Norman R. Pace - Related publications

University of Colorado, Boulder, Boulder, CO, United States 
RNA, Microbial Ecosystems
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Phan HD, Lai LB, Zahurancik WJ, Gopalan V. The many faces of RNA-based RNase P, an RNA-world relic. Trends in Biochemical Sciences. PMID 34511335 DOI: 10.1016/j.tibs.2021.07.005   
2021 Choe D, Szubin R, Poudel S, Sastry A, Song Y, Lee Y, Cho S, Palsson B, Cho BK. RiboRid: A low cost, advanced, and ultra-efficient method to remove ribosomal RNA for bacterial transcriptomics. Plos Genetics. 17: e1009821. PMID 34570751 DOI: 10.1371/journal.pgen.1009821   
2021 Thakur P, Abernathy S, Limbach PA, Addepalli B. Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis. Methods in Enzymology. 658: 1-24. PMID 34517943 DOI: 10.1016/bs.mie.2021.06.023   
2021 Telzrow CL, Zwack PJ, Esher Righi S, Dietrich FS, Chan C, Owzar K, Alspaugh JA, Granek JA. Comparative analysis of RNA enrichment methods for preparation of Cryptococcus neoformans RNA sequencing libraries. G3 (Bethesda, Md.). PMID 34518880 DOI: 10.1093/g3journal/jkab301   
2021 Zhao X, Li Y, Duan Y, Amin A, Xie Y, Shi C, Ma C. A simple methodology for RNA isolation from bacteria by integration of formamide extraction and chitosan-modified silica purification. Analytical and Bioanalytical Chemistry. PMID 34505946 DOI: 10.1007/s00216-021-03644-6   
2021 Pearman JK, Biessy L, Howarth JD, Vandergoes MJ, Rees A, Wood SA. Deciphering the molecular signal from past and alive bacterial communities in aquatic sedimentary archives. Molecular Ecology Resources. PMID 34562066 DOI: 10.1111/1755-0998.13515   
2021 Deryusheva S, Talross GJ, Gall JG. SnoRNA guide activities - real and ambiguous. Rna (New York, N.Y.). PMID 34385348 DOI: 10.1261/rna.078916.121   
2021 Lin TY, Mehta R, Glatt S. Pseudouridines in RNAs - switching atoms means shifting paradigms. Febs Letters. PMID 34468991 DOI: 10.1002/1873-3468.14188   
2021 Alonso D, Mondragón A. Mechanisms of catalytic RNA molecules. Biochemical Society Transactions. 49: 1529-1535. PMID 34415304 DOI: 10.1042/BST20200465   
2021 Kordyś M, Sen R, Warkocki Z. Applications of the versatile CRISPR-Cas13 RNA targeting system. Wiley Interdisciplinary Reviews. Rna. e1694. PMID 34553495 DOI: 10.1002/wrna.1694   
2021 Portillo X, Huang YT, Breaker RR, Horning DP, Joyce GF. Witnessing the structural evolution of an RNA enzyme. Elife. 10. PMID 34498588 DOI: 10.7554/eLife.71557   
2021 Mai L, Qiu Y, Lian Z, Chen C, Wang L, Yin Y, Wang S, Yang X, Li Y, Peng W, Luo C, Pan X. MustSeq, an alternative approach for multiplexible strand-specific 3' end sequencing of mRNA transcriptome confers high efficiency and practicality. Rna Biology. 1-12. PMID 34586036 DOI: 10.1080/15476286.2021.1974208   
2021 Tac HA, Koroglu M, Sezerman U. RDDSVM: accurate prediction of A-to-I RNA editing sites from sequence using support vector machines. Functional & Integrative Genomics. PMID 34529170 DOI: 10.1007/s10142-021-00805-9   
2021 Stoute J, Liu KF. CLIP-Seq to identify targets and interactions of RNA binding proteins and RNA modifying enzymes. Methods in Enzymology. 658: 419-434. PMID 34517957 DOI: 10.1016/bs.mie.2021.08.001   
2021 Zhou W, Melamed D, Banyai G, Meyer C, Tuschl T, Wickens M, Cao J, Fields S. Expanding the binding specificity for RNA recognition by a PUF domain. Nature Communications. 12: 5107. PMID 34429425 DOI: 10.1038/s41467-021-25433-6   
2021 Poudyal RR, Sieg JP, Portz B, Keating CD, Bevilacqua PC. RNA sequence and structure control assembly and function of RNA condensates. Rna (New York, N.Y.). PMID 34551999 DOI: 10.1261/rna.078875.121   
2021 Zeng D, Abzhanova A, Brown BP, Reiter NJ. Dissecting Monomer-Dimer Equilibrium of an RNase P Protein Provides Insight Into the Synergistic Flexibility of 5' Leader Pre-tRNA Recognition. Frontiers in Molecular Biosciences. 8: 730274. PMID 34540901 DOI: 10.3389/fmolb.2021.730274   
