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2013
Nijkamp JF, Pop M., Reinders MJT, de Ridder D.  2013.  Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold. Bioinformatics (Oxford, England)Bioinformatics (Oxford, England). 29
Takala-Harrison S, Clark TG, Jacob CG, Cummings MP, Miotto O, Dondorp AM, Fukuda MM, Nosten F, Noedl H, Imwong M et al..  2013.  Genetic loci associated with delayed clearance of Plasmodium falciparum following artemisinin treatment in Southeast Asia. Proceedings of the National Academy of Sciences of the United States of AmericaProceedings of the National Academy of Sciences of the United States of America. 110
Takala-Harrison S, Clark TG, Jacob CG, Cummings MP, Miotto O, Dondorp AM, Fukuda MM, Nosten F, Noedl H, Imwong M et al..  2013.  Genetic loci associated with delayed clearance of Plasmodium falciparum following artemisinin treatment in Southeast Asia. Proceedings of the National Academy of Sciences of the United States of AmericaProceedings of the National Academy of Sciences of the United States of America. 110
Harrington R, Ondov BD, Radune D, Friss MBeth, Klubnik J, Diviak L, Hnath J, Cendrowski SR, Blank TE, Karaolis D et al..  2013.  Genome sequence of the attenuated Carbosap vaccine strain of Bacillus anthracis. Genome announcements. 1:e00067–12.
Bishop-Lilly KA, Ge H, Butani A, Osborne B, Verratti K, Mokashi V, Nagarajan N, Pop M., Read TD, Richards AL.  2013.  Genome sequencing of four strains of Rickettsia prowazekii, the causative agent of epidemic typhus, including one flying squirrel isolate. Genome announcementsGenome announcements. 1
Bishop-Lilly KA, Ge H, Butani A, Osborne B, Verratti K, Mokashi V, Nagarajan N, Pop M., Read TD, Richards AL.  2013.  Genome sequencing of four strains of Rickettsia prowazekii, the causative agent of epidemic typhus, including one flying squirrel isolate. Genome announcementsGenome announcements. 1
Mahmoudabadi G, Rajagopalan K, Getzenberg RH, Hannenhalli S, Rangarajan G, Kulkarni P.  2013.  Intrinsically disordered proteins and conformational noise: Implications in cancer. Cell CycleCell Cycle. 12
Mahmoudabadi G, Rajagopalan K, Getzenberg RH, Hannenhalli S, Rangarajan G, Kulkarni P.  2013.  Intrinsically disordered proteins and conformational noise: Implications in cancer. Cell CycleCell Cycle. 12
Regier JC, Mitter C, Zwick A, Bazinet AL, Cummings MP, Kawahara AY, Sohn J-C, Zwickl DJ, Cho S, Davis DR et al..  2013.  A large-scale, higher-level, molecular phylogenetic study of the insect order Lepidoptera (moths and butterflies). PLoS OnePLoS One. 8
Sohn J.C, Regier J.C, Mitter C., Davis D., Landry J.F, Zwick A., Cummings MP.  2013.  A molecular phylogeny for Yponomeutoidea (Insecta, Lepidoptera, Ditrysia) and its implications for classification, biogeography and\ the evolution of host plant use. PLoS One.
Lindsay B, Ochieng JB, Ikumapayi UN, Toure A, Ahmed D, Li S, Panchalingam S, Levine MM, Kotloff K, Rasko DA.  2013.  Quantitative PCR for Detection of Shigella Improves Ascertainment of Shigella Burden in Children with Moderate-to-Severe Diarrhea in Low-Income Countries. Journal of Clinical MicrobiologyJournal of Clinical Microbiology. 51
Haft DH, Selengut J., Richter RA, Harkins D, Basu MK, Beck E.  2013.  TIGRFAMs and Genome Properties in 2013. Nucleic acids researchNucleic Acids Research. 41
Haft DH, Selengut JD, Richter RA, Harkins D, Basu MK, Beck E.  2013.  TIGRFAMs and Genome Properties in 2013.. Nucleic Acids Res. 41(Database issue):D387-95.
2012
Ayres DL, Darling A, Zwickl DJ, Beerli P, Holder MT, Lewis PO, Huelsenbeck JP, Ronquist F, Swofford DL, Cummings MP et al..  2012.  BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics. Systematic BiologySyst BiolSystematic BiologySyst Biol. 61
Ayres DL, Darling A, Zwickl DJ, Beerli P, Holder MT, Lewis PO, Huelsenbeck JP, Ronquist F, Swofford DL, Cummings MP et al..  2012.  BEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics. Systematic BiologySyst BiolSystematic BiologySyst Biol. 61
Nelson KS, Khan Z, r Iá, ly ózsefá, Kaschube M, Beitel GJ.  2012.  Drosophila Src regulates anisotropic apical surface growth to control epithelial tube size. Nature Cell Biology. 14(5):518-525.
Salzberg S.L, Phillippy A.M, Zimin A., Puiu D., Magoc T., Koren S., Treangen T, Schatz M.C, Delcher A.L, Roberts M. et al..  2012.  GAGE: A critical evaluation of genome assemblies and assembly algorithms. Genome researchGenome Research. 22
Dupont CL, Rusch DB, Yooseph S, Lombardo M-J, R Richter A, Valas R, Novotny M, Yee-Greenbaum J, Selengut JD, Haft DH et al..  2012.  Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage.. ISME J. 6(6):1186-99.
Dupont CL, Rusch DB, Yooseph S, Lombardo M-J, R Richter A, Valas R, Novotny M, Yee-Greenbaum J, Selengut JD, Haft DH et al..  2012.  Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage.. ISME J. 6(6):1186-99.
Dupont CL, Rusch DB, Yooseph S, Lombardo M-J, R. Richter A, Valas R, Novotny M, Yee-Greenbaum J, Selengut J., Haft DH et al..  2012.  Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage. The ISME journalThe ISME journal. 6
Dupont CL, Rusch DB, Yooseph S, Lombardo M-J, R. Richter A, Valas R, Novotny M, Yee-Greenbaum J, Selengut J., Haft DH et al..  2012.  Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage. The ISME journalThe ISME journal. 6
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
Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S et al..  2012.  InterPro in 2011: new developments in the family and domain prediction database. Nucleic acids researchNucleic Acids Research. 40
Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S et al..  2012.  InterPro in 2011: new developments in the family and domain prediction database.. Nucleic Acids Res. 40(Database issue):D306-12.
Regier JC, Brown JW, Mitter C, Baixeras J, Cho S, Cummings MP, Zwick A.  2012.  A molecular phylogeny for the leaf-roller moths (Lepidoptera: Tortricidae) and its implications for classification and life history evolution.. PloS one. 7:e35574.

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