Mathews, David H.

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

Mathews, D. H., Sabina, J., Zuker, M., & Turner, D. H. (1999) · Journal of Molecular Biology

RNA and protein synthesis mechanismsProtein Structure and Dynamics

Cited by 3,795

NNDB: the nearest neighbor parameter database for predicting stability of nucleic acid secondary structure

Turner, D. H., & Mathews, D. H. (2010) · Nucleic Acids Research

RNA and protein synthesis mechanismsDNA and Nucleic Acid Chemistry

Cited by 575

Algorithm for optimized mRNA design improves stability and immunogenicity

Zhang, H., Zhang, L., Lin, A., Xu, C., Li, Z., Liu, K., Liu, B., Ma, X., Zhao, F., Jiang, H., et al. (2023) · Nature

RNA and protein synthesis mechanismsSARS-CoV-2 and COVID-19 Research

Cited by 531

Algorithm for Optimized mRNA Design Improves Stability and Immunogenicity

Zhang, H., Zhang, L., Lin, A., Xu, C., Li, Z., Liu, K., Liu, B., Ma, X., Zhao, F., Yao, W., et al. (2020) · arXiv

RNA and protein synthesis mechanismsSARS-CoV-2 and COVID-19 Research

Cited by 511

CRISPR-Cas9-based mutagenesis frequently provokes on-target mRNA misregulation

Tuladhar, R., Yeu, Y., Tyler Piazza, J., Tan, Z., Rene Clemenceau, J., Wu, X., Barrett, Q., Herbert, J., Mathews, D. H., Kim, J., et al. (2019) · Nature Communications

CRISPR and Genetic EngineeringRNA regulation and disease

Cited by 219

LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search

Huang, L., Zhang, H., Deng, D., Zhao, K., Liu, K., Hendrix, D. A., & Mathews, D. H. (2019) · Bioinformatics

RNA and protein synthesis mechanismsGenomics and Phylogenetic Studies

Cited by 207

Deep sequencing-based identification of small non-coding RNAs in Streptomyces coelicolor

Vockenhuber, M.-P., Sharma, C. M., Statt, M. G., Schmidt, D., Xu, Z., Dietrich, S., Liesegang, H., Mathews, D. H., & Suess, B. (2011) · RNA Biology

Bacterial Genetics and BiotechnologyMicrobial Natural Products and Biosynthesis

Cited by 88

Deep learning for RNA secondary structure determination: gauging generalizability and broadening the scope of traditional methods

Szikszai, M., Wang, T.-Y., Krueger, R., Mathews, D. H., Ward, M., & Aviran, S. (2026) · RNA

RNA and protein synthesis mechanismsProtein Structure and Dynamics

Cited by 5

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

Wakabayashi, H., Zhu, M., Grayhack, E. J., Mathews, D. H., & Ermolenko, D. N. (2025) · RNA

RNA and protein synthesis mechanismsRNA Research and Splicing

Cited by 0

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

Wakabayashi, H., Zhu, M., Grayhack, E. J., Mathews, D. H., & Ermolenko, D. N. (2025) · RNA

RNA and protein synthesis mechanismsRNA Research and Splicing

Cited by 0