Items where Subject is "bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein types > enzymes > RNA polymerase"

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Number of items at this level: 68.

B

Bywater, M. J., Poortinga, G., Sanij, E., Hein, N., Peck, A., Cullinane, C., Wall, M., Cluse, L., Drygin, D., Anderes, K., Huser, N., Proffitt, C., Bliesath, J., Haddach, M., Schwaebe, M. K., Ryckman, D. M., Rice, W. G, Schmitt, C., Lowe, Scott W, Johnstone, R. W., Pearson, R. B., McArthur, G. A., Hannan, R. D. (2012) Inhibition of RNA Polymerase I as a Therapeutic Strategy to Promote Cancer-Specific Activation of p53. Cancer Cell, 22 (1). pp. 51-65. ISSN 1535-6108

C

Carroll, J. S., Meyer, C. A., Song, J., Li, W., Geistlinger, T. R., Eeckhoute, J., Brodsky, A. S., Keeton, E. K., Fertuck, K. C., Hall, G. F., Wang, Q., Bekiranov, S., Sementchenko, V., Fox, E. A., Silver, P. A., Gingeras, T. R., Liu, X. S., Brown, M. (2006) Genome-wide analysis of estrogen receptor binding sites. Nature Genetics, 38 (11). pp. 1289-1297. ISSN 1061-4036

Chen, Y. H., Li, H. J., Shi, D. Q., Yuan, L., Liu, J., Sreenivasan, R., Baskar, R., Grossniklaus, U., Yang, W. C. (2007) The central cell plays a critical role in pollen tube guidance in Arabidopsis. Plant Cell, 19 (11). pp. 3563-3577. ISSN 1040-4651

Cheng, X., Zhang, X., Pflugrath, J. W., Studier, F. W. (1994) The structure of bacteriophage T7 lysozyme, a zinc amidase and an inhibitor of T7 RNA polymerase. Proc Natl Acad Sci U S A, 91 (9). pp. 4034-8. ISSN 0027-8424 (Print)

Chong, S. S., Hu, P., Hernandez, N. (2001) Reconstitution of transcription from the human U6 small nuclear RNA promoter with eight recombinant polypeptides and a partially purified RNA polymerase III complex. Journal of Biological Chemistry, 276 (23). pp. 20727-20734. ISSN 0021-9258

Croston, G. E., Kerrigan, L. A., Lira, L. M., Marshak, D. R., Kadonaga, J. T. (1991) Sequence-specific antirepression of histone H1-mediated inhibition of basal RNA polymerase II transcription. Science, 251 (4994). pp. 643-9. ISSN 0036-8075 (Print)0036-8075 (Linking)

D

Danko, C. G., Hah, N., Luo, X., Martins, A. L., Core, L., Lis, J. T., Siepel, A., Kraus, W. L. (2013) Signaling pathways differentially affect RNA polymerase II initiation, pausing, and elongation rate in cells. Mol Cell, 50 (2). pp. 212-22. ISSN 1097-2765

Das, R., Yu, J., Zhang, Z., Gygi, M. P., Krainer, A. R., Gygi, S. P., Reed, R. (2007) SR proteins function in coupling RNAP II transcription to pre-mRNA splicing. Molecular Cell, 26 (6). pp. 867-881. ISSN 1097-2765

Delmore, J. E., Issa, G. C., Lemieux, M. E., Rahl, P. B., Shi, J. W., Jacobs, H. M., Kastritis, E., Gilpatrick, T., Paranal, R. M., Qi, J., Chesi, M., Schinzel, A. C., McKeown, M. R., Heffernan, T. P., Vakoc, C. R., Bergsagel, P.  , Ghobrial, I. M., Richardson, P. G., Young, R. A., Hahn, W. C., Anderson, K. C., Kung, A. L., Bradner, J. E., Mitsiades, C. S. (2011) BET Bromodomain Inhibition as a Therapeutic Strategy to Target c-Myc. Cell, 146 (6). pp. 904-917. ISSN 00928674 (ISSN)

Deng, X., Hiatt, J. B., Nguyen, D. K., Ercan, S., Sturgill, D., Hillier, L. W., Schlesinger, F., Davis, C. A., Reinke, V. J., Gingeras, T. R., Shendure, J., Waterston, R. H., Oliver, B., Lieb, J. D., Disteche, C. M. (2011) Balance of the x restored: evidence for compensatory upregulation of expressed X-linked genes in mammals, Caenorhabditis elegans and Drosophila melanogaster. Nature Genetics, 43 (12). pp. 1179-85. ISSN 10614036 (ISSN)

