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profileKaren Adelman, Ph.D.

TitleProfessor of Biological Chemistry and Molecular Pharmacology
InstitutionHarvard Medical School
DepartmentBiological Chemistry & Molecular Pharmacology
AddressHarvard Medical School
LHRRB, Room 201a
45 Shattuck St
Boston MA 02115
Phone617/432-5272
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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Meers MP, Adelman K, Duronio RJ, Strahl BD, McKay DJ, Matera AG. Transcription start site profiling uncovers divergent transcription and enhancer-associated RNAs in Drosophila melanogaster. BMC Genomics. 2018 02 21; 19(1):157. PMID: 29466941.
    View in: PubMed
  2. Henriques T, Scruggs BS, Inouye MO, Muse GW, Williams LH, Burkholder AB, Lavender CA, Fargo DC, Adelman K. Widespread transcriptional pausing and elongation control at enhancers. Genes Dev. 2018 Jan 01; 32(1):26-41. PMID: 29378787.
    View in: PubMed
  3. Pai AA, Henriques T, McCue K, Burkholder A, Adelman K, Burge CB. The kinetics of pre-mRNA splicing in the Drosophila genome and the influence of gene architecture. Elife. 2017 12 27; 6. PMID: 29280736.
    View in: PubMed
  4. Urban J, Kuzu G, Bowman S, Scruggs B, Henriques T, Kingston R, Adelman K, Tolstorukov M, Larschan E. Enhanced chromatin accessibility of the dosage compensated Drosophila male X-chromosome requires the CLAMP zinc finger protein. PLoS One. 2017; 12(10):e0186855. PMID: 29077765.
    View in: PubMed
  5. Cinghu S, Yang P, Kosak JP, Conway AE, Kumar D, Oldfield AJ, Adelman K, Jothi R. Intragenic Enhancers Attenuate Host Gene Expression. Mol Cell. 2017 Oct 05; 68(1):104-117.e6. PMID: 28985501.
    View in: PubMed
  6. Lavender CA, Shapiro AJ, Burkholder AB, Bennett BD, Adelman K, Fargo DC. ORIO (Online Resource for Integrative Omics): a web-based platform for rapid integration of next generation sequencing data. Nucleic Acids Res. 2017 Jun 02; 45(10):5678-5690. PMID: 28402545.
    View in: PubMed
  7. Dorighi KM, Swigut T, Henriques T, Bhanu NV, Scruggs BS, Nady N, Still CD, Garcia BA, Adelman K, Wysocka J. Mll3 and Mll4 Facilitate Enhancer RNA Synthesis and Transcription from Promoters Independently of H3K4 Monomethylation. Mol Cell. 2017 May 18; 66(4):568-576.e4. PMID: 28483418.
    View in: PubMed
  8. Meers MP, Henriques T, Lavender CA, McKay DJ, Strahl BD, Duronio RJ, Adelman K, Matera AG. Histone gene replacement reveals a post-transcriptional role for H3K36 in maintaining metazoan transcriptome fidelity. Elife. 2017 03 27; 6. PMID: 28346137.
    View in: PubMed
  9. Adelman K, Egan E. Non-coding RNA: More uses for genomic junk. Nature. 2017 03 08; 543(7644):183-185. PMID: 28277509.
    View in: PubMed
  10. Scruggs BS, Gilchrist DA, Nechaev S, Muse GW, Burkholder A, Fargo DC, Adelman K. Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin. Mol Cell. 2015 Jun 18; 58(6):1101-12. PMID: 26028540; PMCID: PMC4475495.
  11. Williams LH, Fromm G, Gokey NG, Henriques T, Muse GW, Burkholder A, Fargo DC, Hu G, Adelman K. Pausing of RNA polymerase II regulates mammalian developmental potential through control of signaling networks. Mol Cell. 2015 Apr 16; 58(2):311-322. PMID: 25773599; PMCID: PMC4402150.
  12. Scruggs BS, Adelman K. The Importance of Controlling Transcription Elongation at Coding and Noncoding RNA Loci. Cold Spring Harb Symp Quant Biol. 2015; 80:33-44. PMID: 27325707.
    View in: PubMed
  13. Rogatsky I, Adelman K. Preparing the first responders: building the inflammatory transcriptome from the ground up. Mol Cell. 2014 Apr 24; 54(2):245-54. PMID: 24766888; PMCID: PMC4041192.
  14. Schröder S, Herker E, Itzen F, He D, Thomas S, Gilchrist DA, Kaehlcke K, Cho S, Pollard KS, Capra JA, Schnölzer M, Cole PA, Geyer M, Bruneau BG, Adelman K, Ott M. Acetylation of RNA polymerase II regulates growth-factor-induced gene transcription in mammalian cells. Mol Cell. 2013 Nov 07; 52(3):314-24. PMID: 24207025; PMCID: PMC3936344.
