Publications

120 Publications
Applied Filters: First Letter Of Title: C Reset

C

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Kaletsky R, Lakhina V, Arey R, Williams A, Landis J, Ashraf JM, Murphy CT. The C. elegans adult neuronal IIS/FOXO transcriptome reveals adult phenotype regulators. Nature. 2016;529(7584):92–6. PMCID: PMC4708089
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Hahm J-H, Kim S, DiLoreto R, Shi C, Lee S-J V, Murphy CT, Nam HG. C. elegans maximum velocity correlates with healthspan and is maintained in worms with an insulin receptor mutation. Nat Commun. 2015;6:8919. PMCID: PMC4656132
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Kauffman A, Parsons L, Stein G, Wills A, Kaletsky R, Murphy C. C. elegans positive butanone learning, short-term, and long-term associative memory assays. Journal of visualized experiments : JoVE. 2011;(49). PMCID: PMC3197297
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Shaw WM, Luo S, Landis J, Ashraf JM, Murphy CT. The C. elegans TGF-beta Dauer pathway regulates longevity via insulin signaling. Curr Biol. 2007;17(19):1635–45.
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Zartman JJ, Yakoby N, Bristow CA, Zhou X, Schlichting K, Dahmann C, Shvartsman SY. Cad74A is regulated by BR and is required for robust dorsal appendage formation in Drosophila oogenesis. Dev Biol. 2008;322(2):289–301.
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Bao Q, Lu W, Rabinowitz JD, Shi Y. Calcium blocks formation of apoptosome by preventing nucleotide exchange in Apaf-1. Mol Cell. 2007;25(2):181–92.
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Kurihara LJ, Semenova E, Miller W, Ingram RS, Guan X-J, Tilghman SM. Candidate genes required for embryonic development: a comparative analysis of distal mouse chromosome 14 and human chromosome 13q22. Genomics. 2002;79(2):154–61.
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Jiménez G, Shvartsman SY, Paroush Z. The Capicua repressor--a general sensor of RTK signaling in development and disease. J Cell Sci. 2012;125(Pt 6):1383–91.
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Slotte T, Hazzouri KM, Ågren A, Koenig D, Maumus F, Guo Y-L, Steige K, Platts AE, Escobar JS, Newman K, Wang W, Mandáková T, Vello E, Smith LM, Henz SR, Steffen J, Takuno S, Brandvain Y, Coop G, Andolfatto P, Hu TT, Blanchette M, Clark RM, Quesneville H, Nordborg M, Gaut BS, Lysak MA, Jenkins J, Grimwood J, Chapman J, Prochnik S, Shu S, Rokhsar D, Schmutz J, Weigel D, Wright SI. The Capsella rubella genome and the genomic consequences of rapid mating system evolution. Nat Genet. 2013;45(7):831–5.
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Jiang P, Singh M. CCAT: Combinatorial Code Analysis Tool for transcriptional regulation. Nucleic Acids Res. 2014;42(5):2833–47.
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Dawes-Hoang RE, Wieschaus EF. Cell and developmental biology--a shared past, an intertwined future. Dev Cell. 2001;1(1):27–36.
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DiLoreto R, Murphy CT. The cell biology of aging. Mol Biol Cell. 2015;26(25):4524–31. PMCID: PMC4678010
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Szabad J, Schupbach T, Wieschaus E. Cell lineage and development in the larval epidermis of Drosophila melanogaster. Dev Biol. 1979;73(2):256–71.
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Wieschaus E. Cell lineage relationships in the Drosophila embryo. Results Probl Cell Differ. 1978;9:97–118.
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Huang KC, Mukhopadhyay R, Wen B, Gitai Z, Wingreen NS. Cell shape and cell-wall organization in Gram-negative bacteria. Proc Natl Acad Sci U S A. 2008;105(49):19282–7.
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Wang S, Wingreen NS. Cell shape can mediate the spatial organization of the bacterial cytoskeleton. Biophys J. 2013;104(3):541–52.
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Skinnider M, Squair J, Kathe C, Anderson M, Gautier M, Matson K, Milano M, Hutson T, Barraud Q, Phillips A, Foster L, La Manno G, Levine A, Courtine G. Cell type prioritization in single-cell data. Nature biotechnology. 2021;39(1):30–34. PMCID: PMC7610525
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Wang J, Kaletsky R, Silva M, Williams A, Haas LA, Androwski RJ, Landis JN, Patrick C, Rashid A, Santiago-Martinez D, Gravato-Nobre M, Hodgkin J, Hall DH, Murphy CT, Barr MM. Cell-Specific Transcriptional Profiling of Ciliated Sensory Neurons Reveals Regulators of Behavior and Extracellular Vesicle Biogenesis. Curr Biol. 2015;25(24):3232–8. PMCID: PMC4698341
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Rabinowitz JD. Cellular metabolomics of Escherchia coli. Expert Rev Proteomics. 2007;4(2):187–98.
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Pollack JR, van de Rijn M, Botstein D. Challenges in developing a molecular characterization of cancer. Semin Oncol. 2002;29(3):280–5.
