Sean A. McKenna, Ph.D. - Related publications

2004 University of Alberta, Edmonton, Alberta, Canada 
Synthetic Biology, Ubiquitin
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50 most relevant papers in past 60 days:
Year Citation  Score
2020 Friedrich S, Schmidt T, Behrens SE. RNA Remodeling by RNA Chaperones Monitored by RNA Structure Probing. Methods in Molecular Biology (Clifton, N.J.). 2106: 179-192. PMID 31889258 DOI: 10.1007/978-1-0716-0231-7_11   
2020 Schmidt T, Friedrich S, Golbik RP, Behrens SE. Real-Time Fluorescence-Based Approaches to Disentangle Mechanisms of a Protein's RNA Chaperone Activity. Methods in Molecular Biology (Clifton, N.J.). 2106: 89-106. PMID 31889252 DOI: 10.1007/978-1-0716-0231-7_5   
2020 Shukla TN, Song J, Campbell ZT. Molecular Entrapment by RNA: An Emerging Tool for Disrupting Protein-RNA Interactions . Rna Biology. PMID 31957541 DOI: 10.1080/15476286.2020.1717059   
2020 Du P, Cai P, Huang B, Jiang C, Wu Q, Li B, Qu K. SMAtool reveals sequences and structural principles of protein-RNA interaction. Biochemical and Biophysical Research Communications. PMID 32070491 DOI: 10.1016/j.bbrc.2020.02.068   
2020 Shi L, Song L, Maurer K, Dou Y, Patel VR, Su C, Leonard ME, Lu S, Hodge KM, Torres A, Chesi A, Grant SFA, Wells AD, Zhang Z, Petri MA, et al. IL-1 Transcriptional Responses to Lipopolysaccharides Are Regulated by a Complex of RNA Binding Proteins. Journal of Immunology (Baltimore, Md. : 1950). PMID 31953354 DOI: 10.4049/jimmunol.1900650   
2020 Lukasiewicz AJ, Contreras LM. Antisense probing of dynamic RNA structures. Methods (San Diego, Calif.). PMID 31991194 DOI: 10.1016/j.ymeth.2020.01.015   
2020 Kim HJ, Chaulk S, Arthur D, Edwards RA, Glover JNM. Biochemical Methods for the Study of the FinO Family of Bacterial RNA Chaperones. Methods in Molecular Biology (Clifton, N.J.). 2106: 1-18. PMID 31889248 DOI: 10.1007/978-1-0716-0231-7_1   
2020 Lin Y, Liu T, Cui T, Wang Z, Zhang Y, Tan P, Huang Y, Yu J, Wang D. RNAInter in 2020: RNA interactome repository with increased coverage and annotation. Nucleic Acids Research. 48: D189-D197. PMID 31906603 DOI: 10.1093/nar/gkz804   
2020 Li Q, Chen J, Trajkovski M, Zhou Y, Fan C, Lu K, Tang P, Su X, Plavec J, Xi Z, Zhou C. 4'-Fluorinated RNA: Synthesis, Structure, and Applications as a Sensitive F NMR Probe of RNA Structure and Function. Journal of the American Chemical Society. PMID 32067454 DOI: 10.1021/jacs.9b13207   
2020 Andrade JM, Dos Santos RF, Arraiano CM. RNA Structure Analysis by Chemical Probing with DMS and CMCT. Methods in Molecular Biology (Clifton, N.J.). 2106: 209-223. PMID 31889260 DOI: 10.1007/978-1-0716-0231-7_13   
2020 Tauber D, Tauber G, Khong A, Van Treeck B, Pelletier J, Parker R. Modulation of RNA Condensation by the DEAD-Box Protein eIF4A. Cell. PMID 31928844 DOI: 10.1016/j.cell.2019.12.031   
