Pseudouridine (BioDeep_00000229653)

Main id: BioDeep_00000001301

 

human metabolite PANOMIX_OTCML-2023 natural product


代谢物信息卡片


Pseudouridine

化学式: C9H12N2O6 (244.0695)
中文名称: 假尿苷
谱图信息: 最多检出来源 () 0%

分子结构信息

SMILES: C1=C(C(=O)NC(=O)N1)C2C(C(C(O2)CO)O)O
InChI: InChI=1S/C9H12N2O6/c12-2-4-5(13)6(14)7(17-4)3-1-10-9(16)11-8(3)15/h1,4-7,12-14H,2H2,(H2,10,11,15,16)/t4-,5-,6-,7+/m1/s1

描述信息

Pseudouridine is an isomer of the nucleoside uridine, and the most abundant modified nucleoside in non-coding RNAs. Pseudouridine in rRNA and tRNA can fine-tune and stabilize the regional structure and help maintain their functions in mRNA decoding, ribosome assembly, processing and translation[1][2][3][4].
Pseudouridine is an isomer of the nucleoside uridine, and the most abundant modified nucleoside in non-coding RNAs. Pseudouridine in rRNA and tRNA can fine-tune and stabilize the regional structure and help maintain their functions in mRNA decoding, ribosome assembly, processing and translation[1][2][3][4].

同义名列表

3 个代谢物同义名

Pseudouridine; Pseudouridine; Pseudouridine



数据库引用编号

17 个数据库交叉引用编号

分类词条

相关代谢途径

Reactome(2)

BioCyc(0)

PlantCyc(0)

代谢反应

0 个相关的代谢反应过程信息。

Reactome(0)

BioCyc(0)

WikiPathways(0)

Plant Reactome(0)

INOH(0)

PlantCyc(0)

COVID-19 Disease Map(0)

PathBank(0)

PharmGKB(0)

25 个相关的物种来源信息

在这里通过桑基图来展示出与当前的这个代谢物在我们的BioDeep知识库中具有相关联信息的其他代谢物。在这里进行关联的信息来源主要有：

  • PubMed: 来源于PubMed文献库中的文献信息，我们通过自然语言数据挖掘得到的在同一篇文献中被同时提及的相关代谢物列表，这个列表按照代谢物同时出现的文献数量降序排序，取前10个代谢物作为相关研究中关联性很高的代谢物集合展示在桑基图中。
  • NCBI Taxonomy: 通过文献数据挖掘，得到的代谢物物种来源信息关联。这个关联信息同样按照出现的次数降序排序，取前10个代谢物作为高关联度的代谢物集合展示在桑吉图上。
  • Chemical Taxonomy: 在物质分类上处于同一个分类集合中的其他代谢物
  • Chemical Reaction: 在化学反应过程中，存在为当前代谢物相关联的生化反应过程中的反应底物或者反应产物的关联代谢物信息。

点击图上的相关代谢物的名称，可以跳转到相关代谢物的信息页面。

亚细胞结构定位 关联基因列表
Cytoplasm 9 AFP, AKT1, DKC1, EGFR, EMG1, PUS1, PUS10, PUS3, RBMS3
Endosome membrane 1 EGFR
Endoplasmic reticulum membrane 1 EGFR
Nucleus 10 AKT1, DKC1, EGFR, EMG1, PUS1, PUS10, PUS3, PUS7, RBMS3, TRUB1
cytosol 5 AKT1, B2M, PUS3, RBMS3, TRUB1
nuclear body 1 NOP10
nucleoplasm 6 AKT1, DKC1, EMG1, GAR1, NOP10, PUS1
Cell membrane 4 AKT1, B2M, EGFR, SLC19A2
lamellipodium 1 AKT1
ruffle membrane 1 EGFR
Early endosome membrane 2 B2M, EGFR
Multi-pass membrane protein 1 SLC19A2
cell cortex 1 AKT1
cell junction 1 EGFR
cell surface 4 ALPP, B2M, EGFR, EPO
glutamatergic synapse 2 AKT1, EGFR
Golgi apparatus 1 B2M
Golgi membrane 3 B2M, C1GALT1, EGFR
lysosomal membrane 1 B2M
postsynapse 1 AKT1
Cytoplasm, cytosol 1 TRUB1
endosome 1 EGFR
plasma membrane 6 AKT1, ALPP, B2M, EGFR, IFNLR1, SLC19A2
Membrane 6 AKT1, B2M, C1GALT1, EGFR, IFNLR1, SLC19A2
apical plasma membrane 1 EGFR
basolateral plasma membrane 1 EGFR
extracellular exosome 2 B2M, EPO
endoplasmic reticulum 1 B2M
extracellular space 5 AFP, B2M, CRP, EGFR, EPO
perinuclear region of cytoplasm 1 EGFR
mitochondrion 3 PUS1, PUS10, TRUB1
protein-containing complex 2 AKT1, EGFR
intracellular membrane-bounded organelle 1 PUS1
Single-pass type I membrane protein 2 EGFR, IFNLR1
Secreted 4 AFP, B2M, CRP, EPO
extracellular region 3 B2M, CRP, EPO
mitochondrial matrix 1 PUS1
nuclear membrane 1 EGFR
external side of plasma membrane 1 B2M
microtubule cytoskeleton 1 AKT1
nucleolus 2 DKC1, EMG1
cell-cell junction 1 AKT1
Single-pass type II membrane protein 1 C1GALT1
vesicle 1 AKT1
Membrane raft 1 EGFR
focal adhesion 2 B2M, EGFR
spindle 1 AKT1
intracellular vesicle 1 EGFR
Mitochondrion intermembrane space 1 AKT1
mitochondrial intermembrane space 1 AKT1
receptor complex 1 EGFR
ciliary basal body 1 AKT1
Late endosome membrane 1 B2M
phagocytic vesicle membrane 1 B2M
Chromosome 1 EMG1
[Isoform 1]: Mitochondrion 1 PUS1
Nucleus, nucleolus 2 EMG1, NOP10
chromosome, telomeric region 1 GAR1
Lipid-anchor, GPI-anchor 1 ALPP
fibrillar center 2 DKC1, GAR1
Recycling endosome membrane 1 B2M
cell body 1 EPO
side of membrane 1 ALPP
basal plasma membrane 1 EGFR
[Isoform 3]: Cytoplasm 1 DKC1
synaptic membrane 1 EGFR
secretory granule lumen 1 EPO
HFE-transferrin receptor complex 1 B2M
endoplasmic reticulum lumen 2 AFP, B2M
specific granule lumen 1 B2M
tertiary granule lumen 1 B2M
small-subunit processome 1 EMG1
sno(s)RNA-containing ribonucleoprotein complex 1 NOP10
ER to Golgi transport vesicle membrane 1 B2M
telomerase holoenzyme complex 3 DKC1, GAR1, NOP10
clathrin-coated endocytic vesicle membrane 1 EGFR
Cajal body 1 DKC1
ribonucleoprotein complex 2 NOP10, RBMS3
[Isoform 2]: Nucleus 1 PUS1
[Isoform 1]: Nucleus, nucleolus 1 DKC1
MHC class I peptide loading complex 1 B2M
Nucleus, Cajal body 2 DKC1, NOP10
box H/ACA scaRNP complex 3 DKC1, GAR1, NOP10
box H/ACA snoRNP complex 3 DKC1, GAR1, NOP10
box H/ACA telomerase RNP complex 3 DKC1, GAR1, NOP10
multivesicular body, internal vesicle lumen 1 EGFR
Shc-EGFR complex 1 EGFR
MHC class I protein complex 1 B2M
MHC class II protein complex 1 B2M
early endosome lumen 1 B2M
interleukin-28 receptor complex 1 IFNLR1


