Student Publications

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Murrell B, Weaver S, Smith MD, et al. "Gene-wide identification of episodic selection." Mol. Biol. Evol.. 2015;32(5):1365-71.
Mukund K, Mathewson M, Minamoto V, Ward SR, Subramaniam S, Lieber RL. "Systems analysis of transcriptional data provides insights into muscle's biological response to botulinum toxin." Muscle Nerve. 2014;50(5):744-58.
Mukund K, Subramaniam S. "Dysregulated mechanisms underlying Duchenne muscular dystrophy from co-expression network preservation analysis." BMC Res Notes. 2015;8:182.
Mollah SA, Dobrin JS, Feder RE, et al. "Flt3L dependence helps define an uncharacterized subset of murine cutaneous dendritic cells." J. Invest. Dermatol.. 2014;134(5):1265-75.
Mo ML, Palsson BO, Herrgård MJ. "Connecting extracellular metabolomic measurements to intracellular flux states in yeast." BMC Syst Biol. 2009;3:37.
McCorrison JM, Venepally P, Singh I, Fouts DE, Lasken RS, Methé BA. "NeatFreq: reference-free data reduction and coverage normalization for De Novo sequence assembly." BMC Bioinformatics. 2014;15(1):357.
Maurya M R, Benner C, Pradervand S, Glass C, Subramaniam S. "Systems biology of macrophages." Adv. Exp. Med. Biol.. 2007;598:62-79.
Margeridon-Thermet S, Svarovskaia ES, Babrzadeh F, et al. "Low-level persistence of drug resistance mutations in hepatitis B virus-infected subjects with a past history of Lamivudine treatment." Antimicrob. Agents Chemother.. 2013;57(1):343-9.
Manichaikul A, Ghamsari L, Hom EFY, et al. "Metabolic network analysis integrated with transcript verification for sequenced genomes." Nat. Methods. 2009;6(8):589-92.
Ma Q, Liu W, Rosenfeld MG. "mHMM (multivariate hidden Markov model) application in studying BRD4 and JMJD6 function cooperatively on promoter-proximal polymerase-II (Pol II) pausing release.". In: Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine - BCB '12. ACM Press; 2012.
Ma H, Morey R, O'Neil RC, et al. "Abnormalities in human pluripotent cells due to reprogramming mechanisms." Nature. 2014;511(7508):177-83.
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Lunyak VV, Prefontaine GG, Núñez E, et al. "Developmentally regulated activation of a SINE B2 repeat as a domain boundary in organogenesis." Science. 2007;317(5835):248-51.
Luban S, Kihara D. "Comparative genomics of small RNAs in bacterial genomes." OMICS. 2007;11(1):58-73.
Lovci MT, Ghanem D, Marr H, et al. "Rbfox proteins regulate alternative mRNA splicing through evolutionarily conserved RNA bridges." Nat. Struct. Mol. Biol.. 2013;20(12):1434-42.
Loriaux PM, Hoffmann A. "A framework for modeling the relationship between cellular steady-state and stimulus-responsiveness." Methods Cell Biol.. 2012;110:81-109.
Loriaux P, Hoffmann A. "Of elections and cell-death decisions." Mol. Cell. 2009;34(3):257-8.
Loriaux P M, Hoffmann A. "A protein turnover signaling motif controls the stimulus-sensitivity of stress response pathways." PLoS Comput. Biol.. 2013;9(2):e1002932.
Loriaux P M, Tesler G, Hoffmann A. "Characterizing the relationship between steady state and response using analytical expressions for the steady states of mass action models." PLoS Comput. Biol.. 2013;9(2):e1002901.
Liu W-T, Ng J, Meluzzi D, et al. "Interpretation of tandem mass spectra obtained from cyclic nonribosomal peptides." Anal. Chem.. 2009;81(11):4200-9.
Liu G-H, Barkho BZ, Ruiz S, et al. "Recapitulation of premature ageing with iPSCs from Hutchinson-Gilford progeria syndrome." Nature. 2011;472(7342):221-5.
Lister R, Mukamel EA, Nery JR, et al. "Global epigenomic reconfiguration during mammalian brain development." Science. 2013;341(6146):1237905.
Lister R, Pelizzola M, Dowen RH, et al. "Human DNA methylomes at base resolution show widespread epigenomic differences." Nature. 2009;462(7271):315-22.

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