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Journal Articles
Badger JH, Hoover TR, Brun YV, Weiner RM, Laub MT, Alexandre G, Mrázek J, Ren Q, Paulsen IT, Nelson KE et al..  2006.  Comparative genomic evidence for a close relationship between the dimorphic prosthecate bacteria Hyphomonas neptunium and Caulobacter crescentus. Journal of bacteriologyJournal of bacteriology. 188
Hammel M, Sfyroera G, Pyrpassopoulos S, Ricklin D, Ramyar KX, Pop M., Jin Z, Lambris JD, Geisbrecht BV.  2007.  Characterization of Ehp, a Secreted Complement Inhibitory Protein from Staphylococcus aureus. Journal of Biological ChemistryJournal of Biological Chemistry. 282
Almeida M, Pop M, Le Chatelier E, Prifti E, Pons N, Ghozlane A, S Ehrlich D.  2016.  Capturing the most wanted taxa through cross-sample correlations. The ISME Journal.
Gevers D, Pop M., Schloss PD, Huttenhower C.  2012.  Bioinformatics for the Human Microbiome Project. PLOS Computational BiologyPLOS Computational Biology. 8
Huq A, Whitehouse CA, Grim CJ, Alam M, Colwell RR.  2008.  Biofilms in water, its role and impact in human disease transmission. Current Opinion in BiotechnologyCurrent Opinion in Biotechnology. 19
Grand J, Cummings MP, Rebelo TG, Ricketts TH, Neel MC.  2007.  Biased data reduce efficiency and effectiveness of conservation reserve networks. Ecology LettersEcology Letters. 10
Lee S.H, Kalejta R.F, Kerry J., Semmes O.J, O'Connor C.M, Khan Z., Garcia B.A, Shenk T., Murphy E..  2012.  BclAF1 restriction factor is neutralized by proteasomal degradation and microRNA repression during human cytomegalovirus infection. Proceedings of the National Academy of Sciences. 109(24):9575-9580.
Lee SHee, Kalejta RF, Kerry J, Semmes OJohn, O'Connor CM, Khan Z, Garcia BA, Shenk T, Murphy E.  2012.  BclAF1 restriction factor is neutralized by proteasomal degradation and microRNA repression during human cytomegalovirus infection.. Proc Natl Acad Sci U S A. 109(24):9575-80.
Marbach-Ad G., Briken V., El-Sayed N.M., Frauwirth K., Fredericksen B., Hutcheson S., Gao L.-Y., Joseph S., Lee V., McIver K.S. et al..  2009.  Assessing Student Understanding of Host Pathogen Interactions Using a Concept Inventory. J. Microbiol. Biol. Ed.. 10:43-50.
Huq A., Grim C.J, Colwell RR.  2011.  Aquatic Realm and Cholera. Epidemiological and Molecular Aspects on CholeraEpidemiological and Molecular Aspects on Cholera.
Joseph SJ, Fernández-Robledo JA, Gardner MJ, El-Sayed NM, Kuo C-H, Schott EJ, Wang H, Kissinger JC, Vasta GR.  2010.  The Alveolate Perkinsus marinus: biological insights from EST gene discovery.. BMC Genomics. 11:228.
White JR, Navlakha S, Nagarajan N, Ghodsi M-R, Kingsford C, Pop M..  2010.  Alignment and clustering of phylogenetic markers - implications for microbial diversity studies. BMC BioinformaticsBMC Bioinformatics. 11
Lin H.C, Goldstein S., Mendelowitz L., Zhou S., Wetzel J., Schwartz D.C, Pop M..  2012.  AGORA: Assembly Guided by Optical Restriction Alignment. BMC bioinformaticsBMC Bioinformatics. 13
Liu B, Gibbons T, Ghodsi M, Treangen T, Pop M..  2011.  Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences. BMC GenomicsBMC Genomics. 12
Liu B, Gibbons T, Ghodsi M, Treangen T, Pop M..  2011.  Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences. BMC GenomicsBMC Genomics. 12
Journal Article
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.
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.
Khan Z., Bloom J.S, Garcia B.A, Singh M., Kruglyak L..  2009.  Protein quantification across hundreds of experimental conditions. Proceedings of the National Academy of Sciences. 106(37):15544-15548.
Khan Z., Ford M.J, Cusanovich D.A, Mitrano A., Pritchard J.K, Gilad Y..  2013.  Primate Transcript and Protein Expression Levels Evolve Under Compensatory Selection Pressures. Science. 342(6162):1100-1104.
Waisberg M, Cerqueira GC, Yager SB, Francischetti IMB, Lu J, Gera N, Srinivasan P, Miura K, Rada B, Lukszo J et al..  2012.  Plasmodium falciparum merozoite surface protein 1 blocks the proinflammatory protein S100P.. Proc Natl Acad Sci U S A. 109(14):5429-34.
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HCorrada, Davis S, Gatto L, Girke T et al..  2015.  Orchestrating high-throughput genomic analysis with Bioconductor.. Nat Methods. 12(2):115-21.
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HCorrada, Davis S, Gatto L, Girke T et al..  2015.  Orchestrating high-throughput genomic analysis with Bioconductor.. Nat Methods. 12(2):115-21.
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HCorrada, Davis S, Gatto L, Girke T et al..  2015.  Orchestrating high-throughput genomic analysis with Bioconductor.. Nat Methods. 12(2):115-21.
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HCorrada, Davis S, Gatto L, Girke T et al..  2015.  Orchestrating high-throughput genomic analysis with Bioconductor.. Nat Methods. 12(2):115-21.
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.

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