Denissov, S., Van Driel, M., Voit, R., Hekkelman, M., Hulsen, T., Hernandez, N., Grummt, I., Wehrens, R., Stunnenberg, H. (2007) Identification of novel functional TBP-binding sites and general factor repertoires. Embo Journal, 26 (4). pp. 944-954. ISSN 0261-4189

E

Emili, A., Shales, M., McCracken, S., Xie, W. J., Tucker, P. W., Kobayashi, R., Blencowe, B. J., Ingles, C. J. (2002) Splicing and transcription-associated proteins PSF and p54(nrb)/NonO bind to the RNA polymerase II CTD. RNA, 8 (9). pp. 1102-1111. ISSN 1355-8382

Emran, F., Florens, L., Ma, B., Swanson, S. K., Washburn, M. P., Hernandez, N. (2006) A role for Yin Yang-1 (YY1) in the assembly of snRNA transcription complexes. Gene, 377. pp. 96-108. ISSN 0378-1119 (Print)

F

Ford, E., Strubin, M., Hernandez, N. (1998) The Oct-1 POU domain activates snRNA gene transcription by contacting a region in the SNAPc largest subunit that bears sequence similarities to the Oct-1 coactivator OBF-1. Genes and Development, 12 (22). pp. 3528-40. ISSN 08909369 (ISSN)

Fuda, N. J., Guertin, M. J., Sharma, S., Danko, C. G., Martins, A. L., Siepel, A., Lis, J. T. (2015) GAGA Factor Maintains Nucleosome-Free Regions and Has a Role in RNA Polymerase II Recruitment to Promoters. Plos Genetics, 11 (3). e1005108. ISSN 1553-7390

Futcher, B. (1988) Supercoiling and Transcription or Vice Versa. Trends in Genetics, 4 (10). pp. 271-272. ISSN 0168-9525

G

Garcia, D., Collier, S. A., Byrne, M. E., Martienssen, R. A. (2006) Specification of leaf polarity in Arabidopsis via the trans-acting siRNA pathway. Curr Biol, 16 (9). pp. 933-8. ISSN 0960-9822 (Print)

Gunnery, S., Ma, Y., Mathews, M. B. (1999) Termination sequence requirements vary among genes transcribed by RNA polymerase III. Journal of Molecular Biology, 286 (3). pp. 745-57. ISSN 0022-2836 (Print)

Gunnery, S., Maivali, U., Mathews, M. B. (1997) Translation of an uncapped mRNA involves scanning. Journal of Biological Chemistry, 272 (34). pp. 21642-6. ISSN 0021-9258 (Print)

Gunnery, S., Mathews, M. B. (1995) Functional mRNA can be generated by RNA polymerase III. Mol Cell Biol, 15 (7). pp. 3597-607. ISSN 0270-7306 (Print)

H

Hannon, G. J., Chubb, A., Maroney, P. A., Hannon, G., Altman, S., Nilsen, T. W. (1991) Multiple cis-acting elements are required for RNA polymerase III transcription of the gene encoding H1 RNA, the RNA component of human RNase P. Journal of Biological Chemistry, 266 (34). pp. 22796-22799. ISSN 00219258 (ISSN)

Hein, N., Bywater, M. J., Stanley, K., Verbrugge, I., Cullinane, C., Baker, A., Zuber, H., Rappaport, A., Drygin, D., Huser, N., Bliesath, J., Ryckman, D. M., Rice, W. G., Lowe, S. W., Johnstone, R. W., Pearson, R. B., McArthur, G. A., Hannan, R. D. (2011) Inhibition of RNA Polymerase I Transcription by CX-5461 As a Therapeutic Strategy for the Cancer-Specific Activation of p53 in MLL-Rearranged Acute Myeloid Leukemias. Blood, 118 (21). p. 673. ISSN 0006-4971

Henry, R. W., Ford, E., Mital, R., Mittal, V., Hernandez, N. (1998) Crossing the line between RNA polymerases: transcription of human snRNA genes by RNA polymerases II and III. Cold Spring Harbor Symposia on Quantitative Biology, 63. pp. 111-20. ISSN 00917451 (ISSN)

