Mathews DH - Search Results

1

DecoyFinder: Identification of Contaminants in Sets of Homologous RNA Sequences.

Zhu M, Zuber J, Tan Z, Sharma G, Mathews DH. Zhu M, et al. Among authors: mathews dh. bioRxiv [Preprint]. 2024 Oct 15:2024.10.12.618037. doi: 10.1101/2024.10.12.618037. bioRxiv. 2024. PMID: 39464058 Free PMC article. Preprint.

2

Generation and functional analysis of defective viral genomes during SARS-CoV-2 infection.

Zhou T, Gilliam NJ, Li S, Spaudau S, Osborn RM, Anderson CS, Mariani TJ, Thakar J, Dewhurst S, Mathews DH, Huang L, Sun Y. Zhou T, et al. Among authors: mathews dh. bioRxiv [Preprint]. 2022 Sep 23:2022.09.22.509123. doi: 10.1101/2022.09.22.509123. bioRxiv. 2022. Update in: mBio. 2023 Jun 27;14(3):e0025023. doi: 10.1128/mbio.00250-23 PMID: 36172120 Free PMC article. Updated. Preprint.

3

40S ribosomal subunits scan mRNA for the start codon by one-dimensional diffusion.

Wakabayashi H, Zhu M, Grayhack EJ, Mathews DH, Ermolenko DN. Wakabayashi H, et al. Among authors: mathews dh. bioRxiv [Preprint]. 2025 Jan 4:2024.12.30.630811. doi: 10.1101/2024.12.30.630811. bioRxiv. 2025. PMID: 39803544 Free PMC article. Preprint.

4

Sampling-based Continuous Optimization with Coupled Variables for RNA Design.

Tang WY, Dai N, Zhou T, Mathews DH, Huang L. Tang WY, et al. Among authors: mathews dh. ArXiv [Preprint]. 2024 Dec 11:arXiv:2412.08751v1. ArXiv. 2024. PMID: 39713799 Free PMC article. Preprint.

5

Structural impact of 3-methylcytosine modification on the anticodon stem of a neuronally-enriched arginine tRNA.

Berger KD, Puthenpeedikakkal AMK, Mathews DH, Fu D. Berger KD, et al. Among authors: mathews dh. bioRxiv [Preprint]. 2024 Nov 18:2024.11.18.624017. doi: 10.1101/2024.11.18.624017. bioRxiv. 2024. PMID: 39605410 Free PMC article. Preprint.

6

Modeling and NMR Data Elucidate the Structure of a G-Quadruplex-Ligand Interaction for a Pu22T-Cyclometalated Iridium(III) System.

Reed CR, Kennedy SD, Horowitz RH, Keedakkatt Puthenpeedikakkal AM, Stern HA, Mathews DH. Reed CR, et al. Among authors: mathews dh. J Phys Chem B. 2024 Nov 28;128(47):11634-11643. doi: 10.1021/acs.jpcb.4c06262. Epub 2024 Nov 19. J Phys Chem B. 2024. PMID: 39560366 Free PMC article.

7

Using the RNAstructure Software Package to Predict Conserved RNA Structures.

Mittal A, Ali SE, Mathews DH. Mittal A, et al. Among authors: mathews dh. Curr Protoc. 2024 Nov;4(11):e70054. doi: 10.1002/cpz1.70054. Curr Protoc. 2024. PMID: 39540715

8

memerna: Sparse RNA folding including coaxial stacking.

Courtney E, Datta A, Mathews DH, Ward M. Courtney E, et al. Among authors: mathews dh. J Mol Biol. 2024 Oct 19;437(3):168819. doi: 10.1016/j.jmb.2024.168819. Online ahead of print. J Mol Biol. 2024. PMID: 39427984 Free article.

9

Two riboswitch classes that share a common ligand-binding fold show major differences in the ability to accommodate mutations.

Srivastava Y, Akinyemi O, Rohe TC, Pritchett EM, Baker CD, Sharma A, Jenkins JL, Mathews DH, Wedekind JE. Srivastava Y, et al. Among authors: mathews dh. Nucleic Acids Res. 2024 Nov 27;52(21):13152-13173. doi: 10.1093/nar/gkae886. Nucleic Acids Res. 2024. PMID: 39413212 Free PMC article.

10

Comprehensive Profiling of Roquin Binding Preferences for RNA Stem-Loops.

Oberstrass L, Tants JN, Lichtenthaeler C, Ali SE, Koch L, Mathews DH, Schlundt A, Weigand JE. Oberstrass L, et al. Among authors: mathews dh. Angew Chem Int Ed Engl. 2024 Dec 9;63(50):e202412596. doi: 10.1002/anie.202412596. Epub 2024 Nov 6. Angew Chem Int Ed Engl. 2024. PMID: 39344866 Free PMC article.

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