2020 Haraszti RA, Braun JE. Comparative Colocalization Single-Molecule Spectroscopy (CoSMoS) with Multiple RNA Species. Methods in Molecular Biology (Clifton, N.J.). 2113: 23-29. PMID 32006305 DOI: 10.1007/978-1-0716-0278-2_3   
2020 Panja S, Małecka EM, Santiago-Frangos A, Woodson SA. Quantitative Analysis of RNA Chaperone Activity by Native Gel Electrophoresis and Fluorescence Spectroscopy. Methods in Molecular Biology (Clifton, N.J.). 2106: 19-39. PMID 31889249 DOI: 10.1007/978-1-0716-0231-7_2   
2020 Retwitzer MD, Reinharz V, Churkin A, Ponty Y, Waldispühl J, Barash D. incaRNAfbinv 2.0 - A webserver and software with motif control for fragment-based design of RNAs. Bioinformatics (Oxford, England). PMID 31971575 DOI: 10.1093/bioinformatics/btaa039   
2020 Zhao M, Börner R, Sigel RKO, Freisinger E. Site-Specific Dual-Color Labeling of Long RNAs. Methods in Molecular Biology (Clifton, N.J.). 2106: 253-270. PMID 31889263 DOI: 10.1007/978-1-0716-0231-7_16   
2020 Dey S, Sczepanski JT. In vitro selection of l-DNA aptamers that bind a structured d-RNA molecule. Nucleic Acids Research. PMID 31950158 DOI: 10.1093/nar/gkz1236   
2020 Yao RW, Liu CX, Chen LL. Linking RNA Processing and Function. Cold Spring Harbor Symposia On Quantitative Biology. PMID 32019863 DOI: 10.1101/sqb.2019.84.039495   
2020 Wang M, Dean RA. Movement of small RNAs in and between plants and fungi. Molecular Plant Pathology. PMID 32027079 DOI: 10.1111/mpp.12911   
2020 Fischer JW, Busa VF, Shao Y, Leung AKL. Structure-Mediated RNA Decay by UPF1 and G3BP1. Molecular Cell. PMID 32017897 DOI: 10.1016/j.molcel.2020.01.021   
2020 Tjhung KF, Shokhirev MN, Horning DP, Joyce GF. An RNA polymerase ribozyme that synthesizes its own ancestor. Proceedings of the National Academy of Sciences of the United States of America. PMID 31988127 DOI: 10.1073/pnas.1914282117   
2020 Bowman EK, Mihailovic MK, Li B, Contreras LM. Bioinformatic Application of Fluorescence-Based In Vivo RNA Regional Accessibility Data to Identify Novel sRNA Targets. Methods in Molecular Biology (Clifton, N.J.). 2113: 41-71. PMID 32006307 DOI: 10.1007/978-1-0716-0278-2_5   
2020 Hou L, Wei Y, Lin Y, Wang X, Lai Y, Yin M, Chen Y, Guo X, Wu S, Zhu Y, Yuan J, Tariq M, Li N, Sun H, Wang H, et al. Concurrent binding to DNA and RNA facilitates the pluripotency reprogramming activity of Sox2. Nucleic Acids Research. PMID 32016422 DOI: 10.1093/nar/gkaa067   
2020 Choudhury NR, Heikel G, Michlewski G. TRIM25 and its emerging RNA-binding roles in antiviral defense. Wiley Interdisciplinary Reviews. Rna. e1588. PMID 31990130 DOI: 10.1002/wrna.1588   
2020 Szabo EX, Reichert P, Lehniger MK, Ohmer M, de Francisco Amorim M, Gowik U, Schmitz-Linneweber C, Laubinger S. Metabolic Labeling of RNAs Uncovers Hidden Features and Dynamics of the Arabidopsis Transcriptome. The Plant Cell. PMID 32060173 DOI: 10.1105/tpc.19.00214   
2020 Tolstyko EA, Lezzhov AA, Pankratenko AV, Serebryakova MV, Solovyev AG, Morozov SY. Detection and in vitro studies of Cucurbita maxima phloem serpin-1 RNA-binding properties. Biochimie. 170: 118-127. PMID 31935442 DOI: 10.1016/j.biochi.2020.01.006   
