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Volumn 8, Issue 11, 2011, Pages 963-968

The proteomes of transcription factories containing RNA polymerases I, II or III

Author keywords

[No Author keywords available]

Indexed keywords

DNA DIRECTED RNA POLYMERASE; DNA DIRECTED RNA POLYMERASE III; PROTEOME; RIBONUCLEOPROTEIN; RNA POLYMERASE II; TRANSCRIPTION FACTOR;

EID: 80255137474     PISSN: 15487091     EISSN: 15491676     Source Type: Journal    
DOI: 10.1038/nmeth.1705     Document Type: Article
Times cited : (70)

References (29)
  • 1
    • 0142137250 scopus 로고    scopus 로고
    • The eukaryotic transcriptional machinery: Complexities and mechanisms unforeseen
    • DOI 10.1038/nm938
    • Roeder, R.G. The eukaryotic transcriptional machinery: complexities and mechanisms unforeseen. Nat. Med. 9, 1239-1244 (2003). (Pubitemid 37279837)
    • (2003) Nature Medicine , vol.9 , Issue.10 , pp. 1239-1244
    • Roeder, R.G.1
  • 2
    • 48249103199 scopus 로고    scopus 로고
    • Structure of eukaryotic RNA polymerases
    • Cramer, P. et al. Structure of eukaryotic RNA polymerases. Annu. Rev. Biophys. 37, 337-352 (2008).
    • (2008) Annu. Rev. Biophys. , vol.37 , pp. 337-352
    • Cramer, P.1
  • 3
    • 34250363024 scopus 로고    scopus 로고
    • SR Proteins Function in Coupling RNAP II Transcription to Pre-mRNA Splicing
    • DOI 10.1016/j.molcel.2007.05.036, PII S1097276507003607
    • Das, R. et al. SR proteins function in coupling RNAP II transcription to pre-mRNA splicing. Mol. Cell 26, 867-881 (2007). (Pubitemid 46921010)
    • (2007) Molecular Cell , vol.26 , Issue.6 , pp. 867-881
    • Das, R.1    Yu, J.2    Zhang, Z.3    Gygi, M.P.4    Krainer, A.R.5    Gygi, S.P.6    Reed, R.7
  • 4
    • 59649122202 scopus 로고    scopus 로고
    • Molecular architecture of the human pre-mRNA 3′ processing complex
    • Shi, Y. et al. Molecular architecture of the human pre-mRNA 3′ processing complex. Mol. Cell 33, 365-376 (2009).
    • (2009) Mol. Cell , vol.33 , pp. 365-376
    • Shi, Y.1
  • 5
    • 70450222694 scopus 로고    scopus 로고
    • A model for all genomes; The role of transcription factories
    • Cook, P.R. A model for all genomes; the role of transcription factories. J. Mol. Biol. 395, 1-10 (2010).
    • (2010) J. Mol. Biol. , vol.395 , pp. 1-10
    • Cook, P.R.1
  • 7
    • 67649766870 scopus 로고    scopus 로고
    • Transcription factories: Gene expression in unions?
    • Sutherland, H. & Bickmore, W.A. Transcription factories: gene expression in unions? Nat. Rev. Genet. 10, 457-466 (2009).
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 457-466
    • Sutherland, H.1    Bickmore, W.A.2
  • 8
    • 0031813779 scopus 로고    scopus 로고
    • Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei
    • Jackson, D.A., Iborra, F.J., Manders, E.M.M. & Cook, P.R. Numbers and organization of RNA polymerases, nascent transcripts and transcription units in HeLa nuclei. Mol. Biol. Cell 9, 1523-1536 (1998). (Pubitemid 28303494)
    • (1998) Molecular Biology of the Cell , vol.9 , Issue.6 , pp. 1523-1536
    • Jackson, D.A.1    Iborra, F.J.2    Manders, E.M.M.3    Cook, P.R.4
  • 9
    • 0032808150 scopus 로고    scopus 로고
    • Quantitation of RNA polymerase II and its transcription factors in an HeLa cell: Little soluble holoenzyme but significant amounts of polymerases attached to the nuclear substructure
    • Kimura, H., Tao, Y., Roeder, R.G. & Cook, P.R. Quantitation of RNA polymerase II and its transcription factors in an HeLa cell: little soluble holoenzyme but significant amounts of polymerases attached to the nuclear substructure. Mol. Cell. Biol. 19, 5383-5392 (1999). (Pubitemid 29339897)
    • (1999) Molecular and Cellular Biology , vol.19 , Issue.8 , pp. 5383-5392
