RNA

Papers
(The TQCC of RNA is 9. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-05-01 to 2025-05-01.)
ArticleCitations
Thg1 family 3′–5′ RNA polymerases as tools for targeted RNA synthesis95
A real-time fluorescence assay for CPSF73, the nuclease for pre-mRNA 3′-end processing95
Contribution of domain structure to the function of the yeast DEDD family exoribonuclease and RNase T functional homolog, Rex181
Molecular basis for GIGYF–TNRC6 complex assembly70
Formamide significantly enhances the efficiency of chemical adenylation of RNA sequencing ligation adaptors69
Global profiling of the RNA and protein complexes ofEscherichia coliby size exclusion chromatography followed by RNA sequencing and mass spectrometry (SEC-seq)66
RNA-binding proteins regulate aldosterone homeostasis in human steroidogenic cells62
NMR characterization and ligand binding site of the stem loop 2 motif (s2m) from the Delta variant of SARS-CoV-253
Discovering pathways through ribozyme fitness landscapes using information theoretic quantification of epistasis51
Motifs in SARS-CoV-2 evolution48
Oppositional poly(A) tail length regulation by FMRP and CPEB148
Identification of a putative Gag binding site critical for feline immunodeficiency virus genomic RNA packaging47
betAS: intuitive analysis and visualization of differential alternative splicing using beta distributions43
Constructing an active chimeric pRNA ring with a stoichiometry of six and identifying 12 domains of the pRNA ring binding to the 12-subunit channel of phi29 DNA packaging motor43
Nuclear RNA-binding proteins meet cytoplasmic viruses43
3D feasibility of 2D RNA–RNA interaction paths by stepwise folding simulations41
Modulation of RNA-binding properties of the RNA helicase UPF1 by its activator UPF241
The m6A binding protein YTHDF3 modulates the cardiac response to stress40
Multifaceted roles of RNA editing enzyme ADAR1 in innate immunity39
RNA uridyl transferases TUT4/7 differentially regulate miRNA variants depending on the cancer cell type38
PACRAT: Pathogen detection with aptamer-detected cascaded recombinase polymerase amplification-in vitro transcription38
Far from home: the role of glial mRNA localization in synaptic plasticity37
A novel reporter for helicase activity in translation uncovers DDX3X interactions35
Inconsistencies in the published rabbit ribosomal rRNAs: a proposal for uniformity in sequence and site numbering33
Small noncoding RNA interactome capture reveals pervasive, carbon source–dependent tRNA engagement of yeast glycolytic enzymes32
The total mRNA concentration buffering system in yeast is global rather than gene-specific30
A conserved arginine in NS5 binds genomic 3′ stem–loop RNA for primer-independent initiation of flavivirus RNA replication28
Impact of scaffolding protein TNRC6 paralogs on gene expression and splicing28
Safe and easy in vitro evaluation of tmRNA-SmpB-mediated trans-translation from ESKAPE pathogenic bacteria27
Phosphorylation controls the oligomeric state of She2 and mRNA localization in yeast27
Optimized infrared photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation (IR-PAR-CLIP) protocol identifies novel IGF2BP3-interacting RNAs in colon cancer cells26
Site-blocking antisense oligonucleotides as a mechanism to fine-tune MeCP2 expression25
Exploring the targeting spectrum of rocaglates among eIF4A homologs25
Adenosine deaminases that act on RNA, then and now24
Circuit logic: interdependent RNA modifications shape mRNA and noncoding RNA structure and function23
Knockouts of TUT7 and 3′hExo show that they cooperate in histone mRNA maintenance and degradation23
A circular split nanoluciferase reporter for validating and screening putative internal ribosomal entry site elements23
Diversity and modularity of tyrosine-accepting tRNA-like structures23
Spliceosome assembly and regulation: insights from analysis of highly reduced spliceosomes23
Ribosomal RNA degradation induced by the bacterial RNA polymerase inhibitor rifampicin22
Specific mechanisms of translation initiation in higher eukaryotes: the eIF4G2 story22
Cytoplasmic RNA sensors and their interplay with RNA-binding partners in innate antiviral response: theme and variations22
Schizosaccharomyces pombe pus1mutants are temperature sensitive due to decay of tRNAIle(UAU)by the 5′-3′ exonuclease Dhp1, primarily targeting the unspliced pre-tRNA21
Mapping RNA-Protein Interactions with Subcellular Resolution Using Colocalization CLIP21
Corrigendum: Synthesis of modified nucleotide polymers by the poly(U) polymerase Cid1: application to direct RNA sequencing on nanopores21
Loss of ADAR1 protein induces changes in small RNA landscape in hepatocytes21
