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Connection

James Goodrich to RNA Polymerase II

This is a "connection" page, showing publications James Goodrich has written about RNA Polymerase II.

 
Connection Strength
 
 
 
4.720
 
  1. Horn AE, Kugel JF, Goodrich JA. Single molecule microscopy reveals mechanistic insight into RNA polymerase II preinitiation complex assembly and transcriptional activity. Nucleic Acids Res. 2016 09 06; 44(15):7132-43.
    View in: PubMed
    Score: 0.429
  2. Abrisch RG, Eidem TM, Yakovchuk P, Kugel JF, Goodrich JA. Infection by Herpes Simplex Virus 1 Causes Near-Complete Loss of RNA Polymerase II Occupancy on the Host Cell Genome. J Virol. 2015 12 16; 90(5):2503-13.
    View in: PubMed
    Score: 0.419
  3. Goodrich JA, Kugel JF. Studying the affinity, kinetic stability, and specificity of RNA/protein interactions: SINE ncRNA/Pol II complexes as a model system. Methods Mol Biol. 2015; 1206:165-78.
    View in: PubMed
    Score: 0.392
  4. Wagner SD, Yakovchuk P, Gilman B, Ponicsan SL, Drullinger LF, Kugel JF, Goodrich JA. RNA polymerase II acts as an RNA-dependent RNA polymerase to extend and destabilize a non-coding RNA. EMBO J. 2013 Mar 20; 32(6):781-90.
    View in: PubMed
    Score: 0.344
  5. Wagner SD, Kugel JF, Goodrich JA. TFIIF facilitates dissociation of RNA polymerase II from noncoding RNAs that lack a repression domain. Mol Cell Biol. 2010 Jan; 30(1):91-7.
    View in: PubMed
    Score: 0.277
  6. Walters RD, Kugel JF, Goodrich JA. InvAluable junk: the cellular impact and function of Alu and B2 RNAs. IUBMB Life. 2009 Aug; 61(8):831-7.
    View in: PubMed
    Score: 0.269
  7. Gilman B, Drullinger LF, Kugel JF, Goodrich JA. TATA-binding protein and transcription factor IIB induce transcript slipping during early transcription by RNA polymerase II. J Biol Chem. 2009 Apr 03; 284(14):9093-8.
    View in: PubMed
    Score: 0.260
  8. Goodrich JA, Kugel JF. Non-coding-RNA regulators of RNA polymerase II transcription. Nat Rev Mol Cell Biol. 2006 Aug; 7(8):612-6.
    View in: PubMed
    Score: 0.216
  9. Weaver JR, Kugel JF, Goodrich JA. The sequence at specific positions in the early transcribed region sets the rate of transcript synthesis by RNA polymerase II in vitro. J Biol Chem. 2005 Dec 02; 280(48):39860-9.
    View in: PubMed
    Score: 0.207
  10. Espinoza CA, Allen TA, Hieb AR, Kugel JF, Goodrich JA. B2 RNA binds directly to RNA polymerase II to repress transcript synthesis. Nat Struct Mol Biol. 2004 Sep; 11(9):822-9.
    View in: PubMed
    Score: 0.191
  11. Kugel JF, Goodrich JA. In vitro studies of the early steps of RNA synthesis by human RNA polymerase II. Methods Enzymol. 2003; 370:687-701.
    View in: PubMed
    Score: 0.171
  12. Kugel JF, Goodrich JA. Translocation after synthesis of a four-nucleotide RNA commits RNA polymerase II to promoter escape. Mol Cell Biol. 2002 Feb; 22(3):762-73.
    View in: PubMed
    Score: 0.160
  13. Ly E, Powell AE, Goodrich JA, Kugel JF. Release of Human TFIIB from Actively Transcribing Complexes Is Triggered upon Synthesis of 7- and 9-nt RNAs. J Mol Biol. 2020 06 26; 432(14):4049-4060.
    View in: PubMed
    Score: 0.142
  14. Ly E, Goodrich JA, Kugel JF. Monitoring transcriptional activity by RNA polymerase II in vitro using single molecule co-localization. Methods. 2019 04 15; 159-160:45-50.
    View in: PubMed
