David Arnosti, Ph.D. - Publications

Affiliations: 
1996- Biochemistry Michigan State University, East Lansing, MI 
Area:
Gene Expression, Transcriptional Regulation, Developmental Biology

69 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Mouawad R, Prasad J, Thorley D, Himadewi P, Kadiyala D, Wilson N, Kapranov P, Arnosti DN. Diversification of retinoblastoma protein function associated with cis and trans adaptations. Molecular Biology and Evolution. PMID 31418797 DOI: 10.1093/molbev/msz187  0.84
2016 Wei Y, Gokhale RH, Sonnenschein A, Montgomery KM, Ingersoll A, Arnosti DN. Complex cis-regulatory landscape of the insulin receptor gene underlies the broad expression of a central signaling regulator. Development (Cambridge, England). 143: 3591-3603. PMID 27702787 DOI: 10.1242/dev.138073  1
2016 Sayal R, Dresch JM, Pushel I, Taylor BR, Arnosti DN. Quantitative perturbation-based analysis of gene expression predicts enhancer activity in early Drosophila embryo. Elife. 5. PMID 27152947 DOI: 10.7554/eLife.08445  1
2016 Payankaulam S, Yeung K, McNeill H, Henry RW, Arnosti DN. Regulation of cell polarity determinants by the Retinoblastoma tumor suppressor protein. Scientific Reports. 6: 22879. PMID 26971715 DOI: 10.1038/srep22879  1
2015 Dresch JM, Arnosti DN. The Wisdom of Crowds: Can Mathematical Models Crack the cis Regulatory Code? Cell Systems. 1: 379-380. PMID 27136351 DOI: 10.1016/j.cels.2015.12.006  1
2015 Arnosti DN, Fay JC, Zeitlinger J. Cori meets Dobzhansky: Evolution and Gene Expression in St. Louis: A report on the "Evolution and Core Processes in Gene Regulation" meeting in St. Louis, June 25-28, 2015. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 37: 1042-4. PMID 26354485 DOI: 10.1002/bies.201500106  1
2015 Kok K, Ay A, Li LM, Arnosti DN. Genome-wide errant targeting by Hairy. Elife. 4. PMID 26305409 DOI: 10.7554/eLife.06394  1
2015 Wei Y, Mondal SS, Mouawad R, Wilczy?ski B, Henry RW, Arnosti DN. Genome-Wide Analysis of Drosophila RBf2 Protein Highlights the Diversity of RB Family Targets and Possible Role in Regulation of Ribosome Biosynthesis. G3 (Bethesda, Md.). 5: 1503-15. PMID 25999584 DOI: 10.1534/g3.115.019166  1
2015 Sengupta S, Lingnurkar R, Carey TS, Pomaville M, Kar P, Feig M, Wilson CA, Knott JG, Arnosti DN, Henry RW. The Evolutionarily Conserved C-terminal Domains in the Mammalian Retinoblastoma Tumor Suppressor Family Serve as Dual Regulators of Protein Stability and Transcriptional Potency. The Journal of Biological Chemistry. 290: 14462-75. PMID 25903125 DOI: 10.1074/jbc.M114.599993  1
2015 Kok K, Arnosti DN. Dynamic reprogramming of chromatin: paradigmatic palimpsests and HES factors. Frontiers in Genetics. 6: 29. PMID 25713582 DOI: 10.3389/fgene.2015.00029  1
2015 Wei Y, Arnosti DN. Enhancer trafficking: free throws and three-pointers. Developmental Cell. 32: 135-7. PMID 25625204 DOI: 10.1016/j.devcel.2015.01.006  1
2015 Elenbaas JS, Mouawad R, Henry RW, Arnosti DN, Payankaulam S. Role of Drosophila retinoblastoma protein instability element in cell growth and proliferation. Cell Cycle (Georgetown, Tex.). 14: 589-97. PMID 25496208 DOI: 10.4161/15384101.2014.991182  1
2015 Dresch JM, Arnosti DN. The Wisdom of Crowds: Can Mathematical Models Crack the cis Regulatory Code? Cell Systems. 1: 379-380. DOI: 10.1016/j.cels.2015.12.006  1
2014 Zhang L, Wei Y, Pushel I, Heinze K, Elenbaas J, Henry RW, Arnosti DN. Integrated stability and activity control of the Drosophila Rbf1 retinoblastoma protein. The Journal of Biological Chemistry. 289: 24863-73. PMID 25049232 DOI: 10.1074/jbc.M114.586818  1
2013 Dresch JM, Thompson MA, Arnosti DN, Chiu C. TWO-LAYER MATHEMATICAL MODELING OF GENE EXPRESSION: INCORPORATING DNA-LEVEL INFORMATION AND SYSTEM DYNAMICS. Siam Journal On Applied Mathematics. 73: 804-826. PMID 25328249 DOI: 10.1137/120887588  1
