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30. Lyu, K., Chen, S. B., Chan, C. Y., Tan, J. H., & Kwok, C. K. Structural analysis and cellular visualization of APP RNA G-quadruplex. Chem. Sci. 10, 11095 - 11102 (2019). https://doi.org/10.1039/c9sc02768h
29. Ji, D., Mou, X., Kwok, C.K. Label-free and ratiometric detection of microRNA based on target-induced catalytic hairpin assembly and two fluorescent dyes. Anal. Methods 11, 4808 - 4813 (2019). https://doi.org/10.1039/C9AY01891C
28. Umar, M.I.; Ji, D.; Chan, C.-Y.; Kwok, C.K. G-Quadruplex-Based Fluorescent Turn-On Ligands and Aptamers: From Development to Applications. Molecules 24, 2416 (2019). https://doi.org/10.3390/molecules24132416
27. Yeung, P.Y., Zhao, J., Chow, E.Y.C., Mou, X., Hong, H.Q., Chen, L.L., Chan, T.F., Kwok, C.K. Systematic evaluation and optimization of the experimental steps in RNA G-quadruplex structure sequencing. Sci. Rep. 9, 8091 (2019). https://doi.org/10.1038/s41598-019-44541-4
26. Zhao, J., Qian, X., Yeung, P.Y., Zhang, Q.F.C., Kwok, C.K. Mapping In Vivo RNA Structures and Interactions. Trends Biochem. Sci. 44, 555-556 (2019). https://doi.org/10.1016/j.tibs.2019.01.012
25. Chan, C.-Y., Umar, M.I., Kwok, C.K. Spectroscopic analysis reveals the effect of a single nucleotide bulge on G-quadruplex structures. Chem. Commun. 55, 2616-2619 (2019). https://doi.org/10.1039/c8cc09929d
24. Qian, X., Zhao, J., Yeung, P.Y., Zhang, Q.F.C., Kwok, C.K. Revealing LncRNA Structures and Interactions by Sequencing-Based Approaches. Trends Biochem. Sci. 44, 33-52 (2019). https://doi.org/10.1016/j.tibs.2018.09.012
30. Lyu, K., Chen, S. B., Chan, C. Y., Tan, J. H., & Kwok, C. K. Structural analysis and cellular visualization of APP RNA G-quadruplex. Chem. Sci. 10, 11095 - 11102 (2019). https://doi.org/10.1039/c9sc02768h
29. Ji, D., Mou, X., Kwok, C.K. Label-free and ratiometric detection of microRNA based on target-induced catalytic hairpin assembly and two fluorescent dyes. Anal. Methods 11, 4808 - 4813 (2019). https://doi.org/10.1039/C9AY01891C
28. Umar, M.I.; Ji, D.; Chan, C.-Y.; Kwok, C.K. G-Quadruplex-Based Fluorescent Turn-On Ligands and Aptamers: From Development to Applications. Molecules 24, 2416 (2019). https://doi.org/10.3390/molecules24132416
27. Yeung, P.Y., Zhao, J., Chow, E.Y.C., Mou, X., Hong, H.Q., Chen, L.L., Chan, T.F., Kwok, C.K. Systematic evaluation and optimization of the experimental steps in RNA G-quadruplex structure sequencing. Sci. Rep. 9, 8091 (2019). https://doi.org/10.1038/s41598-019-44541-4
26. Zhao, J., Qian, X., Yeung, P.Y., Zhang, Q.F.C., Kwok, C.K. Mapping In Vivo RNA Structures and Interactions. Trends Biochem. Sci. 44, 555-556 (2019). https://doi.org/10.1016/j.tibs.2019.01.012
25. Chan, C.-Y., Umar, M.I., Kwok, C.K. Spectroscopic analysis reveals the effect of a single nucleotide bulge on G-quadruplex structures. Chem. Commun. 55, 2616-2619 (2019). https://doi.org/10.1039/c8cc09929d
24. Qian, X., Zhao, J., Yeung, P.Y., Zhang, Q.F.C., Kwok, C.K. Revealing LncRNA Structures and Interactions by Sequencing-Based Approaches. Trends Biochem. Sci. 44, 33-52 (2019). https://doi.org/10.1016/j.tibs.2018.09.012