2020 Shin Y, Hedglin M, Murakami KS. Structural basis of reiterative transcription from the pyrG and pyrBI promoters by bacterial RNA polymerase. Nucleic Acids Research. PMID 31965171 DOI: 10.1093/nar/gkz1221   
2020 Haruehanroengra P, Zheng YY, Zhou Y, Huang Y, Sheng J. RNA Modifications and Cancer. Rna Biology. PMID 31994439 DOI: 10.1080/15476286.2020.1722449   
2020 Gomes CPDC, Schroen B, Kuster GM, Robinson EL, Ford K, Squire IB, Heymans S, Martelli F, Emanueli C, Devaux Y, . Regulatory RNAs in Heart Failure. Circulation. 141: 313-328. PMID 31986093 DOI: 10.1161/CIRCULATIONAHA.119.042474   
2020 Leeder WM, Göringer HU. Mapping the RNA Chaperone Activity of the T. brucei Editosome Using SHAPE Chemical Probing. Methods in Molecular Biology (Clifton, N.J.). 2106: 161-178. PMID 31889257 DOI: 10.1007/978-1-0716-0231-7_10   
2020 Chen JY, Lim DH, Fu XD. Mechanistic Dissection of RNA-Binding Proteins in Regulated Gene Expression at Chromatin Levels. Cold Spring Harbor Symposia On Quantitative Biology. PMID 31900328 DOI: 10.1101/sqb.2019.84.039222   
2020 Disney MD, Suresh BM, Benhamou RI, Childs-Disney JL. Progress toward the development of the small molecule equivalent of small interfering RNA. Current Opinion in Chemical Biology. 56: 63-71. PMID 32036231 DOI: 10.1016/j.cbpa.2020.01.001   
2020 Luo X, Wang X, Gao Y, Zhu J, Liu S, Gao G, Gao P. Molecular Mechanism of RNA Recognition by Zinc-Finger Antiviral Protein. Cell Reports. 30: 46-52.e4. PMID 31914396 DOI: 10.1016/j.celrep.2019.11.116   
2020 Nance DJ, Satterwhite ER, Bhaskar B, Misra S, Carraway KR, Mansfield KD. Characterization of METTL16 as a cytoplasmic RNA binding protein. Plos One. 15: e0227647. PMID 31940410 DOI: 10.1371/journal.pone.0227647   
2020 Dragomir MP, Kopetz S, Ajani JA, Calin GA. Non-coding RNAs in GI cancers: from cancer hallmarks to clinical utility. Gut. PMID 32034004 DOI: 10.1136/gutjnl-2019-318279   
2020 Paul P, Mati SS, Kumar GS. Insights on the interaction of phenothiazinium dyes methylene blue and new methylene blue with synthetic duplex RNAs through spectroscopy and modeling. Journal of Photochemistry and Photobiology. B, Biology. 204: 111804. PMID 32007677 DOI: 10.1016/j.jphotobiol.2020.111804   
2020 Wang S, Chan KWK, Naripogu K, Swarbrick C, Aaskov J, Vasudevan SG. Sub-genomic RNA from dengue virus type 2 suppresses replication of dengue virus genomes and interacts with virus-encoded NS3 and NS5 proteins. Acs Infectious Diseases. PMID 31922712 DOI: 10.1021/acsinfecdis.9b00384   
2020 Ruszkowska A, Ruszkowski M, Hulewicz JP, Dauter Z, Brown JA. Molecular structure of a U•A-U-rich RNA triple helix with 11 consecutive base triples. Nucleic Acids Research. PMID 31930330 DOI: 10.1093/nar/gkz1222   
2020 Hayes ML, Santibanez PI. A plant pentatricopeptide repeat protein with a DYW-deaminase domain is sufficient for catalyzing C-to-U RNA editing in vitro. The Journal of Biological Chemistry. PMID 31996373 DOI: 10.1074/jbc.RA119.011790   
