Yesselman JD - Search Results

1

Computational design of three-dimensional RNA structure and function.

Yesselman JD, Eiler D, Carlson ED, Gotrik MR, d'Aquino AE, Ooms AN, Kladwang W, Carlson PD, Shi X, Costantino DA, Herschlag D, Lucks JB, Jewett MC, Kieft JS, Das R. Yesselman JD, et al. Nat Nanotechnol. 2019 Sep;14(9):866-873. doi: 10.1038/s41565-019-0517-8. Epub 2019 Aug 19. Nat Nanotechnol. 2019. PMID: 31427748 Free PMC article.

2

RNA-Redesign: a web server for fixed-backbone 3D design of RNA.

Yesselman JD, Das R. Yesselman JD, et al. Nucleic Acids Res. 2015 Jul 1;43(W1):W498-501. doi: 10.1093/nar/gkv465. Epub 2015 May 11. Nucleic Acids Res. 2015. PMID: 25964298 Free PMC article.

3

High-Throughput Investigation of Diverse Junction Elements in RNA Tertiary Folding.

Denny SK, Bisaria N, Yesselman JD, Das R, Herschlag D, Greenleaf WJ. Denny SK, et al. Among authors: yesselman jd. Cell. 2018 Jul 12;174(2):377-390.e20. doi: 10.1016/j.cell.2018.05.038. Epub 2018 Jun 28. Cell. 2018. PMID: 29961580 Free PMC article.

4

Modeling Small Noncanonical RNA Motifs with the Rosetta FARFAR Server.

Yesselman JD, Das R. Yesselman JD, et al. Methods Mol Biol. 2016;1490:187-98. doi: 10.1007/978-1-4939-6433-8_12. Methods Mol Biol. 2016. PMID: 27665600 Free PMC article.

5

RNA structure inference through chemical mapping after accidental or intentional mutations.

Cheng CY, Kladwang W, Yesselman JD, Das R. Cheng CY, et al. Among authors: yesselman jd. Proc Natl Acad Sci U S A. 2017 Sep 12;114(37):9876-9881. doi: 10.1073/pnas.1619897114. Epub 2017 Aug 29. Proc Natl Acad Sci U S A. 2017. PMID: 28851837 Free PMC article.

6

Updates to the RNA mapping database (RMDB), version 2.

Yesselman JD, Tian S, Liu X, Shi L, Li JB, Das R. Yesselman JD, et al. Nucleic Acids Res. 2018 Jan 4;46(D1):D375-D379. doi: 10.1093/nar/gkx873. Nucleic Acids Res. 2018. PMID: 30053264 Free PMC article.

7

Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation.

Yesselman JD, Denny SK, Bisaria N, Herschlag D, Greenleaf WJ, Das R. Yesselman JD, et al. Proc Natl Acad Sci U S A. 2019 Aug 20;116(34):16847-16855. doi: 10.1073/pnas.1901530116. Epub 2019 Aug 2. Proc Natl Acad Sci U S A. 2019. PMID: 31375637 Free PMC article.

8

Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures.

Kappel K, Zhang K, Su Z, Watkins AM, Kladwang W, Li S, Pintilie G, Topkar VV, Rangan R, Zheludev IN, Yesselman JD, Chiu W, Das R. Kappel K, et al. Among authors: yesselman jd. Nat Methods. 2020 Jul;17(7):699-707. doi: 10.1038/s41592-020-0878-9. Epub 2020 Jul 2. Nat Methods. 2020. PMID: 32616928 Free PMC article.

9

Primerize: automated primer assembly for transcribing non-coding RNA domains.

Tian S, Yesselman JD, Cordero P, Das R. Tian S, et al. Among authors: yesselman jd. Nucleic Acids Res. 2015 Jul 1;43(W1):W522-6. doi: 10.1093/nar/gkv538. Epub 2015 May 20. Nucleic Acids Res. 2015. PMID: 25999345 Free PMC article.

10

Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction.

Shi H, Rangadurai A, Abou Assi H, Roy R, Case DA, Herschlag D, Yesselman JD, Al-Hashimi HM. Shi H, et al. Among authors: yesselman jd. Nat Commun. 2020 Nov 2;11(1):5531. doi: 10.1038/s41467-020-19371-y. Nat Commun. 2020. PMID: 33139729 Free PMC article.

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