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DanČÍK V., Hannenhalli S, Muthukrishnan S..  1997.  Hardness of flip-cut problems from optical mapping. Journal of Computational BiologyJournal of Computational Biology. 4
Darling AE, Treangen T, Messeguer X, Perna NT.  2007.  Analyzing patterns of microbial evolution using the mauve genome alignment system. Comparative Genomics. :135–152.
Darling AE, Treangen T, Zhang L, Kuiken C, Messeguer X, Perna NT.  2006.  Procrastination leads to efficient filtration for local multiple alignment. International Workshop on Algorithms in Bioinformatics.
Darling AE, Treangen T, Zhang L, Kuiken C, Messeguer X, Perna NT.  2006.  Procrastination Leads to Efficient Filtration for Local Multiple Alignment. 4175:126-137.
Darnell DK, Zhang LS, Hannenhalli S, Yaklichkin SY.  2014.  Developmental expression of chicken FOXN1 and putative target genes during feather development.. Int J Dev Biol. 58(1):57-64.
Das A, Morley M, Moravec CS, Tang W.HW, Hakonarson H, Ashley EA, Brandimarto J, Hu R, Li M, Li H et al..  2015.  Bayesian integration of genetics and epigenetics detects causal regulatory SNPs underlying expression variability. Nature Communications. 6:8555.
Davison M, Treangen T, Koren S, Pop M, Bhaya D.  2016.  Diversity in a Polymicrobial Community Revealed by Analysis of Viromes, Endolysins and CRISPR Spacers.. PLoS One. 11(9):e0160574.
De Magny GConstantin, Mozumder PK, Grim CJ, Hasan NA, M. Naser N, Alam M, R. Sack B, Huq A, Colwell RR.  2011.  Role of Zooplankton Diversity in Vibrio Cholerae Population Dynamics and in the Incidence of Cholera in the Bangladesh Sundarbans. Applied and Environmental MicrobiologyAppl. Environ. Microbiol.Applied and Environmental MicrobiologyAppl. Environ. Microbiol.. 77
G. de Magny C, Murtugudde R., Sapiano M.RP, Nizam A., Brown C.W, Busalacchi A.J, Yunus M., Nair G.B, Gil A.I, Lanata C.F et al..  2008.  Environmental signatures associated with cholera epidemics. Proceedings of the National Academy of SciencesProceedings of the National Academy of Sciences. 105
G. de Magny C, Long W., Brown C.W, Hood R.R, Huq A., Murtugudde R., Colwell RR.  2009.  Predicting the distribution of Vibrio spp. in the Chesapeake Bay: a Vibrio cholerae case study. EcoHealthEcoHealth. 6
De Magny GConstantin, Mozumder PK, Grim CJ, Hasan NA, M. Naser N, Alam M, Sack B, Huq A, Colwell RR.  2011.  Population Dynamics of Vibrio Cholerae and Cholera in the Bangladesh Sundarbans: Role of Zooplankton Diversity. Applied and Environmental MicrobiologyAppl. Environ. Microbiol.Applied and Environmental MicrobiologyAppl. Environ. Microbiol..
Dehal P, Satou Y, Campbell RK, Chapman J, Degnan B, De Tomaso A, Davidson B, Di Gregorio A, Gelpke M, Goodstein DM et al..  2002.  The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins.. Science. 298(5601):2157-67.
Del Canto F., Botkin D.J, Valenzuela P., Popov V., Ruiz-Perez F., Nataro J.P, Levine M.M, Stine O.C, Pop M., Torres A.G et al..  2012.  Identification of Coli Surface Antigen 23, a Novel Adhesin of Enterotoxigenic Escherichia coli. Infection and immunityInfection and immunity. 80
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
Di Bonaventura MPia, DeSalle R, Pop M., Nagarajan N, Figurski DH, Fine DH, Kaplan JB, Planet PJ.  2009.  Complete Genome Sequence of Aggregatibacter (Haemophilus) Aphrophilus NJ8700. Journal of BacteriologyJ. Bacteriol.Journal of BacteriologyJ. Bacteriol.. 191
Diehl S, Diehl F, El-Sayed NM, Clayton C, Hoheisel JD.  2002.  Analysis of stage-specific gene expression in the bloodstream and the procyclic form of Trypanosoma brucei using a genomic DNA-microarray.. Mol Biochem Parasitol. 123(2):115-23.
Diehl S, Diehl F, El‐Sayed NM, Clayton C, Hoheisel JD.  2002.  Analysis of stage-specific gene expression in the bloodstream and the procyclic form of Trypanosoma brucei using a genomic DNA-microarray. Molecular and Biochemical ParasitologyMolecular and Biochemical Parasitology. 123
Dillon LAL, Okrah K, V Hughitt K, Suresh R, Li Y, Fernandes MCecilia, A Belew T, Bravo HCorrada, Mosser DM, El-Sayed NM.  2015.  Transcriptomic profiling of gene expression and RNA processing during Leishmania major differentiation.. Nucleic Acids Res. 43(14):6799-813.
Dillon LAL, Suresh R, Okrah K, Bravo HCorrada, Mosser DM, El-Sayed NM.  2015.  Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions.. BMC Genomics. 16(1):1108.
Dinalankara W, Bravo HCorrada.  2015.  Gene Expression Signatures Based on Variability can Robustly Predict Tumor Progression and Prognosis.. Cancer Inform. 14:71-81.
Dingermann T, Sharp S, Appel B, DeFranco D, Mount S, Heiermann R, Pongs O, Söll D.  1981.  Transcription of cloned tRNA and 5S RNA genes in a Drosophila cell free extract.. Nucleic Acids Res. 9(16):3907-18.
Djikeng A., Raverdy S., Foster JS, Bartholomeu D., Zhang Y., El‐Sayed NM, Carlow C..  2007.  Cofactor-independent phosphoglycerate mutase is an essential gene in procyclic form Trypanosoma brucei. Parasitology researchParasitology research. 100
Dogan RIslamaj, Getoor L, W Wilbur J, Mount SM.  2007.  Features generated for computational splice-site prediction correspond to functional elements.. BMC Bioinformatics. 8:410.
Dogan R.I, Getoor L, Wilbur W.J, Mount SM.  2007.  SplicePort--An interactive splice-site analysis tool. Nucleic Acids ResearchNucleic Acids Research. 35
Dogan RIslamaj, Getoor L, W Wilbur J, Mount SM.  2007.  SplicePort--an interactive splice-site analysis tool.. Nucleic Acids Res. 35(Web Server issue):W285-91.

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