  15. Henriques T, Gilchrist DA, Nechaev S, Bern M, Muse GW, Burkholder A, Fargo DC, Adelman K. Stable pausing by RNA polymerase II provides an opportunity to target and integrate regulatory signals. Mol Cell. 2013 Nov 21; 52(4):517-28. PMID: 24184211; PMCID: PMC3845087.
  16. Gupte R, Muse GW, Chinenov Y, Adelman K, Rogatsky I. Glucocorticoid receptor represses proinflammatory genes at distinct steps of the transcription cycle. Proc Natl Acad Sci U S A. 2013 Sep 03; 110(36):14616-21. PMID: 23950223; PMCID: PMC3767553.
  17. Fromm G, Gilchrist DA, Adelman K. SnapShot: Transcription regulation: pausing. Cell. 2013 May 09; 153(4):930-930.e1. PMID: 23663787.
    View in: PubMed
  18. Henriques T, Adelman K. Catching the waves: following the leading edge of elongating RNA polymerase II. Mol Cell. 2013 Apr 25; 50(2):159-60. PMID: 23622514; PMCID: PMC3676273.
  19. Core LJ, Waterfall JJ, Gilchrist DA, Fargo DC, Kwak H, Adelman K, Lis JT. Defining the status of RNA polymerase at promoters. Cell Rep. 2012 Oct 25; 2(4):1025-35. PMID: 23062713; PMCID: PMC3483431.
  20. Adelman K, Lis JT. Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans. Nat Rev Genet. 2012 Oct; 13(10):720-31. PMID: 22986266; PMCID: PMC3552498.
  21. Gilchrist DA, Fromm G, dos Santos G, Pham LN, McDaniel IE, Burkholder A, Fargo DC, Adelman K. Regulating the regulators: the pervasive effects of Pol II pausing on stimulus-responsive gene networks. Genes Dev. 2012 May 01; 26(9):933-44. PMID: 22549956; PMCID: PMC3347791.
  22. Gilchrist DA, Adelman K. Coupling polymerase pausing and chromatin landscapes for precise regulation of transcription. Biochim Biophys Acta. 2012 Jul; 1819(7):700-6. PMID: 22406341; PMCID: PMC3371112.
  23. Saha RN, Wissink EM, Bailey ER, Zhao M, Fargo DC, Hwang JY, Daigle KR, Fenn JD, Adelman K, Dudek SM. Rapid activity-induced transcription of Arc and other IEGs relies on poised RNA polymerase II. Nat Neurosci. 2011 May 29; 14(7):848-56. PMID: 21623364; PMCID: PMC3125443.
  24. Nechaev S, Adelman K. Pol II waiting in the starting gates: Regulating the transition from transcription initiation into productive elongation. Biochim Biophys Acta. 2011 Jan; 1809(1):34-45. PMID: 21081187; PMCID: PMC3021596.
  25. Gilchrist DA, Dos Santos G, Fargo DC, Xie B, Gao Y, Li L, Adelman K. Pausing of RNA polymerase II disrupts DNA-specified nucleosome organization to enable precise gene regulation. Cell. 2010 Nov 12; 143(4):540-51. PMID: 21074046; PMCID: PMC2991113.
  26. Bartkowiak B, Liu P, Phatnani HP, Fuda NJ, Cooper JJ, Price DH, Adelman K, Lis JT, Greenleaf AL. CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes Dev. 2010 Oct 15; 24(20):2303-16. PMID: 20952539; PMCID: PMC2956209.
  27. Gilchrist DA, Adelman K. Moonshine illuminates a developmental role for regulated transcription elongation. Dev Cell. 2010 Jul 20; 19(1):9-10. PMID: 20643345; PMCID: PMC2920456.
  28. Fromm G, Adelman K. Taking MLL through the MudPIT: identification of novel complexes that bring together MLL-fusion proteins and transcription elongation factors. Mol Cell. 2010 Feb 26; 37(4):449-50. PMID: 20188661.
    View in: PubMed
  29. Adelman K, Rogatsky I. RNA polymerase II stalling mediates cytokine gene expression. Cell Cycle. 2010 Feb 15; 9(4):630-1. PMID: 20107307.
    View in: PubMed
  30. Nechaev S, Fargo DC, dos Santos G, Liu L, Gao Y, Adelman K. Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila. Science. 2010 Jan 15; 327(5963):335-8. PMID: 20007866; PMCID: PMC3435875.
  31. Adelman K, Kennedy MA, Nechaev S, Gilchrist DA, Muse GW, Chinenov Y, Rogatsky I. Immediate mediators of the inflammatory response are poised for gene activation through RNA polymerase II stalling. Proc Natl Acad Sci U S A. 2009 Oct 27; 106(43):18207-12. PMID: 19820169; PMCID: PMC2775335.
