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2016
tyläinen Tö, Jerby L, jä EM ä, Mattila I, ntti Sä, Auvinen P, Gastaldelli A, rvinen Hä, Ruppin E, ič Mš.  2016.  Genome-scale study reveals reduced metabolic adaptability in patients with non-alcoholic fatty liver disease. Nature Communications. 7:8994.
Goodheart J, Ellingson RA, Vital XG, Filho HC ão, McCarthy JB, Medrano SM, Bhave VJ, a-Méndez Kí, nez LM é, pez Gó et al..  2016.  Identification guide to the heterobranch sea slugs (Mollusca: Gastropoda) from Bocas del Toro, Panama. Marine Biodiversity Records. 96737453830254034557880541418411912544728739317415779780725696418782226404216145163412560451520488424050829677(12343–4)
Morris A, Paulson JN, Talukder H, Tipton L, Kling H, Cui L, Fitch A, Pop M, Norris KA, Ghedin E.  2016.  Longitudinal analysis of the lung microbiota of cynomolgous macaques during long-term SHIV infection. Microbiome. 4320384718719152130282021211818418719223326578105723(158836212108125732558101131110121arXiv:1006.3316)
Nguyen N-phuong, Warnow T, Pop M, White B.  2016.  A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity. npj Biofilms and Microbiomes. 2:16004.
Li Y, Shah-Simpson S, Okrah K, A Belew T, Choi J, Caradonna KL, Padmanabhan P, Ndegwa DM, M Temanni R, Bravo HCorrada et al..  2016.  Transcriptome Remodeling in Trypanosoma cruzi and Human Cells during Intracellular Infection.. PLoS Pathog. 12(4):e1005511.
2015
Rabinovich S, Adler L, Yizhak K, Sarver A, Silberman A, Agron S, Stettner N, Sun Q, Brandis A, Helbling D et al..  2015.  Diversion of aspartate in ASS1-deficient tumours fosters de novo pyrimidine synthesis. Nature. 527(7578):379-383.
Uziel O, Yosef N, Sharan R, Ruppin E, Kupiec M, Kushnir M, Beery E, Cohen-Diker T, Nordenberg J, Lahav M.  2015.  The effects of telomere shortening on cancer cells: a network model of proteomic and microRNA analysis.. Genomics. 105(1):5-16.
Tardito S, Oudin ïs, Ahmed SU, Fack F, Keunen O, Zheng L, Miletic H, Sakariassen Ø, Weinstock A, Wagner A et al..  2015.  Glutamine synthetase activity fuels nucleotide biosynthesis and supports growth of glutamine-restricted glioblastoma. Nature Cell Biology. 17(12):1556-1568.
Takala-Harrison S., Jacob C.G, Arze C., Cummings MP, Silva J.C, Dondorp A.M, Fukuda M.M, Hien T.T, Mayxay M., Noedl H. et al..  2015.  Independent Emergence of Artemisinin Resistance Mutations Among Plasmodium falciparum in Southeast Asia. Journal of Infectious Diseases. 211:670-679.
Takala-Harrison S., Jacob C.G, Arze C., Cummings MP, Silva J.C, Dondorp A.M, Fukuda M.M, Hien T.T, Mayxay M., Noedl H. et al..  2015.  Independent Emergence of Artemisinin Resistance Mutations Among Plasmodium falciparum in Southeast Asia. Journal of Infectious Diseases. 211:670-679.
Takala-Harrison S., Jacob C.G, Arze C., Cummings MP, Silva J.C, Dondorp A.M, Fukuda M.M, Hien T.T, Mayxay M., Noedl H. et al..  2015.  Independent Emergence of Artemisinin Resistance Mutations Among Plasmodium falciparum in Southeast Asia. Journal of Infectious Diseases. 211:670-679.
Takala-Harrison S., Jacob C.G, Arze C., Cummings MP, Silva J.C, Dondorp A.M, Fukuda M.M, Hien T.T, Mayxay M., Noedl H. et al..  2015.  Independent Emergence of Artemisinin Resistance Mutations Among Plasmodium falciparum in Southeast Asia. Journal of Infectious Diseases. 211:670-679.
Takala-Harrison S., Jacob C.G, Arze C., Cummings MP, Silva J.C, Dondorp A.M, Fukuda M.M, Hien T.T, Mayxay M., Noedl H. et al..  2015.  Independent Emergence of Artemisinin Resistance Mutations Among Plasmodium falciparum in Southeast Asia. Journal of Infectious Diseases. 211:670-679.
Takala-Harrison S., Jacob C.G, Arze C., Cummings MP, Silva J.C, Dondorp A.M, Fukuda M.M, Hien T.T, Mayxay M., Noedl H. et al..  2015.  Independent Emergence of Artemisinin Resistance Mutations Among Plasmodium falciparum in Southeast Asia. Journal of Infectious Diseases. 211:670-679.
Lindsay B., Oundo J., Hossain M.A, Antonio M., Tamboura B., Walker A.W, Paulson J.N, Parkhill J., Omore R., Faruque A.S et al..  2015.  Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.
Lindsay B., Oundo J., Hossain M.A, Antonio M., Tamboura B., Walker A.W, Paulson J.N, Parkhill J., Omore R., Faruque A.S et al..  2015.  Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.
Brown TS, Jacob CG, Silva JC, Takala-Harrison S, Djimdé A, Dondorp AM, Fukuda M, Noedl H, Nyunt MMyaing, Kyaw MPhone et al..  2015.  Plasmodium falciparum field isolates from areas of repeated emergence of drug resistant malaria show no evidence of hypermutator phenotype. Infection, Genetics and Evolution. 30:318-322.
Brown TS, Jacob CG, Silva JC, Takala-Harrison S, Djimdé A, Dondorp AM, Fukuda M, Noedl H, Nyunt MMyaing, Kyaw MPhone et al..  2015.  Plasmodium falciparum field isolates from areas of repeated emergence of drug resistant malaria show no evidence of hypermutator phenotype. Infection, Genetics and Evolution. 30:318-322.
Patella F, Schug ZT, Persi E, Neilson LJ, Erami Z, Avanzato D, Maione F, Hernandez-Fernaud JR, Mackay G, Zheng L et al..  2015.  Proteomics-based metabolic modeling reveals that fatty acid oxidation (FAO) controls endothelial cell (EC) permeability.. Mol Cell Proteomics. 14(3):621-34.
Megchelenbrink W, Katzir R, Lu X, Ruppin E, Notebaart RA.  2015.  Synthetic dosage lethality in the human metabolic network is highly predictive of tumor growth and cancer patient survival.. Proc Natl Acad Sci U S A.
2014
Pop M, Walker AW, Paulson J, Lindsay B, Antonio M, M Hossain A, Oundo J, Tamboura B, Mai V, Astrovskaya I et al..  2014.  Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition.. Genome Biol. 15(6):R76.
Notebaart R.A, Szappanos B., Kintses B., Pal F., Gyorkei A., Bogos B., Lazar V., Spohn R., Bogos B., Wagner A. et al..  2014.  Network-level architecture and the evolutionary potential of underground metabolism. Proceedings of the National Academy of Sciences. 111(32):11762-11767.
Nguyen N-phuong, Mirarab S, Liu B, Pop M, Warnow T.  2014.  TIPP:Taxonomic Identification and Phylogenetic Profiling. BioinformaticsBioinformatics.
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

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