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For: Sastry SS, Ross BM. Nuclease activity of T7 RNA polymerase and the heterogeneity of transcription elongation complexes. J Biol Chem 1997;272:8644-52. [PMID: 9079696 DOI: 10.1074/jbc.272.13.8644] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]  Open
Number Cited by Other Article(s)
1
Purhonen J, Hofer A, Kallijärvi J. Quantification of all 12 canonical ribonucleotides by real-time fluorogenic in vitro transcription. Nucleic Acids Res 2024;52:e6. [PMID: 38008466 PMCID: PMC10783517 DOI: 10.1093/nar/gkad1091] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2023] [Revised: 10/17/2023] [Accepted: 10/30/2023] [Indexed: 11/28/2023]  Open
2
McKinley LN, Kern RG, Assmann SM, Bevilacqua PC. Flanking Sequence Cotranscriptionally Regulates Twister Ribozyme Activity. Biochemistry 2024;63:53-68. [PMID: 38134329 DOI: 10.1021/acs.biochem.3c00506] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2023]
3
Chen L, Liang J. A proximity ligation assay (PLA) based sensing platform for the ultrasensitive detection of P53 protein-specific SUMOylation. Process Biochem 2022. [DOI: 10.1016/j.procbio.2021.11.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
4
Passalacqua LFM, Dingilian AI, Lupták A. Single-pass transcription by T7 RNA polymerase. RNA (NEW YORK, N.Y.) 2020;26:2062-2071. [PMID: 32958559 PMCID: PMC7668259 DOI: 10.1261/rna.076778.120] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/12/2020] [Accepted: 09/04/2020] [Indexed: 06/11/2023]
5
Aufdembrink LM, Khan P, Gaut NJ, Adamala KP, Engelhart AE. Highly specific, multiplexed isothermal pathogen detection with fluorescent aptamer readout. RNA (NEW YORK, N.Y.) 2020;26:1283-1290. [PMID: 32482894 PMCID: PMC7430665 DOI: 10.1261/rna.075192.120] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Accepted: 05/26/2020] [Indexed: 06/11/2023]
6
Huang Z, Lin CY, Jaremko W, Niu L. HPLC purification of RNA aptamers up to 59 nucleotides with single-nucleotide resolution. Methods Mol Biol 2015;1297:83-93. [PMID: 25895997 DOI: 10.1007/978-1-4939-2562-9_6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
7
Jung HI, Yan J, Zhai Z, Vatamaniuk OK. Gene functional analysis using protoplast transient assays. Methods Mol Biol 2015;1284:433-452. [PMID: 25757786 DOI: 10.1007/978-1-4939-2444-8_22] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
8
Lin CY, Huang Z, Jaremko W, Niu L. High-performance liquid chromatography purification of chemically modified RNA aptamers. Anal Biochem 2013;449:106-8. [PMID: 24373999 DOI: 10.1016/j.ab.2013.12.022] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2013] [Revised: 12/11/2013] [Accepted: 12/16/2013] [Indexed: 12/16/2022]
9
Höfer K, Langejürgen LV, Jäschke A. Universal aptamer-based real-time monitoring of enzymatic RNA synthesis. J Am Chem Soc 2013;135:13692-4. [PMID: 23991672 DOI: 10.1021/ja407142f] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
10
Enhanced transcription rates in membrane-free protocells formed by coacervation of cell lysate. Proc Natl Acad Sci U S A 2013;110:11692-7. [PMID: 23818642 DOI: 10.1073/pnas.1222321110] [Citation(s) in RCA: 263] [Impact Index Per Article: 21.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
11
Calviello L, Stano P, Mavelli F, Luisi PL, Marangoni R. Quasi-cellular systems: stochastic simulation analysis at nanoscale range. BMC Bioinformatics 2013;14 Suppl 7:S7. [PMID: 23815522 PMCID: PMC3633058 DOI: 10.1186/1471-2105-14-s7-s7] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]  Open
12
Huang Z, Jayaseelan S, Hebert J, Seo H, Niu L. Single-nucleotide resolution of RNAs up to 59 nucleotides by high-performance liquid chromatography. Anal Biochem 2013;435:35-43. [PMID: 23274387 PMCID: PMC5577504 DOI: 10.1016/j.ab.2012.12.011] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2012] [Revised: 12/11/2012] [Accepted: 12/13/2012] [Indexed: 12/27/2022]
13
Pardi N, Muramatsu H, Weissman D, Karikó K. In vitro transcription of long RNA containing modified nucleosides. Methods Mol Biol 2013;969:29-42. [PMID: 23296925 DOI: 10.1007/978-1-62703-260-5_2] [Citation(s) in RCA: 132] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
14
Finan K, Torella JP, Kapanidis AN, Cook PR. T7 RNA polymerase functions in vitro without clustering. PLoS One 2012;7:e40207. [PMID: 22768341 PMCID: PMC3388079 DOI: 10.1371/journal.pone.0040207] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2012] [Accepted: 06/06/2012] [Indexed: 11/18/2022]  Open
15