2021 Zhang Z, Chen T, Chen HX, Xie YY, Chen LQ, Zhao YL, Liu BD, Jin L, Zhang W, Liu C, Ma DZ, Chai GS, Zhang Y, Zhao WS, Ng WH, et al. Systematic calibration of epitranscriptomic maps using a synthetic modification-free RNA library. Nature Methods. PMID 34594034 DOI: 10.1038/s41592-021-01280-7   
2021 Sabat J, Subhadra S, Rath S, Ho LM, Kanungo S, Panda S, Mandal MC, Dash S, Pati S, Turuk J. Yielding quality viral RNA by using two different chemistries: a comparative performance study. Biotechniques. PMID 34528832 DOI: 10.2144/btn-2021-0054   
2021 Zhan X, Deng L, Chen G. Mechanisms and applications of peptide nucleic acids selectively binding to double-stranded RNA. Biopolymers. e23476. PMID 34581432 DOI: 10.1002/bip.23476   
2021 Lemak S, Serbanescu MA, Khusnutdinova AN, Ruszkowski M, Beloglazova N, Xu X, Brown G, Cui H, Tan K, Joachimiak A, Cvitkovitch DG, Savchenko A, Yakunin AF. Structural and biochemical insights into CRISPR RNA processing by the Cas5c ribonuclease SMU1763 from Streptococcus mutans. The Journal of Biological Chemistry. 101251. PMID 34592310 DOI: 10.1016/j.jbc.2021.101251   
2021 Tourasse NJ, Darfeuille F. T1TAdb: the database of Type I Toxin-Antitoxin systems. Rna (New York, N.Y.). PMID 34531327 DOI: 10.1261/rna.078802.121   
2021 Jash B, Tremmel P, Jovanovic D, Richert C. Single nucleotide translation without ribosomes. Nature Chemistry. 13: 751-757. PMID 34312504 DOI: 10.1038/s41557-021-00749-4   
2021 Shen H, Gonskikh Y, Stoute J, Liu KF. Human DIMT1 generates NA-dimethylation-containing small RNAs. The Journal of Biological Chemistry. 101146. PMID 34473991 DOI: 10.1016/j.jbc.2021.101146   
2021 Jaiaue P, Srimongkol P, Thitiprasert S, Tanasupawat S, Cheirsilp B, Assabumrungrat S, Thongchul N. A modified approach for high-quality RNA extraction of spore-forming Bacillus subtilis at varied physiological stages. Molecular Biology Reports. 48: 6757-6768. PMID 34455533 DOI: 10.1007/s11033-021-06673-7   
2021 Pusic P, Sonnleitner E, Bläsi U. Specific and Global RNA Regulators in . International Journal of Molecular Sciences. 22. PMID 34445336 DOI: 10.3390/ijms22168632   
2021 Jiang J, Zhang T, Pan Y, Hu Z, Yuan J, Hu X, Zhang L, Zhang Y. Characterization of Long Non-coding RNA Associated Proteins by RNA-Immunoprecipitation. Methods in Molecular Biology (Clifton, N.J.). 2372: 19-26. PMID 34417739 DOI: 10.1007/978-1-0716-1697-0_3   
2021 Zhao B, Katuwawala A, Oldfield CJ, Hu G, Wu Z, Uversky VN, Kurgan L. Intrinsic Disorder in Human RNA-binding Proteins. Journal of Molecular Biology. 167229. PMID 34487791 DOI: 10.1016/j.jmb.2021.167229   
2021 Cui C, Wu X, Zhou Y. GlyinsRNA: a webserver for predicting glycosylation sites on small RNAs. Rna Biology. 1-4. PMID 34559595 DOI: 10.1080/15476286.2021.1982574   
2021 Legüe M, Aguila B, Calixto A. Interspecies RNA Interactome of Pathogen and Host in a Heritable Defensive Strategy. Frontiers in Microbiology. 12: 649858. PMID 34367078 DOI: 10.3389/fmicb.2021.649858   
2021 Aoyama JJ, Raina M, Storz G. Synthetic dual-function RNA reveals features necessary for target regulation. Journal of Bacteriology. JB0034521. PMID 34460309 DOI: 10.1128/JB.00345-21   
2021 Chan D, Feng C, England WE, Wyman D, Flynn RA, Wang X, Shi Y, Mortazavi A, Spitale RC. Diverse functional elements in RNA predicted transcriptome-wide by orthogonal RNA structure probing. Nucleic Acids Research. PMID 34634799 DOI: 10.1093/nar/gkab885   
2021 Devanathan SK, Debnath TK, Xhemalçe B. Facile detection of RNA phospho-methylation in cells and tissues. Methods in Enzymology. 658: 49-72. PMID 34517959 DOI: 10.1016/bs.mie.2021.06.002   
