Table of Contents

REVIEW

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On the origin of life: an RNA-focused synthesis and narrative
- Jacob L. Fine and
- Ronald E. Pearlman
RNA August 2023 29: 1085-1098; Published in Advance May 4, 2023, doi:10.1261/rna.079598.123
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BIOINFORMATICS

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Nanoblot: an R-package for visualization of RNA isoforms from long-read RNA-sequencing data
- Samuel DeMario,
- Kevin Xu,
- Kevin He,
- and Guillaume F. Chanfreau
RNA August 2023 29: 1099-1107; Published in Advance May 3, 2023, doi:10.1261/rna.079505.122
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REPORTS

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Shutdown of multidrug transporter bmrCD mRNA expression mediated by the ribosome-associated endoribonuclease (Rae1) cleavage in a new cryptic ORF
- Valentin Deves,
- Aude Trinquier,
- Laetitia Gilet,
- Jawad Alharake,
- Ciarán Condon,
- and Frédérique Braun
RNA August 2023 29: 1108-1116; Published in Advance May 4, 2023, doi:10.1261/rna.079692.123
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A temporal difference in the stabilization of two mRNAs with a 3′ iron-responsive element during iron deficiency
- Gregory J. Connell,
- Ikedinachukwu Michael Abasiri,
- and Elizabeth H. Chaney
RNA August 2023 29: 1117-1125; Published in Advance May 9, 2023, doi:10.1261/rna.079665.123

ARTICLES

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Translation regulation by a guanidine-II riboswitch is highly tunable in sensitivity, dynamic range, and apparent cooperativity
- Caroline M. Focht,
- David A. Hiller,
- Sabrina G. Grunseich,
- and Scott A. Strobel
RNA August 2023 29: 1126-1139; Published in Advance May 2, 2023, doi:10.1261/rna.079560.122
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Mouse nuclear RNAi-defective 2 promotes splicing of weak 5′ splice sites
- Matyas Flemr,
- Michaela Schwaiger,
- Daniel Hess,
- Vytautas Iesmantavicius,
- Josip Ahel,
- Alex Charles Tuck,
- Fabio Mohn,
- and Marc Bühler
RNA August 2023 29: 1140-1165; Published in Advance May 3, 2023, doi:10.1261/rna.079465.122
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Consequences of depleting TNRC6, AGO, and DROSHA proteins on expression of microRNAs
- Krystal C. Johnson,
- Samantha T. Johnson,
- Jing Liu,
- Yongjun Chu,
- Carlos Arana,
- Yi Han,
- Tao Wang,
- and David R. Corey
RNA August 2023 29: 1166-1184; Published in Advance May 11, 2023, doi:10.1261/rna.079647.123
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Nuclear SRP9/SRP14 heterodimer transcriptionally regulates 7SL and BC200 RNA expression
- Daniel Gussakovsky,
- Evan P. Booy,
- Mira J.F. Brown,
- and Sean A. McKenna
RNA August 2023 29: 1185-1200; Published in Advance May 8, 2023, doi:10.1261/rna.079649.123
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Direct sequencing of total Saccharomyces cerevisiae tRNAs by LC–MS/MS
- Joshua D. Jones,
- Kaley M. Simcox,
- Robert T. Kennedy,
- and Kristin S. Koutmou
RNA August 2023 29: 1201-1214; Published in Advance May 11, 2023, doi:10.1261/rna.079656.123
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Occurrence and classification of T-shaped interactions between nucleobases in RNA structures
- Zakir Ali,
- Teagan Kukhta,
- Ayush Jhunjhunwala,
- John F. Trant,
- and Purshotam Sharma
RNA August 2023 29: 1215-1229; Published in Advance May 15, 2023, doi:10.1261/rna.079486.122
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Comparison of TRIBE and STAMP for identifying targets of RNA binding proteins in human and Drosophila cells
- Katharine C. Abruzzi,
- Corrie Ratner,
- and Michael Rosbash
RNA August 2023 29: 1230-1242; Published in Advance May 11, 2023, doi:10.1261/rna.079608.123
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tRNA^Tyr has an unusually short half-life in Trypanosoma brucei
- Gabriel Silveira d'Almeida,
- Ananth Casius,
- Jeremy C. Henderson,
- Sebastian Knuesel,
- Ruslan Aphasizhev,
- Inna Aphasizheva,
- Aidan C. Manning,
- Todd M. Lowe,
- and Juan D. Alfonzo
RNA August 2023 29: 1243-1254; Published in Advance May 17, 2023, doi:10.1261/rna.079674.123
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Nanopore-based RNA sequencing deciphers the formation, processing, and modification steps of rRNA intermediates in archaea
- Felix Grünberger,
- Michael Jüttner,
- Robert Knüppel,
- Sébastien Ferreira-Cerca,
- and Dina Grohmann
RNA August 2023 29: 1255-1273; Published in Advance May 16, 2023, doi:10.1261/rna.079636.123
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METHODS