Henry, R. W., Mittal, V., Ma, B., Kobayashi, R., Hernandez, N. (1998) SNAP19 mediates the assembly of a functional core promoter complex (SNAPc) shared by RNA polymerases II and III. Genes and Development, 12 (17). pp. 2664-72. ISSN 08909369 (ISSN)

Henry, R. W., Sadowski, C. L., Kobayashi, R., Hernandez, N. (1995) A TBP-TAF complex required for transcription of human snRNA genes by RNA polymerase II and III. Nature, 374 (6523). pp. 653-6. ISSN 0028-0836 (Print)

Hernandez, N., Lobo, S., Lister, J., Ifill, S., Ratnasabapathy, R., Sheldon, M., Johal, L. (1990) Transcription of the human U2 and U6 RNA genes. Mol Biol Rep, 14 (2-3). p. 167. ISSN 0301-4851 (Print)0301-4851 (Linking)

Hernandez, N., Sadowski, C. L., Henry, R. W., Mital, R., Lobo, S. (1994) Rna-Polymerase-Ii and Rna-Polymerase-Iii Transcription of the Human Snrna Genes. Journal of Cellular Biochemistry. p. 5. ISSN 0730-2312

Herr, W. (1991) Regulation of Eukaryotic Rna Polymerase Ii Transcription by Sequence-Specific DNA-Binding Proteins. In: The hormonal control of gene transcription. Molecular aspects of cellular regulation, 6 . Elsevier Science Publishers, Amsterdam, pp. 25-26. ISBN 0444802258

Hu, P., Samudre, K., Wu, S., Sun, Y., Hernandez, N. (2004) CK2 phosphorylation of Bdp1 executes cell cycle-specific RNA polymerase III transcription repression. Mol Cell, 16 (1). pp. 81-92. ISSN 1097-2765 (Print)

Hu, P., Wu, S., Hernandez, N. (2003) A minimal RNA polymerase III transcription system from human cells reveals positive and negative regulatory roles for CK2. Molecular Cell, 12 (3). pp. 699-709. ISSN 1097-2765

Hu, P., Wu, S., Hernandez, N. (2004) A role for beta-actin in RNA polymerase III transcription. Genes Dev, 18 (24). pp. 3010-5. ISSN 0890-9369 (Print)

Hu, P., Wu, S., Sun, Y. L., Yuan, C. C., Kobayashi, R., Myers, M. P., Hernandez, N. (2002) Characterization of human RNA polymerase III identifies orthologues for Saccharomyces cerevisiae RNA polymerase III subunits. Molecular and Cellular Biology, 22 (22). pp. 8044-8055. ISSN 0270-7306

Hu, P., Wu, S., Sun, Y. L., Yuan, C. C., Kobayashi, R., Myers, M. P., Hernandez, N. (2003) A minimal RNA polymerase III transcription system from higher eucaryotic cells. Faseb Journal, 17 (5). A1185-A1185. ISSN 0892-6638

J

Johnston, I. M., Allison, S. J., Morton, J. P., Schramm, L., Scott, P. H., White, R. J. (2002) CK2 forms a stable complex with TFIII3 and activates RNA polymerase III transcription in human cells. Molecular and Cellular Biology, 22 (11). pp. 3757-3768. ISSN 0270-7306

K

Karginov, F. V., Cheloufi, S., Chong, M. M. W., Stark, A., Smith, A. D., Hannon, G. J. (2010) Diverse Endonucleolytic Cleavage Sites in the Mammalian Transcriptome Depend upon MicroRNAs, Drosha, and Additional Nucleases. Molecular Cell, 38 (6). pp. 781-788. ISSN 1097-2765

Kato, H., Goto, D. B., Martienssen, R. A., Urano, T., Furukawa, K., Murakami, Y. (2005) RNA polymerase II is required for RNAi-dependent heterochromatin assembly. Science, 309 (5733). pp. 467-469. ISSN 00368075 (ISSN)

L

Lobo, S. M., Hernandez, N. (1989) A 7 bp mutation converts a human RNA polymerase II snRNA promoter into an RNA polymerase III promoter. Cell, 58 (1). pp. 55-67. ISSN 1097-4172