文献列表

  • Yanli Niu, Lingyun Liu. RNA pseudouridine modification in plants. Journal of experimental botany. 2023 11; 74(21):6431-6447. doi: 10.1093/jxb/erad323. [PMID: 37581601]
  • Meiling Zhang, Zhe Jiang, Yichen Ma, Wenqing Liu, Yuan Zhuang, Bo Lu, Kai Li, Jinying Peng, Chengqi Yi. Quantitative profiling of pseudouridylation landscape in the human transcriptome. Nature chemical biology. 2023 Mar; ?(?):. doi: 10.1038/s41589-023-01304-7. [PMID: 36997645]
  • Ruijia He, Jing Qiao, Xiaoxia Wang, Wenlian Chen, Tong Yin. A new quantitative method for pseudouridine and uridine in human serum and its clinical application in acute myeloid leukemia. Journal of pharmaceutical and biomedical analysis. 2022 Sep; 219(?):114934. doi: 10.1016/j.jpba.2022.114934. [PMID: 35839582]
  • Zidong Jia, Feilong Meng, Hui Chen, Gao Zhu, Xincheng Li, Yunfan He, Liyao Zhang, Xiao He, Huisen Zhan, Mengquan Chen, Yanchun Ji, Meng Wang, Min-Xin Guan. Human TRUB1 is a highly conserved pseudouridine synthase responsible for the formation of Ψ55 in mitochondrial tRNAAsn, tRNAGln, tRNAGlu and tRNAPro. Nucleic acids research. 2022 09; 50(16):9368-9381. doi: 10.1093/nar/gkac698. [PMID: 36018806]
  • Kyusik Q Kim, Bhagyashri D Burgute, Shin-Cheng Tzeng, Crystal Jing, Courtney Jungers, Junya Zhang, Liewei L Yan, Richard D Vierstra, Sergej Djuranovic, Bradley S Evans, Hani S Zaher. N1-methylpseudouridine found within COVID-19 mRNA vaccines produces faithful protein products. Cell reports. 2022 08; 40(9):111300. doi: 10.1016/j.celrep.2022.111300. [PMID: 35988540]
  • Yanli Niu, Yuan Zheng, Huijie Zhu, Hongyun Zhao, Kaili Nie, Xiaopei Wang, Lirong Sun, Chun-Peng Song. The Arabidopsis Mitochondrial Pseudouridine Synthase Homolog FCS1 Plays Critical Roles in Plant Development. Plant & cell physiology. 2022 Jul; 63(7):955-966. doi: 10.1093/pcp/pcac060. [PMID: 35560171]
  • Muthusamy Ramakrishnan, K Shanmugha Rajan, Sileesh Mullasseri, Sarin Palakkal, Krishnan Kalpana, Anket Sharma, Mingbing Zhou, Kunnummal Kurungara Vinod, Subbiah Ramasamy, Qiang Wei. The plant epitranscriptome: revisiting pseudouridine and 2'-O-methyl RNA modifications. Plant biotechnology journal. 2022 07; 20(7):1241-1256. doi: 10.1111/pbi.13829. [PMID: 35445501]
  • Jonas Cerneckis, Qi Cui, Chuan He, Chengqi Yi, Yanhong Shi. Decoding pseudouridine: an emerging target for therapeutic development. Trends in pharmacological sciences. 2022 06; 43(6):522-535. doi: 10.1016/j.tips.2022.03.008. [PMID: 35461717]
  • Zsuzsanna Ament, Amit Patki, Ninad Chaudhary, Varun M Bhave, Ana-Lucia Garcia Guarniz, Yan Gao, Robert E Gerszten, Adolfo Correa, Suzanne E Judd, Mary Cushman, D Leann Long, M Ryan Irvin, W Taylor Kimberly. Nucleosides Associated With Incident Ischemic Stroke in the REGARDS and JHS Cohorts. Neurology. 2022 05; 98(21):e2097-e2107. doi: 10.1212/wnl.0000000000200262. [PMID: 35264422]
  • Kathrin Leppek, Gun Woo Byeon, Wipapat Kladwang, Hannah K Wayment-Steele, Craig H Kerr, Adele F Xu, Do Soon Kim, Ved V Topkar, Christian Choe, Daphna Rothschild, Gerald C Tiu, Roger Wellington-Oguri, Kotaro Fujii, Eesha Sharma, Andrew M Watkins, John J Nicol, Jonathan Romano, Bojan Tunguz, Fernando Diaz, Hui Cai, Pengbo Guo, Jiewei Wu, Fanyu Meng, Shuai Shi, Eterna Participants, Philip R Dormitzer, Alicia Solórzano, Maria Barna, Rhiju Das. Combinatorial optimization of mRNA structure, stability, and translation for RNA-based therapeutics. Nature communications. 2022 03; 13(1):1536. doi: 10.1038/s41467-022-28776-w. [PMID: 35318324]
  • Yuting Xie, Yeting Gu, Guangping Shi, Jianliang He, Wenjing Hu, Zhonghui Zhang. Genome-Wide Identification and Expression Analysis of Pseudouridine Synthase Family in Arabidopsis and Maize. International journal of molecular sciences. 2022 Feb; 23(5):. doi: 10.3390/ijms23052680. [PMID: 35269820]
  • Qi Cui, Kailin Yin, Xiaoting Zhang, Peng Ye, Xianwei Chen, Jianfei Chao, Haowei Meng, Jiangbo Wei, Daniel Roeth, Li Li, Yue Qin, Guihua Sun, Mingzi Zhang, Jeremy Klein, Marvin Huynhle, Cheng Wang, Leying Zhang, Behnam Badie, Markus Kalkum, Chuan He, Chengqi Yi, Yanhong Shi. Targeting PUS7 suppresses tRNA pseudouridylation and glioblastoma tumorigenesis. Nature cancer. 2021 09; 2(9):932-949. doi: 10.1038/s43018-021-00238-0. [PMID: 35121864]