2018
23. Ziv, O., Gabryelska, M.M., Lun, A.T.L., Gebert, L.F.R., Sheu-Gruttadauria, J., Meredith, L.W., Liu, Z.Y., Kwok, C.K., Qin, C.F., MacRae, I.J., Goodfellow, I., Marioni, J.C., Kudla, G., Miska, E.A. COMRADES determines in vivo RNA structures and interactions. Nat. Methods. 15, 785-788 (2018). https://doi.org/10.1038/s41592-018-0121-0
22. Chan, K.L., Peng, B., Umar, M.I., Chan, C.-Y., Sahakyan, A.B., Le, M.T.N., Kwok, C.K. Structural Analysis Reveals Formation and Role of RNA G-Quadruplex Structures in Human Mature MicroRNAs. Chem. Commun. 54, 10878-10881 (2018). https://doi.org/10.1039/c8cc04635b
21. Kwok, CK., Marsico, G., Balasubramanian, S. Detecting RNA G-quadruplexes (rG4s) in the Transcriptome. Cold Spring Harb Perspect Biol. 10:a032284 (2018). https://doi.org/10.1101/cshperspect.a032284
20. Ding, Y., Kwok, CK. Emergence of Vascular Plants. Nat. Plants 4, 325–326 (2018). https://doi.org/10.1038/s41477-018-0159-0
22. Chan, K.L., Peng, B., Umar, M.I., Chan, C.-Y., Sahakyan, A.B., Le, M.T.N., Kwok, C.K. Structural Analysis Reveals Formation and Role of RNA G-Quadruplex Structures in Human Mature MicroRNAs. Chem. Commun. 54, 10878-10881 (2018). https://doi.org/10.1039/c8cc04635b
21. Kwok, CK., Marsico, G., Balasubramanian, S. Detecting RNA G-quadruplexes (rG4s) in the Transcriptome. Cold Spring Harb Perspect Biol. 10:a032284 (2018). https://doi.org/10.1101/cshperspect.a032284
20. Ding, Y., Kwok, CK. Emergence of Vascular Plants. Nat. Plants 4, 325–326 (2018). https://doi.org/10.1038/s41477-018-0159-0
2017
19. Kwok, CK., Merrick, C.J. G-Quadruplexes: Prediction, Characterization, and Biological Application. Trends Biotechnol. 35, 997–1013 (2017). https://doi.org/10.1016/j.tibtech.2017.06.012
18. Norris, M., Kwok, CK., Cheema J., Hartley M., Morris R.J., Aviran S., Ding, Y. FoldAtlas: A Repository for Genome-Wide RNA Structure Probing Data. Bioinformatics. 33, 306-308 (2017). https://doi.org/10.1093/bioinformatics/btw611
18. Norris, M., Kwok, CK., Cheema J., Hartley M., Morris R.J., Aviran S., Ding, Y. FoldAtlas: A Repository for Genome-Wide RNA Structure Probing Data. Bioinformatics. 33, 306-308 (2017). https://doi.org/10.1093/bioinformatics/btw611
2016
17. Kwok, CK., Dawn of the In Vivo RNA Structuome and Interactome. Biochem Soc. Trans. 44, 1395-1410 (2016). https://doi.org/10.1042/bst20160075
16. Kwok, CK., Marsico, G., Sahakyan, A., Chambers V.S., Balasubramanian, S. rG4-Seq Reveals Widespread Formation of G-Quadruplex Structures in the Human Transcriptome. Nat. Methods. 13, 841-844 (2016). https://doi.org/10.1038/nmeth.3965
15. Kwok, CK., Sahakyan, A., Balasubramanian, S. Structural Analysis using SHALiPE to Reveal RNA G-Quadruplex Formation in Human Precursor MicroRNA. Angew. Chem. Int. Ed. 55, 8958-8961 (2016). https://doi.org/10.1002/anie.201603562
14. Sherlock, M.E., Rumble, C., Kwok, CK., Breffke, J., Maroncelli, M., & Bevilacqua, P.C. Steady-State and Time-Resolved Studies into the Origin of the Intrinsic Fluorescence of G-Quadruplexes. J. Phy. Chem. B 120, 5146-5158. (2016). https://doi.org/10.1021/acs.jpcb.6b03790