2013 Suleimenov Y, Ay A, Samee MA, Dresch JM, Sinha S, Arnosti DN. Global parameter estimation for thermodynamic models of transcriptional regulation. Methods (San Diego, Calif.). 62: 99-108. PMID 23726942 DOI: 10.1016/j.ymeth.2013.05.012  1
2013 Arnosti D. Modeling gene expression Methods. 62: 1-2. DOI: 10.1016/j.ymeth.2013.08.001  1
2012 Acharya P, Negre N, Johnston J, Wei Y, White KP, Henry RW, Arnosti DN. Evidence for autoregulation and cell signaling pathway regulation from genome-wide binding of the Drosophila retinoblastoma protein. G3 (Bethesda, Md.). 2: 1459-72. PMID 23173097 DOI: 10.1534/g3.112.004424  1
2012 Raj N, Zhang L, Wei Y, Arnosti DN, Henry RW. Ubiquitination of retinoblastoma family protein 1 potentiates gene-specific repression function. The Journal of Biological Chemistry. 287: 41835-43. PMID 23086928 DOI: 10.1074/jbc.M112.422428  1
2012 Arnosti DN, Ay A. Boolean modeling of gene regulatory networks: Driesch redux. Proceedings of the National Academy of Sciences of the United States of America. 109: 18239-40. PMID 23027966 DOI: 10.1073/pnas.1215732109  1
2012 Raj N, Zhang L, Wei Y, Arnosti DN, Henry RW. Rbf1 degron dysfunction enhances cellular DNA replication. Cell Cycle (Georgetown, Tex.). 11: 3731-8. PMID 22895052 DOI: 10.4161/cc.21665  1
2012 Chiu C, Fakhouri W, Liu N, Dayringer E, Dresch J, Arnosti D. A two-scale mathematical model for DNA transcription. Mathematical Biosciences. 236: 132-40. PMID 22343054 DOI: 10.1016/j.mbs.2011.12.006  1
2011 Arnosti DN. Transcriptional repressors: shutting off gene expression at the source affects developmental dynamics. Current Biology : Cb. 21: R859-60. PMID 22032193 DOI: 10.1016/j.cub.2011.09.022  1
2011 Ay A, Arnosti DN. Mathematical modeling of gene expression: a guide for the perplexed biologist. Critical Reviews in Biochemistry and Molecular Biology. 46: 137-51. PMID 21417596 DOI: 10.3109/10409238.2011.556597  1
2011 Li LM, Arnosti DN. Long- and short-range transcriptional repressors induce distinct chromatin states on repressed genes. Current Biology : Cb. 21: 406-12. PMID 21353562 DOI: 10.1016/j.cub.2011.01.054  1
2011 Sayal R, Ryu SM, Arnosti DN. Optimization of reporter gene architecture for quantitative measurements of gene expression in the Drosophila embryo. Fly. 5: 47-52. PMID 21150286  1
2011 Zhang YW, Arnosti DN. Conserved catalytic and C-terminal regulatory domains of the C-terminal binding protein corepressor fine-tune the transcriptional response in development. Molecular and Cellular Biology. 31: 375-84. PMID 21078873 DOI: 10.1128/MCB.00772-10  1
2010 Dresch JM, Liu X, Arnosti DN, Ay A. Thermodynamic modeling of transcription: sensitivity analysis differentiates biological mechanism from mathematical model-induced effects. Bmc Systems Biology. 4: 142. PMID 20969803 DOI: 10.1186/1752-0509-4-142  1
2010 Acharya P, Raj N, Buckley MS, Zhang L, Duperon S, Williams G, Henry RW, Arnosti DN. Paradoxical instability-activity relationship defines a novel regulatory pathway for retinoblastoma proteins. Molecular Biology of the Cell. 21: 3890-901. PMID 20861300 DOI: 10.1091/mbc.E10-06-0520  1
2010 Payankaulam S, Li LM, Arnosti DN. Transcriptional repression: conserved and evolved features. Current Biology : Cb. 20: R764-71. PMID 20833321 DOI: 10.1016/j.cub.2010.06.037  1
2010 Li LM, Arnosti DN. Fine mapping of chromatin structure in Drosophila melanogaster embryos using micrococcal nuclease. Fly. 4: 213-5. PMID 20519935 DOI: 10.4161/fly.4.3.12200  1
2010 Ay A, Arnosti DN. Nucleosome positioning: an essential component of the enhancer regulatory code? Current Biology : Cb. 20: R404-6. PMID 20462481 DOI: 10.1016/j.cub.2010.03.051  1
2010 Fakhouri WD, Ay A, Sayal R, Dresch J, Dayringer E, Arnosti DN. Deciphering a transcriptional regulatory code: modeling short-range repression in the Drosophila embryo. Molecular Systems Biology. 6: 341. PMID 20087339 DOI: 10.1038/msb.2009.97  1