  • Cory J Knudson, Pedro Alves-Peixoto, Hiromi Muramatsu, Colby Stotesbury, Lingjuan Tang, Paulo J C Lin, Ying K Tam, Drew Weissman, Norbert Pardi, Luis J Sigal. Lipid-nanoparticle-encapsulated mRNA vaccines induce protective memory CD8 T cells against a lethal viral infection. Molecular therapy : the journal of the American Society of Gene Therapy. 2021 09; 29(9):2769-2781. doi: 10.1016/j.ymthe.2021.05.011. [PMID: 33992803]
  • Elie Dolgin. The tangled history of mRNA vaccines. Nature. 2021 09; 597(7876):318-324. doi: 10.1038/d41586-021-02483-w. [PMID: 34522017]
  • Daniela Ruffell. The future in an RNA molecule: from mRNA vaccines to therapeutics - An interview with Drew Weissman. FEBS letters. 2021 09; 595(18):2305-2309. doi: 10.1002/1873-3468.14190. [PMID: 34549422]
  • Michelle R Denburg, Yunwen Xu, Alison G Abraham, Josef Coresh, Jingsha Chen, Morgan E Grams, Harold I Feldman, Paul L Kimmel, Casey M Rebholz, Eugene P Rhee, Ramachandran S Vasan, Bradley A Warady, Susan L Furth. Metabolite Biomarkers of CKD Progression in Children. Clinical journal of the American Society of Nephrology : CJASN. 2021 08; 16(8):1178-1189. doi: 10.2215/cjn.00220121. [PMID: 34362785]
  • Elie Dolgin. CureVac COVID vaccine let-down spotlights mRNA design challenges. Nature. 2021 06; 594(7864):483. doi: 10.1038/d41586-021-01661-0. [PMID: 34145413]
  • Sang-Hoon Kim, Claus-Peter Witte, Sangkee Rhee. Structural basis for the substrate specificity and catalytic features of pseudouridine kinase from Arabidopsis thaliana. Nucleic acids research. 2021 01; 49(1):491-503. doi: 10.1093/nar/gkaa1144. [PMID: 33290549]
  • Oana A Zeleznik, A Heather Eliassen, Peter Kraft, Elizabeth M Poole, Bernard A Rosner, Sarah Jeanfavre, Amy A Deik, Kevin Bullock, Daniel S Hitchcock, Julian Avila-Pacheco, Clary B Clish, Shelley S Tworoger. A Prospective Analysis of Circulating Plasma Metabolites Associated with Ovarian Cancer Risk. Cancer research. 2020 03; 80(6):1357-1367. doi: 10.1158/0008-5472.can-19-2567. [PMID: 31969373]
  • Mingjia Chen, Claus-Peter Witte. A Kinase and a Glycosylase Catabolize Pseudouridine in the Peroxisome to Prevent Toxic Pseudouridine Monophosphate Accumulation. The Plant cell. 2020 03; 32(3):722-739. doi: 10.1105/tpc.19.00639. [PMID: 31907295]
  • Frank J O'Brien, Tammy L Sirich, Abigail Taussig, Enrica Fung, Lakshmi L Ganesan, Natalie S Plummer, Paul Brakeman, Scott M Sutherland, Timothy W Meyer. Plasma pseudouridine levels reflect body size in children on hemodialysis. Pediatric nephrology (Berlin, Germany). 2020 02; 35(2):305-312. doi: 10.1007/s00467-019-04369-6. [PMID: 31728748]
  • Guanshi Zhang, Jialing Zhang, Rachel J DeHoog, Subramaniam Pennathur, Christopher R Anderton, Manjeri A Venkatachalam, Theodore Alexandrov, Livia S Eberlin, Kumar Sharma. DESI-MSI and METASPACE indicates lipid abnormalities and altered mitochondrial membrane components in diabetic renal proximal tubules. Metabolomics : Official journal of the Metabolomic Society. 2020 01; 16(1):11. doi: 10.1007/s11306-020-1637-8. [PMID: 31925564]
  • Liam E Broughton-Neiswanger, Sol M Rivera-Velez, Martin A Suarez, Jennifer E Slovak, Pablo E Piñeyro, Julianne K Hwang, Nicolas F Villarino. Urinary chemical fingerprint left behind by repeated NSAID administration: Discovery of putative biomarkers using artificial intelligence. PloS one. 2020; 15(2):e0228989. doi: 10.1371/journal.pone.0228989. [PMID: 32053695]
  • Kewei Liu, Wei Chen, Hao Lin. XG-PseU: an eXtreme Gradient Boosting based method for identifying pseudouridine sites. Molecular genetics and genomics : MGG. 2020 Jan; 295(1):13-21. doi: 10.1007/s00438-019-01600-9. [PMID: 31392406]
  • Lirong Sun, Yuxing Xu, Shenglong Bai, Xue Bai, Huijie Zhu, Huan Dong, Wei Wang, Xiaohong Zhu, Fushun Hao, Chun-Peng Song. Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis. Journal of experimental botany. 2019 10; 70(19):5089-5600. doi: 10.1093/jxb/erz273. [PMID: 31173101]
  • Mary McMahon, Adrian Contreras, Mikael Holm, Tamayo Uechi, Craig M Forester, Xiaming Pang, Cody Jackson, Meredith E Calvert, Bin Chen, David A Quigley, John M Luk, R Kate Kelley, John D Gordan, Ryan M Gill, Scott C Blanchard, Davide Ruggero. A single H/ACA small nucleolar RNA mediates tumor suppression downstream of oncogenic RAS. eLife. 2019 09; 8(?):. doi: 10.7554/elife.48847. [PMID: 31478838]
