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Nathan A. Siegfried, Ph.D. - Publications

Affiliations: 
2009 Pennsylvania State University, State College, PA, United States 
Area:
RNA Folding and Catalysis
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11 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2015 Smola MJ, Rice GM, Busan S, Siegfried NA, Weeks KM. Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis. Nature Protocols. 10: 1643-69. PMID 26426499 DOI: 10.1038/Nprot.2015.103  0.469
2014 Siegfried NA, Busan S, Rice GM, Nelson JA, Weeks KM. RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP). Nature Methods. 11: 959-65. PMID 25028896 DOI: 10.1038/Nmeth.3029  0.532
2013 Mauger DM, Siegfried NA, Weeks KM. The genetic code as expressed through relationships between mRNA structure and protein function. Febs Letters. 587: 1180-8. PMID 23499436 DOI: 10.1016/J.Febslet.2013.03.002  0.503
2012 Chadalavada DM, Cerrone-Szakal AL, Wilcox JL, Siegfried NA, Bevilacqua PC. Mechanistic analysis of the hepatitis delta virus (HDV) ribozyme: methods for RNA preparation, structure mapping, solvent isotope effects, and co-transcriptional cleavage. Methods in Molecular Biology (Clifton, N.J.). 848: 21-40. PMID 22315061 DOI: 10.1007/978-1-61779-545-9_3  0.6
2011 Steen KA, Siegfried NA, Weeks KM. Selective 2'-hydroxyl acylation analyzed by protection from exoribonuclease (RNase-detected SHAPE) for direct analysis of covalent adducts and of nucleotide flexibility in RNA. Nature Protocols. 6: 1683-94. PMID 21979276 DOI: 10.1038/Nprot.2011.373  0.545
2010 Siegfried NA, Kierzek R, Bevilacqua PC. Role of unsatisfied hydrogen bond acceptors in RNA energetics and specificity. Journal of the American Chemical Society. 132: 5342-4. PMID 20345162 DOI: 10.1021/Ja9107726  0.577
2010 Siegfried NA, O'Hare B, Bevilacqua PC. Driving forces for nucleic acid pK(a) shifting in an A(+).C wobble: effects of helix position, temperature, and ionic strength. Biochemistry. 49: 3225-36. PMID 20337429 DOI: 10.1021/Bi901920G  0.544
2009 Siegfried NA, Bevilacqua PC. Thinking inside the box: designing, implementing, and interpreting thermodynamic cycles to dissect cooperativity in RNA and DNA folding. Methods in Enzymology. 455: 365-93. PMID 19289213 DOI: 10.1016/S0076-6879(08)04213-4  0.6
2008 Cerrone-Szakal AL, Siegfried NA, Bevilacqua PC. Mechanistic characterization of the HDV genomic ribozyme: solvent isotope effects and proton inventories in the absence of divalent metal ions support C75 as the general acid. Journal of the American Chemical Society. 130: 14504-20. PMID 18842044 DOI: 10.1021/Ja801816K  0.497
2007 Bevilacqua PC, Cerrone-Szakal AL, Siegfried NA. Insight into the functional versatility of RNA through model-making with applications to data fitting. Quarterly Reviews of Biophysics. 40: 55-85. PMID 17391549 DOI: 10.1017/S0033583507004593  0.61
2007 Siegfried NA, Metzger SL, Bevilacqua PC. Folding cooperativity in RNA and DNA is dependent on position in the helix. Biochemistry. 46: 172-81. PMID 17198387 DOI: 10.1021/Bi061375L  0.638
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