Michael Cummings is a professor of biology.
He was the first faculty member hired into the Center for Bioinformatics and Computational Biology, where he leads the Laboratory of Molecular Evolution.
He has published extensively in molecular evolution, phylogenetics, computational biology and bioinformatics (including genotype-phenotype relationships using machine learning), computer science (particularly in the area of grid computing), and bioinformatics education. He has lectured extensively throughout the U.S. and internationally, including Australia, Brazil, Canada, Czech Republic, England, Germany, Korea, México, Portugal, Spain, Sweden, Switzerland and Wales. Because of his varied expertise, he has served the scientific community through participation in numerous national and international committees, panels, symposia, workshops and advisory boards.
From 2000 through 2011, he directed or co-directed the Workshop on Molecular Evolution, with 17 instances held in Atlanta (at the Centers for Disease Control and Prevention), Fort Collins, Washington, D.C. (at the National Museum of Natural History, Smithsonian Institution), Woods Hole, and Český Krumlov in the Czech Republic. From 2009 through 2011, he co-directed the Workshop on Comparative Genomics with three instances held in Fort Collins, Washington, D.C., and Český Krumlov. These advanced workshops have trained more than 1200 faculty/principal investigators, postdoctoral scholars and graduate students from more than 70 countries.
He received his doctorate in organismic and evolutionary biology from Harvard University in 1992, and completed postdoctoral research at the University of California, Berkeley, as an Alfred P. Sloan Foundation Postdoctoral Fellow in Molecular Studies of Evolution, and at the University of California, Riverside. He was a scientist at the Marine Biological Laboratory and has held a guest professorship at the University of Konstanz.
2012. BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics. Systematic BiologySyst Biol. 61(1):170-173.
2011. Can Deliberately Incomplete Gene Sample Augmentation Improve a Phylogeny Estimate for the Advanced Moths and Butterflies (Hexapoda: Lepidoptera)? Systematic BiologySyst Biol. 60(6):782-796.
2011. Computing the Tree of Life: Leveraging the Power of Desktop and Service Grids. Parallel and Distributed Processing Workshops and Phd Forum (IPDPSW), 2011 IEEE International Symposium on. :1896-1902.
2011. Increased gene sampling yields robust support for higher‐level clades within Bombycoidea (Lepidoptera). Systematic Entomology. 36(1):31-43.
2010. Broader incorporation of bioinformatics in education: opportunities and challenges. Brief Bioinform. 11(537-543)
2010. Evolutionary framework for Lepidoptera model systems. Genetics and Molecular Biology of LepidopteraGenetics and Molecular Biology of Lepidoptera. :1-24.
2009. Extreme polymorphism in a vaccine antigen and risk of clinical malaria: implications for vaccine development. Sci Transl Med. 1(2):2ra5-2ra5.
2009. Toward reconstructing the evolution of advanced moths and butterflies (Lepidoptera: Ditrysia): an initial molecular study. BMC Evol Biol. 9:280-280.
2008. Resolving arthropod phylogeny: exploring phylogenetic signal within 41 kb of protein-coding nuclear gene sequence. Syst Biol. 57(6):920-938.
2008. A GENEALOGICAL APPROACH TO QUANTIFYING LINEAGE DIVERGENCE. Evolution. 62(9):2411-2422.
2008. A molecular footprint of limb loss: sequence variation of the autopodial identity gene Hoxa-13. J Mol Evol. 67(6):581-593.
2008. The Lattice Project: a Grid research and production environment combining multiple Grid computing models. Distributed & Grid Computing — Science Made Transparent for Everyone. Principles, Applications and Supporting CommunitiesDistributed & Grid Computing — Science Made Transparent for Everyone. Principles, Applications and Supporting Communities. :2-13.
2008. Expanding the reach of Grid computing: combining Globus- and BOINC-based systems. Grids for Bioinformatics and Computational BiologyGrids for Bioinformatics and Computational Biology. :71-85.
2007. Biased data reduce efficiency and effectiveness of conservation reserve networks. Ecology Letters. 10(5):364-374.
2007. Bio-STEER: A Semantic Web workflow tool for Grid computing in the life sciences. Future Generation Comp Syst. 23(3):497-509.
2007. Grid Services Base Library: A high-level, procedural application programming interface for writing Globus-based Grid services. Future Generation Comp Syst. 23(3):517-522.
2005. Grid computing. EDUCAUSE Review. 40:116-117.
2005. Data sharing in ecology and evolution. Trends in Ecology & Evolution. 20(7):362-363.
2005. Magic bullets and golden rules: data sampling in molecular phylogenetics. Zoology (Jena). 108(4):329-336.
2004. Few amino acid positions in ıt rpoB are associated with most of the rifampin resistance in ıt Mycobacterium tuberculosis. BMC Bioinformatics. 5:137-137.
