Accurate SHAPE-directed RNA structure determination
作者： K. E. Deigan , T. W. Li , D. H. Mathews , K. M. Weeks
关键词:
摘要: … change term in RNAstructure, we determine the structures of E. … SHAPE-directed secondary structure determination also … whose structures cannot be determined by covariation analysis …
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David H. Mathews, Douglas H. Turner, Michael Zuker, RNA secondary structure prediction. Current protocols in human genetics. ,vol. 67, pp. 112- ,(2000) , 10.1002/0471142700.NC1102S28
Kevin M. Weeks, Karen L. Buchmueller, Amy E. Webb, D. Ashley Richardson, A collapsed non-native RNA folding state Nature Structural & Molecular Biology. ,vol. 7, pp. 362- 366 ,(2000) , 10.1038/75125
Kishore J Doshi, Jamie J Cannone, Christian W Cobaugh, Robin R Gutell, Evaluation of the suitability of free-energy minimization using nearest-neighbor energy parameters for RNA secondary structure prediction BMC Bioinformatics. ,vol. 5, pp. 105- 105 ,(2004) , 10.1186/1471-2105-5-105
Robin D Dowell, Sean R Eddy, Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction. BMC Bioinformatics. ,vol. 5, pp. 71- 71 ,(2004) , 10.1186/1471-2105-5-71
Zhi John Lu, David H Mathews, Efficient siRNA selection using hybridization thermodynamics Nucleic Acids Research. ,vol. 36, pp. 640- 647 ,(2007) , 10.1093/NAR/GKM920
Kevin A Wilkinson, Edward J Merino, Kevin M Weeks, Selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution. Nature Protocols. ,vol. 1, pp. 1610- 1616 ,(2006) , 10.1038/NPROT.2006.249
David H. Mathews, Douglas H. Turner, Experimentally derived nearest-neighbor parameters for the stability of RNA three- and four-way multibranch loops. Biochemistry. ,vol. 41, pp. 869- 880 ,(2002) , 10.1021/BI011441D
Danesh Moazed, Seth Stern, Harry F. Noller, Rapid chemical probing of conformation in 16 S ribosomal RNA and 30 S ribosomal subunits using primer extension Journal of Molecular Biology. ,vol. 187, pp. 399- 416 ,(1986) , 10.1016/0022-2836(86)90441-9
P. Doty, H. Boedtker, J. R. Fresco, R. Haselkorn, M. Litt, SECONDARY STRUCTURE IN RIBONUCLEIC ACIDS. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 45, pp. 482- 499 ,(1959) , 10.1073/PNAS.45.4.482
D. H. Mathews, M. D. Disney, J. L. Childs, S. J. Schroeder, M. Zuker, D. H. Turner, Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure Proceedings of the National Academy of Sciences of the United States of America. ,vol. 101, pp. 7287- 7292 ,(2004) , 10.1073/PNAS.0401799101