2009 Payankaulam S, Arnosti DN. Groucho corepressor functions as a cofactor for the Knirps short-range transcriptional repressor. Proceedings of the National Academy of Sciences of the United States of America. 106: 17314-9. PMID 19805071 DOI: 10.1073/pnas.0904507106  1
2008 Arnosti DN. Transcriptional perspectives from San Diego. Fly. 2: 138-40. PMID 18820429  1
2008 Ay A, Fakhouri WD, Chiu C, Arnosti DN. Image processing and analysis for quantifying gene expression from early Drosophila embryos. Tissue Engineering. Part A. 14: 1517-26. PMID 18687054 DOI: 10.1089/ten.tea.2008.0202  1
2008 Payankaulam S, Arnosti DN. Gene regulation: boundaries within limits. Current Biology : Cb. 18: R653-R655. PMID 18682204 DOI: 10.1016/j.cub.2008.06.040  1
2008 Martinez CA, Arnosti DN. Spreading of a corepressor linked to action of long-range repressor hairy. Molecular and Cellular Biology. 28: 2792-802. PMID 18285466 DOI: 10.1128/MCB.01203-07  1
2007 Halfon MS, Arnosti DN. New tools, resources for gene regulatory analysis in Drosophila. Fly. 1: 123-4. PMID 19378457  1
2007 Mani-Telang P, Sutrias-Grau M, Williams G, Arnosti DN. Role of NAD binding and catalytic residues in the C-terminal binding protein corepressor. Febs Letters. 581: 5241-6. PMID 17964573 DOI: 10.1016/j.febslet.2007.10.011  1
2007 Ullah Z, Buckley MS, Arnosti DN, Henry RW. Retinoblastoma protein regulation by the COP9 signalosome. Molecular Biology of the Cell. 18: 1179-86. PMID 17251548 DOI: 10.1091/mbc.E06-09-0790  1
2007 Mani-Telang P, Arnosti DN. Developmental expression and phylogenetic conservation of alternatively spliced forms of the C-terminal binding protein corepressor. Development Genes and Evolution. 217: 127-35. PMID 17120023 DOI: 10.1007/s00427-006-0121-4  1
2005 Struffi P, Arnosti DN. Functional interaction between the Drosophila knirps short range transcriptional repressor and RPD3 histone deacetylase. The Journal of Biological Chemistry. 280: 40757-65. PMID 16186109 DOI: 10.1074/jbc.M506819200  1
2005 Kulkarni MM, Arnosti DN. cis-regulatory logic of short-range transcriptional repression in Drosophila melanogaster. Molecular and Cellular Biology. 25: 3411-20. PMID 15831448 DOI: 10.1128/MCB.25.9.3411-3420.2005  1
2005 Arnosti DN, Kulkarni MM. Transcriptional enhancers: Intelligent enhanceosomes or flexible billboards? Journal of Cellular Biochemistry. 94: 890-8. PMID 15696541 DOI: 10.1002/jcb.20352  1
2005 Keller SA, Ullah Z, Buckley MS, Henry RW, Arnosti DN. Distinct developmental expression of Drosophila retinoblastoma factors. Gene Expression Patterns : Gep. 5: 411-21. PMID 15661648 DOI: 10.1016/j.modgep.2004.09.005  1
2004 Sutrias-Grau M, Arnosti DN. CtBP contributes quantitatively to Knirps repression activity in an NAD binding-dependent manner. Molecular and Cellular Biology. 24: 5953-66. PMID 15199149 DOI: 10.1128/MCB.24.13.5953-5966.2004  1
2004 Struffi P, Corado M, Kulkarni M, Arnosti DN. Quantitative contributions of CtBP-dependent and -independent repression activities of Knirps. Development (Cambridge, England). 131: 2419-29. PMID 15128671 DOI: 10.1242/dev.01075  1
2003 Kulkarni MM, Arnosti DN. Information display by transcriptional enhancers. Development (Cambridge, England). 130: 6569-75. PMID 14660545 DOI: 10.1242/dev.00890  1
2003 Ryu JR, Arnosti DN. Functional similarity of Knirps CtBP-dependent and CtBP-independent transcriptional repressor activities. Nucleic Acids Research. 31: 4654-62. PMID 12888527 DOI: 10.1093/nar/gkg491  1
2003 Arnosti DN. Analysis and function of transcriptional regulatory elements: insights from Drosophila. Annual Review of Entomology. 48: 579-602. PMID 12359740 DOI: 10.1146/annurev.ento.48.091801.112749  1
2002 Arnosti DN. Design and function of transcriptional switches in Drosophila. Insect Biochemistry and Molecular Biology. 32: 1257-73. PMID 12225917 DOI: 10.1016/S0965-1748(02)00089-9  1