  • Tiffany A Freed, Josef Coresh, Lesley A Inker, Douglas R Toal, Regis Perichon, Jingsha Chen, Kelli D Goodman, Qibo Zhang, Jessie K Conner, Deirdre M Hauser, Kate E T Vroom, Maria L Oyaski, Jacob E Wulff, Gudný Eiríksdóttir, Vilmundur Gudnason, Vicente E Torres, Lisa A Ford, Andrew S Levey. Validation of a Metabolite Panel for a More Accurate Estimation of Glomerular Filtration Rate Using Quantitative LC-MS/MS. Clinical chemistry. 2019 03; 65(3):406-418. doi: 10.1373/clinchem.2018.288092. [PMID: 30647123]
  • Kyoungmi Kim, Josephine F Trott, Guimin Gao, Arlene Chapman, Robert H Weiss. Plasma metabolites and lipids associate with kidney function and kidney volume in hypertensive ADPKD patients early in the disease course. BMC nephrology. 2019 02; 20(1):66. doi: 10.1186/s12882-019-1249-6. [PMID: 30803434]
  • Dorottya Nagy-Szakal, Dinesh K Barupal, Bohyun Lee, Xiaoyu Che, Brent L Williams, Ellie J R Kahn, Joy E Ukaigwe, Lucinda Bateman, Nancy G Klimas, Anthony L Komaroff, Susan Levine, Jose G Montoya, Daniel L Peterson, Bruce Levin, Mady Hornig, Oliver Fiehn, W Ian Lipkin. Insights into myalgic encephalomyelitis/chronic fatigue syndrome phenotypes through comprehensive metabolomics. Scientific reports. 2018 07; 8(1):10056. doi: 10.1038/s41598-018-28477-9. [PMID: 29968805]
  • Giuseppe Floresta, Venerando Pistarà, Emanuele Amata, Maria Dichiara, Arcangelo Damigella, Agostino Marrazzo, Orazio Prezzavento, Francesco Punzo, Antonio Rescifina. Molecular modeling studies of pseudouridine isoxazolidinyl nucleoside analogues as potential inhibitors of the pseudouridine 5'-monophosphate glycosidase. Chemical biology & drug design. 2018 02; 91(2):519-525. doi: 10.1111/cbdd.13113. [PMID: 28941159]
  • Peggy Sekula, Katja Dettmer, Franziska C Vogl, Wolfram Gronwald, Lisa Ellmann, Robert P Mohney, Kai-Uwe Eckardt, Karsten Suhre, Gabi Kastenmüller, Peter J Oefner, Anna Köttgen. From Discovery to Translation: Characterization of C-Mannosyltryptophan and Pseudouridine as Markers of Kidney Function. Scientific reports. 2017 12; 7(1):17400. doi: 10.1038/s41598-017-17107-5. [PMID: 29234020]
  • Aleksandra Krstulja, Stefania Lettieri, Andrew J Hall, Vincent Roy, Patrick Favetta, Luigi A Agrofoglio. Tailor-Made Molecularly Imprinted Polymer for Selective Recognition of the Urinary Tumor Marker Pseudouridine. Macromolecular bioscience. 2017 12; 17(12):. doi: 10.1002/mabi.201700250. [PMID: 29144579]
  • Zhixin Lei, Chengqi Yi. A Radiolabeling-Free, qPCR-Based Method for Locus-Specific Pseudouridine Detection. Angewandte Chemie (International ed. in English). 2017 11; 56(47):14878-14882. doi: 10.1002/anie.201708276. [PMID: 28960747]
  • Norbert Pardi, Drew Weissman. Nucleoside Modified mRNA Vaccines for Infectious Diseases. Methods in molecular biology (Clifton, N.J.). 2017; 1499(?):109-121. doi: 10.1007/978-1-4939-6481-9_6. [PMID: 27987145]
  • Kevin J Kauffman, Faryal F Mir, Siddharth Jhunjhunwala, James C Kaczmarek, Juan E Hurtado, Jung H Yang, Matthew J Webber, Piotr S Kowalski, Michael W Heartlein, Frank DeRosa, Daniel G Anderson. Efficacy and immunogenicity of unmodified and pseudouridine-modified mRNA delivered systemically with lipid nanoparticles in vivo. Biomaterials. 2016 12; 109(?):78-87. doi: 10.1016/j.biomaterials.2016.09.006. [PMID: 27680591]
  • Alice Burgess, Rakesh David, Iain Robert Searle. Deciphering the epitranscriptome: A green perspective. Journal of integrative plant biology. 2016 Oct; 58(10):822-835. doi: 10.1111/jipb.12483. [PMID: 27172004]
  • Xiaoyu Li, Shiqing Ma, Chengqi Yi. Pseudouridine: the fifth RNA nucleotide with renewed interests. Current opinion in chemical biology. 2016 08; 33(?):108-16. doi: 10.1016/j.cbpa.2016.06.014. [PMID: 27348156]
  • Junchi Wang, Guangzhi Li, Na Lv, Li Gao, Li Cao, Liangang Shen, Jianyong Si. Chemical constituents from the fruiting bodies of Cryptoporus volvatus. Archives of pharmacal research. 2016 Jun; 39(6):747-54. doi: 10.1007/s12272-016-0754-4. [PMID: 27146415]
  • Norbert Pardi, Steven Tuyishime, Hiromi Muramatsu, Katalin Kariko, Barbara L Mui, Ying K Tam, Thomas D Madden, Michael J Hope, Drew Weissman. Expression kinetics of nucleoside-modified mRNA delivered in lipid nanoparticles to mice by various routes. Journal of controlled release : official journal of the Controlled Release Society. 2015 Nov; 217(?):345-51. doi: 10.1016/j.jconrel.2015.08.007. [PMID: 26264835]
  • John Karijolich, Chengqi Yi, Yi-Tao Yu. Transcriptome-wide dynamics of RNA pseudouridylation. Nature reviews. Molecular cell biology. 2015 Oct; 16(10):581-5. doi: 10.1038/nrm4040. [PMID: 26285676]
