Chen SJ - Search Results

1

Opinion: Protein folds vs. protein folding: Differing questions, different challenges.

Chen SJ, Hassan M, Jernigan RL, Jia K, Kihara D, Kloczkowski A, Kotelnikov S, Kozakov D, Liang J, Liwo A, Matysiak S, Meller J, Micheletti C, Mitchell JC, Mondal S, Nussinov R, Okazaki KI, Padhorny D, Skolnick J, Sosnick TS, Stan G, Vakser I, Zou X, Rose GD. Chen SJ, et al. Proc Natl Acad Sci U S A. 2023 Jan 3;120(1):e2214423119. doi: 10.1073/pnas.2214423119. Epub 2022 Dec 29. Proc Natl Acad Sci U S A. 2023. PMID: 36580595 Free PMC article. No abstract available.

2

RNA hairpin-folding kinetics.

Zhang W, Chen SJ. Zhang W, et al. Among authors: chen sj. Proc Natl Acad Sci U S A. 2002 Feb 19;99(4):1931-6. doi: 10.1073/pnas.032443099. Epub 2002 Feb 12. Proc Natl Acad Sci U S A. 2002. PMID: 11842187 Free PMC article.

3

Understanding the kinetic mechanism of RNA single base pair formation.

Xu X, Yu T, Chen SJ. Xu X, et al. Among authors: chen sj. Proc Natl Acad Sci U S A. 2016 Jan 5;113(1):116-21. doi: 10.1073/pnas.1517511113. Epub 2015 Dec 22. Proc Natl Acad Sci U S A. 2016. PMID: 26699466 Free PMC article.

4

Unified energetics analysis unravels SpCas9 cleavage activity for optimal gRNA design.

Zhang D, Hurst T, Duan D, Chen SJ. Zhang D, et al. Among authors: chen sj. Proc Natl Acad Sci U S A. 2019 Apr 30;116(18):8693-8698. doi: 10.1073/pnas.1820523116. Epub 2019 Apr 15. Proc Natl Acad Sci U S A. 2019. PMID: 30988204 Free PMC article.

5

Binding interface and impact on protease cleavage for an RNA aptamer to HIV-1 reverse transcriptase.

Nguyen PDM, Zheng J, Gremminger TJ, Qiu L, Zhang D, Tuske S, Lange MJ, Griffin PR, Arnold E, Chen SJ, Zou X, Heng X, Burke DH. Nguyen PDM, et al. Among authors: chen sj. Nucleic Acids Res. 2020 Mar 18;48(5):2709-2722. doi: 10.1093/nar/gkz1224. Nucleic Acids Res. 2020. PMID: 31943114 Free PMC article.

6

Structural basis of prostate-specific membrane antigen recognition by the A9g RNA aptamer.

Ptacek J, Zhang D, Qiu L, Kruspe S, Motlova L, Kolenko P, Novakova Z, Shubham S, Havlinova B, Baranova P, Chen SJ, Zou X, Giangrande P, Barinka C. Ptacek J, et al. Among authors: chen sj. Nucleic Acids Res. 2020 Nov 4;48(19):11130-11145. doi: 10.1093/nar/gkaa494. Nucleic Acids Res. 2020. PMID: 32525981 Free PMC article.

7

The three-way junction structure of the HIV-1 PBS-segment binds host enzyme important for viral infectivity.

Song Z, Gremminger T, Singh G, Cheng Y, Li J, Qiu L, Ji J, Lange MJ, Zuo X, Chen SJ, Zou X, Boris-Lawrie K, Heng X. Song Z, et al. Among authors: chen sj. Nucleic Acids Res. 2021 Jun 4;49(10):5925-5942. doi: 10.1093/nar/gkab342. Nucleic Acids Res. 2021. PMID: 33978756 Free PMC article.

8

RNA-ligand molecular docking: advances and challenges.

Zhou Y, Jiang Y, Chen SJ. Zhou Y, et al. Among authors: chen sj. Wiley Interdiscip Rev Comput Mol Sci. 2022 May-Jun;12(3):e1571. doi: 10.1002/wcms.1571. Epub 2021 Aug 16. Wiley Interdiscip Rev Comput Mol Sci. 2022. PMID: 37293430 Free PMC article.

9

Computing the conformational entropy for RNA folds.

Liu L, Chen SJ. Liu L, et al. Among authors: chen sj. J Chem Phys. 2010 Jun 21;132(23):235104. doi: 10.1063/1.3447385. J Chem Phys. 2010. PMID: 20572741 Free PMC article.

10

Rational truncation of an RNA aptamer to prostate-specific membrane antigen using computational structural modeling.

Rockey WM, Hernandez FJ, Huang SY, Cao S, Howell CA, Thomas GS, Liu XY, Lapteva N, Spencer DM, McNamara JO, Zou X, Chen SJ, Giangrande PH. Rockey WM, et al. Among authors: chen sj. Nucleic Acid Ther. 2011 Oct;21(5):299-314. doi: 10.1089/nat.2011.0313. Nucleic Acid Ther. 2011. PMID: 22004414 Free PMC article.

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