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G
Shah R, Lu Y, Hinkle CC, McGillicuddy FC, Kim R, Hannenhalli S, Cappola TP, Heffron S, Wang XM, Mehta NN et al..  2009.  Gene Profiling of Human Adipose Tissue During Evoked Inflammation In Vivo. DiabetesDiabetesDiabetesDiabetes. 58
Dewey F.E, Perez M.V, Wheeler M.T, Watt C., Spin J., Langfelder P., Horvath S., Hannenhalli S, Cappola T.P, Ashley E.A.  2011.  Gene Coexpression Network Topology of Cardiac Development, Hypertrophy, and FailureClinical Perspective. Circulation: cardiovascular geneticsCirculation: Cardiovascular Genetics. 4
Bazinet AL, Zwickl DJ, Cummings MP.  2014.  A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0. Syst Biol.
Zhang Y, Rath N, Hannenhalli S, Wang Z, Cappola T, Kimura S, Atochina-Vasserman E, Lu MMin, Beers MF, Morrisey EE.  2007.  GATA and Nkx factors synergistically regulate tissue-specific gene expression and development in vivo. DevelopmentDevelopment. 134
F
Choi J, El-Sayed NM.  2012.  Functional genomics of trypanosomatids.. Parasite Immunol. 34(2-3):72-9.
Ross DA, Hannenhalli S, Tobias JW, Cooch N, Shiekhattar R, Kadesch T.  2006.  Functional Analysis of Hes-1 in Preadipocytes. Molecular EndocrinologyMolecular EndocrinologyMolecular EndocrinologyMolecular Endocrinology. 20
Zheng L, Cardaci S, Jerby L, MacKenzie ED, Sciacovelli M, T Johnson I, Gaude E, King A, Leach JDG, Edrada-Ebel RA et al..  2015.  Fumarate induces redox-dependent senescence by modifying glutathione metabolism.. Nat Commun. 6:6001.
Colwell RR.  2002.  Fulfilling the promise of marine biotechnology. Marine biotechnology in the twenty-first century: problems, promise, and productsMarine biotechnology in the twenty-first century: problems, promise, and products.
Colwell RR.  2003.  From terabytes to insights. Communications of the ACMCommunications of the ACM. 46
Colwell RR, Faruque S.M, Nair G.B.  2004.  Free-Living to Freewheeling: The Evolution of Vibrio cholerae from Innocence to Infamy. Infectious Disease and Host-Pathogen EvolutionInfectious Disease and Host-Pathogen Evolution.
Bravo HCorrada, Page D., Ramakrishnan R., Shavlik J., Costa V.S.  2005.  A framework for set-oriented computation in inductive logic programming and its application in generalizing inverse entailment. Inductive Logic ProgrammingInductive Logic Programming.
Consortium HMicrobiome, Treangen T.  2012.  A framework for human microbiome research. Nature. 486:215–221.
Methé B.A, Nelson K.E, Pop M., Creasy H.H, Giglio M.G, Huttenhower C., Gevers D., Petrosino J.F, Abubucker S., Badger J.H et al..  2012.  A framework for human microbiome research. NatureNature. 486
Nagarajan N, Cook C, Di Bonaventura MPia, Ge H, Richards A, Bishop-Lilly KA, DeSalle R, Read TD, Pop M..  2010.  Finishing genomes with limited resources: lessons from an ensemble of microbial genomes. BMC GenomicsBMC Genomics. 11
Cummings MP, Segal M.R.  2004.  Few amino acid positions in ıt rpoB are associated with most of the rifampin resistance in ıt Mycobacterium tuberculosis. BMC BioinformaticsBMC Bioinformatics. 5
E
Takala S.L, Coulibaly D., Thera M.A, Batchelor A.H, Cummings MP, Escalante A.A, Ouattara A., Traoré K., Niangaly A., Djimdé A.A et al..  2009.  Extreme polymorphism in a vaccine antigen and risk of clinical malaria: implications for vaccine development. Sci Transl MedSci Transl Med. 1
Takala S.L, Coulibaly D., Thera M.A, Batchelor A.H, Cummings MP, Escalante A.A, Ouattara A., Traoré K., Niangaly A., Djimdé A.A et al..  2009.  Extreme polymorphism in a vaccine antigen and risk of clinical malaria: implications for vaccine development. Sci Transl MedSci Transl Med. 1
Ye C, Ma Z.S, Cannon C.H, Pop M., Yu D.W.  2012.  Exploiting sparseness in de novo genome assembly. BMC bioinformaticsBMC Bioinformatics. 13
Myers D.S, Bazinet AL, Cummings MP.  2008.  Expanding the reach of Grid computing: combining Globus- and BOINC-based systems. Grids for Bioinformatics and Computational BiologyGrids for Bioinformatics and Computational Biology.
Roe A., Weller S., Baixeras J., Brown J.W, Cummings MP, Davis D.R, Horak M., Kawahara A.Y, Mitter C., Parr C.S et al..  2010.  Evolutionary framework for Lepidoptera model systems. Genetics and Molecular Biology of LepidopteraGenetics and Molecular Biology of Lepidoptera.
Blair D., Campos A., Cummings MP, Laclette J.P.  1996.  Evolutionary biology of parasitic platyhelminths: The role of molecular phylogenetics. Parasitol TodayParasitol Today. 12
Blair D., Campos A., Cummings MP, Laclette J.P.  1996.  Evolutionary biology of parasitic platyhelminths: The role of molecular phylogenetics. Parasitol TodayParasitol Today. 12
Clegg M.T, Cummings MP, Durbin M.L.  1997.  The evolution of plant nuclear genes. Proc Natl Acad Sci USAProc Natl Acad Sci USA. 94
Clegg M.T, Cummings MP, Durbin M.L.  1997.  The evolution of plant nuclear genes. Proc Natl Acad Sci USAProc Natl Acad Sci USA. 94
Bringaud F, Ghedin E, Blandin G, Bartholomeu DC, Caler E, Levin MJ, Baltz T, El‐Sayed NM.  2006.  Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements. Molecular and Biochemical ParasitologyMolecular and Biochemical Parasitology. 145

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