URMC / Labs / Yu Lab / Publications

1. Morais P
2. Zhang R
3. Yu YT
Therapeutic Nonsense Suppression Modalities: From Small Molecules to Nucleic Acid-Based Approaches.; Biomedicines; Vol 12(6). 2024 Jun 10.
1. Pan Y
2. Adachi H
3. He X
4. Chen JL
5. Yu YT
6. Boutz PL
Updated Pseudo-seq Protocol for Transcriptome-Wide Detection of Pseudouridines.; Bio-protocol; Vol 14(9), pp. e4985. 2024 May 05.
1. Chen JL
2. Leeder WM
3. Morais P
4. Adachi H
5. Yu YT
Pseudouridylation-mediated gene expression modulation.; The Biochemical journal; Vol 481(1), pp. 1-16. 2024 Jan 10.
1. Adachi H
2. Pan Y
3. He X
4. Chen JL
5. Klein B
6. Platenburg G
7. Morais P
8. Boutz P
9. Yu YT
Targeted pseudouridylation: An approach for suppressing nonsense mutations in disease genes.; Molecular cell. 2023 Feb 03.
1. Adachi H
2. Chen JL
3. Yin Q
4. Morais P
5. Yu YT
In Vitro Reconstitution of Pseudouridylation Catalyzed by Human Box H/ACA Ribonucleoprotein Particles.; Methods in molecular biology (Clifton, N.J.); Vol 2666, pp. 177-191. 2023.
1. Adachi H
2. Hengesbach M
3. Yu YT
4. Morais P
From Antisense RNA to RNA Modification: Therapeutic Potential of RNA-Based Technologies.; Biomedicines; Vol 9(5). 2021 May 14.
1. Morais P
2. Adachi H
3. Yu YT
Spliceosomal snRNA Epitranscriptomics.; Frontiers in genetics; Vol 12. 2021.
1. Morais P
2. Adachi H
3. Yu YT
The Critical Contribution of Pseudouridine to mRNA COVID-19 Vaccines.; Frontiers in cell and developmental biology; Vol 9. 2021.
1. Morais P
2. Adachi H
3. Yu YT
Suppression of Nonsense Mutations by New Emerging Technologies.; International journal of molecular sciences; Vol 21(12). 2020 Jun 20.
1. Adachi H
2. Yu YT
Pseudouridine-mediated stop codon read-through in S. cerevisiae is sequence context-independent.; RNA (New York, N.Y.). 2020 May 20.
1. Adachi H
2. DeZoysa MD
3. Yu YT
Detection and Quantification of Pseudouridine in RNA.; Methods in molecular biology (Clifton, N.J.); Vol 1870. 2019.
1. Adachi H
2. De Zoysa MD
3. Yu YT
Post-transcriptional pseudouridylation in mRNA as well as in some major types of noncoding RNAs.; Biochimica et biophysica acta. Gene regulatory mechanisms. 2018 Nov 08.
1. De Zoysa MD
2. Wu G
3. Katz R
4. Yu YT
Guide-substrate base-pairing requirement for box H/ACA RNA-guided RNA pseudouridylation.; RNA (New York, N.Y.). 2018 Jun 05.
1. Zhao Y
2. Dunker W
3. Yu YT
4. Karijolich J
The Role of Noncoding RNA Pseudouridylation in Nuclear Gene Expression Events.; Frontiers in bioengineering and biotechnology; Vol 6. 2018.
1. Ge J
2. Karijolich J
3. Zhai Y
4. Zheng J
5. Yu YT
5-Fluorouracil Treatment Alters the Efficiency of Translational Recoding.; Genes; Vol 8(11). 2017 Oct 31.
1. Poole AR
2. Vicino I
3. Adachi H
4. Yu YT
5. Hebert MD
Regulatory RNPs: a novel class of ribonucleoproteins that potentially contribute to ribosome heterogeneity.; Biology open. 2017 Aug 14.
1. De Zoysa MD
2. Yu YT
Posttranscriptional RNA Pseudouridylation.; The Enzymes; Vol 41. 2017.
1. Xu C
2. Ishikawa H
3. Izumikawa K
4. Li L
5. He H
6. Nobe Y
7. Yamauchi Y
8. Shahjee HM
9. Wu XH
10. Yu YT
11. Isobe T
12. Takahashi N
13. Min J
Structural insights into Gemin5-guided selection of pre-snRNAs for snRNP assembly.; Genes & development; Vol 30(21). 2016 Nov 01.
1. Wu G
2. Radwan MK
3. Xiao M
4. Adachi H
5. Fan J
6. Yu YT
The TOR signaling pathway regulates starvation-induced pseudouridylation of yeast U2 snRNA.; RNA (New York, N.Y.). 2016 Jun 7.
1. Wu G
2. Adachi H
3. Ge J
4. Stephenson D
5. Query CC
6. Yu YT
Pseudouridines in U2 snRNA stimulate the ATPase activity of Prp5 during spliceosome assembly.; The EMBO journal; Vol 35(6). 2016 Mar 15.
1. Huang C
2. Karijolich J
3. Yu YT
Detection and quantification of RNA 2'-O-methylation and pseudouridylation.; Methods (San Diego, Calif.). 2016 Feb 4.
1. Huang C
2. Wu G
3. Yu YT
Purification and Functional Reconstitution of Box H/ACA Ribonucleoprotein Particles.; Methods in molecular biology (Clifton, N.J.); Vol 1421. 2016.
1. Karijolich J
2. Yi C
3. Yu YT
Transcriptome-wide dynamics of RNA pseudouridylation.; Nature reviews. Molecular cell biology; Vol 16(10). 2015 Oct.
