychoactive Pharmaceuticals Induce Fish Gene Expression Profiles Associated with Human Idiopathic Autism. PLoS One. 7(6): e32917. doi:10.1371/journal.pone.0032917. PMCID: PMC3368908. FULL TEXT
  5. Peter Hallock and Michael A. Thomas. 2012. Integrating the Alzheimer's disease proteome and transcriptome: A comprehensive network model of a complex disease. OMICS. 16(1). PMID: 22321014, PMCID: PMC3275800  [PMC Available on 2013/1/1; contact Hallock for PDF]
  6. Michael A. Thomas, Parag P. Joshi & Rebecca Klaper. 2012. Gene-Class analysis of expression patterns induced by psychoactive pharmaceutical exposure in fathead minnow (Pimephales promelas) indicates induction of neuronal systems. Comparative Biochemistry and Physiology, Part C. 155:109-120. http://dx.doi.org/10.1016/j.cbpc.2011.05.014 PMCID: PMC3219835
  7. Michael A. Thomas, Luobin Yang, Barbara Carter & Rebecca Klaper. 2011. Gene set enrichment analysis of microarray data from Pimephales promelas (Rafinesque), a non-mammalian model organism. BMC Genomics 12:66. FULL TEXT PMCID: PMC3037904
  8. Kelsey J. Metzger, Rebecca Klaper, Michael A. Thomas. 2011. Implications of informatics approaches in ecological research. EcoInformatics, 6: Special Issue pp. 4-12. FULL TEXT
  9. Kelsey Metzger & Michael A. Thomas. 2010. Evidence of positive selection at codon sites localized in extracellular domains of mammalian CC motif chemokine receptor proteins. BMC Evolutionary Biology 10:139. FULL TEXT PMCID: PMC2880985
  10. Luobin Yang, Steve C. Chiu and Michael A. Thomas. 2008. Parallelization of PAUP Bootstrapping.  Proceedings of the 2008 World Congress in Computer Science, Computer Engineering and Applied Computing.
  11. H-Invitational 2 consortium (including Michael A. Thomas). 2008. The H-Invitational Database (H-InvDB), a comprehensive annotation resources of the human genes and transcripts. Nucleic Acids Research 36: D793-D799. FULL TEXT PMCID: PMC2238988
  12. Deborah A Johnson and Michael A. Thomas. 2007. The monosaccharide transporter gene family in Arabidopsis and rice: A history of duplications, adaptive evolution and functional divergence. Molecular Biology and Evolution 24: 2412-2423. FULL TEXT
  13. Scot A. Kelchner and Michael A. Thomas. 2007. Model use in phylogenetics: nine key questions. Trends in Ecology & Evolution 22: 87-94. FULL TEXT
  14. Deborah A Johnson, Jeffrey P Hill and Michael A. Thomas. 2006. The monosaccharide transporter gene family in land plants is ancient and shows differential subfamily expression and expansion across lineages. BMC Evolutionary Biology 6: 64. FULL TEXT PMCID: PMC1578591
  15. Michael A. Thomas, Mitch Day and Luobin Yang. 2005. Computational Options for Bioinformatics Research in Evolutionary Biology. Computational Science - ICCS 3515: 68-75.
  16. Michael A. Thomas & Rebecca D. Klaper. 2004. Genomics for the ecological toolbox. Trends in Ecology & Evolution 19: 439-445. FULL TEXT
  17. Tadashi Imanishi…, …Michael A. Thomas…, …Takashi Gojobori (the H-Inv Consortium, with 153 co-authors). 2004. Integrative Annotation of 23, 149 Human Genes Validated by Full-Length cDNA Clones. PLoS Biology 2: 1-21. FULL TEXT PMCID: PMC393292
  18. Rebecca Klaper and Michael A. Thomas. 2004. At the Crossroads of Genomics and Ecology: The Promise of a Canary on a Chip. BioScience 54: 403-412. 
  19. Michael I. Jensen-Seaman, Terrence S. Furey, Bret A. Payseur, Yontao Lu, Krishna M. Roskin, Chin-Fu Chen, Michael A. Thomas, David Haussler, and Howard J. Jacob. 2004. Comparative Recombination Rates in the Rat, Mouse, and Human Genomes. Genome Research 14: 528-538. FULL TEXT PMCID: PMC383296
  20. Michael A. Thomas, Benjamin Weston, Moltu Joseph, Wenhua Wu, Anton Nekrutenko, and Peter J. Tonellato. 2003. Evolutionary Dynamics of Oncogenes and Tumor Suppressor Genes: Higher Intensities of Purifying Selection than Other Genes. Molecular Biology and Evolution 20: 964-968. FULL TEXT
  21. Michael A. Thomas, Chin-Fu Chen, Michael I. Jensen-Seaman, Peter J. Tonellato, and Simon N. Twigger. 2003. Plylogenetics of rat inbred strains. Mammalian Genome 14:61-64. FULL TEXT
  22. Michael A. Thomas and Moltu Joseph. 2003. Variation in the evolutionary dynamics of human genes. Proceedings of the 2003 Orlando Informatics conference.
  23. James H.Marden and Michael A. Thomas. 2003. Rowing locomotion by an adult stonefly that retains abdominal gills. The Biological Journal of the Linnaean Society 79: 341-349. 
  24. Michael A.Thomas, Kathleen A. Walsh, Melisande R. Wolf, Bruce A. McPheron, and James H. Marden. 2000. Molecular phylogenetic analysis of evolutionary trends in stonefly wing structure and locomotor behavior. Proceedings of the National Academy of Science, PNAS. 97: 13178-13183. FULL TEXT PMCID: PMC27198
  25. James H.Marden, Brigid C. O’Donnell, Michael A. Thomas, and Jesse Y. Bye. 2000. Surface-skimming locomotion in modern stoneflies and mayflies: a taxonomically diverse and finely graded series of mechanical intermediates between swimming and flying. Physiological and Biochemical Zoology 73: 751-764. 
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