  • Xiaoyu Li, Ping Zhu, Shiqing Ma, Jinghui Song, Jinyi Bai, Fangfang Sun, Chengqi Yi. Chemical pulldown reveals dynamic pseudouridylation of the mammalian transcriptome. Nature chemical biology. 2015 Aug; 11(8):592-7. doi: 10.1038/nchembio.1836. [PMID: 26075521]
  • Wei Zhang, Xin-An Zhang. A Novel Urinary Metabolite Signature for Non-invasive Post-stroke Depression Diagnosis. Cell biochemistry and biophysics. 2015 Jul; 72(3):661-7. doi: 10.1007/s12013-014-0472-9. [PMID: 27352185]
  • Xiaoyu Li, Shiqing Ma, Chengqi Yi. Pseudouridine Chemical Labeling and Profiling. Methods in enzymology. 2015; 560(?):247-72. doi: 10.1016/bs.mie.2015.03.010. [PMID: 26253974]
  • Yuhua Ma, Dongqun Huang, Rui Zhang, Shiru Xu, Shun Feng. [Simultaneous determination of four common nonprotein nitrogen substances in urine by high performance liquid chromatography]. Se pu = Chinese journal of chromatography. 2013 Nov; 31(11):1102-5. doi: 10.3724/sp.j.1123.2013.07033. [PMID: 24558847]
  • Carolina Gimiliani Lembke, Milton Yutaka Nishiyama, Paloma Mieko Sato, Rodrigo Fandiño de Andrade, Glaucia Mendes Souza. Identification of sense and antisense transcripts regulated by drought in sugarcane. Plant molecular biology. 2012 Jul; 79(4-5):461-77. doi: 10.1007/s11103-012-9922-1. [PMID: 22610347]
  • Katalin Karikó, Hiromi Muramatsu, Jason M Keller, Drew Weissman. Increased erythropoiesis in mice injected with submicrogram quantities of pseudouridine-containing mRNA encoding erythropoietin. Molecular therapy : the journal of the American Society of Gene Therapy. 2012 May; 20(5):948-53. doi: 10.1038/mt.2012.7. [PMID: 22334017]
  • P Montenegro Álvarez de Tejera, M A Cabanes-Mariscal, C Gutiérrez-Ortega, J Medina Font, M C Villa-Corbatón, J Gómez de Terreros. [Muscle catabolism in patients with chronic obstructive pulmonary disease]. Revista clinica espanola. 2011 Nov; 211(10):511-6. doi: 10.1016/j.rce.2011.06.005. [PMID: 21993176]
  • Wiktoria Struck, Małgorzata Waszczuk-Jankowska, Roman Kaliszan, Michał J Markuszewski. The state-of-the-art determination of urinary nucleosides using chromatographic techniques 'hyphenated' with advanced bioinformatic methods. Analytical and bioanalytical chemistry. 2011 Oct; 401(7):2039-50. doi: 10.1007/s00216-011-4789-6. [PMID: 21359827]
  • Svetlana Gerdes, Basma El Yacoubi, Marc Bailly, Ian K Blaby, Crysten E Blaby-Haas, Linda Jeanguenin, Aurora Lara-Núñez, Anne Pribat, Jeffrey C Waller, Andreas Wilke, Ross Overbeek, Andrew D Hanson, Valérie de Crécy-Lagard. Synergistic use of plant-prokaryote comparative genomics for functional annotations. BMC genomics. 2011 Jun; 12 Suppl 1(?):S2. doi: 10.1186/1471-2164-12-s1-s2. [PMID: 21810204]
  • Rasmus K Madsen, Torbjörn Lundstedt, Jon Gabrielsson, Carl-Johan Sennbro, Gerd-Marie Alenius, Thomas Moritz, Solbritt Rantapää-Dahlqvist, Johan Trygg. Diagnostic properties of metabolic perturbations in rheumatoid arthritis. Arthritis research & therapy. 2011 Feb; 13(1):R19. doi: 10.1186/ar3243. [PMID: 21303541]
  • Navneet Kaur, Jianping Hu. Defining the plant peroxisomal proteome: from Arabidopsis to rice. Frontiers in plant science. 2011; 2(?):103. doi: 10.3389/fpls.2011.00103. [PMID: 22645559]
  • Jia Liu, Lawrence Litt, Mark R Segal, Mark J S Kelly, Jeffrey G Pelton, Myungwon Kim. Metabolomics of oxidative stress in recent studies of endogenous and exogenously administered intermediate metabolites. International journal of molecular sciences. 2011; 12(10):6469-501. doi: 10.3390/ijms12106469. [PMID: 22072900]
  • Oliver Fiehn, W Timothy Garvey, John W Newman, Kerry H Lok, Charles L Hoppel, Sean H Adams. Plasma metabolomic profiles reflective of glucose homeostasis in non-diabetic and type 2 diabetic obese African-American women. PloS one. 2010 Dec; 5(12):e15234. doi: 10.1371/journal.pone.0015234. [PMID: 21170321]
  • Alice Preumont, Rim Rzem, Didier Vertommen, Emile Van Schaftingen. HDHD1, which is often deleted in X-linked ichthyosis, encodes a pseudouridine-5'-phosphatase. The Biochemical journal. 2010 Oct; 431(2):237-44. doi: 10.1042/bj20100174. [PMID: 20722631]
  • Jiye A, Sixuan Qian, Guangji Wang, Bei Yan, Sujiang Zhang, Qing Huang, Lingna Ni, Weibin Zha, Linsheng Liu, Bei Cao, Ming Hong, Hanxin Wu, Hua Lu, Jian Shi, Mengjie Li, Jianyong Li. Chronic myeloid leukemia patients sensitive and resistant to imatinib treatment show different metabolic responses. PloS one. 2010 Oct; 5(10):e13186. doi: 10.1371/journal.pone.0013186. [PMID: 20949032]
