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Motif models for RNA-binding proteins.
Curr Opin Struct Biol. 2018 Dec;53:115-123. doi: 10.1016/j.sbi.2018.08.001. Epub 2018 Aug 29.
Curr Opin Struct Biol. 2018.
PMID: 30172081
Review.
RNA-binding proteins that lack canonical RNA-binding domains are rarely sequence-specific.
Ray D, Laverty KU, Jolma A, Nie K, Samson R, Pour SE, Tam CL, von Krosigk N, Nabeel-Shah S, Albu M, Zheng H, Perron G, Lee H, Najafabadi H, Blencowe B, Greenblatt J, Morris Q, Hughes TR.
Ray D, et al. Among authors: laverty ku.
Sci Rep. 2023 Mar 31;13(1):5238. doi: 10.1038/s41598-023-32245-9.
Sci Rep. 2023.
PMID: 37002329
Free PMC article.
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PRIESSTESS: interpretable, high-performing models of the sequence and structure preferences of RNA-binding proteins.
Laverty KU, Jolma A, Pour SE, Zheng H, Ray D, Morris Q, Hughes TR.
Laverty KU, et al.
Nucleic Acids Res. 2022 Oct 28;50(19):e111. doi: 10.1093/nar/gkac694.
Nucleic Acids Res. 2022.
PMID: 36018788
Free PMC article.
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Binding specificities of human RNA-binding proteins toward structured and linear RNA sequences.
Jolma A, Zhang J, Mondragón E, Morgunova E, Kivioja T, Laverty KU, Yin Y, Zhu F, Bourenkov G, Morris Q, Hughes TR, Maher LJ 3rd, Taipale J.
Jolma A, et al. Among authors: laverty ku.
Genome Res. 2020 Jul;30(7):962-973. doi: 10.1101/gr.258848.119. Epub 2020 Jul 23.
Genome Res. 2020.
PMID: 32703884
Free PMC article.
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A physical and genetic map of Cannabis sativa identifies extensive rearrangements at the THC/CBD acid synthase loci.
Laverty KU, Stout JM, Sullivan MJ, Shah H, Gill N, Holbrook L, Deikus G, Sebra R, Hughes TR, Page JE, van Bakel H.
Laverty KU, et al.
Genome Res. 2019 Jan;29(1):146-156. doi: 10.1101/gr.242594.118. Epub 2018 Nov 8.
Genome Res. 2019.
PMID: 30409771
Free PMC article.
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RNAcompete-S: Combined RNA sequence/structure preferences for RNA binding proteins derived from a single-step in vitro selection.
Cook KB, Vembu S, Ha KCH, Zheng H, Laverty KU, Hughes TR, Ray D, Morris QD.
Cook KB, et al. Among authors: laverty ku.
Methods. 2017 Aug 15;126:18-28. doi: 10.1016/j.ymeth.2017.06.024. Epub 2017 Jun 24.
Methods. 2017.
PMID: 28651966
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