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Improved enzymatic labeling of fluorescent in situ hybridization probes applied to the visualization of retained introns in cells
- Wen Xiao,
- Kyu-Hyeon Yeom,
- Chia-Ho Lin,
- and Douglas L. Black
RNA August 2023 29: 1274-1287; Published in Advance May 2, 2023, doi:10.1261/rna.079591.123
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Promoter-independent synthesis of chemically modified RNA by human DNA polymerase θ variants
- Taylor Tredinnick,
- Tatiana Kent,
- Leonid Minakhin,
- Ziyuan Li,
- Jozef Madzo,
- Xiaojiang S. Chen,
- and Richard T. Pomerantz
RNA August 2023 29: 1288-1300; Published in Advance April 27, 2023, doi:10.1261/rna.079396.122
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Minimizing amplification bias during reverse transcription for in vitro selections
- Jordyn K. Lucas,
- Paige R. Gruenke,
- and Donald H. Burke
RNA August 2023 29: 1301-1315; Published in Advance May 16, 2023, doi:10.1261/rna.079650.123
OPEN ACCESS ARTICLE

REVIEW

On the origin of life: an RNA-focused synthesis and narrative

BIOINFORMATICS

Nanoblot: an R-package for visualization of RNA isoforms from long-read RNA-sequencing data

REPORTS

Shutdown of multidrug transporter bmrCD mRNA expression mediated by the ribosome-associated endoribonuclease (Rae1) cleavage in a new cryptic ORF

A temporal difference in the stabilization of two mRNAs with a 3′ iron-responsive element during iron deficiency

ARTICLES

Translation regulation by a guanidine-II riboswitch is highly tunable in sensitivity, dynamic range, and apparent cooperativity

Mouse nuclear RNAi-defective 2 promotes splicing of weak 5′ splice sites

Consequences of depleting TNRC6, AGO, and DROSHA proteins on expression of microRNAs

Nuclear SRP9/SRP14 heterodimer transcriptionally regulates 7SL and BC200 RNA expression

Direct sequencing of total Saccharomyces cerevisiae tRNAs by LC–MS/MS

Occurrence and classification of T-shaped interactions between nucleobases in RNA structures

Comparison of TRIBE and STAMP for identifying targets of RNA binding proteins in human and Drosophila cells

tRNA^Tyr has an unusually short half-life in Trypanosoma brucei

Nanopore-based RNA sequencing deciphers the formation, processing, and modification steps of rRNA intermediates in archaea

METHODS

Improved enzymatic labeling of fluorescent in situ hybridization probes applied to the visualization of retained introns in cells

Promoter-independent synthesis of chemically modified RNA by human DNA polymerase θ variants

Minimizing amplification bias during reverse transcription for in vitro selections

This Issue

Current Issue

In This Issue

Table of Contents

REVIEW

On the origin of life: an RNA-focused synthesis and narrative

BIOINFORMATICS

Nanoblot: an R-package for visualization of RNA isoforms from long-read RNA-sequencing data

REPORTS

Shutdown of multidrug transporter bmrCD mRNA expression mediated by the ribosome-associated endoribonuclease (Rae1) cleavage in a new cryptic ORF

A temporal difference in the stabilization of two mRNAs with a 3′ iron-responsive element during iron deficiency

ARTICLES

Translation regulation by a guanidine-II riboswitch is highly tunable in sensitivity, dynamic range, and apparent cooperativity

Mouse nuclear RNAi-defective 2 promotes splicing of weak 5′ splice sites

Consequences of depleting TNRC6, AGO, and DROSHA proteins on expression of microRNAs

Nuclear SRP9/SRP14 heterodimer transcriptionally regulates 7SL and BC200 RNA expression

Direct sequencing of total Saccharomyces cerevisiae tRNAs by LC–MS/MS

Occurrence and classification of T-shaped interactions between nucleobases in RNA structures

Comparison of TRIBE and STAMP for identifying targets of RNA binding proteins in human and Drosophila cells

tRNATyr has an unusually short half-life in Trypanosoma brucei

Nanopore-based RNA sequencing deciphers the formation, processing, and modification steps of rRNA intermediates in archaea

METHODS

Improved enzymatic labeling of fluorescent in situ hybridization probes applied to the visualization of retained introns in cells

Promoter-independent synthesis of chemically modified RNA by human DNA polymerase θ variants

Minimizing amplification bias during reverse transcription for in vitro selections

This Issue

Current Issue

In This Issue

tRNA^Tyr has an unusually short half-life in Trypanosoma brucei