Quantitative intracellular retention of delivered RNAs through optimized cell fixation and immunostaining20
Ligands with polyfluorophenyl moieties promote a local structural rearrangement in the Spinach2 and Broccoli aptamers that increases ligand affinities20
clipplotr—a comparative visualization and analysis tool for CLIP data20
DDX3X and DDX3Y are redundant in protein synthesis19
Structural and dynamic effects of pseudouridine modifications on noncanonical interactions in RNA19
Effects of transgene insertion loci and copy number on Dnmt3L gene silencing through antisense transgene-derived PIWI-interacting RNAs19
Cytosolic RNA binding of the mitochondrial TCA cycle enzyme malate dehydrogenase (MDH2)19
Dyskerin: an essential pseudouridine synthase with multifaceted roles in ribosome biogenesis, splicing, and telomere maintenance19
Live-cell imaging of circular and long noncoding RNAs associated with FUS pathological aggregates by Pepper fluorescent RNA19
An incredible life in science: Joseph G. Gall (1928–2024)19
The m6A landscape of polyadenylated nuclear (PAN) RNA and its related methylome in the context of KSHV replication19
Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions19
Localization of RNAs to the Mitochondria – Mechanisms and Functions19
The antivirulent Staphylococcal sRNA SprC regulates CzrB efflux pump to adapt its response to zinc toxicity18
The limits of human microRNA annotation have been met18
The pseudotorsional space of RNA18
Identification and mapping of post-transcriptional modifications on the HIV-1 antisense transcript Ast in human cells18
Boosting the toolbox for live imaging of translation18
SMDesigner: a program to design sequence mutations to assess RNA structure18
Functional analysis of the zinc finger modules of theSaccharomyces cerevisiaesplicing factor Luc718
Translation elongation inhibitors stabilize select short-lived transcripts18
Comparison of TRIBE and STAMP for identifying targets of RNA binding proteins in human andDrosophilacells18
RNA modifications: an overview of select web-based tools17
Double-stemmed and split structural variants of fluorescent RNA Mango aptamers17
Adenosine modifications impede SARS-CoV-2 RNA-dependent RNA transcription17
A piRNA-lncRNA regulatory network initiates responder and trailer piRNA formation during mosquito embryonic development17
Corrigendum: No evidence for epitranscriptomic m5C modification of SARS-CoV-2, HIV, and MLV viral RNA17
Three critical regions of the erythromycin resistance methyltransferase, ErmE, are required for function supporting a model for the interaction of Erm family enzymes with substrate rRNA17
The catalytic-dead Pcif1 regulates gene expression and fertility inDrosophila16
Chloroplast C-to-U RNA editing in vascular plants is adaptive due to its restorative effect: testing the restorative hypothesis16
Development of tailored splice-switching oligonucleotides for progressive brain disorders in Europe: development, regulation, and implementation considerations16
Comparative analyses of disease-linked missense mutations in the RNA exosome modeled in budding yeast reveal distinct functional consequences in translation16
SARS-CoV-2 infection triggers widespread host mRNA decay leading to an mRNA export block16
Dynamic RNA binding and unfolding by nonsense-mediated mRNA decay factor UPF216
Modulation of diverse biological processes by CPSF, the master regulator of mRNA 3′ ends15
Species-specific formation of paraspeckles in intestinal epithelium revealed by characterization of NEAT1 in naked mole-rat15
Thioredoxin regulates the redox state and the activity of the human tRNA ligase complex15
Corrigendum: NineTeen Complex-subunit Salsa is required for efficient splicing of a subset of introns and dorsal–ventral patterning14
Walter Keller (1938–2023): a tribute from his mentees14
Understanding the redundant functions of the m6A-binding YTHDF proteins14
The daunting task of modifying ribosomal RNA14
The importance of m6A topology in chicken embryo mRNA: a precise mapping of m6A at the conserved chicken β-actin zipcode14
Microbial iCLIP2: enhanced mapping of RNA–protein interaction by promoting protein and RNA stability14
The Trypanosoma brucei RNA-binding protein DRBD18 ensures correct mRNA trans splicing and polyadenylation patterns14
Effect of the SARS-CoV-2 Delta-associated G15U mutation on the s2m element dimerization and its interactions with miR-1307-3p14
Global analysis by LC-MS/MS ofN6-methyladenosine and inosine in mRNA reveal complex incidence14
The molecular language of RNA 5′ ends: guardians of RNA identity and immunity13
Recoding UAG to selenocysteine inSaccharomyces cerevisiae13
Chemical manipulation of m1A mediates its detection in human tRNA13