16. Kwok, CK., Marsico, G., Sahakyan, A., Chambers V.S., Balasubramanian, S. rG4-Seq Reveals Widespread Formation of G-Quadruplex Structures in the Human Transcriptome. Nat. Methods. 13, 841-844 (2016). https://doi.org/10.1038/nmeth.3965
15. Kwok, CK., Sahakyan, A., Balasubramanian, S. Structural Analysis using SHALiPE to Reveal RNA G-Quadruplex Formation in Human Precursor MicroRNA. Angew. Chem. Int. Ed. 55, 8958-8961 (2016). https://doi.org/10.1002/anie.201603562
14. Sherlock, M.E., Rumble, C., Kwok, CK., Breffke, J., Maroncelli, M., & Bevilacqua, P.C. Steady-State and Time-Resolved Studies into the Origin of the Intrinsic Fluorescence of G-Quadruplexes. J. Phy. Chem. B 120, 5146-5158. (2016). https://doi.org/10.1021/acs.jpcb.6b03790
2015
13. Crenshaw, E., Leung, B.P., Kwok, CK., Olson, K., Sebastian, N.P., Ansaloni, S., Schweitzer-Stenner, R., Akins, M.P., Bevilacqua, P.C., & Saunders, A.J. Amyloid Precursor Protein Translation is Regulated by a 3’UTR Guanine Quadruplex. PloS One. 10(11): e0143160. (2015). https://doi.org/10.1371/journal.pone.0143160
12. Ding, Y., Kwok, CK., Tang, Y., Bevilacqua, P.C., & Assmann, S.M. Structure-Seq: Genome-Wide Profiling of In Vivo RNA Structure at Single Nucleotide Resolution. Nat. Protoc. 10, 1050-1066 (2015). https://doi.org/10.1038/nprot.2015.064
11. Tang, Y., Bouvier, E., Kwok, CK., Ding, Y., Nekrutenko, A., Bevilacqua, P.C., & Assmann, S.M. StructureFold: Genome-Wide RNA Secondary Structure Mapping and Reconstruction In Vivo. Bioinformatics. 31, 2668-2675 (2015). https://doi.org/10.1093/bioinformatics/btv213
10. Kwok, CK., & Balasubramanian, S. Targeted Detection of G-Quadruplexes in Cellular RNAs. Angew. Chem. Int. Ed. 54, 6751-6754 (2015). (Selected as Hot Paper.) https://doi.org/10.1002/anie.201500891
9. Kwok, CK., Tang, Y., Assmann, S.M., & Bevilacqua, P.C. The RNA Structurome: Transcriptome-Wide Structure Probing using Next-Gen Sequencing. Trends Biochem. Sci. 40, 221-232 (2015). (Featured on the cover) https://doi.org/10.1016/j.tibs.2015.02.005
8. Kwok, CK., Ding, Y., Shahid, S., Assmann, S.M., & Bevilacqua, P.C. A Stable RNA G-Quadruplex within the 5’UTR of Arabidopsis Thaliana ATR mRNA Inhibits Translation. Biochem. J. 467, 91-102 (2015). (Featured in HFSP website) https://doi.org/10.1042/bj20141063
12. Ding, Y., Kwok, CK., Tang, Y., Bevilacqua, P.C., & Assmann, S.M. Structure-Seq: Genome-Wide Profiling of In Vivo RNA Structure at Single Nucleotide Resolution. Nat. Protoc. 10, 1050-1066 (2015). https://doi.org/10.1038/nprot.2015.064
11. Tang, Y., Bouvier, E., Kwok, CK., Ding, Y., Nekrutenko, A., Bevilacqua, P.C., & Assmann, S.M. StructureFold: Genome-Wide RNA Secondary Structure Mapping and Reconstruction In Vivo. Bioinformatics. 31, 2668-2675 (2015). https://doi.org/10.1093/bioinformatics/btv213
10. Kwok, CK., & Balasubramanian, S. Targeted Detection of G-Quadruplexes in Cellular RNAs. Angew. Chem. Int. Ed. 54, 6751-6754 (2015). (Selected as Hot Paper.) https://doi.org/10.1002/anie.201500891