2020 Hahn J, Chou LYT, Sørensen RS, Guerra RM, Shih WM. Extrusion of RNA from a DNA-Origami-Based Nanofactory. Acs Nano. PMID 31922721 DOI: 10.1021/acsnano.9b06466   
2020 Dieter C, Lourenco ED, Lemos NE. Association of long non-coding RNA and leukemia: A systematic review. Gene. 735: 144405. PMID 32014562 DOI: 10.1016/j.gene.2020.144405   
2020 Zhang D, Lee H, Jin Y. Delivery of Functional Small RNAs via Extracellular Vesicles In Vitro and In Vivo. Methods in Molecular Biology (Clifton, N.J.). 2115: 107-117. PMID 32006397 DOI: 10.1007/978-1-0716-0290-4_6   
2020 Weng X, Gong J, Chen Y, Wu T, Wang F, Yang S, Yuan Y, Luo G, Chen K, Hu L, Ma H, Wang P, Zhang QC, Zhou X, He C. Keth-seq for transcriptome-wide RNA structure mapping. Nature Chemical Biology. PMID 32015521 DOI: 10.1038/s41589-019-0459-3   
2020 Scherer M, Levin M, Butter F, Scheibe M. Quantitative Proteomics to Identify Nuclear RNA-Binding Proteins of Malat1. International Journal of Molecular Sciences. 21. PMID 32050583 DOI: 10.3390/ijms21031166   
2020 Meyer A, Freier M, Schmidt T, Rostowski K, Zwoch J, Lilie H, Behrens SE, Friedrich S. An RNA Thermometer Activity of the West Nile Virus Genomic 3'-Terminal Stem-Loop Element Modulates Viral Replication Efficiency during Host Switching. Viruses. 12. PMID 31952291 DOI: 10.3390/v12010104   
2020 Gasser C, Delazer I, Neuner E, Pascher K, Brillet K, Klotz S, Trixl L, Himmelstoß M, Ennifar E, Rieder D, Lusser A, Micura R. Thioguanosine conversion enables mRNA life-time evaluation by RNA sequencing via double metabolic labeling. Angewandte Chemie (International Ed. in English). PMID 31999864 DOI: 10.1002/anie.201916272   
2020 Jain S, Zhu Q, Paz ASP, Schlick T. Identification of novel RNA design candidates by clustering the extended RNA-as-graphs library. Biochimica Et Biophysica Acta. General Subjects. 129534. PMID 31954797 DOI: 10.1016/j.bbagen.2020.129534   
2020 Jenni S, Bloyet LM, Diaz-Avalos R, Liang B, Whelan SPJ, Grigorieff N, Harrison SC. Structure of the Vesicular Stomatitis Virus L Protein in Complex with Its Phosphoprotein Cofactor. Cell Reports. 30: 53-60.e5. PMID 31914397 DOI: 10.1016/j.celrep.2019.12.024   
2020 Duan J, Wang X, Kizer ME. Biotechnological and Therapeutic Applications of Natural Nucleic Acid Structural Motifs. Topics in Current Chemistry (Cham). 378: 26. PMID 32067108 DOI: 10.1007/s41061-020-0290-z   
2020 Ma XK, Wang MR, Liu CX, Dong R, Carmichael GG, Chen LL, Yang L. CIRCexplorer3-CLEAR: A Pipeline for Direct Comparison of Circular and Linear RNA Expression. Genomics, Proteomics & Bioinformatics. PMID 31904419 DOI: 10.1016/j.gpb.2019.11.004   
2020 Barak M, Porath HT, Finkelstein G, Knisbacher BA, Buchumenski I, Roth SH, Levanon EY, Eisenberg E. Purifying selection of long dsRNA is the first line of defense against false activation of innate immunity. Genome Biology. 21: 26. PMID 32028986 DOI: 10.1186/s13059-020-1937-3