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Yiliang Ding - Publications

Affiliations: 
John Innes Centre, UK 
Area:
RNA structure, plant biology
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27 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Duncan S, Johansson HE, Ding Y. Reference genes for quantitative Arabidopsis single molecule RNA fluorescence in situ hybridization. Journal of Experimental Botany. PMID 36579724 DOI: 10.1093/jxb/erac521  0.39
2022 Manavella PA, Herz MAG, Kornblihtt AR, Sorenson R, Sieburth LE, Nakaminami K, Seki M, Ding Y, Sun Q, Kang H, Ariel FD, Crespi M, Giudicatti A, Cai Q, Jin H, et al. Beyond transcription: compelling open questions in plant RNA biology. The Plant Cell. PMID 36477566 DOI: 10.1093/plcell/koac346  0.549
2022 Yang X, Yu H, Duncan S, Zhang Y, Cheema J, Liu H, Benjamin Miller J, Zhang J, Kwok CK, Zhang H, Ding Y. RNA G-quadruplex structure contributes to cold adaptation in plants. Nature Communications. 13: 6224. PMID 36266343 DOI: 10.1038/s41467-022-34040-y  0.72
2022 Yu H, Qi Y, Yang B, Yang X, Ding Y. G4Atlas: a comprehensive transcriptome-wide G-quadruplex database. Nucleic Acids Research. PMID 36243987 DOI: 10.1093/nar/gkac896  0.524
2022 Yang M, Zhu P, Cheema J, Bloomer R, Mikulski P, Liu Q, Zhang Y, Dean C, Ding Y. In vivo single-molecule analysis reveals COOLAIR RNA structural diversity. Nature. PMID 35978193 DOI: 10.1038/s41586-022-05135-9  0.573
2022 Xu B, Zhu Y, Cao C, Chen H, Jin Q, Li G, Ma J, Yang SL, Zhao J, Zhu J, Ding Y, Fang X, Jin Y, Kwok CK, Ren A, et al. Recent advances in RNA structurome. Science China. Life Sciences. PMID 35717434 DOI: 10.1007/s11427-021-2116-2  0.758
2022 Yu H, Qi Y, Ding Y. Deep Learning in RNA Structure Studies. Frontiers in Molecular Biosciences. 9: 869601. PMID 35677883 DOI: 10.3389/fmolb.2022.869601  0.524
2021 Yang X, Yu H, Sun W, Ding L, Li J, Cheema J, Ramirez-Gonzalez R, Zhao X, Martín AC, Lu F, Liu B, Uauy C, Ding Y, Zhang H. Wheat in vivo RNA structure landscape reveals a prevalent role of RNA structure in modulating translational subgenome expression asymmetry. Genome Biology. 22: 326. PMID 34847934 DOI: 10.1186/s13059-021-02549-y  0.45
2021 Zhang H, Ding Y. Novel insights into the pervasive role of RNA structure in post-transcriptional regulation of gene expression in plants. Biochemical Society Transactions. PMID 34436520 DOI: 10.1042/BST20210318  0.609
2021 Lulla V, Wandel MP, Bandyra KJ, Ulferts R, Wu M, Dendooven T, Yang X, Doyle N, Oerum S, Beale R, O'Rourke SM, Randow F, Maier HJ, Scott W, Ding Y, et al. Targeting the conserved stem loop 2 motif in the SARS-CoV-2 genome. Journal of Virology. PMID 33963053 DOI: 10.1128/JVI.00663-21  0.426
2021 Liu Z, Liu Q, Yang X, Zhang Y, Norris M, Chen X, Cheema J, Zhang H, Ding Y. In vivo nuclear RNA structurome reveals RNA-structure regulation of mRNA processing in plants. Genome Biology. 22: 11. PMID 33397430 DOI: 10.1186/s13059-020-02236-4  0.478
2020 Yang X, Cheema J, Zhang Y, Deng H, Duncan S, Umar MI, Zhao J, Liu Q, Cao X, Kwok CK, Ding Y. RNA G-quadruplex structures exist and function in vivo in plants. Genome Biology. 21: 226. PMID 32873317 DOI: 10.1186/S13059-020-02142-9  0.739
2019 Zhang Y, Yang M, Duncan S, Yang X, Abdelhamid MAS, Huang L, Zhang H, Benfey PN, Waller ZAE, Ding Y. G-quadruplex structures trigger RNA phase separation. Nucleic Acids Research. PMID 31722410 DOI: 10.1093/Nar/Gkz978  0.387
