Christopher S. Badorrek, Ph.D. - Related publications

Affiliations: 
2006 University of North Carolina, Chapel Hill, Chapel Hill, NC 
Area:
Structural and Chemical Biology of the Transcriptome
NOTE: We are testing a new system for identifying relevant work based on semantic analysis that identifies similarities between recently published papers and the current author's publications. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches.
50 most relevant papers in past 60 days:
Year Citation  Score
2021 Soszynska-Jozwiak M, Pszczola M, Piasecka J, Peterson JM, Moss WN, Taras-Goslinska K, Kierzek R, Kierzek E. Universal and strain specific structure features of segment 8 genomic RNA of influenza A virus - application of 4-thiouridine photocrosslinking. The Journal of Biological Chemistry. 101245. PMID 34688660 DOI: 10.1016/j.jbc.2021.101245   
2021 Hong X, Zheng J, Xie J, Tong X, Liu X, Song Q, Liu S, Liu S. RR3DD: an RNA global structure-based RNA three-dimensional structural classification database. Rna Biology. 1-9. PMID 34663179 DOI: 10.1080/15476286.2021.1989200   
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 Bevilacqua PC, Williams AM, Chou HL, Assmann S. RNA Multimerization as an Organizing Force for Liquid-Liquid Phase Separation. Rna (New York, N.Y.). PMID 34706977 DOI: 10.1261/rna.078999.121   
2021 Quinodoz SA, Jachowicz JW, Bhat P, Ollikainen N, Banerjee AK, Goronzy IN, Blanco MR, Chovanec P, Chow A, Markaki Y, Thai J, Plath K, Guttman M. RNA promotes the formation of spatial compartments in the nucleus. Cell. 184: 5775-5790.e30. PMID 34739832 DOI: 10.1016/j.cell.2021.10.014   
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 Choi MH, Nguyen VT, Ravi Kumara GS, Seo YJ. RNA Polymerase-Mediated Stepwise RNA-Primed RNA Polymerization for Site-Specific Multiple Labeling into RNA: A Fluorescence Resonance Energy Transfer Probe Detects the Structural Change of an RNA G-Quadruplex. Acs Synthetic Biology. PMID 34762391 DOI: 10.1021/acssynbio.1c00418   
2021 Vicens Q, Kieft JS. Shared properties and singularities of exoribonuclease-resistant RNAs in viruses. Computational and Structural Biotechnology Journal. 19: 4373-4380. PMID 34471487 DOI: 10.1016/j.csbj.2021.07.024   
2021 Shatoff E, Bundschuh R. dsRBPBind: Modeling the effect of RNA secondary structure on double stranded RNA-protein binding. Bioinformatics (Oxford, England). PMID 34668517 DOI: 10.1093/bioinformatics/btab724   
2021 Guo X, Tariq M, Lai Y, Kanwal S, Lv Y, Wang X, Li N, Jiang M, Meng J, Hu J, Yuan J, Luo Z, Ward C, Volpe G, Wang D, et al. Capture of the newly transcribed RNA interactome using click chemistry. Nature Protocols. PMID 34697467 DOI: 10.1038/s41596-021-00609-y   
2021 Jang B, Jang H, Kim H, Kim M, Jeong M, Lee GS, Lee K, Lee H. Protein-RNA interaction guided chemical modification of Dicer substrate RNA nanostructures for superior in vivo gene silencing. Journal of Controlled Release : Official Journal of the Controlled Release Society. PMID 34763005 DOI: 10.1016/j.jconrel.2021.11.009   
2021 Li L, Luo H, Lim DH, Han L, Li Y, Fu XD, Qi Y. Global profiling of RNA-chromatin interactions reveals co-regulatory gene expression networks in Arabidopsis. Nature Plants. 7: 1364-1378. PMID 34650265 DOI: 10.1038/s41477-021-01004-x   
2021 Zhang D, Chen SJ, Zhou R. Modeling Noncanonical RNA Base Pairs by a Coarse-Grained IsRNA2 Model. The Journal of Physical Chemistry. B. PMID 34694128 DOI: 10.1021/acs.jpcb.1c07288   
2021 Chen X, Rechavi O. Plant and animal small RNA communications between cells and organisms. Nature Reviews. Molecular Cell Biology. PMID 34707241 DOI: 10.1038/s41580-021-00425-y   
2021 Endo M, Kim JI, Shioi NA, Iwai S, Kuraoka I. endonuclease V is a ribonuclease specific for inosine-containing single-stranded RNA. Open Biology. 11: 210148. PMID 34665969 DOI: 10.1098/rsob.210148   
