TurboFold II: RNA structural alignment and secondary structure prediction informed by multiple homologs
Tan, Zhen, Fu, Yinghan, Sharma, Gaurav, Mathews, David H
Published in Nucleic acids research (16.11.2017)
Published in Nucleic acids research (16.11.2017)
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Journal Article
Deep learning models for RNA secondary structure prediction (probably) do not generalize across families
Szikszai, Marcell, Wise, Michael, Datta, Amitava, Ward, Max, Mathews, David H
Published in Bioinformatics (10.08.2022)
Published in Bioinformatics (10.08.2022)
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Journal Article
LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search
Huang, Liang, Zhang, He, Deng, Dezhong, Zhao, Kai, Liu, Kaibo, Hendrix, David A, Mathews, David H
Published in Bioinformatics (15.07.2019)
Published in Bioinformatics (15.07.2019)
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Journal Article
Algorithm for optimized mRNA design improves stability and immunogenicity
Zhang, He, Zhang, Liang, Lin, Ang, Xu, Congcong, Li, Ziyu, Liu, Kaibo, Liu, Boxiang, Ma, Xiaopin, Zhao, Fanfan, Jiang, Huiling, Chen, Chunxiu, Shen, Haifa, Li, Hangwen, Mathews, David H., Zhang, Yujian, Huang, Liang
Published in Nature (London) (14.09.2023)
Published in Nature (London) (14.09.2023)
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Journal Article
Nearest neighbor rules for RNA helix folding thermodynamics: improved end effects
Zuber, Jeffrey, Schroeder, Susan J, Sun, Hongying, Turner, Douglas H, Mathews, David H
Published in Nucleic acids research (20.05.2022)
Published in Nucleic acids research (20.05.2022)
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Journal Article
RNAstructure: Web servers for RNA secondary structure prediction and analysis
Bellaousov, Stanislav, Reuter, Jessica S, Seetin, Matthew G, Mathews, David H
Published in Nucleic acids research (01.07.2013)
Published in Nucleic acids research (01.07.2013)
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Journal Article
CRISPR-Cas9-based mutagenesis frequently provokes on-target mRNA misregulation
Tuladhar, Rubina, Yeu, Yunku, Tyler Piazza, John, Tan, Zhen, Rene Clemenceau, Jean, Wu, Xiaofeng, Barrett, Quinn, Herbert, Jeremiah, Mathews, David H., Kim, James, Hyun Hwang, Tae, Lum, Lawrence
Published in Nature communications (06.09.2019)
Published in Nature communications (06.09.2019)
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Journal Article
memerna: Sparse RNA folding including coaxial stacking
Courtney, Eliot, Datta, Amitava, Mathews, David H., Ward, Max
Published in Journal of molecular biology (18.10.2024)
Published in Journal of molecular biology (18.10.2024)
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Journal Article
Computational Resources for Molecular Biology 2024
Casadio, Rita, Mathews, David H., Sternberg, Michael J.E.
Published in Journal of molecular biology (01.09.2024)
Published in Journal of molecular biology (01.09.2024)
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