  • Peng Chen, Gunilla Jäger, Bo Zheng. Transfer RNA modifications and genes for modifying enzymes in Arabidopsis thaliana. BMC plant biology. 2010 Sep; 10(?):201. doi: 10.1186/1471-2229-10-201. [PMID: 20836892]
  • Jipei Liao, Lei Yu, Yuping Mei, Maria Guarnera, Jun Shen, Ruiyun Li, Zhenqiu Liu, Feng Jiang. Small nucleolar RNA signatures as biomarkers for non-small-cell lung cancer. Molecular cancer. 2010 Jul; 9(?):198. doi: 10.1186/1476-4598-9-198. [PMID: 20663213]
  • Byong Chul Yoo, Sun-Young Kong, Sang-Geun Jang, Kyung-Hee Kim, Sun-A Ahn, Weon-Seo Park, Sohee Park, Tak Yun, Hyeon-Seok Eom. Identification of hypoxanthine as a urine marker for non-Hodgkin lymphoma by low-mass-ion profiling. BMC cancer. 2010 Feb; 10(?):55. doi: 10.1186/1471-2407-10-55. [PMID: 20175931]
  • Paul P Gardner, Alex Bateman, Anthony M Poole. SnoPatrol: how many snoRNA genes are there?. Journal of biology. 2010; 9(1):4. doi: 10.1186/jbiol211. [PMID: 20122292]
  • Yongqing Jiang, Yinfa Ma. A fast capillary electrophoresis method for separation and quantification of modified nucleosides in urinary samples. Analytical chemistry. 2009 Aug; 81(15):6474-80. doi: 10.1021/ac901216n. [PMID: 19552424]
  • Maximilian Sieber, Silvia Wagner, Eva Rached, Alexander Amberg, Angela Mally, Wolfgang Dekant. Metabonomic study of ochratoxin a toxicity in rats after repeated administration: phenotypic anchoring enhances the ability for biomarker discovery. Chemical research in toxicology. 2009 Jul; 22(7):1221-31. doi: 10.1021/tx800459q. [PMID: 19610676]
  • Elin Chorell, Thomas Moritz, Stefan Branth, Henrik Antti, Michael B Svensson. Predictive metabolomics evaluation of nutrition-modulated metabolic stress responses in human blood serum during the early recovery phase of strenuous physical exercise. Journal of proteome research. 2009 Jun; 8(6):2966-77. doi: 10.1021/pr900081q. [PMID: 19317510]
  • Kei Iida, Hailing Jin, Jian-Kang Zhu. Bioinformatics analysis suggests base modifications of tRNAs and miRNAs in Arabidopsis thaliana. BMC genomics. 2009 Apr; 10(?):155. doi: 10.1186/1471-2164-10-155. [PMID: 19358740]
  • Carsten Henneges, Dino Bullinger, Richard Fux, Natascha Friese, Harald Seeger, Hans Neubauer, Stefan Laufer, Christoph H Gleiter, Matthias Schwab, Andreas Zell, Bernd Kammerer. Prediction of breast cancer by profiling of urinary RNA metabolites using Support Vector Machine-based feature selection. BMC cancer. 2009 Apr; 9(?):104. doi: 10.1186/1471-2407-9-104. [PMID: 19344524]
  • Rya Ero, Lauri Peil, Aivar Liiv, Jaanus Remme. Identification of pseudouridine methyltransferase in Escherichia coli. RNA (New York, N.Y.). 2008 Oct; 14(10):2223-33. doi: 10.1261/rna.1186608. [PMID: 18755836]
  • Alice Preumont, Karim Snoussi, Vincent Stroobant, Jean-François Collet, Emile Van Schaftingen. Molecular identification of pseudouridine-metabolizing enzymes. The Journal of biological chemistry. 2008 Sep; 283(37):25238-25246. doi: 10.1074/jbc.m804122200. [PMID: 18591240]
  • Heinrich Topp, Gerhard Fusch, Gerhard Schöch, Christoph Fusch. Noninvasive markers of oxidative DNA stress, RNA degradation and protein degradation are differentially correlated with resting metabolic rate and energy intake in children and adolescents. Pediatric research. 2008 Sep; 64(3):246-50. doi: 10.1203/pdr.0b013e31817cfca6. [PMID: 18437098]
  • Fei Yu, Xiayan Liu, Muath Alsheikh, Sungsoon Park, Steve Rodermel. Mutations in SUPPRESSOR OF VARIEGATION1, a factor required for normal chloroplast translation, suppress var2-mediated leaf variegation in Arabidopsis. The Plant cell. 2008 Jul; 20(7):1786-804. doi: 10.1105/tpc.107.054965. [PMID: 18599582]
  • Michael G Cornelius, Heinz H Schmeiser. RNA analysis by MEKC with LIF detection. Electrophoresis. 2007 Nov; 28(21):3901-7. doi: 10.1002/elps.200700127. [PMID: 17922502]
  • Sang Hee Lee, Inseong Kim, Bong Chul Chung. Increased urinary level of oxidized nucleosides in patients with mild-to-moderate Alzheimer's disease. Clinical biochemistry. 2007 Sep; 40(13-14):936-8. doi: 10.1016/j.clinbiochem.2006.11.021. [PMID: 17692303]
  • Charlotte E Bolton, Roelinka Broekhuizen, Alina A Ionescu, Lisette S Nixon, Emiel F M Wouters, Dennis J Shale, Annemie M W J Schols. Cellular protein breakdown and systemic inflammation are unaffected by pulmonary rehabilitation in COPD. Thorax. 2007 Feb; 62(2):109-14. doi: 10.1136/thx.2006.060368. [PMID: 16928709]