    • Kimura, H.1    Tao, Y.2    Roeder, R.G.3    Cook, P.R.4
  • 10
    • 0022049377 scopus 로고
    • Transcription occurs at a nucleoskeleton
    • Jackson, D.A. & Cook, P.R. Transcription occurs at a nucleoskeleton. EMBO J. 4, 919-925 (1985).
    • (1985) EMBO J. , vol.4 , pp. 919-925
    • Jackson, D.A.1    Cook, P.R.2
  • 12
    • 47649111278 scopus 로고    scopus 로고
    • RNA polymerase II activity is located on the surface of protein-rich transcription factories
    • DOI 10.1242/jcs.027250
    • Eskiw, C.H., Rapp, A., Carter, D.R.F. & Cook, P.R. RNA polymerase II activity is located on the surface of ~87 nm protein-rich transcription factories. J. Cell Sci. 121, 1999-2007 (2008). (Pubitemid 352015197)
    • (2008) Journal of Cell Science , vol.121 , Issue.12 , pp. 1999-2007
    • Eskiw, C.H.1    Rapp, A.2    Carter, D.R.F.3    Cook, P.R.4
  • 13
    • 33645829296 scopus 로고    scopus 로고
    • Separation of nuclear protein complexes by blue native polyacrylamide gel electrophoresis
    • Novakova, Z., Man, P., Novak, P., Hozak, P. & Hodny, Z. Separation of nuclear protein complexes by blue native polyacrylamide gel electrophoresis. Electrophoresis 2, 1277-1287 (2006).
    • (2006) Electrophoresis , vol.2 , pp. 1277-1287
    • Novakova, Z.1    Man, P.2    Novak, P.3    Hozak, P.4    Hodny, Z.5
  • 14
    • 80255140755 scopus 로고    scopus 로고
    • CPFP-The Oxford Central Proteomics Facility Pipeline
    • Trudgian, D.C. et al. CPFP-The Oxford Central Proteomics Facility Pipeline. Clin. Proteomics 5 (suppl. 1), 94 (2009).
    • (2009) Clin. Proteomics , vol.5 , Issue.SUPPL. 1 , pp. 94
    • Trudgian, D.C.1
  • 15
    • 74049132731 scopus 로고    scopus 로고
    • Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis
    • Griffin, N.M. et al. Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis. Nat. Biotechnol. 28, 83-89 (2010).
    • (2010) Nat. Biotechnol. , vol.28 , pp. 83-89
    • Griffin, N.M.1
  • 16
    • 71849083574 scopus 로고    scopus 로고
    • Cellular dynamics of tRNAs and their genes
    • Hopper, A.K., Pai, D.A. & Engelke, D.R. Cellular dynamics of tRNAs and their genes. FEBS Lett. 584, 310-317 (2010).
    • (2010) FEBS Lett. , vol.584 , pp. 310-317
    • Hopper, A.K.1    Pai, D.A.2    Engelke, D.R.3
  • 17
    • 1642303746 scopus 로고    scopus 로고
    • Molecular cross-talk between the transcription, translation, and nonsense-mediated decay machineries
    • DOI 10.1242/jcs.00933
    • Iborra, F.J., Escargueil, A.E., Kwek, K.Y., Akoulitchev, A. & Cook, P.R. Molecular cross-talk between the transcription, translation, and nonsense-mediated decay machineries. J. Cell Sci. 117, 899-906 (2004). (Pubitemid 38386947)
    • (2004) Journal of Cell Science , vol.117 , Issue.6 , pp. 899-906
    • Iborra, F.J.1    Escargueil, A.E.2    Kwek, K.Y.3    Akoulitchev, A.4    Cook, P.R.5
  • 18
    • 0037083376 scopus 로고    scopus 로고
    • Capturing chromosome conformation
    • DOI 10.1126/science.1067799
    • Dekker, J., Rippe, K., Dekker, M. & Kleckner, N. Capturing chromosome conformation. Science 295, 1306-1311 (2002). (Pubitemid 34157624)
    • (2002) Science , vol.295 , Issue.5558 , pp. 1306-1311
    • Dekker, J.1    Rippe, K.2    Dekker, M.3    Kleckner, N.4
  • 19
    • 0027248178 scopus 로고
    • Interaction between transcription regulatory regions of prolactin chromatin
    • Cullen, K.E., Kladde, M.P. & Seyfred, M.A. Interaction between transcription regulatory regions of prolactin chromatin. Science 261, 203-206 (1993). (Pubitemid 23265395)
    • (1993) Science , vol.261 , Issue.5118 , pp. 203-206
    • Cullen, K.E.1    Kladde, M.P.2    Seyfred, M.A.3
  • 20
    • 77955047663 scopus 로고    scopus 로고
    • Active RNA polymerases: Mobile or immobile molecular machines?
