Recent Publications

Sonnenschein A, Dworkin I, Arnosti D. “The Sheep and the Goats: Distinguishing transcriptional enhancers in a complex chromatin landscape.” G3. (2018) bioRxiv

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 (2016) Oct;143:3591-3603. doi::10.1242/dev.138073

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. (2016) May 6;. doi:10.7554/eLife.08445

Dresch JM, Arnosti DN. “The Wisdom of Crowds: Can Mathematical Models Crack the cis Regulatory Code?” Cell Syst. (2015) Dec 23;1(6):379-80. doi:10.1016/j.cels.2015.12.006

Payankaulam S, Yeung K, McNeill H, Henry RW, Arnosti DN. “Regulation of cell polarity determinants by the Retinoblastoma tumor suppressor protein.” Sci Rep. (2016) Mar 14;6:22879. doi:10.1038/srep22879

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. (2015) Oct;37(10):1042-4. doi:10.1002/bies.201500106

Kok K, Ay A, Li LM, Arnosti DN. “Genome-wide errant targeting by Hairy.” Elife. (2015) Aug 25. doi:10.7554/eLife.06394

Wei Y, Mondal SS, Mouawad R, Wilczynski 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). (2015) May 20;5(7):1503-15. doi:10.1534/g3.115.019166

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.” J Biol Chem. (2015) Jun 5;290(23):14462-75. doi:10.1074/jbc.M114.599993

Kok K, Arnosti DN. “Dynamic reprogramming of chromatin: paradigmatic palimpsests and HES factors.” Front Genet. (2015);6:29. doi:10.3389/fgene.2015.00029

Wei Y, Arnosti DN. “Enhancer trafficking: free throws and three-pointers.” Dev Cell. (2015) Jan 26;32(2):135-7. doi:10.1016/j.devcel.2015.01.006

Elenbaas JS, Mouawad R, Henry RW, Arnosti DN, Payankaulam S. “Role of Drosophila retinoblastoma protein instability element in cell growth and proliferation.” Cell Cycle. (2015);14(4):589-97. doi:10.4161/15384101.2014.991182

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.” J Biol Chem. (2014) Sep 5;289(36):24863-73. doi:10.1074/jbc.M114.586818

Suleimenov Y, Ay A, Samee MA, Dresch JM, Sinha S, Arnosti DN. “Global parameter estimation for thermodynamic models of transcriptional regulation.” Methods..  (2013);62(1): 99-108.

Dresch JM, Thompson MA, Arnosti DN, Chiu C. “TWO-LAYER MATHEMATICAL MODELING OF GENE EXPRESSION: INCORPORATING DNA-LEVEL INFORMATION AND SYSTEM DYNAMICS.” SIAM J Appl Math. (2013) Mar 1;73(2):804-826. doi:10.1137/120887588

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). (2012) Nov;2(11):1459-72. doi:10.1534/g3.112.004424

Raj N, Zhang L, Wei Y, Arnosti DN, Henry RW. “Ubiquitination of retinoblastoma family protein 1 potentiates gene-specific repression function.” J Biol Chem. (2012) Dec 7;287(50):41835-43. doi:10.1074/jbc.M112.422428

Arnosti DN, Ay A. “Boolean modeling of gene regulatory networks: Driesch redux.” Proc Natl Acad Sci U S A. (2012) Nov 6;109(45):18239-40. doi:10.1073/pnas.1215732109

Raj N, Zhang L, Wei Y, Arnosti DN, Henry RW. “Rbf1 degron dysfunction enhances cellular DNA replication.” Cell Cycle. (2012) Oct 15;11(20):3731-8. doi:10.4161/cc.21665

Arnosti DN. “Transcriptional repressors: shutting off gene expression at the source affects developmental dynamics.” Curr Biol. (2011) Oct 25;21(20):R859-60. doi:10.1016/j.cub.2011.09.022