Lobo, S. M., Ifill, S., Hernandez, N. (1990) cis-acting elements required for RNA polymerase II and III transcription in the human U2 and U6 snRNA promoters. Nucleic Acids Res, 18 (10). pp. 2891-9. ISSN 0305-1048 (Print)0305-1048 (Linking)

Lobo, S. M., Lister, J., Sullivan, M. L., Hernandez, N. (1991) The cloned RNA polymerase II transcription factor IID selects RNA polymerase III to transcribe the human U6 gene in vitro. Genes Dev, 5 (8). pp. 1477-89. ISSN 0890-9369 (Print)0890-9369 (Linking)

Lobo, S. M., Tanaka, M., Sullivan, M. L., Hernandez, N. (1992) A Tbp Complex Essential for Transcription from Tata-Less but Not Tata-Containing Rna Polymerase-Iii Promoters Is Part of the Tfiiib Fraction. Cell, 71 (6). pp. 1029-1040. ISSN 0092-8674

M

Maroney, P. A., Hannon, G. J., Nilsen, T. W. (1989) Accurate and efficient RNA polymerase III transcription in a cell-free extract prepared from Ascaris suum embryos. Molecular and Biochemical Parasitology, 35 (3). pp. 277-283. ISSN 01666851

Mertens, C., Hofmann, I., Wang, Z. X., Teichmann, M., Chong, S. S., Schnolzer, M., Franke, W. W. (2001) Nuclear particles containing RNA polymerase III complexes associated with the junctional plaque protein plakophilin 2. Proceedings of the National Academy of Sciences of the United States of America, 98 (14). pp. 7795-7800. ISSN 0027-8424

Mital, R., Kobayashi, R., Hernandez, N. (1996) RNA polymerase III transcription from the human U6 and adenovirus type 2 VAI promoters has different requirements for human BRF, a subunit of human TFIIIB. Molecular and Cellular Biology, 16 (12). pp. 7031-42. ISSN 0270-7306

Mittal, V., Ma, B., Hernandez, N. (1999) SNAP(c): a core promoter factor with a built-in DNA-binding damper that is deactivated by the Oct-1 POU domain. Genes & Development, 13 (14). pp. 1807-21. ISSN 0890-9369

P

Pessler, F., Hernandez, N. (1998) The HIV-1 inducer of short transcripts activates the synthesis of 5,6-dichloro-1-beta-D-benzimidazole-resistant short transcripts in vitro. Journal of Biological Chemistry, 273 (9). pp. 5375-84. ISSN 0021-9258 (Print)

R

Revyakin, A., Allemand, J. F., Croquette, V., Ebright, R. H., Strick, T. R. (2003) Single-molecule DNA nanomanipulation: Detection of promoter-unwinding events by RNA polymerase. In: Rna Polymerases and Associated Factors, Part C. Methods in Enzymology, 370 . Academic Press Inc, San Diego, pp. 577-598. ISBN 0076-6879

Revyakin, A., Ebright, R. H., Strick, T. R. (2004) Promoter unwinding and promoter clearance by RNA polymerase: Detection by single-molecule DNA nanomanipulation. Proceedings of the National Academy of Sciences of the United States of America, 101 (14). pp. 4776-4780. ISSN 0027-8424

Revyakin, A., Liu, C., Ebright, R. H., Strick, T. R. (2006) Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching. Science, 314 (5802). pp. 1139-1143. ISSN 00368075

Revyakin, A. G., Ebright, R. H., Strick, T. R. (2003) Promoter melting by RNA polymerase: Detection and analysis by single-molecule DNA nanomanipulation. Biophysical Journal, 84 (2). 300A-300A. ISSN 0006-3495

Revyakin, A. G., Strick, T. R., Ebright, R. H. (2002) Promoter melting by RNA polymerase: Detection and analysis by single-molecule DNA nanomanipulation. Biophysical Journal, 82 (1). 115A-115A. ISSN 0006-3495

S

Sadowski, C. L., Henry, R. W., Kobayashi, R., Hernandez, N. (1996) The SNAP45 subunit of the small nuclear RNA (snRNA) activating protein complex is required for RNA polymerase II and III snRNA gene transcription and interacts with the TATA box binding protein. Proceedings of the National Academy of Sciences, 93 (9). pp. 4289-93. ISSN 0027-8424 (Print)

Schramm, L., Hernandez, N. (2002) Recruitment of RNA polymerase III to its target promoters. Genes & Development, 16 (20). pp. 2593-2620. ISSN 0890-9369

