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Selected Publications

Transcriptional Responses to the Environment Group

2007 - present

  1. Core, L.J., Waterfall, J.J., Gilchrist D.A., Fargo, D.C., Kwak, H., Adelman, K., and Lis, J.T. (2012) Defining the status of RNA polymerase at promoters. Cell Rep.; 2 (4):1025-35. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/23062713) ]
  2. Adelman, K & Lis, J.T. (2012) Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans. Nat. Rev. Genet. 13(10):720-731 [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/22986266) ]
  3. Gilchrist D.A. & Adelman, K. (2012) Coupling Polymerase Pausing and Chromatin Landscapes to Precisely Regulate Transcription. Biochim. Biophys. Acta; 1819 (7):700-6. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/22406341) ]
  4. Gilchrist D.A., Fromm, G., dos Santos G., Pham, L., McDaniel I., Burkholder, A., Fargo, D.C., and Adelman, K. (2012) Regulating the Regulators: the Pervasive Effects of Pol II Pausing on Stimulus-responsive Gene Networks. Genes Dev.; 26(9):933-44. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/22549956) ]
  5. Saha, R.N., Wissink, E.M., Bailey, E.R., Zhao, M., Fargo. D.C., Hwang, J.Y., Daigle, K.R., Fenn, J.D., Adelman, K & Dudek, S.M. (2011) Rapid activity-induced transcription of Arc and other IEGs relies on poised RNA polymerase II. Nat. Neurosci.; 14 (7): 848-56. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/21623364) ]
  6. Nechaev S., Adelman K. (2011) Pol II waiting in the starting gates: regulating the transition from transcription initiation into productive elongation. Biochimica et biophysica acta 1809(1):34-35. [Abstract (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=21081187) ]
  7. Gilchrist D.A., Dos Santos G., Fargo D.C., Xie B., Gao Y., Li L., Adelman K. (2010) Pausing of RNA polymerase II disrupts DNA-specified nucleosome organization to enable precise gene regulation. Cell. 143(4):540-551. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/21074046) ]
  8. Bartkowiak B, Liu P, Phatnani HP, Fuda NJ, Cooper JJ, Price DH, Adelman K, Lis JT, Greenleaf AL. (2010) CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes & Development; 24(20):2303-2316. [Abstract (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=20952539) ]
  9. Nechaev S., Fargo D.C., dos Santos G., Liu L., Gao Y. & Adelman K. (2010) Global Analysis of Short RNAs Reveals Widespread Promoter-Proximal Stalling and Arrest of Pol II in Drosophila. Science; 327 (5963): 335-8. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/20007866) ]
  10. Adelman K., Kennedy M.A., Nechaev S., Gilchrist D.A., Muse G.W., Chinenov Y. & Rogatsky I. (2009) Immediate mediators of the inflammatory response are poised for gene activation through RNA polymerase stalling. Proc Natl Acad Sci USA; 106 (43): 18207-12. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/19820169?itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum&ordinalpos=1) ]
  11. Gilchrist D.A, Fargo D. & Adelman K. (2009) Using ChIP-chip and ChIP-seq to study the regulation of gene expression: genome-wide localization studies reveal widespread regulation of transcription elongation. METHODS; 48: 398-408. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/19275938?itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum&ordinalpos=3) ]
  12. Ardehali M.B., Yao J., Adelman K., Fuda N., Petesch S., Webb W.W. & Lis J.T. (2009) Spt6 enhances the elongation rate of RNA polymerase II in vivo. EMBO J.; 28 (8):1067-77. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/19279664?itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum&ordinalpos=1) ]
  13. Gilchrist D.A., Nechaev S., Lee C., Gosh S.K.B, Collins J., Li L., Gilmour D.S. & Adelman K. (2008) NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly. Genes Dev.; 22(14): 1921-33. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/18628398?ordinalpos=4&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum) ]
  14. Nechaev S. & Adelman K. (2008) Promoter-proximal Pol II: when stalling speeds things up. Cell Cycle; 7(11): 1539-1544. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/18469524?ordinalpos=2&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum) ]
  15. Zeitlinger, J., Stark, A., Kellis, M., Hong, J.W., Nechaev, S., Adelman, K., Levine, M., & Young, R.A. (2007) RNA Polymerase Stalling at Developmental Control Genes in the Drosophila Embryo. Nat Genet; 39 (12): 1512-16. [Abstract (http://www.ncbi.nlm.nih.gov/pubmed/17994019) ]
  16. Muse G.W., Gilchrist D.A., Nechaev S., Shah R., Parker J.S., Grissom S.F., Zeitlinger J. & Adelman K. (2007) RNA polymerase is poised for activation across the genome. Nature Genetics 39(12):1507-1511. [Abstract (http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=17994021) ]

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