9. Kwok, CK., Tang, Y., Assmann, S.M., & Bevilacqua, P.C. The RNA Structurome: Transcriptome-Wide Structure Probing using Next-Gen Sequencing. Trends Biochem. Sci. 40, 221-232 (2015). (Featured on the cover) https://doi.org/10.1016/j.tibs.2015.02.005
8. Kwok, CK., Ding, Y., Shahid, S., Assmann, S.M., & Bevilacqua, P.C. A Stable RNA G-Quadruplex within the 5’UTR of Arabidopsis Thaliana ATR mRNA Inhibits Translation. Biochem. J. 467, 91-102 (2015). (Featured in HFSP website) https://doi.org/10.1042/bj20141063
2014
7. Ding, Y., Tang, Y., Kwok, CK., Zhang, Y., Bevilacqua, P.C. Assmann, S.M. In vivo Genome-Wide Profiling of RNA Secondary Structures Reveal Novel Regulatory Features. Nature. 505, 696-700 (2014). (Featured on the cover, F1000 site http://f1000.com/prime/718185620, Nature 505, 621-622 (2014), Nat. Meth.11, 11 (2014) and Nat. Chem. Biol. 10, 87 (2014).) https://doi.org/10.1038/nature12756
2013
6. Kwok, CK., Ding, Y., Tang, Y., Assmann, S.M., Bevilacqua, P.C. Determination of in vivo RNA Structure in Low-Abundance Transcripts. Nat. Commun. 4, 2971 (2013). (Featured in Nat. Meth.11, 11 (2014).) https://doi.org/10.1038/ncomms3971
5. Kwok, CK., Lam, SL. NMR Proton Chemical Shift Prediction of T∙T Mismatches in B-DNA Duplexes. J. Magn. Reson. 234, 184-189 (2013). https://doi.org/10.1016/j.jmr.2013.06.022
4. Kwok, CK., Sherlock, M.E. & Bevilacqua, P.C. Effect of Loop Sequence and Loop Length on the Intrinsic Fluorescence of G-Quadruplexes. Biochemistry 52, 3019-3021 (2013). https://doi.org/10.1021/bi400139e
3. Kwok, CK., Ding, Y., Sherlock, M.E., Assmann, S.M. & Bevilacqua, P.C. A Hybridization-Based Approach for Quantitative and Low-Bias Single-Stranded DNA Ligation. Anal. Biochem. 435, 181-186 (2013). Featured on the cover. https://doi.org/10.1016/j.ab.2013.01.008
2. Kwok, CK., Sherlock, M.E. & Bevilacqua, P.C. Decrease in RNA Folding Cooperativity by Deliberate Population of Intermediates in RNA G-Quadruplexes. Angew. Chem. Int. Ed. 52, 683-686 (2013). (Featured in F1000 site. http://f1000.com/prime/717970147.) https://doi.org/10.1002/anie.201206475
5. Kwok, CK., Lam, SL. NMR Proton Chemical Shift Prediction of T∙T Mismatches in B-DNA Duplexes. J. Magn. Reson. 234, 184-189 (2013). https://doi.org/10.1016/j.jmr.2013.06.022
4. Kwok, CK., Sherlock, M.E. & Bevilacqua, P.C. Effect of Loop Sequence and Loop Length on the Intrinsic Fluorescence of G-Quadruplexes. Biochemistry 52, 3019-3021 (2013). https://doi.org/10.1021/bi400139e
3. Kwok, CK., Ding, Y., Sherlock, M.E., Assmann, S.M. & Bevilacqua, P.C. A Hybridization-Based Approach for Quantitative and Low-Bias Single-Stranded DNA Ligation. Anal. Biochem. 435, 181-186 (2013). Featured on the cover. https://doi.org/10.1016/j.ab.2013.01.008
2. Kwok, CK., Sherlock, M.E. & Bevilacqua, P.C. Decrease in RNA Folding Cooperativity by Deliberate Population of Intermediates in RNA G-Quadruplexes. Angew. Chem. Int. Ed. 52, 683-686 (2013). (Featured in F1000 site. http://f1000.com/prime/717970147.) https://doi.org/10.1002/anie.201206475
2011
1. He, G., Kwok, CK. & Lam, SL. Preferential Base Pairing Modes of T.T Mismatches. FEBS Lett. 585, 3953-3958 (2011). https://doi.org/10.1016/j.febslet.2011.10.044