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IsoSplitter: identification and characterization of alternative splicing sites without a reference genome

期刊: RNA, 2021; 27 (8)

Long-read transcriptome sequencing is designed to sequence full-length RNA molecules and advantageous for identifying alternative splice isoforms; how......

A systematic evaluation of bioinformatics tools for identification of long noncoding RNAs

期刊: RNA, 2021; 27 (1)

High-throughput RNA sequencing unveiled the complexity of transcriptome and significantly increased the records of long noncoding RNAs (lncRNAs), whic......

Ensemble switching unveils a kinetic rheostat mechanism of the eukaryotic thiamine pyrophosphate riboswitch

期刊: RNA, 2021; 27 (7)

Thiamine pyrophosphate (TPP) riboswitches regulate thiamine metabolism by inhibiting the translation of enzymes essential to thiamine synthesis pathwa......

Mutations in domain IV of elongation factor EF-G confer-1 frameshifting

期刊: RNA, 2021; 27 (1)

A recent crystal structure of a ribosome complex undergoing partial translocation in the absence of elongation factor EF-G showed disruption of codon-......

An optimized fixation method containing glyoxal and paraformaldehyde for imaging nuclear bodies

期刊: RNA, 2021; 27 (6)

The mammalian cell nucleus contains different types of membrane-less nuclear bodies (NBs) consisting of proteins and RNAs. Microscopic imaging has bee......

A method for colocalizing lineage tracing reporter and RNAscope signals on skeletal tissue section

期刊: RNA, 2021; 27 (3)

Fluorescent reporters have been widely used in modern biology as a powerful tool in cell lineage tracing during development and in studying the pathog......

Insights into the improved macrolide inhibitory activity from the high-resolution cryo-EM structure of dirithromycin bound to the E. coli 70S ribosome

期刊: RNA, 2020; 26 (6)

Macrolides are one of the most successful and widely used classes of antibacterials, which kill or stop the growth of pathogenic bacteria by binding n......

Structure and ligand binding of the ADP-binding domain of the NAD(+) riboswitch

期刊: RNA, 2020; 26 (7)

The nadA motif is the first known NAD(+)-dependent riboswitch, comprising two similar tandem bulged stem-loop structures. We have determined the struc......

Functional regions in the 5 ' external transcribed spacer of yeast pre-rRNA

期刊: RNA, 2020; 26 (7)

Ribosomal subunits are assembled on a precursor rRNA that includes four spacers in addition to mature rRNA sequences. The 5' external transcribed spac......

RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers

期刊: RNA, 2020; 26 (8)

RNA-Puzzles is a collective endeavor dedicated to the advancement and improvement of RNA 3D structure prediction. With agreement from crystallographer......

Detection and quantification of glycosylated queuosine modified tRNAs by acid denaturing and APB gels

期刊: RNA, 2020; 26 (9)

Queuosine (Q) is a conserved tRNA modification in bacteria and eukaryotes. Eukaryotic Q-tRNA modification occurs through replacing the guanine base wi......

A combinatorially regulated RNA splicing signature predicts breast cancer EMT states and patient survival

期刊: RNA, 2020; 26 (9)

During breast cancer metastasis, the developmental process epithelial-mesenchymal transition (EMT) is abnormally activated. Transcriptional regulatory......

RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge

期刊: RNA, 2020; 26 (9)

The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both ne......

Studies with recombinant U7 snRNP demonstrate that CPSF73 is both an endonuclease and a 5 '-3 ' exonuclease

期刊: RNA, 2020; 26 (10)

Metazoan replication-dependent histone pre-mRNAs are cleaved at the 3' end by U7 snRNP, an RNA-guided endonuclease that contains U7 snRNA, seven prote......

microRNA-seq of cartilage reveals an overabundance of miR-140-3p which contains functional isomiRs

期刊: RNA, 2020; 26 (11)

miR-140 is selectively expressed in cartilage. Deletion of the entire Mir140 locus in mice results in growth retardation and early-onset osteoarthriti......

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