Table of Contents

TRIBUTE

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Tribute to Sidney Altman / SIDNEY ALTMAN: AN EXEMPLARY SCIENTIST, TEACHER, AND FRIEND (1939–2022) / SIDNEY ALTMAN'S GREATEST ACHIEVEMENT / A SHORT HISTORY OF THE DISCOVERY OF THE ESSENTIAL RNA COMPONENT OF RNase P / RECOLLECTIONS OF A GRADUATE STUDENT IN SIDNEY ALTMAN'S LABORATORY / MEMORIES FROM THE EARLY YEARS OF THE SIDNEY ALTMAN LABORATORY / THE SPINACH CHLOROPLAST RNase P: THE FIRST PROTEIN-ONLY RNase P! / SIDNEY ALTMAN: A BRIEF MEMOIR / SIDNEY ALTMAN: IN MEMORIAM ET GRATITUDINEM / TALES OF THE UNEXPECTED IN SIDNEY ALTMAN'S LABORATORY / TO CLEAVE OR NOT TO CLEAVE, THAT IS THE QUESTION / SIDNEY ALTMAN: CHALLENGING AUTHORITY AND BEING AN ERUDITE SCHOLAR / TRIBUTE TO MY BELOVED MENTOR, SIDNEY ALTMAN / HAVING A MENTOR FOR AN ERA / IN MEMORY OF PROFESSOR SIDNEY ALTMAN: INSPIRING PEOPLE TO THE FULL / HALF A CENTURY WITH SIDNEY ALTMAN / RECOLLECTIONS OF MY FRIENDSHIP WITH SID ALTMAN / PERSONAL MEMORIES OF SIDNEY ALTMAN / A REMARKABLE CATALYST / REMEMBERING SIDNEY ALTMAN / SIDNEY ALTMAN—A SCIENTIFIC ODYSSEY / SID ALTMAN: FRIEND, COLLEAGUE, AND GODFATHER / SIDNEY ALTMAN—A REMEMBRANCE / RECOLLECTIONS OF MY SCIENTIFIC INTERACTIONS WITH SIDNEY ALTMAN / SIDNEY ALTMAN'S TIES TO CHINA / TARGETING RNA TO FIGHT ANTIBIOTIC-RESISTANT BACTERIA / SIDNEY ALTMAN: IN HIS OWN WORDS
- Venkat Gopalan,
- Timothy Nilsen,
- Venkat Gopalan,
- Ann M. Altman,
- Benjamin C. Stark,
- Sheldon I. Feinstein,
- Ray Koski,
- Cristina Mickiewicz,
- Ben Stark,
- Peter Gegenheimer,
- Leif A. Kirsebom,
- John George Arnez,
- Anthony C. Forster,
- Sergei A. Kazakov,
- Yan Yuan,
- Fenyong Liu,
- Nayef Jarrous,
- Li Yang,
- Ge Jiang,
- Taijiao Jiang,
- Joel L. Rosenbaum,
- George Miller,
- Daniel DiMaio,
- John R. Carlson,
- William H. McClain,
- Michael B. Mathews,
- Raymond Kaempfer,
- Murray P. Deutscher,
- Ling-Ling Chen,
- Yong Li,
- Enduo Wang,
- Olga Patutina,
- Marina Zenkova,
- Valentin Vlassov,
- Julius B. Lucks,
- and Venkat Gopalan
RNA November 2022 28: 1393-1429; Published in Advance September 16, 2022, doi:10.1261/rna.079397.122

MINI-REVIEWS

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Exploring the epitranscriptome by native RNA sequencing
- Oguzhan Begik,
- John S. Mattick,
- and Eva Maria Novoa
RNA November 2022 28: 1430-1439; Published in Advance September 14, 2022, doi:10.1261/rna.079404.122
OPEN ACCESS ARTICLE
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RNA modifications: an overview of select web-based tools
- Jillian Ramos
RNA November 2022 28: 1440-1445; Published in Advance September 14, 2022, doi:10.1261/rna.079443.122
OPEN ACCESS ARTICLE

