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Items: 1 to 20 of 48


Analysis of (1)H chemical shifts in DNA: Assessment of the reliability of (1)H chemical shift calculations for use in structure refinement.

Wijmenga SS, Kruithof M, Hilbers CW.

J Biomol NMR. 1997 Dec;10(4):337-50. doi: 10.1023/A:1018348123074.


Architecture and secondary structure of an entire HIV-1 RNA genome.

Watts JM, Dang KK, Gorelick RJ, Leonard CW, Bess JW Jr, Swanstrom R, Burch CL, Weeks KM.

Nature. 2009 Aug 6;460(7256):711-6. doi: 10.1038/nature08237.


SNPs in human miRNA genes affect biogenesis and function.

Sun G, Yan J, Noltner K, Feng J, Li H, Sarkis DA, Sommer SS, Rossi JJ.

RNA. 2009 Sep;15(9):1640-51. doi: 10.1261/rna.1560209. Epub 2009 Jul 17.


Therapeutic microRNA delivery suppresses tumorigenesis in a murine liver cancer model.

Kota J, Chivukula RR, O'Donnell KA, Wentzel EA, Montgomery CL, Hwang HW, Chang TC, Vivekanandan P, Torbenson M, Clark KR, Mendell JR, Mendell JT.

Cell. 2009 Jun 12;137(6):1005-17. doi: 10.1016/j.cell.2009.04.021.


Thermodynamic characterization of tandem mismatches found in naturally occurring RNA.

Christiansen ME, Znosko BM.

Nucleic Acids Res. 2009 Aug;37(14):4696-706. doi: 10.1093/nar/gkp465. Epub 2009 Jun 9.


Transcriptome transfer produces a predictable cellular phenotype.

Sul JY, Wu CW, Zeng F, Jochems J, Lee MT, Kim TK, Peritz T, Buckley P, Cappelleri DJ, Maronski M, Kim M, Kumar V, Meaney D, Kim J, Eberwine J.

Proc Natl Acad Sci U S A. 2009 May 5;106(18):7624-9. doi: 10.1073/pnas.0902161106. Epub 2009 Apr 20.


Frequency and isostericity of RNA base pairs.

Stombaugh J, Zirbel CL, Westhof E, Leontis NB.

Nucleic Acids Res. 2009 Apr;37(7):2294-312. doi: 10.1093/nar/gkp011. Epub 2009 Feb 24.


Accurate SHAPE-directed RNA structure determination.

Deigan KE, Li TW, Mathews DH, Weeks KM.

Proc Natl Acad Sci U S A. 2009 Jan 6;106(1):97-102. doi: 10.1073/pnas.0806929106. Epub 2008 Dec 24.


NMR-assisted prediction of RNA secondary structure: identification of a probable pseudoknot in the coding region of an R2 retrotransposon.

Hart JM, Kennedy SD, Mathews DH, Turner DH.

J Am Chem Soc. 2008 Aug 6;130(31):10233-9. doi: 10.1021/ja8026696. Epub 2008 Jul 10.


The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data.

Parisien M, Major F.

Nature. 2008 Mar 6;452(7183):51-5. doi: 10.1038/nature06684.


RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution).

Richardson JS, Schneider B, Murray LW, Kapral GJ, Immormino RM, Headd JJ, Richardson DC, Ham D, Hershkovits E, Williams LD, Keating KS, Pyle AM, Micallef D, Westbrook J, Berman HM; RNA Ontology Consortium..

RNA. 2008 Mar;14(3):465-81. doi: 10.1261/rna.657708. Epub 2008 Jan 11.



Ulrich EL, Akutsu H, Doreleijers JF, Harano Y, Ioannidis YE, Lin J, Livny M, Mading S, Maziuk D, Miller Z, Nakatani E, Schulte CF, Tolmie DE, Kent Wenger R, Yao H, Markley JL.

Nucleic Acids Res. 2008 Jan;36(Database issue):D402-8. Epub 2007 Nov 4.


RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures.

Popenda M, Blazewicz M, Szachniuk M, Adamiak RW.

Nucleic Acids Res. 2008 Jan;36(Database issue):D386-91. Epub 2007 Oct 5.


Effective RNAi-mediated gene silencing without interruption of the endogenous microRNA pathway.

John M, Constien R, Akinc A, Goldberg M, Moon YA, Spranger M, Hadwiger P, Soutschek J, Vornlocher HP, Manoharan M, Stoffel M, Langer R, Anderson DG, Horton JD, Koteliansky V, Bumcrot D.

Nature. 2007 Oct 11;449(7163):745-7. Epub 2007 Sep 26.


Stacking effects on local structure in RNA: changes in the structure of tandem GA pairs when flanking GC pairs are replaced by isoG-isoC pairs.

Chen G, Kierzek R, Yildirim I, Krugh TR, Turner DH, Kennedy SD.

J Phys Chem B. 2007 Jun 21;111(24):6718-27. Epub 2007 Apr 6.


NMR structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2: probing the structural features that shape the thermodynamic stability of GA pairs.

Tolbert BS, Kennedy SD, Schroeder SJ, Krugh TR, Turner DH.

Biochemistry. 2007 Feb 13;46(6):1511-22. Epub 2007 Jan 20.


RNA challenges for computational chemists.

Yildirim I, Turner DH.

Biochemistry. 2005 Oct 11;44(40):13225-34.


Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure.

Mathews DH, Disney MD, Childs JL, Schroeder SJ, Zuker M, Turner DH.

Proc Natl Acad Sci U S A. 2004 May 11;101(19):7287-92. Epub 2004 May 3.

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