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2022
Li A, Sun X, A Arguello E, Kleiner RE. Chemical Method to Sequence 5-Formylcytosine on RNA. ACS Chem Biol. 2022 ;17(3):503-508.
Wang D, Shalamberidze A, A Arguello E, Purse BW, Kleiner RE. Live-Cell RNA Imaging with Metabolically Incorporated Fluorescent Nucleosides. J Am Chem Soc. 2022 ;144(32):14647-14656.
A Arguello E, Li A, Sun X, Eggert TW, Mairhofer E, Kleiner RE. Reactivity-dependent profiling of RNA 5-methylcytidine dioxygenases. Nat Commun. 2022 ;13(1):4176.
2021
Dai W, Li A, Yu NJ, Nguyen T, Leach RW, Wühr M, et al.. Activity-based RNA-modifying enzyme probing reveals DUS3L-mediated dihydrouridylation. Nat Chem Biol. 2021 ;17(11):1178-1187.
Etzion-Fuchs A, Todd DA, Singh M. dSPRINT: predicting DNA, RNA, ion, peptide and small molecule interaction sites within protein domains. Nucleic Acids Res. 2021 ;49(13):e78.
Chen PJ, Hussmann JA, Yan J, Knipping F, Ravisankar P, Chen P-F, et al. Enhanced prime editing systems by manipulating cellular determinants of editing outcomes. Cell. 2021 ;184(22):5635-5652.e29.
Kleiner RE. Interrogating the transcriptome with metabolically incorporated ribonucleosides. Mol Omics. 2021 ;17(6):833-841.
Seo KW, Kleiner RE. Mechanisms of epitranscriptomic gene regulation. Biopolymers. 2021 ;112(1):e23403.
Moore RS, Kaletsky R, Murphy CT. Protocol for transgenerational learned pathogen avoidance behavior assays in . STAR Protoc. 2021 ;2(1):100384.
Moore RS, Kaletsky R, Lesnik C, Cota V, Blackman E, Parsons LR, et al. The role of the Cer1 transposon in horizontal transfer of transgenerational memory. Cell. 2021 ;184(18):4697-4712.e18.
2020
Wang D, Zhang Y, Kleiner RE. Cell- and Polymerase-Selective Metabolic Labeling of Cellular RNA with 2'-Azidocytidine. J Am Chem Soc. 2020 ;142(34):14417-14421.
Sanders DW, Kedersha N, Lee DSW, Strom AR, Drake V, Riback JA, et al. Competing Protein-RNA Interaction Networks Control Multiphase Intracellular Organization. Cell. 2020 ;181(2):306-324.e28.
Nechay M, Kleiner RE. High-throughput approaches to profile RNA-protein interactions. Curr Opin Chem Biol. 2020 ;54:37-44.
Trcek T, Douglas TE, Grosch M, Yin Y, Eagle WVI, Gavis ER, et al. Sequence-Independent Self-Assembly of Germ Granule mRNAs into Homotypic Clusters. Mol Cell. 2020 ;78(5):941-950.e12.
P Garcia D, Leach RW, Wadsworth GM, Choudhary K, Li H, Aviran S, et al. Stability and nuclear localization of yeast telomerase depend on protein components of RNase P/MRP. Nat Commun. 2020 ;11(1):2173.
Chen H, Gregor T. Using RNA Tags for Multicolor Live Imaging of Chromatin Loci and Transcription in Drosophila Embryos. Methods Mol Biol. 2020 ;2166:373-384.
2019
Kobren SNadimpalli, Singh M. Systematic domain-based aggregation of protein structures highlights DNA-, RNA- and other ligand-binding positions. Nucleic Acids Res. 2019 ;47(2):582-593.
Nogalski MT, Solovyov A, Kulkarni AS, Desai N, Oberstein A, Levine AJ, et al. A tumor-specific endogenous repetitive element is induced by herpesviruses. Nat Commun. 2019 ;10(1):90.
2018
Dine E, Toettcher JE. Optogenetic Reconstitution for Determining the Form and Function of Membraneless Organelles. Biochemistry. 2018 ;57(17):2432-2436.
A Arguello E, Srikumar T, Kleiner RE. A Photocrosslinking-Based RNA Chemical Proteomics Approach to Profile m A-Regulated Protein-RNA Interactions. Curr Protoc Nucleic Acid Chem. 2018 ;75(1):e69.
Dine E, Gil AA, Uribe G, Brangwynne CP, Toettcher JE. Protein Phase Separation Provides Long-Term Memory of Transient Spatial Stimuli. Cell Syst. 2018 ;6(6):655-663.e5.
Kleiner RE. Reading the RNA Code. Biochemistry. 2018 ;57(1):11-12.
2017
Tamayo JV, Teramoto T, Chatterjee S, Hall TMTanaka, Gavis ER. The Drosophila hnRNP F/H Homolog Glorund Uses Two Distinct RNA-Binding Modes to Diversify Target Recognition. Cell Rep. 2017 ;19(1):150-161.
Wang X, Paucek RD, Gooding AR, Brown ZZ, Ge EJ, Muir TW, et al. Molecular analysis of PRC2 recruitment to DNA in chromatin and its inhibition by RNA. Nat Struct Mol Biol. 2017 ;24(12):1028-1038.
Sanders DW, Brangwynne CP. Neurodegenerative disease: RNA repeats put a freeze on cells. Nature. 2017 ;546(7657):215-216.