Search Publications
Export 29 results:
Author Title [ Year(Desc)]
Filters: Keyword is Computational Biology  [Clear All Filters]
Lenz DH, Mok KC, Lilley BN, Kulkarni RV, Wingreen NS, Bassler BL. The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae. Cell. 2004 ;118(1):69-82.
Toettcher JE, Gong D, Lim WA, Weiner OD. Light-based feedback for controlling intracellular signaling dynamics. Nat Methods. 2011 ;8(10):837-9.
Sigoillot FD, Lyman S, Huckins JF, Adamson B, Chung E, Quattrochi B, et al. A bioinformatics method identifies prominent off-targeted transcripts in RNAi screens. Nat Methods. 2012 ;9(4):363-6.
Seyedsayamdost MR, Cleto S, Carr G, Vlamakis H, Vieira MJoão, Kolter R, et al.. Mixing and matching siderophore clusters: structure and biosynthesis of serratiochelins from Serratia sp. V4. J Am Chem Soc. 2012 ;134(33):13550-3.
Wühr M, Freeman RM, Presler M, Horb ME, Peshkin L, Gygi S, et al.. Deep proteomics of the Xenopus laevis egg using an mRNA-derived reference database. Curr Biol. 2014 ;24(13):1467-1475.
da Silveira RAzeredo, Berry MJ. High-fidelity coding with correlated neurons. PLoS Comput Biol. 2014 ;10(11):e1003970.
Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry MJ. Searching for collective behavior in a large network of sensory neurons. PLoS Comput Biol. 2014 ;10(1):e1003408.
Ochoa A, Storey JD, Llinás M, Singh M. Beyond the E-Value: Stratified Statistics for Protein Domain Prediction. PLoS Comput Biol. 2015 ;11(11):e1004509.
Gorenshteyn D, Zaslavsky E, Fribourg M, Park CY, Wong AK, Tadych A, et al. Interactive Big Data Resource to Elucidate Human Immune Pathways and Diseases. Immunity. 2015 ;43(3):605-14.
Adolfsen KJ, Brynildsen MP. A Kinetic Platform to Determine the Fate of Hydrogen Peroxide in Escherichia coli. PLoS Comput Biol. 2015 ;11(11):e1004562.
Medema MH, Kottmann R, Yilmaz P, Cummings M, Biggins JB, Blin K, et al. Minimum Information about a Biosynthetic Gene cluster. Nat Chem Biol. 2015 ;11(9):625-31.
Ashford P, Hernandez A, Greco TMichael, Buch A, Sodeik B, Cristea IMihaela, et al. HVint: A Strategy for Identifying Novel Protein-Protein Interactions in Herpes Simplex Virus Type 1. Mol Cell Proteomics. 2016 ;15(9):2939-53.
Gopalan P, Hao W, Blei DM, Storey JD. Scaling probabilistic models of genetic variation to millions of humans. Nat Genet. 2016 ;48(12):1587-1590.
Misra M, Audoly B, Shvartsman SY. Complex structures from patterned cell sheets. Philos Trans R Soc Lond B Biol Sci. 2017 ;372(1720).
Ochoa A, Singh M. Domain prediction with probabilistic directional context. Bioinformatics. 2017 ;33(16):2471-2478.
Hristov BH, Singh M. Network-Based Coverage of Mutational Profiles Reveals Cancer Genes. Cell Syst. 2017 ;5(3):221-229.e4.
Beltran PMJean, Federspiel JD, Sheng X, Cristea IM. Proteomics and integrative omic approaches for understanding host-pathogen interactions and infectious diseases. Mol Syst Biol. 2017 ;13(3):922.
Calhoun AJ, Murthy M. Quantifying behavior to solve sensorimotor transformations: advances from worms and flies. Curr Opin Neurobiol. 2017 ;46:90-98.
vonHoldt BM, Shuldiner E, Koch IJanowitz, Kartzinel RY, Hogan A, Brubaker L, et al. Structural variants in genes associated with human Williams-Beuren syndrome underlie stereotypical hypersociability in domestic dogs. Sci Adv. 2017 ;3(7):e1700398.
Ioffe ML, Berry MJ. The structured 'low temperature' phase of the retinal population code. PLoS Comput Biol. 2017 ;13(10):e1005792.
Davis KM, Schramma KR, Hansen WA, Bacik JP, Khare SD, Seyedsayamdost MR, et al. Structures of the peptide-modifying radical SAM enzyme SuiB elucidate the basis of substrate recognition. Proc Natl Acad Sci U S A. 2017 ;114(39):10420-10425.
Villoutreix P, Andén J, Lim B, Lu H, Kevrekidis IG, Singer A, et al.. Synthesizing developmental trajectories. PLoS Comput Biol. 2017 ;13(9):e1005742.
Lu Y, Xie S, Zhang W, Zhang C, Gao C, Sun Q, et al. Twa1/Gid8 is a β-catenin nuclear retention factor in Wnt signaling and colorectal tumorigenesis. Cell Res. 2017 ;27(12):1422-1440.
Bushin LB, Clark KA, Pelczer I, Seyedsayamdost MR. Charting an Unexplored Streptococcal Biosynthetic Landscape Reveals a Unique Peptide Cyclization Motif. J Am Chem Soc. 2018 ;140(50):17674-17684.