  32. Ardehali MB, Yao J, Adelman K, Fuda NJ, Petesch SJ, Webb WW, Lis JT. Spt6 enhances the elongation rate of RNA polymerase II in vivo. EMBO J. 2009 Apr 22; 28(8):1067-77. PMID: 19279664; PMCID: PMC2683705.
  33. Gilchrist DA, Fargo DC, Adelman K. Using ChIP-chip and ChIP-seq to study the regulation of gene expression: genome-wide localization studies reveal widespread regulation of transcription elongation. Methods. 2009 Aug; 48(4):398-408. PMID: 19275938; PMCID: PMC3431615.
  34. Gilchrist DA, Nechaev S, Lee C, Ghosh SK, Collins JB, Li L, Gilmour DS, Adelman K. NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly. Genes Dev. 2008 Jul 15; 22(14):1921-33. PMID: 18628398; PMCID: PMC2492738.
  35. Nechaev S, Adelman K. Promoter-proximal Pol II: when stalling speeds things up. Cell Cycle. 2008 Jun 01; 7(11):1539-44. PMID: 18469524.
    View in: PubMed
  36. Zeitlinger J, Stark A, Kellis M, Hong JW, Nechaev S, Adelman K, Levine M, Young RA. RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet. 2007 Dec; 39(12):1512-6. PMID: 17994019; PMCID: PMC2824921.
  37. Muse GW, Gilchrist DA, Nechaev S, Shah R, Parker JS, Grissom SF, Zeitlinger J, Adelman K. RNA polymerase is poised for activation across the genome. Nat Genet. 2007 Dec; 39(12):1507-11. PMID: 17994021; PMCID: PMC2365887.
  38. Adelman K, Wei W, Ardehali MB, Werner J, Zhu B, Reinberg D, Lis JT. Drosophila Paf1 modulates chromatin structure at actively transcribed genes. Mol Cell Biol. 2006 Jan; 26(1):250-60. PMID: 16354696; PMCID: PMC1317635.
  39. Adelman K, Marr MT, Werner J, Saunders A, Ni Z, Andrulis ED, Lis JT. Efficient release from promoter-proximal stall sites requires transcript cleavage factor TFIIS. Mol Cell. 2005 Jan 07; 17(1):103-12. PMID: 15629721.
    View in: PubMed
  40. Adelman K, Yuzenkova J, La Porta A, Zenkin N, Lee J, Lis JT, Borukhov S, Wang MD, Severinov K. Molecular mechanism of transcription inhibition by peptide antibiotic Microcin J25. Mol Cell. 2004 Jun 18; 14(6):753-62. PMID: 15200953.
    View in: PubMed
  41. Fan X, Shi H, Adelman K, Lis JT. Probing TBP interactions in transcription initiation and reinitiation with RNA aptamers that act in distinct modes. Proc Natl Acad Sci U S A. 2004 May 04; 101(18):6934-9. PMID: 15103022; PMCID: PMC406445.
  42. Simeonov MF, Bieber Urbauer RJ, Gilmore JM, Adelman K, Brody EN, Niedziela-Majka A, Minakhin L, Heyduk T, Urbauer JL. Characterization of the interactions between the bacteriophage T4 AsiA protein and RNA polymerase. Biochemistry. 2003 Jul 01; 42(25):7717-26. PMID: 12820881.
    View in: PubMed
  43. Minakhin L, Niedziela-Majka A, Kuznedelov K, Adelman K, Urbauer JL, Heyduk T, Severinov K. Interaction of T4 AsiA with its target sites in the RNA polymerase sigma70 subunit leads to distinct and opposite effects on transcription. J Mol Biol. 2003 Feb 21; 326(3):679-90. PMID: 12581632.
    View in: PubMed
  44. Adelman K, La Porta A, Santangelo TJ, Lis JT, Roberts JW, Wang MD. Single molecule analysis of RNA polymerase elongation reveals uniform kinetic behavior. Proc Natl Acad Sci U S A. 2002 Oct 15; 99(21):13538-43. PMID: 12370445; PMCID: PMC129709.
  45. Adelman K, Lis JT. How does Pol II overcome the nucleosome barrier? Mol Cell. 2002 Mar; 9(3):451-2. PMID: 11931751.
    View in: PubMed
  46. Urbauer JL, Simeonov MF, Urbauer RJ, Adelman K, Gilmore JM, Brody EN. Solution structure and stability of the anti-sigma factor AsiA: implications for novel functions. Proc Natl Acad Sci U S A. 2002 Feb 19; 99(4):1831-5. PMID: 11830637; PMCID: PMC122279.
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