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Dolinski K, Botstein D. Changing perspectives in yeast research nearly a decade after the genome sequence. Genome Res. 2005;15(12):1611–9.
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Greene CS, Troyanskaya OG. Chapter 2: Data-driven view of disease biology. PLoS Comput Biol. 2012;8(12):e1002816.
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Dunham M, Badrane H, Ferea T, Adams J, Brown PO, Rosenzweig F, Botstein D. Characteristic genome rearrangements in experimental evolution of Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2002;99(25):16144–9.
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Capra JA, Singh M. Characterization and prediction of residues determining protein functional specificity. Bioinformatics. 2008;24(13):1473–80.
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Bae E, Calhoun VC, Levine M, Lewis EB, Drewell RA. Characterization of the intergenic RNA profile at abdominal-A and Abdominal-B in the Drosophila bithorax complex. Proc Natl Acad Sci U S A. 2002;99(26):16847–52.
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Gibney PA, Schieler A, Chen JC, Rabinowitz JD, Botstein D. Characterizing the in vivo role of trehalose in Saccharomyces cerevisiae using the AGT1 transporter. Proc Natl Acad Sci U S A. 2015;.
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Zhang Z, Chen L, Liu L, Su X, Rabinowitz JD. Chemical Basis for Deuterium Labeling of Fat and NADPH. J Am Chem Soc. 2017;139(41):14368–14371. PMID: 28911221
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Kliegman JI, Fiedler D, Ryan CJ, Xu Y-F, Su X-Y, Thomas D, Caccese MC, Cheng A, Shales M, Rabinowitz JD, Krogan NJ, Shokat KM. Chemical genetics of rapamycin-insensitive TORC2 in S. cerevisiae. Cell Rep. 2013;5(6):1725–36.
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Skoge M, Naqvi S, Meir Y, Wingreen NS. Chemical sensing by nonequilibrium cooperative receptors. Phys Rev Lett. 2013;110(24):248102.
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Skoge M, Naqvi S, Meir Y, Wingreen NS. Chemical Sensing by Nonequilibrium Cooperative Receptors. Phys Rev Lett. 2013;110(24).
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Keymer JE, Endres RG, Skoge M, Meir Y, Wingreen NS. Chemosensing in Escherichia coli: two regimes of two-state receptors. Proc Natl Acad Sci U S A. 2006;103(6):1786–91.
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Hansen CH, Endres RG, Wingreen NS. Chemotaxis in Escherichia coli: a molecular model for robust precise adaptation. PLoS Comput Biol. 2008;4(1):e1.
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Endres RG, Falke JJ, Wingreen NS. Chemotaxis receptor complexes: from signaling to assembly. PLoS Comput Biol. 2007;3(7):e150.
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Hark AT, Tilghman SM. Chromatin conformation of the H19 epigenetic mark. Hum Mol Genet. 1998;7(12):1979–85.
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Chou D, Adamson B, Dephoure N, Tan X, Nottke A, Hurov K, Gygi S, Colaiácovo M, Elledge S. A chromatin localization screen reveals poly (ADP ribose)-regulated recruitment of the repressive polycomb and NuRD complexes to sites of DNA damage. Proceedings of the National Academy of Sciences of the United States of America. 2010;107(43):18475–80. PMCID: PMC2972950
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Stadlmeier M, Runtsch LS, Streshnev F, Wühr M, Carell T. A Click-chemistry based enrichable cross-linker for structural and protein interaction analysis by mass spectrometry. Chembiochem. 2019;. PMID: 31593346
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Cole SE, Levorse JM, Tilghman SM, Vogt TF. Clock regulatory elements control cyclic expression of Lunatic fringe during somitogenesis. Dev Cell. 2002;3(1):75–84.
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Wieschaus E, Audit C, Masson M. A clonal analysis of the roles of somatic cells and germ line during oogenesis in Drosophila. Dev Biol. 1981;88(1):92–103.
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Harbison ST, Carbone MA, Ayroles J, Stone EA, Lyman RF, Mackay TFC. Co-regulated transcriptional networks contribute to natural genetic variation in Drosophila sleep. Nat Genet. 2009;41(3):371–5.
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Biswas S, Kim J, Zhang X, Scholes G. Coherent Two-Dimensional and Broadband Electronic Spectroscopies. Chemical Reviews. 2022;122:4257–4321.
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Yakoby N, Bristow CA, Gong D, Schafer X, Lembong J, Zartman JJ, Halfon MS, Schüpbach T, Shvartsman SY. A combinatorial code for pattern formation in Drosophila oogenesis. Dev Cell. 2008;15(5):725–37.
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Petti AA, McIsaac S, Ho-Shing O, Bussemaker HJ, Botstein D. Combinatorial control of diverse metabolic and physiological functions by transcriptional regulators of the yeast sulfur assimilation pathway. Mol Biol Cell. 2012;23(15):3008–24.