Experimental evidence for the correlation between RNA structural fluctuations and the frequency of beneficial mutations13
Conformational dynamics of the hepatitis C virus 3′X RNA13
Translation reinitiation after uORFs does not fully protect mRNAs from nonsense-mediated decay13
DNMT1 inhibition by pUG-fold quadruplex RNA12
How to build a protoribosome: structural insights from the first protoribosome constructs that have proven to be catalytically active12
Molecular basis of human polyA polymerase recruitment by mPSF12
Computational design and experimental verification of pseudoknotted ribozymes12
RNA gain-of-function mechanisms in short tandem repeat diseases12
Reversing the miRNA -5p/-3p stoichiometry reveals physiological roles and targets of miR-140 miRNAs12
Posttranscriptional modification to the core of tRNAs modulates translational misreading errors12
ac4C: a fragile modification with stabilizing functions in RNA metabolism12
The essential role of architectural noncoding RNANeat1in cold-induced beige adipocyte differentiation in mice12
The unfolding landscape of RNA and disease12
Design and off-target prediction for antisense oligomers targeting bacterial mRNAs with the MASON web server11
Genome-wide analyses of XRN1-sensitive targets in osteosarcoma cells identify disease-relevant transcripts containing G-rich motifs11
The Catalyst: RNA and the Quest to Unlock Life's Deepest Secrets, by Thomas R. Cech. 2024. W.W. Norton & Company11
IsoSplitter: identification and characterization of alternative splicing sites without a reference genome11
Analysis of programmed frameshifting during translation ofprfBinFlavobacterium johnsoniae11
Fusion protein EWS-FLI1 is incorporated into a protein granule in cells11
Targeting splicing factors for cancer therapy11
Alternative splicing regulation of membrane trafficking genes during myogenesis11
LARP4 is an RNA-binding protein that binds nuclear-encoded mitochondrial mRNAs to promote mitochondrial function11
KRGG1 function in RNA editing inTrypanosoma brucei11
Study of the RNA splicing kinetics via in vivo 5-EU labeling11
Dysregulation of murine long noncoding single-cell transcriptome in nonalcoholic steatohepatitis and liver fibrosis10
SnoRNA guide activities: real and ambiguous10
Autorecoding A-to-I RNA editing sites in theAdargene underwent compensatory gains and losses in major insect clades10
Theje ne sais quoiof 5-methylcytosine in messenger RNA10
APOBEC1 mediated C-to-U RNA editing: target sequence and trans-acting factor contribution to 177 RNA editing events in 119 murine transcripts in vivo10
Synthetic riboswitches for the analysis of tRNA processing by eukaryotic RNase P enzymes10
RNA sequence and structure control assembly and function of RNA condensates10
Rational design of oligonucleotides for enhanced in vitro transcription of small RNA10
Cytoplasmic regulation of the poly(A) tail length as a potential therapeutic target10
Selected humanization of yeast U1 snRNP leads to global suppression of pre-mRNA splicing and mitochondrial dysfunction in the budding yeast10
Nanopore-based RNA sequencing deciphers the formation, processing, and modification steps of rRNA intermediates in archaea10
TERRA ONTseq: a long-read-based sequencing pipeline to study the human telomeric transcriptome9
Biochemical and genetic evidence supports Fyv6 as a second-step splicing factor inSaccharomyces cerevisiae9
Rational design yields RNA-binding zinc finger domains with altered sequence specificity9
Localization of unlabeled bepirovirsen antisense oligonucleotide in murine tissues using in situ hybridization and CARS imaging9
Nuclear magnetic resonance reveals a two hairpin equilibrium near the 3′-splice site of influenza A segment 7 mRNA that can be shifted by oligonucleotides9
T1TAdb: the database of type I toxin–antitoxin systems9
Programmable macromolecule-based RNA-targeting therapies to treat human neurological disorders9
Stress-induced inhibition of mRNA export triggers RNase III-mediated decay of theBDF2mRNA9
Tribute to Yoshiro Shimura (1932–2023)9
Structural basis for RNA-duplex unwinding by the DEAD-box helicase DbpA9
m6A-ELISA, a simple method for quantifyingN6-methyladenosine from mRNA populations9
Transposable elements contribute to the spatiotemporal microRNA landscape in human brain development9
Cross-linking mass spectrometric analysis of the endogenous TREX complex fromSaccharomyces cerevisiae9
The key features of SARS-CoV-2 leader and NSP1 required for viral escape of NSP1-mediated repression9
Human T-cell leukemia virus type 1 uses a specific tRNAProisodecoder to prime reverse transcription9
The life and times of a tRNA9
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