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 Sutanto K, Turcotte M. Assessing Global-Local Secondary Structure Fingerprints to Classify RNA Sequences with Deep Learning. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34633933 DOI: 10.1109/TCBB.2021.3118358   
2021 Le Vay KK, Song EY, Ghosh B, Tang TD, Mutschler H. Enhanced ribozyme-catalyzed recombination and oligonucleotide assembly in peptide-RNA condensates. Angewandte Chemie (International Ed. in English). PMID 34569680 DOI: 10.1002/anie.202109267   
2021 Fu L, Cao Y, Wu J, Peng Q, Nie Q, Xie X. UFold: fast and accurate RNA secondary structure prediction with deep learning. Nucleic Acids Research. PMID 34792173 DOI: 10.1093/nar/gkab1074   
2021 Zhang S, Sun J, Gu M, Wang G, Wang X. Circular RNA: A promising new star for the diagnosis and treatment of colorectal cancer. Cancer Medicine. PMID 34796685 DOI: 10.1002/cam4.4398   
2021 Mulroney L, Wulf M, Schildkraut I, Tzertzinis G, Buswell J, Jain M, Olsen HE, Diekhans M, Corrêa IR, Akeson M, Ettwiller L. Identification of high confidence human poly(A) RNA isoform scaffolds using nanopore sequencing. Rna (New York, N.Y.). PMID 34728536 DOI: 10.1261/rna.078703.121   
2021 Mulroney L, Wulf M, Schildkraut I, Tzertzinis G, Buswell J, Jain M, Olsen HE, Diekhans M, Corrêa IR, Akeson M, Ettwiller L. Identification of high confidence human poly(A) RNA isoform scaffolds using nanopore sequencing. Rna (New York, N.Y.). PMID 34728536 DOI: 10.1261/rna.078703.121   
2021 Chen B, Shi H, Zhang J, Zhou C, Han M, Jiang W, Lai Y, Tu X, Li H. CRISPR-based RNA-binding protein mapping in live cells. Biochemical and Biophysical Research Communications. 583: 79-85. PMID 34735883 DOI: 10.1016/j.bbrc.2021.10.059   
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 Zhao Y, Shu R, Liu J. The development and improvement of ribonucleic acid therapy strategies. Molecular Therapy. Nucleic Acids. PMID 34540356 DOI: 10.1016/j.omtn.2021.09.002   
2021 Xiao L, Jun YW, Kool ET. DNA tiling enables precise acylation-based labeling and control of mRNA. Angewandte Chemie (International Ed. in English). PMID 34624169 DOI: 10.1002/anie.202112106   
2021 Radecki P, Uppuluri R, Deshpande K, Aviran S. Accurate detection of RNA stem-loops in structurome data reveals widespread association with protein binding sites. Rna Biology. 1-16. PMID 34606413 DOI: 10.1080/15476286.2021.1971382   
2021 Li X, Peng J, Yi C. The epitranscriptome of small non-coding RNAs. Non-Coding Rna Research. 6: 167-173. PMID 34820590 DOI: 10.1016/j.ncrna.2021.10.002   
2021 Deng X, Wang S, Han Z, Gong W, Liu Y, Li C. Dynamics of binding interactions of TDP-43 and RNA:an equally weighted multiscale elastic network model study. Proteins. PMID 34599611 DOI: 10.1002/prot.26255   
2021 Johnson KA, Dangerfield T. Mechanisms of inhibition of viral RNA replication by nucleotide analogs. The Enzymes. 49: 39-62. PMID 34696838 DOI: 10.1016/bs.enz.2021.07.001   
2021 Hohmann KF, Blümler A, Heckel A, Fürtig B. The RNA chaperone StpA enables fast RNA refolding by destabilization of mutually exclusive base pairs within competing secondary structure elements. Nucleic Acids Research. PMID 34614185 DOI: 10.1093/nar/gkab876   
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 Zhou M, Wang DO, Li W, Zheng J. RNA adduction derived from electrophilic species in vitro and in vivo. Chemico-Biological Interactions. 351: 109748. PMID 34801539 DOI: 10.1016/j.cbi.2021.109748   
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 Wang S, Shanthan G, Bouzga MM, Thi Dinh HM, Haas C, Fonneløp AE. Evaluating the performance of five up-to-date DNA/RNA co-extraction methods for forensic application. Forensic Science International. 328: 110996. PMID 34592582 DOI: 10.1016/j.forsciint.2021.110996   