2021 Huang F, Fan H, Yang D, Zhang J, Shi T, Zhang D, Lu G. Ribosomal RNA‑depleted RNA sequencing reveals the pathogenesis of refractory pneumonia in children. Molecular Medicine Reports. 24. PMID 34476502 DOI: 10.3892/mmr.2021.12401   
2021 Ghimire S, Stewart CG, Thurman AL, Pezzulo AA. Performance of a scalable RNA extraction-free transcriptome profiling method for adherent cultured human cells. Scientific Reports. 11: 19438. PMID 34593905 DOI: 10.1038/s41598-021-98912-x   
2021 Cheng F, Wang R, Yu H, Liu C, Yang J, Xiang H, Li M. Divergent degeneration of creA antitoxin genes from minimal CRISPRs and the convergent strategy of tRNA-sequestering CreT toxins. Nucleic Acids Research. PMID 34551428 DOI: 10.1093/nar/gkab821   
2021 Hong S, Jeong D, Ryan J, Foo M, Tang X, Kim J. Design and Evaluation of Synthetic RNA-Based Incoherent Feed-Forward Loop Circuits. Biomolecules. 11. PMID 34439849 DOI: 10.3390/biom11081182   
2021 Zhang Y, Yang L, Chen LL. Characterization of Circular RNAs. Methods in Molecular Biology (Clifton, N.J.). 2372: 179-192. PMID 34417752 DOI: 10.1007/978-1-0716-1697-0_16   
2021 Palozola KC, Donahue G, Zaret KS. EU-RNA-seq for in vivo labeling and high throughput sequencing of nascent transcripts. Star Protocols. 2: 100651. PMID 34485932 DOI: 10.1016/j.xpro.2021.100651   
2021 Feng X, Yang S, Zhang Y, Zhiyuan C, Tang K, Li G, Yu H, Leng J, Wang Q. , Encoding a Pentatricopeptide Repeat Protein, Is Essential for Chloroplast RNA Editing and Biogenesis in Soybean. Frontiers in Plant Science. 12: 690973. PMID 34567023 DOI: 10.3389/fpls.2021.690973   
2021 Wang Y, Li M, Guo Y, Huang H, Dong X, Sun Y, Liu J. Key genes affecting the progression of nasopharyngeal carcinoma identified by RNA-sequencing and bioinformatic analysis. Aging. 13. PMID 34544905 DOI: 10.18632/aging.203521   
2021 Das R, Russell R. How to Kinetically Dissect an RNA Machine. Biochemistry. PMID 34492193 DOI: 10.1021/acs.biochem.1c00392   
2021 Martinez NM, Schaening-Burgos C, Gilbert WV. Pseudouridine site assignment by high-throughput in vitro RNA pseudouridylation and sequencing. Methods in Enzymology. 658: 277-310. PMID 34517951 DOI: 10.1016/bs.mie.2021.06.026   
2021 Su L, Chen F, Yu H, Yan H, Zhao F, Fan C, Zhao Y. Addition-Elimination Mechanism-Activated Nucleotide Transition Sequencing for RNA Dynamics Profiling. Analytical Chemistry. PMID 34612623 DOI: 10.1021/acs.analchem.1c03361   
2021 Mukherjee P, Raghava Kurup R, Hundley HA. RNA immunoprecipitation to identify in vivo targets of RNA editing and modifying enzymes. Methods in Enzymology. 658: 137-160. PMID 34517945 DOI: 10.1016/bs.mie.2021.06.005   
2021 Nguyen D, Buisine N, Fayol O, Michels AA, Bensaude O, Price DH, Uguen P. An alternative D. melanogaster 7SK snRNP. Bmc Molecular and Cell Biology. 22: 43. PMID 34461828 DOI: 10.1186/s12860-021-00381-7   
2021 Dai W, Li A, Yu NJ, Nguyen T, Leach RW, Wühr M, Kleiner RE. Activity-based RNA-modifying enzyme probing reveals DUS3L-mediated dihydrouridylation. Nature Chemical Biology. PMID 34556860 DOI: 10.1038/s41589-021-00874-8   
2021 O'Brien M, Rundell ZC, Nemec MD, Langan LM, Back JA, Lugo JN. A comparison of four commercially available RNA extraction kits for wastewater surveillance of SARS-CoV-2 in a college population. The Science of the Total Environment. 801: 149595. PMID 34418621 DOI: 10.1016/j.scitotenv.2021.149595   
2021 Cui T, Dou Y, Tan P, Ni Z, Liu T, Wang D, Huang Y, Cai K, Zhao X, Xu D, Lin H, Wang D. RNALocate v2.0: an updated resource for RNA subcellular localization with increased coverage and annotation. Nucleic Acids Research. PMID 34551440 DOI: 10.1093/nar/gkab825   
2021 Wang K, Liu M, Cui F, Asiegbu F. A simple phenol-free isolation method for high-quality RNA from bilberry. Methodsx. 8: 101481. PMID 34434879 DOI: 10.1016/j.mex.2021.101481