  • Yasufumi Masaki, Kunihiko Itoh, Toshioki Sawaki, Hiromi Karasawa, Takafumi Kawanami, Toshihiro Fukushima, Hiroshi Kawabata, Yuji Wano, Yuko Hirose, Toshio Suzuki, Susumu Sugai, Hisanori Umehara. Urinary pseudouridine in patients with lymphoma: comparison with other clinical parameters. Clinica chimica acta; international journal of clinical chemistry. 2006 Sep; 371(1-2):148-51. doi: 10.1016/j.cca.2006.03.002. [PMID: 16643879]
  • A Seidel, S Brunner, P Seidel, G I Fritz, O Herbarth. Modified nucleosides: an accurate tumour marker for clinical diagnosis of cancer, early detection and therapy control. British journal of cancer. 2006 Jun; 94(11):1726-33. doi: 10.1038/sj.bjc.6603164. [PMID: 16685264]
  • Alison Bond, Edward Dudley, Filip Lemière, Robin Tuytten, Salah El-Sharkawi, A Gareth Brenton, Eddy L Esmans, Russell P Newton. Analysis of urinary nucleosides. V. Identification of urinary pyrimidine nucleosides by liquid chromatography/electrospray mass spectrometry. Rapid communications in mass spectrometry : RCM. 2006; 20(2):137-50. doi: 10.1002/rcm.2266. [PMID: 16331740]
  • Bo Feng, Min-Hua Zheng, Yu-Fang Zheng, Ai-Guo Lu, Jian-Wen Li, Ming-Liang Wang, Jun-Jun Ma, Guo-Wang Xu, Bing-Ya Liu, Zheng-Gang Zhu. Normal and modified urinary nucleosides represent novel biomarkers for colorectal cancer diagnosis and surgery monitoring. Journal of gastroenterology and hepatology. 2005 Dec; 20(12):1913-9. doi: 10.1111/j.1440-1746.2005.03888.x. [PMID: 16336453]
  • Roelinka Broekhuizen, Robert F Grimble, W Martin Howell, Dennis J Shale, Eva C Creutzberg, Emiel F Wouters, Annemie M Schols. Pulmonary cachexia, systemic inflammatory profile, and the interleukin 1beta -511 single nucleotide polymorphism. The American journal of clinical nutrition. 2005 Nov; 82(5):1059-64. doi: 10.1093/ajcn/82.5.1059. [PMID: 16280439]
  • Bo Feng, Min-hua Zheng, Yu-fang Zheng, Ai-guo Lu, Jian-wen Li, Ming-liang Wang, Jun-jun Ma, Guo-wang Xu, Bao-ming Yu. [Application of urinary nucleosides in the diagnosis and surgical monitoring of colorectal cancer]. Zhonghua wai ke za zhi [Chinese journal of surgery]. 2005 May; 43(9):564-8. doi: . [PMID: 15938925]
  • H M Liebich, S Müller-Hagedorn, F Klaus, K Meziane, K R Kim, A Frickenschmidt, B Kammerer. Chromatographic, capillary electrophoretic and matrix-assisted laser desorption ionization time-of-flight mass spectrometry analysis of urinary modified nucleosides as tumor markers. Journal of chromatography. A. 2005 Apr; 1071(1-2):271-5. doi: 10.1016/j.chroma.2004.12.055. [PMID: 15865203]
  • Alina A Ionescu, Lisette S Nixon, Dennis J Shale. Cellular proteolysis and systemic inflammation during exacerbation in cystic fibrosis. Journal of cystic fibrosis : official journal of the European Cystic Fibrosis Society. 2004 Dec; 3(4):253-8. doi: 10.1016/j.jcf.2004.07.003. [PMID: 15698944]
  • Claudia Vidotto, David Fousert, Marteen Akkermann, Andrea Griesmacher, Mathias M Müller. Purine and pyrimidine metabolites in children's urine. Clinica chimica acta; international journal of clinical chemistry. 2003 Sep; 335(1-2):27-32. doi: 10.1016/s0009-8981(03)00291-2. [PMID: 12927681]
  • Amitha K Hewavitharana, Heather L Bruce. Simultaneous liquid chromatographic determination of creatinine and pseudouridine in bovine urine and the effect of sample pH on the analysis. Journal of agricultural and food chemistry. 2003 Aug; 51(17):4861-5. doi: 10.1021/jf030095z. [PMID: 12903936]
  • Heinrich Topp, Susanne Unverzagt, Silvia Rudloff, Gerhard Schöch, Friedrich Manz, Christoph Fusch. Diurnal variation in the renal excretion of modified RNA catabolites in humans. Clinical science (London, England : 1979). 2003 Aug; 105(2):195-202. doi: 10.1042/cs20020253. [PMID: 12708967]
  • A K Hewavitharana, H L Bruce. Simultaneous determination of creatinine and pseudouridine concentrations in bovine plasma by reversed-phase liquid chromatography with photodiode array detection. Journal of chromatography. B, Analytical technologies in the biomedical and life sciences. 2003 Feb; 784(2):275-81. doi: 10.1016/s1570-0232(02)00799-7. [PMID: 12505775]