Stögbauer T, Windhager L, Zimmer R, Rädler JO. Experiment and mathematical modeling of gene expression dynamics in a cell-free system. Integr Biol (Camb) 2012;4:494-501. [PMID: 22481223 DOI: 10.1039/c2ib00102k] [Citation(s) in RCA: 63] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
16
Retraction for Lipardi and Paterson, "Identification of an RNA-dependent RNA polymerase in Drosophila involved in RNAi and transposon suppression". Proc Natl Acad Sci U S A 2011. [PMID: 21821790 DOI: 10.1073/pnas.1111383108] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
17
Jung HI, Zhai Z, Vatamaniuk OK. Direct transfer of synthetic double-stranded RNA into protoplasts of Arabidopsis thaliana. Methods Mol Biol 2011;744:109-27. [PMID: 21533689 DOI: 10.1007/978-1-61779-123-9_8] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
18
Park C, Kwon EY, Shin NY, Choi SM, Kim SH, Park SH, Lee DG, Choi JH, Yoo JH. Evaluation of nucleic acid sequence based amplification using fluorescence resonance energy transfer (FRET-NASBA) in quantitative detection of Aspergillus 18S rRNA. Med Mycol 2010;49:73-9. [PMID: 20718604 DOI: 10.3109/13693786.2010.507604] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
19
Yang YM, Barankiewicz TJ, He M, Taussig MJ, Chen SS. Selection of antigenic markers on a GFP-Cκ fusion scaffold with high sensitivity by eukaryotic ribosome display. Biochem Biophys Res Commun 2007;359:251-7. [PMID: 17537405 DOI: 10.1016/j.bbrc.2007.05.083] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2007] [Accepted: 05/10/2007] [Indexed: 11/22/2022]
20
Ma C, Lyons-Weiler M, Liang W, LaFramboise W, Gilbertson JR, Becich MJ, Monzon FA. In vitro transcription amplification and labeling methods contribute to the variability of gene expression profiling with DNA microarrays. J Mol Diagn 2006;8:183-92. [PMID: 16645204 PMCID: PMC1867595 DOI: 10.2353/jmoldx.2006.050077] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
21
Poole AM, Logan DT. Modern mRNA proofreading and repair: clues that the last universal common ancestor possessed an RNA genome? Mol Biol Evol 2005;22:1444-55. [PMID: 15774424 PMCID: PMC7107533 DOI: 10.1093/molbev/msi132] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]  Open
22
Huard S, Autexier C. Human telomerase catalyzes nucleolytic primer cleavage. Nucleic Acids Res 2004;32:2171-80. [PMID: 15096579 PMCID: PMC407828 DOI: 10.1093/nar/gkh546] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]  Open
23
Spiess AN, Mueller N, Ivell R. Amplified RNA degradation in T7-amplification methods results in biased microarray hybridizations. BMC Genomics 2003;4:44. [PMID: 14606961 PMCID: PMC280674 DOI: 10.1186/1471-2164-4-44] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2003] [Accepted: 11/10/2003] [Indexed: 02/01/2023]  Open
24
Jung Y, Lippard SJ. Multiple states of stalled T7 RNA polymerase at DNA lesions generated by platinum anticancer agents. J Biol Chem 2003;278:52084-92. [PMID: 14534300 DOI: 10.1074/jbc.m310120200] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]  Open
25
Fish RN, Kane CM. Promoting elongation with transcript cleavage stimulatory factors. BIOCHIMICA ET BIOPHYSICA ACTA 2002;1577:287-307. [PMID: 12213659 DOI: 10.1016/s0167-4781(02)00459-1] [Citation(s) in RCA: 185] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
26
Song H, Kang C. Sequence-specific termination by T7 RNA polymerase requires formation of paused conformation prior to the point of RNA release. Genes Cells 2001;6:291-301. [PMID: 11318872 DOI: 10.1046/j.1365-2443.2001.00420.x] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
27
Toulmé F, Mosrin-Huaman C, Sparkowski J, Das A, Leng M, Rahmouni AR. GreA and GreB proteins revive backtracked RNA polymerase in vivo by promoting transcript trimming. EMBO J 2000;19:6853-9. [PMID: 11118220 PMCID: PMC305891 DOI: 10.1093/emboj/19.24.6853] [Citation(s) in RCA: 80] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
28
Bhargava P, Kassavetis GA. Abortive initiation by Saccharomyces cerevisiae RNA polymerase III. J Biol Chem 1999;274:26550-6. [PMID: 10473618 DOI: 10.1074/jbc.274.37.26550] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
29
Mote J, Reines D. Recognition of a human arrest site is conserved between RNA polymerase II and prokaryotic RNA polymerases. J Biol Chem 1998;273:16843-52. [PMID: 9642244 PMCID: PMC3371603 DOI: 10.1074/jbc.273.27.16843] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
30
Koulich D, Nikiforov V, Borukhov S. Distinct functions of N and C-terminal domains of GreA, an Escherichia coli transcript cleavage factor. J Mol Biol 1998;276:379-89. [PMID: 9512710 DOI: 10.1006/jmbi.1997.1545] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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