Research Areas:
Computational Biology, Genomics, Systems Biology

Publications

Martin K, Zhou W, Bowman MJ, Shih J, Au KS, Dittenhafer-Reed K, Sisson K, Koeman J,  Weisenberger D, Cottingham S, DeRoos S, Devinsky O, Winn ME, Cherniack A,  Shen   H, Northrup H, Krueger D, MacKeigan J. The Genomic Landscape of Tuberous    Sclerosis Complex. Nature Communications, 2017 8:15816

Dues DJ, Schaar CE, Bowman MJ, Johnson BK, Winn ME, Van Raamsdonk J. Uncoupling of Oxidative Stress Resistance and Lifespan in Long-lived isp-1 mitochondrial mutants in Caenorhabditis elegans. Accepted at Free Radical Biology & Medicine.

Hirsch CN, Hirsch CD, Brohammer AB, Bowman MJ, Soifer I, Barade O, Shem-Tove D, Baruche K, Lu F, Hernandez AG, Fields CJ, Wright CL, Koehler K, Springer NM, Buckler E, Buell CR, de Leon N, Kaeppler SM, Childs KL, Mikel MA. Draft Assembly of Elite Inbred Line PH207 Provides Insights into Genomic and Transcriptome Diversity in Maize. Plant Cell, 2016 28: 2700-2714

Featured in Plant Cell “Best of 2016: Top Topics in The Plant Cell”

Harlow ML, Maloney K, Roland J, Navarro M, Easton MK, Kitchen-Goosen SM, Boguslawski E, Madaj ZB, Johnson BK, Bowman MJ, D’Incalci M, Winn ME, Turner L, Hostetter G, Galmarini C M, Aviles P, Grohar PJ.  Lurbinectedin inactivates the Ewing sarcoma oncoprotein EWS-FLI1 by redistributing it within the nucleus. Cancer Research, 2016 76:6657-6668

Iorizzo M, Ellison S, Senalik D, Zeng P, Satapoomin P, Huang J, Bowman MJ, Iovene M,Sanseverino W, Cavagnaro P, Yildiz M, Macko-Podgorni A, Moranska E, Grzebelus E, Grzebelus D, Ashrafi H, Zheng Z, Cheng S, Spooner D, Van Deynze A, Simon P. A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution. Nature Genetics, 2016 48:657-666.

Bowman MJ, Willis DK, and Simon PW. Real-time quantitative PCR analysis identified phytoene synthase 1 and 2 as candidate genes regulating carotenoid biosynthesis in orange carrots.  Journal of the American Society of Horticultural Science, 2014 139:63-68.

Bowman MJ, Park, W, Bauer, P, Udall, J, Page, J, Raney, J, Scheffler, B, Campbell, BT. RNA-seq transcriptome profiling of upland cotton (Gossypium hirsutum) root tissue under water deficit stress. PloS One, 2013, 8(12): e82634.

Bowman MJ and Simon PW. Quantification of the relative abundance of plastome to nuclear genome in leaf and root tissues of carrot (Daucus carota L.) using quantitative PCR. Plant Molecular Biology Reporter, 2013, 1-8. 

Iorizzo M, Senalik D, Cavagnaro P, Grzebelus D, Bowman MJ, Matvienko M, Ashrafi H, Van Deynze A, and Simon PW. De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity. BMC Genomics 2011, 12:389.

Bowman MJ, Pulman JA, Liu TL, Childs KL. A modified GC-Specific MAKER structural genome annotation method reveals improved and novel gene predictions of high and low GC content in Oryza sativa. Biorxiv. https://doi.org/10.1101/115345

Edger PP, Smith RD, McKain MR, Cooley AM, Vallejo-Marin M, Yuan Y, Bewick AJ, Ji L, Platts AE, Bowman MJ, Childs KL, Schmitz RJ, Smith GD, Pires JC, Puzey JR. Subgenome     dominance in an interspecific hybrid, synthetic allopolyploid, and a 140 year old naturally      established neo-allopolyploid monkeyflower. Biorxiv. https://doi.org/10.1101/094797


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