  • Teruko Honda, Hiroyuki Inagawa, Masakazu Fukushima, Akira Moriyama, Gen-Ichiro Soma. Development and characterization of a monoclonal antibody with cross-reactivity towards uracil and thymine, and its potential use in screening patients treated with 5-fluorouracil for possible risks. Clinica chimica acta; international journal of clinical chemistry. 2002 Aug; 322(1-2):59-66. doi: 10.1016/s0009-8981(02)00132-8. [PMID: 12104082]
  • J Fey, J H Weil, K Tomita, A Cosset, A Dietrich, I Small, L Maréchal-Drouard. Role of editing in plant mitochondrial transfer RNAs. Gene. 2002 Mar; 286(1):21-4. doi: 10.1016/s0378-1119(01)00817-4. [PMID: 11943456]
  • Alina A Ionescu, Lisette S Nixon, Stephen Luzio, Vanessa Lewis-Jenkins, William D Evans, Michael D Stone, David R Owens, Philip A Routledge, Dennis J Shale. Pulmonary function, body composition, and protein catabolism in adults with cystic fibrosis. American journal of respiratory and critical care medicine. 2002 Feb; 165(4):495-500. doi: 10.1164/ajrccm.165.4.2104065. [PMID: 11850342]
  • T Baumstark, P Ahlquist. The brome mosaic virus RNA3 intergenic replication enhancer folds to mimic a tRNA TpsiC-stem loop and is modified in vivo. RNA (New York, N.Y.). 2001 Nov; 7(11):1652-70. doi: . [PMID: 11720293]
  • C G Zambonin, A Aresta, F Palmisano, G Specchia, V Liso. Liquid chromatographic determination of urinary 5-methyl-2'-deoxycytidine and pseudouridine as potential biological markers for leukaemia. Journal of pharmaceutical and biomedical analysis. 1999 Dec; 21(5):1045-51. doi: 10.1016/s0731-7085(99)00221-6. [PMID: 10703973]
  • I Honda, K Itoh, M Mizugaki, T Sasaki. Creatinine at the evaluation of urinary 1-methyladenosine and pseudouridine excretion. The Tohoku journal of experimental medicine. 1999 Jun; 188(2):133-8. doi: 10.1620/tjem.188.133. [PMID: 10526874]
  • K J Shingfield, N W Offer. Simultaneous determination of purine metabolites, creatinine and pseudouridine in ruminant urine by reversed-phase high-performance liquid chromatography. Journal of chromatography. B, Biomedical sciences and applications. 1999 Feb; 723(1-2):81-94. doi: 10.1016/s0378-4347(98)00549-0. [PMID: 10080636]
  • K Itoh, K Suzuki, S Ishiwata, T Tezuka, M Mizugaki, T Suzuki. Application of a recombinant Fab fragment from a phage display library for sensitive detection of a target antigen by an inhibition ELISA system. Journal of immunological methods. 1999 Feb; 223(1):107-14. doi: 10.1016/s0022-1759(98)00209-9. [PMID: 10037238]
  • H F Becker, Y Motorin, C Florentz, R Giegé, H Grosjean. Pseudouridine and ribothymidine formation in the tRNA-like domain of turnip yellow mosaic virus RNA. Nucleic acids research. 1998 Sep; 26(17):3991-7. doi: 10.1093/nar/26.17.3991. [PMID: 9705510]
  • Y Motorin, G Keith, C Simon, D Foiret, G Simos, E Hurt, H Grosjean. The yeast tRNA:pseudouridine synthase Pus1p displays a multisite substrate specificity. RNA (New York, N.Y.). 1998 Jul; 4(7):856-69. doi: 10.1017/s1355838298980396. [PMID: 9671058]
  • Z Peng, C Wang, C Li, Q Gao, Z Wang, G Zhang, J Zhang, X Li, J Peng. [Simultaneous determination of creatinine, pseudouridine and uric acid in serum and urine by high performance liquid chromatography]. Se pu = Chinese journal of chromatography. 1998 Mar; 16(2):146-8. doi: NULL. [PMID: 11326982]
  • J Zhou, Y Yuan, D Xu. [Determination of uric acid, creatinine and pseudouridine in human urine by high performance capillary zone electrophoresis]. Se pu = Chinese journal of chromatography. 1998 Mar; 16(2):176-7. doi: NULL. [PMID: 11326990]
  • S Bonaccorso, A H Lin, R Verkerk, F Van Hunsel, I Libbrecht, S Scharpé, L DeClerck, M Biondi, A Janca, M Maes. Immune markers in fibromyalgia: comparison with major depressed patients and normal volunteers. Journal of affective disorders. 1998 Feb; 48(1):75-82. doi: 10.1016/s0165-0327(97)00144-4. [PMID: 9495605]
  • T W Mak, S S Ho, C S Ho, M G Jones, C K Lai, C W Lam. Pleural fluid pseudouridine in malignant and benign pleural effusions. Annals of clinical biochemistry. 1998 Jan; 35 ( Pt 1)(?):94-8. doi: 10.1177/000456329803500112. [PMID: 9463745]
  • J A Duley, A B Nethersell. Delayed hypersensitivity to 5-fluorouracil associated with reduced dihydropyrimidine dehydrogenase (DPD) activity. Advances in experimental medicine and biology. 1998; 431(?):147-50. doi: 10.1007/978-1-4615-5381-6_28. [PMID: 9598048]
  • K Akama, A Nass, V Junker, H Beier. Characterization of nuclear tRNA(Tyr) introns: their evolution from red algae to higher plants. FEBS letters. 1997 Nov; 417(2):213-8. doi: 10.1016/s0014-5793(97)01288-x. [PMID: 9395298]