1. Karijolich J
2. Yu YT
The new era of RNA modification.; RNA (New York, N.Y.); Vol 21(4). 2015 Apr.
1. Wu G
2. Huang C
3. Yu YT
Pseudouridine in mRNA: Incorporation, Detection, and Recoding.; Methods in enzymology; Vol 560. 2015.
1. Enwerem II
2. Wu G
3. Yu YT
4. Hebert MD
Cajal body proteins differentially affect the processing of box C/D scaRNPs.; PloS one; Vol 10(4). 2015.
1. Adachi H
2. Yu YT
Insight into the mechanisms and functions of spliceosomal snRNA pseudouridylation.; World journal of biological chemistry; Vol 5(4). 2014 Nov 26.
1. Karijolich J
2. Yu YT
Therapeutic suppression of premature termination codons: mechanisms and clinical considerations (review).; International journal of molecular medicine; Vol 34(2). 2014 Aug.
1. Lim SJ
2. Scott A
3. Xiong XP
4. Vahidpour S
5. Karijolich J
6. Guo D
7. Pei S
8. Yu YT
9. Zhou R
10. Li WX
Requirement for CRIF1 in RNA interference and Dicer-2 stability.; RNA biology; Vol 11(9). 2014.
1. Yu YT
2. Meier UT
RNA-guided isomerization of uridine to pseudouridine--pseudouridylation.; RNA biology; Vol 11(12). 2014.
1. Adachi H
2. Yu YT
Purification of radiolabeled RNA products using denaturing gel electrophoresis.; Current protocols in molecular biology / edited by Frederick M. Ausubel ... [et al.]; Vol 105. 2014.
1. Fernández IS
2. Ng CL
3. Kelley AC
4. Wu G
5. Yu YT
6. Ramakrishnan V
Unusual base pairing during the decoding of a stop codon by the ribosome.; Nature; Vol 500(7460). 2013 Aug 01.
1. Ge J
2. Yu YT
RNA pseudouridylation: new insights into an old modification.; Trends in biochemical sciences; Vol 38(4). 2013 Apr.
1. Huang C
2. Yu YT
Synthesis and labeling of RNA in vitro.; Current protocols in molecular biology / edited by Frederick M. Ausubel ... [et al.]; Vol Chapter 4. 2013 Apr.
1. Huang C
2. Yu YT
Synthesis and labeling of RNA in vitro.; Wiley Current Protocols in Molecular Biology. 2013 Jan 01.
1. Huang C
2. Wu G
3. Yu YT
Inducing nonsense suppression by targeted pseudouridylation.; Nature protocols; Vol 7(4). 2012 Mar 29.
1. Huang C
2. Wu G
3. Yu YT
Inducing nonsense suppression by targeted pseudouridylation.; Nature Protocols; Vol 7, pp. 789-800. 2012 Jan 01.
1. Yu AT
2. Ge J
3. Yu YT
Pseudouridines in spliceosomal snRNAs.; Protein & cell; Vol 2(9). 2011 Sep.
1. Wu G
2. Yu AT
3. Kantartzis A
4. Yu YT
Functions and mechanisms of spliceosomal small nuclear RNA pseudouridylation.; Wiley interdisciplinary reviews. RNA; Vol 2(4). 2011 Jul.
1. Karijolich J
2. Yu YT
Converting nonsense codons into sense codons by targeted pseudouridylation.; Nature; Vol 474(7351). 2011 Jun 16.
1. Wu G
2. Xiao M
3. Yang C
4. Yu YT
U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP.; The EMBO journal; Vol 30(1). 2011 Jan 05.
1. Huang C
2. Karijolich J
3. Yu YT
Post-transcriptional modification of RNAs by artificial Box H/ACA and Box C/D RNPs.; Methods in molecular biology (Clifton, N.J.); Vol 718. 2011.
1. Wu G
2. Yu AT
3. Kantartzis A
4. Yu YT
Functions and Mechanisms of Spliceosomal snRNA pseudouridylation.; Wiley Interdisciplinary Reviews (WIREs) RNA; Vol 2, pp. 571-581. 2011 Jan 01.
1. Yu AT
2. Ge J
3. Yu YT
Pseudouridines in spliceosomal snRNAs.; Protein & Cell; Vol 2, pp. 712-725. 2011 Jan 01.
1. Huang C
2. Yu YT
Targeted 2'-O methylation at a nucleotide within the pseudoknot of telomerase RNA reduces telomerase activity in vivo.; Molecular and cellular biology; Vol 30(18). 2010 Sep.
1. Chen C
2. Zhao X
3. Kierzek R
4. Yu YT
A flexible RNA backbone within the polypyrimidine tract is required for U2AF65 binding and pre-mRNA splicing in vivo.; Molecular and cellular biology; Vol 30(17). 2010 Sep.
1. Ge J
2. Liu H
3. Yu YT
Regulation of pre-mRNA splicing in Xenopus oocytes by targeted 2'-O-methylation.; RNA (New York, N.Y.); Vol 16(5). 2010 May.
1. Karijolich J
2. Yu YT
Spliceosomal snRNA modifications and their function.; RNA biology; Vol 7(2). 2010 Mar.
1. Karijolich J
2. Kantartzis A
3. Yu YT
RNA modifications: a mechanism that modulates gene expression.; Methods in molecular biology (Clifton, N.J.); Vol 629. 2010.
1. Karijolich J
2. Kantartzis A
3. Yu YT
Quantitative analysis of RNA modifications.; Methods in molecular biology (Clifton, N.J.); Vol 629. 2010.