2001 Strunk B, Struffi P, Wright K, Pabst B, Thomas J, Qin L, Arnosti DN. Role of CtBP in transcriptional repression by the Drosophila giant protein. Developmental Biology. 239: 229-40. PMID 11784031 DOI: 10.1006/dbio.2001.0454  1
2001 Ryu JR, Olson LK, Arnosti DN. Cell-type specificity of short-range transcriptional repressors. Proceedings of the National Academy of Sciences of the United States of America. 98: 12960-5. PMID 11687630 DOI: 10.1073/pnas.231394998  1
2000 Keller SA, Mao Y, Struffi P, Margulies C, Yurk CE, Anderson AR, Amey RL, Moore S, Ebels JM, Foley K, Corado M, Arnosti DN. dCtBP-dependent and -independent repression activities of the Drosophila Knirps protein. Molecular and Cellular Biology. 20: 7247-58. PMID 10982842 DOI: 10.1128/MCB.20.19.7247-7258.2000  1
1999 Hewitt GF, Strunk BS, Margulies C, Priputin T, Wang XD, Amey R, Pabst BA, Kosman D, Reinitz J, Arnosti DN. Transcriptional repression by the Drosophila giant protein: cis element positioning provides an alternative means of interpreting an effector gradient. Development (Cambridge, England). 126: 1201-10. PMID 10021339  1
1996 Cai HN, Arnosti DN, Levine M. Long-range repression in the Drosophila embryo. Proceedings of the National Academy of Sciences of the United States of America. 93: 9309-14. PMID 8790326 DOI: 10.1073/pnas.93.18.9309  1
1996 Arnosti DN, Gray S, Barolo S, Zhou J, Levine M. The gap protein knirps mediates both quenching and direct repression in the Drosophila embryo. The Embo Journal. 15: 3659-66. PMID 8670869  1
1996 Arnosti DN, Barolo S, Levine M, Small S. The eve stripe 2 enhancer employs multiple modes of transcriptional synergy. Development (Cambridge, England). 122: 205-14. PMID 8565831  1
1993 Rigoni P, Xu L, Harshman K, Schaffner W, Arnosti DN. Conserved cysteine residues of Oct-2 POU domain confer sensitivity to oxidation but are dispensable for sequence-specific DNA binding. Biochimica Et Biophysica Acta. 1173: 141-6. PMID 8504164 DOI: 10.1016/0167-4781(93)90174-C  1
1993 Arnosti DN, Merino A, Reinberg D, Schaffner W. Oct-2 facilitates functional preinitiation complex assembly and is continuously required at the promoter for multiple rounds of transcription. The Embo Journal. 12: 157-66. PMID 8428575  0.4
1993 Arnosti DN, Preston CM, Hagmann M, Schaffner W, Hope RG, Laughlan G, Luisi BF. Specific transcriptional activation in vitro by the herpes simplex virus protein VP16. Nucleic Acids Research. 21: 5570-6. PMID 8284200  1
1993 Small S, Arnosti DN, Levine M. Spacing ensures autonomous expression of different stripe enhancers in the even-skipped promoter. Development (Cambridge, England). 119: 762-72. PMID 8187640  1
1993 Arnosti D. Excluded gender? [7] Science. 262: 639.  1
1992 Brugnera E, Xu L, Schaffner W, Arnosti DN. POU-specific domain of Oct-2 factor confers 'octamer' motif DNA binding specificity on heterologous Antennapedia homeodomain. Febs Letters. 314: 361-5. PMID 1361457 DOI: 10.1016/0014-5793(92)81506-H  1
1990 Arnosti DN. Regulation of Escherichia coli sigma F RNA polymerase by flhD and flhC flagellar regulatory genes. Journal of Bacteriology. 172: 4106-8. PMID 2193929  1
1989 Arnosti DN, Chamberlin MJ. Secondary sigma factor controls transcription of flagellar and chemotaxis genes in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 86: 830-4. PMID 2644646  1
1989 Farr SB, Arnosti DN, Chamberlin MJ, Ames BN. An apaH mutation causes AppppA to accumulate and affects motility and catabolite repression in Escherichia coli. Proceedings of the National Academy of Sciences of the United States of America. 86: 5010-4. PMID 2544886  1
1986 Arnosti DN, Singer VL, Chamberlin MJ. Characterization of heat shock in Bacillus subtilis. Journal of Bacteriology. 168: 1243-9. PMID 3096972  1
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