    Score: 0.131
  15. Cardiello JF, Goodrich JA, Kugel JF. Heat Shock Causes a Reversible Increase in RNA Polymerase II Occupancy Downstream of mRNA Genes, Consistent with a Global Loss in Transcriptional Termination. Mol Cell Biol. 2018 09 15; 38(18).
    View in: PubMed
    Score: 0.126
  16. Kugel JF, Goodrich JA. Finding the start site: redefining the human initiator element. Genes Dev. 2017 01 01; 31(1):1-2.
    View in: PubMed
    Score: 0.113
  17. Eidem TM, Kugel JF, Goodrich JA. Noncoding RNAs: Regulators of the Mammalian Transcription Machinery. J Mol Biol. 2016 06 19; 428(12):2652-2659.
    View in: PubMed
    Score: 0.106
  18. Horn AE, Goodrich JA, Kugel JF. Single molecule studies of RNA polymerase II transcription in vitro. Transcription. 2014; 5(1):e27608.
    View in: PubMed
    Score: 0.091
  19. Ponicsan SL, Houel S, Old WM, Ahn NG, Goodrich JA, Kugel JF. The non-coding B2 RNA binds to the DNA cleft and active-site region of RNA polymerase II. J Mol Biol. 2013 Oct 09; 425(19):3625-38.
    View in: PubMed
    Score: 0.086
  20. Kugel JF, Goodrich JA. The regulation of mammalian mRNA transcription by lncRNAs: recent discoveries and current concepts. Epigenomics. 2013 Feb; 5(1):95-102.
    View in: PubMed
    Score: 0.086
  21. Yakovchuk P, Goodrich JA, Kugel JF. B2 RNA represses TFIIH phosphorylation of RNA polymerase II. Transcription. 2011 Jan-Feb; 2(1):45-9.
    View in: PubMed
    Score: 0.074
  22. Goodrich JA, Tjian R. Unexpected roles for core promoter recognition factors in cell-type-specific transcription and gene regulation. Nat Rev Genet. 2010 Aug; 11(8):549-58.
    View in: PubMed
    Score: 0.072
  23. Yakovchuk P, Gilman B, Goodrich JA, Kugel JF. RNA polymerase II and TAFs undergo a slow isomerization after the polymerase is recruited to promoter-bound TFIID. J Mol Biol. 2010 Mar 19; 397(1):57-68.
    View in: PubMed
    Score: 0.070
  24. Yakovchuk P, Goodrich JA, Kugel JF. B2 RNA and Alu RNA repress transcription by disrupting contacts between RNA polymerase II and promoter DNA within assembled complexes. Proc Natl Acad Sci U S A. 2009 Apr 07; 106(14):5569-74.
    View in: PubMed
    Score: 0.066
  25. Mariner PD, Walters RD, Espinoza CA, Drullinger LF, Wagner SD, Kugel JF, Goodrich JA. Human Alu RNA is a modular transacting repressor of mRNA transcription during heat shock. Mol Cell. 2008 Feb 29; 29(4):499-509.
    View in: PubMed
    Score: 0.061
  26. Espinoza CA, Goodrich JA, Kugel JF. Characterization of the structure, function, and mechanism of B2 RNA, an ncRNA repressor of RNA polymerase II transcription. RNA. 2007 Apr; 13(4):583-96.
    View in: PubMed
    Score: 0.057
  27. Hieb AR, Baran S, Goodrich JA, Kugel JF. An 8 nt RNA triggers a rate-limiting shift of RNA polymerase II complexes into elongation. EMBO J. 2006 Jul 12; 25(13):3100-9.
    View in: PubMed
    Score: 0.054
  28. Rivas T, Goodrich JA, Kugel JF. The Herpes Simplex Virus 1 Protein ICP4 Acts as both an Activator and a Repressor of Host Genome Transcription during Infection. Mol Cell Biol. 2021 09 24; 41(10):e0017121.
    View in: PubMed
    Score: 0.039
  29. Allen TA, Von Kaenel S, Goodrich JA, Kugel JF. The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock. Nat Struct Mol Biol. 2004 Sep; 11(9):816-21.
    View in: PubMed
    Score: 0.012
Connection Strength

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