Schramm, L., Pendergrast, P. S., Sun, Y. L., Hernandez, N. (2000) Different human TFIIIB activities direct RNA polymerase III transcription from TATA-containing and TATA-less promoters. Genes & Development, 14 (20). pp. 2650-2663. ISSN 0890-9369

Sepehri, S., Hernandez, N. (1997) The largest subunit of human RNA polymerase III is closely related to the largest subunit of yeast and trypanosome RNA polymerase III. Genome Research, 7 (10). pp. 1006-19. ISSN 1088-9051

Shaw, S. D., Chakrabarti, S., Ghosh, G., Krainer, A. R. (2007) Deletion of the N-terminus of SF2/ASF permits RS-domain-independent pre-mRNA splicing. PLoS ONE, 2 (9). e854. ISSN 1932-6203 (Electronic)

Spector, D. L., Landon, S., O'Keefe, R. T. (1993) Organization of RNA polymerase II transcription and pre-mRNA splicing within the mammalian cell nucleus. Biochemical Society Transactions, 21 (4). pp. 918-920. ISSN 03005127 (ISSN)

Squires, C., Krainer, A., Barry, G., Shen, W. F., Squires, C. L. (1981) Nucleotide sequence at the end of the gene for the RNA polymerase beta' subunit (rpoC). Nucleic Acids Research, 9 (24). pp. 6827-40. ISSN 0305-1048 (Print)0305-1048

Stegmeier, F., Hu, G., Rickles, R. J., Hannon, G. J., Elledge, S. J. (2005) A lentiviral microRNA-based system for single-copy polymerase II-regulated RNA interference in mammalian cells. Proceedings of the National Academy of Sciences of the United States of America, 102 (37). pp. 13212-13217. ISSN 0027-8424

T

Tanaka, M., Grossniklaus, U., Herr, W., Hernandez, N. (1988) Activation of the U2 snRNA promoter by the octamer motif defines a new class of RNA polymerase II enhancer elements. Genes Dev, 2 (12B). pp. 1764-78. ISSN 0890-9369

Tansey, W. P. (2001) Transcriptional activation: risky business. Genes & Development, 15 (9). pp. 1045-1050. ISSN 0890-9369

Taylor, D. R., Mathews, M. B. (1993) Transcription by SP6 RNA polymerase exhibits an ATP dependence that is influenced by promoter topology. Nucleic Acids Res, 21 (8). pp. 1927-33. ISSN 0305-1048 (Print)

V

Vaughn, M. W., Martienssen, R. A. (2005) Finding the right template: RNA Pol IV, a plant-specific RNA polymerase. Mol Cell, 17 (6). pp. 754-6. ISSN 1097-2765 (Print)

W

Waga, S., Stillman, B. (1994) Anatomy of a DNA replication fork revealed by reconstitution of SV40 DNA replication in vitro. Nature, 369 (6477). pp. 207-12. ISSN 0028-0836 (Print)

Wong, M. W., Henry, R. W., Ma, B., Kobayashi, R., Klages, N., Matthias, P., Strubin, M., Hernandez, N. (1998) The large subunit of basal transcription factor SNAPc is a Myb domain protein that interacts with Oct-1. Molecular and Cellular Biology, 18 (1). pp. 368-77. ISSN 0270-7306 (Print)

Y

Yin, Hong, Wang, Michelle D., Svoboda, Karel, Landick, Robert, Block, Steven M., Gelles, Jeff (1995) Transcription against an applied force. Science, 270 (5242). pp. 1653-7. ISSN 0036-8075

Yuan, C. C., Zhao, X., Florens, L., Swanson, S. K., Washburn, M. P., Hernandez, N. (2007) CHD8 associates with human Staf and contributes to efficient U6 RNA polymerase III transcription. Mol Cell Biol, 27 (24). pp. 8729-8738. ISSN 0270-7306 (Print)

Z

Zhang, M. Q. (1998) A discrimination study of human core-promoters. Pacific Symposium on Biocomputing. pp. 240-51.

Zhao, X. M., Schramm, L., Hernandez, N., Herr, W. (2003) A shared surface of TBP directs RNA polymerase II and III transcription via association with different TFIIB family members. Molecular Cell, 11 (1). pp. 151-161. ISSN 1097-2765

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