2021 Espinoza S, Bon C, Valentini P, Pierattini B, Matey AT, Damiani D, Pulcrano S, Sanges R, Persichetti F, Takahashi H, Carninci P, Santoro C, Cotella D, Gustincich S. SINEUPs: a novel toolbox for RNA therapeutics. Essays in Biochemistry. 65: 775-789. PMID 34623427 DOI: 10.1042/EBC20200114   
2021 Pérez-Cañamás M, Hevia E, Katsarou K, Hernández C. Genetic evidence for the involvement of Dicer-like 2 and 4 as well as Argonaute 2 in the response against . The Journal of General Virology. 102. PMID 34623234 DOI: 10.1099/jgv.0.001656   
2021 Gao J, Klenow L, Parsons L, Malik T, Phue JN, Gao Z, Withers SG, Cipollo J, Daniels R, Wan H. Design of the Recombinant Influenza Neuraminidase Antigen is Crucial for its Biochemical Properties and Protective Efficacy. Journal of Virology. JVI0116021. PMID 34613807 DOI: 10.1128/JVI.01160-21   
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 Malone B, Campbell EA, Darst SA. CoV-er all the bases: Structural perspectives of SARS-CoV-2 RNA synthesis. The Enzymes. 49: 1-37. PMID 34696829 DOI: 10.1016/bs.enz.2021.06.004   
2021 Lambert M, Benmoussa A, Diallo I, Ouellet-Boutin K, Dorval V, Majeau N, Joly-Beauparlant C, Droit A, Bergeron A, Têtu B, Fradet Y, Pouliot F, Provost P. Identification of Abundant and Functional dodecaRNAs (doRNAs) Derived from Ribosomal RNA. International Journal of Molecular Sciences. 22. PMID 34575920 DOI: 10.3390/ijms22189757   
2021 Chatterjee B, Shen CJ, Majumder P. RNA Modifications and RNA Metabolism in Neurological Disease Pathogenesis. International Journal of Molecular Sciences. 22. PMID 34769301 DOI: 10.3390/ijms222111870   
2021 Murthy AC, Tang WS, Jovic N, Janke AM, Seo DH, Perdikari TM, Mittal J, Fawzi NL. Molecular interactions contributing to FUS SYGQ LC-RGG phase separation and co-partitioning with RNA polymerase II heptads. Nature Structural & Molecular Biology. 28: 923-935. PMID 34759379 DOI: 10.1038/s41594-021-00677-4   
2021 Pujari N, Saundh SL, Acquah FA, Mooers BHM, Ferré-D'Amaré AR, Leung AK. Engineering Crystal Packing in RNA Structures I: Past and Future Strategies for Engineering RNA Packing in Crystals. Crystals. 11. PMID 34745656 DOI: 10.3390/cryst11080952   
2021 Kluesner MG, Tasakis RN, Lerner T, Arnold A, Wüst S, Binder M, Webber BR, Moriarity BS, Pecori R. MultiEditR: The first tool for the detection and quantification of RNA editing from Sanger sequencing demonstrates comparable fidelity to RNA-seq. Molecular Therapy. Nucleic Acids. 25: 515-523. PMID 34589274 DOI: 10.1016/j.omtn.2021.07.008   
2021 Das AS, Alfonzo JD, Accornero F. The importance of RNA modifications: From cells to muscle physiology. Wiley Interdisciplinary Reviews. Rna. e1700. PMID 34664402 DOI: 10.1002/wrna.1700   
2021 Wang J, Zhang T, Yu Z, Tan WT, Wen M, Shen Y, Lambert FRP, Huber RG, Wan Y. Genome-wide RNA structure changes during human neurogenesis modulate gene regulatory networks. Molecular Cell. PMID 34655516 DOI: 10.1016/j.molcel.2021.09.027   
2021 Biswal JK, Ranjan R, Dahiya SS, Mallick S, Mohapatra JK. Regenerated silica-based RNA purification columns to address the short supply of RNA purification kits for COVID-19 diagnosis. Molecular Biology Reports. 48: 6871-6877. PMID 34510319 DOI: 10.1007/s11033-021-06688-0   
2021 Wang X, Hu C, Ye W, Wang J, Dong X, Xu J, Li X, Zhang M, Lu H, Zhang F, Wu W, Dai S, Wang HW, Chen Z. Structure of Rift Valley fever virus RNA-dependent RNA polymerase. Journal of Virology. JVI0171321. PMID 34787453 DOI: 10.1128/JVI.01713-21   
2021 Hao W, Liu G, Wang W, Shen W, Zhao Y, Sun J, Yang Q, Zhang Y, Fan W, Pei S, Chen Z, Xu D, Qin T. RNA Editing and Its Roles in Plant Organelles. Frontiers in Genetics. 12: 757109. PMID 34659369 DOI: 10.3389/fgene.2021.757109