2004. A book like its cover. Heredity. 93(2):234-235.
2004. Simple statistical models predict C-to-U edited sites in plant mitochondrial RNA. BMC Bioinformatics. 5:132-132.
2004. Divergent Gene Copies in the Asexual Class Bdelloidea (Rotifera) Separated Before the Bdelloid Radiation or Within Bdelloid Families. Proceedings of the National Academy of Sciences of the United States of AmericaPNAS. 101(6):1622-1625.
2004. Abstracting workflows: unifying bioinformatics task conceptualization and specification through Semantic Web services. W3C Workshop on Semantic Web for Life Sciences.
2003. Genetic consequences of ecological reserve design guidelines: An empirical investigation. Conserv Genet. 4(4):427-439.
2003. Comparing bootstrap and posterior probability values in the four-taxon case. Syst Biol. 52(4):477-487.
2003. Necessity is the mother of invention: a simple grid computing system using commodity tools. J Parallel Distr Com. 63(5):578-589.
2003. Effectiveness of conservation targets in capturing genetic diversity. Conserv Biol. 17(1):219-229.
2003. Phylogenetic analysis reveals five independent transfers of the chloroplast gene ıt rbcL to the mitochondrial genome in angiosperms. Curr Genet. 43(2):131-138.
2002. Phylogenetic analysis based on 18S ribosomal RNA gene sequences supports the existence of class Polyacanthocephala (Acanthocephala). Mol Phylogenet Evol. 23(2):288-292.
2001. Relating amino acid sequence to phenotype: analysis of peptide-binding data. Biometrics. 57(2):632-642.
2000. A Case for Evolutionary Genomics and the Comprehensive Examination of Sequence Biodiversity. Molecular Biology and EvolutionMol Biol Evol. 17(12):1776-1788.
2000. Phylogenetic relationships of Acanthocephala based on analysis of 18S ribosomal RNA gene sequences. J Mol Evol. 50(6):532-540.
1999. Genes and other samples of DNA sequence data for phylogenetic inference. The Biological Bulletin. 196(3):345-350.
1998. Phylogenetic relationships of platyhelminthes based on 18S ribosomal gene sequences. Mol Phylogenet Evol. 10(1):1-10.
1998. Trends in the early careers of life scientists - Preface and executive summary. Mol Biol Cell. 9(11):3007-3015.
1998. Pigment composition of putatively achlorophyllous angiosperms. Plant Syst Evol. 210(1-2):105-111.
1998. Nucleotide sequence diversity at the alcohol dehydrogenase 1 locus in wild barley (ıt Hordeum vulgare ssp. ıt spontaneum): an evaluation of the background selection hypothesis. Proc Natl Acad Sci USA. 95(10):5637-5642.
1997. Satellite DNA repeat sequence variation is low in three species of burying beetles in the genus ıt Nicrophorus (Coleoptera: Silphidae). Mol Biol Evol. 14(11):1088-1095.
1997. The evolution of plant nuclear genes. Proc Natl Acad Sci USA. 94(15):7791-7798.
1996. Inferring phylogenies from DNA sequence data: The effects of sampling. New Uses for New PhylogeniesNew Uses for New Phylogenies. :103-115.
1996. DNA sequence variation in the ribosomal internal transcribed spacer region of freshwater ıt Cladophora species (Chlorophyta). J Phycol. 32(6):1035-1042.
1996. Evolutionary biology of parasitic platyhelminths: The role of molecular phylogenetics. Parasitol Today. 12(2):66-71.
1995. Sampling properties of DNA sequence data in phylogenetic analysis. Mol Biol Evol. 12(5):814-822.
1994. Slipped-strand mispairing in a plastid gene: ıt rpoC2 in grasses (Poaceae). Mol Biol Evol. 11(1):1-8.
1994. Transmission patterns of eukaryotic transposable elements - arguments for and against horizontal transfer. Trends Ecol Evol. 9(4):141-145.
1992. copia-like retrotransposons are ubiquitous among plants. Proc Natl Acad Sci USA. 89(15):7124-7128.
1992. Copia-like retrotransposons in plants: a brief introduction. The Plant Genetics Newsletter. 8(4):38-41.
1991. Review of Fundamentals of Molecular Evolution, by Li. W.-H. and D. Graur. Cladistics. 7:310-312.
1991. A superfamily of ıt Arabidopsis thaliana retrotransposons. Genetics. 127(4):801-809.
1990. Evolution of avocados as revealed by DNA restriction fragment variation. J Hered. 81(3):183-188.
1990. The structure, distribution and evolution of the ıt Ta1 retrotransposable element family of ıt Arabidopsis thaliana. Genetics. 126(3):713-721.