REVIEW

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The mutual interaction of glycolytic enzymes and RNA in post-transcriptional regulation
- Melanie Wegener and
- Karl-Josef Dietz
RNA November 2022 28: 1446-1468; Published in Advance August 16, 2022, doi:10.1261/rna.079210.122
OPEN ACCESS ARTICLE

BIOINFORMATICS

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De novo prediction of RNA–protein interactions with graph neural networks
- Viplove Arora and
- Guido Sanguinetti
RNA November 2022 28: 1469-1480; Published in Advance August 25, 2022, doi:10.1261/rna.079365.122

REPORTS

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circRAB3IP modulates cell proliferation by reorganizing gene expression and mRNA processing in a paracrine manner
- Natasa Josipovic,
- Karoline K. Ebbesen,
- Anne Zirkel,
- Adi Danieli-Mackay,
- Christoph Dieterich,
- Leo Kurian,
- Thomas B. Hansen,
- and Argyris Papantonis
RNA November 2022 28: 1481-1495; Published in Advance August 16, 2022, doi:10.1261/rna.079195.122
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Conserved and transcript-specific functions of the RESC factors, RESC13 and RESC14, in kinetoplastid RNA editing
- Katherine Sortino,
- Brianna L. Tylec,
- Runpu Chen,
- Yijun Sun,
- and Laurie K. Read
RNA November 2022 28: 1496-1508; Published in Advance September 12, 2022, doi:10.1261/rna.079389.122

ARTICLES

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Structures of RNA ligase RtcB in complexes with divalent cations and GTP
- Agata Jacewicz,
- Swathi Dantuluri,
- and Stewart Shuman
RNA November 2022 28: 1509-1518; Published in Advance September 1, 2022, doi:10.1261/rna.079327.122
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Knockouts of TUT7 and 3′hExo show that they cooperate in histone mRNA maintenance and degradation
- Chris E. Holmquist,
- Wenxia He,
- Rita M. Meganck,
- and William F. Marzluff
RNA November 2022 28: 1519-1533; Published in Advance August 30, 2022, doi:10.1261/rna.079233.122
OPEN ACCESS ARTICLE
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Molecular basis for the recognition of the AUUAAA polyadenylation signal by mPSF
- Pedro A. Gutierrez,
- Jia Wei,
- Yadong Sun,
- and Liang Tong
RNA November 2022 28: 1534-1541; Published in Advance September 6, 2022, doi:10.1261/rna.079322.122
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Pseudouridylation of Epstein-Barr virus noncoding RNA EBER2 facilitates lytic replication
- Belle A. Henry,
- Virginie Marchand,
- Brent T. Schlegel,
- Mark Helm,
- Yuri Motorin,
- and Nara Lee
RNA November 2022 28: 1542-1552; Published in Advance September 13, 2022, doi:10.1261/rna.079219.122

TRIBUTE

MINI-REVIEWS

Exploring the epitranscriptome by native RNA sequencing

RNA modifications: an overview of select web-based tools

REVIEW

The mutual interaction of glycolytic enzymes and RNA in post-transcriptional regulation

BIOINFORMATICS

De novo prediction of RNA–protein interactions with graph neural networks

REPORTS

circRAB3IP modulates cell proliferation by reorganizing gene expression and mRNA processing in a paracrine manner

Conserved and transcript-specific functions of the RESC factors, RESC13 and RESC14, in kinetoplastid RNA editing

ARTICLES

Structures of RNA ligase RtcB in complexes with divalent cations and GTP

Knockouts of TUT7 and 3′hExo show that they cooperate in histone mRNA maintenance and degradation

Molecular basis for the recognition of the AUUAAA polyadenylation signal by mPSF

Pseudouridylation of Epstein-Barr virus noncoding RNA EBER2 facilitates lytic replication

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