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mRNAs and lncRNAs intrinsically form secondary structures with short end-to-end distances.
Nat Commun. 2018 Oct 18;9(1):4328. doi: 10.1038/s41467-018-06792-z.
Nat Commun. 2018.
PMID: 30337527
Free PMC article.
Accelerated RNA secondary structure design using preselected sequences for helices and loops.
Bellaousov S, Kayedkhordeh M, Peterson RJ, Mathews DH.
Bellaousov S, et al. Among authors: kayedkhordeh m.
RNA. 2018 Nov;24(11):1555-1567. doi: 10.1261/rna.066324.118. Epub 2018 Aug 10.
RNA. 2018.
PMID: 30097542
Free PMC article.
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Design of highly active double-pseudoknotted ribozymes: a combined computational and experimental study.
Yamagami R, Kayedkhordeh M, Mathews DH, Bevilacqua PC.
Yamagami R, et al. Among authors: kayedkhordeh m.
Nucleic Acids Res. 2019 Jan 10;47(1):29-42. doi: 10.1093/nar/gky1118.
Nucleic Acids Res. 2019.
PMID: 30462314
Free PMC article.
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Inverse RNA Folding Workflow to Design and Test Ribozymes that Include Pseudoknots.
Kayedkhordeh M, Yamagami R, Bevilacqua PC, Mathews DH.
Kayedkhordeh M, et al.
Methods Mol Biol. 2021;2167:113-143. doi: 10.1007/978-1-0716-0716-9_8.
Methods Mol Biol. 2021.
PMID: 32712918
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