2018 Yang X, Yang M, Deng H, Ding Y. New Era of Studying RNA Secondary Structure and Its Influence on Gene Regulation in Plants. Frontiers in Plant Science. 9: 671. PMID 29872445 DOI: 10.3389/fpls.2018.00671  0.637
2018 Ding Y, Kwok CK. Emergence of vascular plants. Nature Plants. PMID 29808025 DOI: 10.1038/S41477-018-0159-0  0.63
2018 Deng H, Cheema J, Zhang H, Woolfenden H, Norris M, Liu Z, Liu Q, Yang X, Yang M, Deng X, Cao X, Ding Y. Rice in vivo RNA structurome reveals RNA secondary structure conservation and divergence in plants. Molecular Plant. PMID 29409859 DOI: 10.1016/J.Molp.2018.01.008  0.623
2016 Norris M, Cheema J, Kwok CK, Hartley M, Morris RJ, Aviran S, Ding Y. FoldAtlas: a repository for genome-wide RNA structure probing data. Bioinformatics (Oxford, England). PMID 27663500 DOI: 10.1093/Bioinformatics/Btw611  0.742
2015 Vernié T, Kim J, Frances L, Ding Y, Sun J, Guan D, Niebel A, Gifford ML, de Carvalho-Niebel F, Oldroyd GE. The NIN Transcription Factor Coordinates Diverse Nodulation Programs in Different Tissues of the Medicago truncatula Root. The Plant Cell. PMID 26672071 DOI: 10.1105/Tpc.15.00461  0.545
2015 Ding Y, Kwok CK, Tang Y, Bevilacqua PC, Assmann SM. Genome-wide profiling of in vivo RNA structure at single-nucleotide resolution using structure-seq. Nature Protocols. 10: 1050-66. PMID 26086407 DOI: 10.1038/Nprot.2015.064  0.787
2015 Tang Y, Bouvier E, Kwok CK, Ding Y, Nekrutenko A, Bevilacqua PC, Assmann SM. StructureFold: genome-wide RNA secondary structure mapping and reconstruction in vivo. Bioinformatics (Oxford, England). PMID 25886980 DOI: 10.1093/Bioinformatics/Btv213  0.785
2015 Kwok CK, Ding Y, Shahid S, Assmann SM, Bevilacqua PC. A stable RNA G-quadruplex within the 5'-UTR of Arabidopsis thaliana ATR mRNA inhibits translation. The Biochemical Journal. 467: 91-102. PMID 25793418 DOI: 10.1042/Bj20141063  0.771
2014 Ding Y, Tang Y, Kwok CK, Zhang Y, Bevilacqua PC, Assmann SM. In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features. Nature. 505: 696-700. PMID 24270811 DOI: 10.1038/Nature12756  0.781
2013 Kwok CK, Ding Y, Tang Y, Assmann SM, Bevilacqua PC. Determination of in vivo RNA structure in low-abundance transcripts. Nature Communications. 4: 2971. PMID 24336128 DOI: 10.1038/Ncomms3971  0.785
2013 Kwok CK, Ding Y, Sherlock ME, Assmann SM, Bevilacqua PC. A hybridization-based approach for quantitative and low-bias single-stranded DNA ligation. Analytical Biochemistry. 435: 181-6. PMID 23399535 DOI: 10.1016/J.Ab.2013.01.008  0.663
2010 Ouellet J, Melcher S, Iqbal A, Ding Y, Lilley DMJ. Structure of the three-way helical junction of the hepatitis C virus IRES element Rna. 16: 1597-1609. PMID 20581129 DOI: 10.1261/rna.2158410  0.542
2009 Ding Y, Oldroyd GE. Positioning the nodule, the hormone dictum. Plant Signaling & Behavior. 4: 89-93. PMID 19649179 DOI: 10.4161/Psb.4.2.7693  0.541
2008 Ding Y, Kalo P, Yendrek C, Sun J, Liang Y, Marsh JF, Harris JM, Oldroyd GE. Abscisic acid coordinates nod factor and cytokinin signaling during the regulation of nodulation in Medicago truncatula. The Plant Cell. 20: 2681-95. PMID 18931020 DOI: 10.1105/Tpc.108.061739  0.549
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