    • Papantonis, A. et al. Active RNA polymerases: mobile or immobile molecular machines? PLoS Biol. 8, e1000419 (2010).
    • (2010) PLoS Biol. , vol.8
    • Papantonis, A.1
  • 21
    • 65349161753 scopus 로고    scopus 로고
    • Nuclear actin and actin-binding proteins in the regulation of transcription and gene expression
    • Zheng, B., Han, M., Bernier, M. & Wen, J.K. Nuclear actin and actin-binding proteins in the regulation of transcription and gene expression. FEBS J. 276, 2669-2685 (2009).
    • (2009) FEBS J. , vol.276 , pp. 2669-2685
    • Zheng, B.1    Han, M.2    Bernier, M.3    Wen, J.K.4
  • 22
    • 75749086867 scopus 로고    scopus 로고
    • Nups take leave of the nuclear envelope to regulate transcription
    • Hou, C. & Corces, V.G. Nups take leave of the nuclear envelope to regulate transcription. Cell 140, 306-308 (2010).
    • (2010) Cell , vol.140 , pp. 306-308
    • Hou, C.1    Corces, V.G.2
  • 23
    • 0035909825 scopus 로고    scopus 로고
    • Electrophoretic characterization of ribosomal subunits and proteins in apoptosis: Specific downregulation of S11 in staurosporine-treated human breast carcinoma cells
    • DOI 10.1021/bi0108397
    • Nadano, D., Aoki, C., Yoshinaka, T., Irie, S. & Sato, T.A. Electrophoretic characterization of ribosomal subunits and protein in apoptosis: specific downregulation of S11 in staurosporine-treated human breast carcinoma cells. Biochemistry 40, 15184-15193 (2001). (Pubitemid 33151933)
    • (2001) Biochemistry , vol.40 , Issue.50 , pp. 15184-15193
    • Nadano, D.1    Aoki, C.2    Yoshinaka, T.3    Irie, S.4    Sato, T.-A.5
  • 24
    • 33750979860 scopus 로고    scopus 로고
    • General framework for developing and evaluating database scoring algorithms using the TANDEM search engine
    • DOI 10.1093/bioinformatics/btl379
    • Maclean, B., Eng, J.K., Beavis, R.C. & McIntosh, M. General framework for developing and evaluating database scoring algorithms using the TANDEM search engine. Bioinformatics 22, 2830-2832 (2006). (Pubitemid 44742409)
    • (2006) Bioinformatics , vol.22 , Issue.22 , pp. 2830-2832
    • MacLean, B.1    Eng, J.K.2    Beavis, R.C.3    McIntosh, M.4
  • 26
    • 0037108887 scopus 로고    scopus 로고
    • Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
    • DOI 10.1021/ac025747h
    • Keller, A., Nesvizhskii, A.I., Kolker, E. & Aebersold, R. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal. Chem. 74, 5383-5392 (2002). (Pubitemid 35215372)
    • (2002) Analytical Chemistry , vol.74 , Issue.20 , pp. 5383-5392
    • Keller, A.1    Nesvizhskii, A.I.2    Kolker, E.3    Aebersold, R.4
  • 27
    • 77949752601 scopus 로고    scopus 로고
    • IProphet: Improved validation of peptide and protein IDs in the trans-proteomic pipeline
    • Poster session at August 16-20, Amsterdam
    • Shteynberg, D. et al. iProphet: Improved validation of peptide and protein IDs in the trans-proteomic pipeline. Poster session at: HUPO 7th Annual World Congress (August 16-20, Amsterdam 2008).
    • (2008) HUPO 7th Annual World Congress
    • Shteynberg, D.1
  • 28
    • 33847630405 scopus 로고    scopus 로고
    • Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
    • DOI 10.1038/nmeth1019, PII NMETH1019
    • Elias, J.E. & Gygi, S.P. Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat. Methods 4, 207-214 (2007). (Pubitemid 46358868)
    • (2007) Nature Methods , vol.4 , Issue.3 , pp. 207-214
    • Elias, J.E.1    Gygi, S.P.2
  • 29
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini, Y. & Hochberg, Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc., B 57, 289-300 (1995).
    • (1995) J. R. Stat. Soc. B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2


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