Villa A - Search Results

1

LNA effects on DNA binding and conformation: from single strand to duplex and triplex structures.

Pabon-Martinez YV, Xu Y, Villa A, Lundin KE, Geny S, Nguyen CH, Pedersen EB, Jørgensen PT, Wengel J, Nilsson L, Smith CIE, Zain R. Pabon-Martinez YV, et al. Among authors: villa a. Sci Rep. 2017 Sep 8;7(1):11043. doi: 10.1038/s41598-017-09147-8. Sci Rep. 2017. PMID: 28887512 Free PMC article.

2

The free energy of locking a ring: Changing a deoxyribonucleoside to a locked nucleic acid.

Xu Y, Villa A, Nilsson L. Xu Y, et al. Among authors: villa a. J Comput Chem. 2017 Jun 5;38(15):1147-1157. doi: 10.1002/jcc.24692. Epub 2017 Jan 19. J Comput Chem. 2017. PMID: 28101966 Free PMC article.

3

The ability of locked nucleic acid oligonucleotides to pre-structure the double helix: A molecular simulation and binding study.

Xu Y, Gissberg O, Pabon-Martinez YV, Wengel J, Lundin KE, Smith CIE, Zain R, Nilsson L, Villa A. Xu Y, et al. Among authors: villa a. PLoS One. 2019 Feb 12;14(2):e0211651. doi: 10.1371/journal.pone.0211651. eCollection 2019. PLoS One. 2019. PMID: 30753192 Free PMC article.

4

Loop-loop interaction in an adenine-sensing riboswitch: a molecular dynamics study.

Allnér O, Nilsson L, Villa A. Allnér O, et al. Among authors: villa a. RNA. 2013 Jul;19(7):916-26. doi: 10.1261/rna.037549.112. Epub 2013 May 28. RNA. 2013. PMID: 23716711 Free PMC article.

5

Triple helical DNA in a duplex context and base pair opening.

Esguerra M, Nilsson L, Villa A. Esguerra M, et al. Among authors: villa a. Nucleic Acids Res. 2014 Oct;42(18):11329-38. doi: 10.1093/nar/gku848. Epub 2014 Sep 16. Nucleic Acids Res. 2014. PMID: 25228466 Free PMC article.

6

Effect of mutations on internal dynamics of an RNA hairpin from hepatitis B virus.

Juneja A, Nilsson L, Villa A. Juneja A, et al. Among authors: villa a. Biophys Chem. 2016 Nov;218:7-13. doi: 10.1016/j.bpc.2016.08.001. Epub 2016 Aug 18. Biophys Chem. 2016. PMID: 27564708 Free article.

7

Modeling p K Shift in DNA Triplexes Containing Locked Nucleic Acids.

Hartono YD, Xu Y, Karshikoff A, Nilsson L, Villa A. Hartono YD, et al. Among authors: villa a. J Chem Inf Model. 2018 Apr 23;58(4):773-783. doi: 10.1021/acs.jcim.7b00741. Epub 2018 Mar 23. J Chem Inf Model. 2018. PMID: 29537270 Free article.

8

Role of Pseudoisocytidine Tautomerization in Triplex-Forming Oligonucleotides: In Silico and in Vitro Studies.

Hartono YD, Pabon-Martinez YV, Uyar A, Wengel J, Lundin KE, Zain R, Smith CIE, Nilsson L, Villa A. Hartono YD, et al. Among authors: villa a. ACS Omega. 2017 May 31;2(5):2165-2177. doi: 10.1021/acsomega.7b00347. Epub 2017 May 17. ACS Omega. 2017. PMID: 30023656 Free PMC article.

9

Modeling and Simulation of Oligonucleotide Hybrids: Outlining a Strategy.

Nilsson L, Villa A. Nilsson L, et al. Among authors: villa a. Methods Mol Biol. 2019;2036:113-126. doi: 10.1007/978-1-4939-9670-4_6. Methods Mol Biol. 2019. PMID: 31410793

10

Computational Study of Uracil Tautomeric Forms in the Ribosome: The Case of Uracil and 5-Oxyacetic Acid Uracil in the First Anticodon Position of tRNA.

Hartono YD, Ito M, Villa A, Nilsson L. Hartono YD, et al. Among authors: villa a. J Phys Chem B. 2018 Jan 25;122(3):1152-1160. doi: 10.1021/acs.jpcb.7b10878. Epub 2018 Jan 11. J Phys Chem B. 2018. PMID: 29260566 Free article.

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