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Oxford Academic
 
 
 
 
New issue alert
 
 
 
 
New Impact Factor Announced
 
We are delighted to reveal that the latest Impact Factor for Nucleic Acids Research has risen to 16.971. To celebrate this new Impact Factor, we have curated a collection of highly cited articles from recent years.
 
 
 
 
 
 
Nucleic Acids Research  
Volume 49 Issue 19
 
8 November 2021
 
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NAR Breakthrough Article
 
 
 
Uniform affinity-tuning of N-methyl-aminoacyl-tRNAs to EF-Tu enhances their multiple incorporation border= 
 
Yoshihiko Iwane; Hiroyuki Kimura; Takayuki Katoh ; Hiroaki Suga
 
 
 
Critical Reviews and Perspectives
 
 
 
The structural and functional workings of KEOPS border= 
 
Jonah Beenstock; Frank Sicheri
 
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
Binding of DNA origami to lipids: maximizing yield and switching via strand displacement border= 
 
Jasleen Kaur Daljit Singh; Esther Darley; Pietro Ridone ; James P Gaston; Ali Abbas ...
 
 
Overcoming GNA/RNA base-pairing limitations using isonucleotides improves the pharmacodynamic activity of ESC+ GalNAc-siRNAs border= 
 
Mark K Schlegel; Shigeo Matsuda; Christopher R Brown ; Joel M Harp; Joseph D Barry ...
 
 
 
Computational Biology
 
 
 
Identification and classification of antiviral defence systems in bacteria and archaea with PADLOC reveals new system types border= 
 
Leighton J Payne; Thomas C Todeschini; Yi Wu ; Benjamin J Perry; Clive W Ronson ...
 
 
 
Calling large indels in 1047 Arabidopsis with IndelEnsembler border= 
 
Dong-Xu Liu; Ramesh Rajaby; Lu-Lu Wei; Lei Zhang ; Zhi-Quan Yang ...
 
 
 
Data Resources and Analyses
 
 
 
The comprehensive interactomes of human adenosine RNA methyltransferases and demethylases reveal distinct functional and regulatory features border= 
 
Helena Covelo-Molares; Ales Obrdlik; Ivana PoÅ¡tulková ; Michaela Dohnálková; Pavlína Gregorová ...
 
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Cockayne syndrome group A and ferrochelatase finely tune ribosomal gene transcription and its response to UV irradiation border= 
 
Manuela Lanzafame; Giulia Branca; Claudia Landi ; Mingyue Qiang; Bruno Vaz ...
 
 
A dominant-negative SOX18 mutant disrupts multiple regulatory layers essential to transcription factor activity border= 
 
Alex J McCann; Jieqiong Lou; Mehdi Moustaqil ; Matthew S Graus; Ailisa Blum ...
 
 
The horizontal transfer of Pseudomonas aeruginosa PA14 ICE PAPI-1 is controlled by a transcriptional triad between TprA, NdpA2 and MvaT border= 
 
Gauthier Dangla-Pélissier; Nicolas Roux; Victoria Schmidt ; Gaël Chambonnier; Moly Ba ...
 
 
 
Single molecule characterization of the binding kinetics of a transcription factor and its modulation by DNA sequence and methylation border= 
 
Hadeel Khamis; Sergei Rudnizky; Philippa Melamed ; Ariel Kaplan
 
 
A pathogen-specific sRNA influences enterohemorrhagic Escherichia coli fitness and virulence in part by direct interaction with the transcript encoding the ethanolamine utilization regulatory factor EutR border= 
 
Amber B Sauder; Melissa M Kendall
 
 
STAG2 loss-of-function affects short-range genomic contacts and modulates the basal-luminal transcriptional program of bladder cancer cells border= 
 
Laia Richart; Eleonora Lapi; Vera Pancaldi ; Mirabai Cuenca-Ardura; Enrique Carrillo-de-Santa Pau ...
 
 
A role for AKT1 in nonsense-mediated mRNA decay border= 
 
Martine Palma; Catherine Leroy; Sophie Salomé-Desnoulez; Elisabeth Werkmeister ; Rebekah Kong ...
 
 
Multifaceted impact of a nucleoside monophosphate kinase on 5²-end-dependent mRNA degradation in bacteria border= 
 
Monica P Hui; Joel G Belasco
 
 
 
Genome Integrity, Repair and Replication
 
 
 
Non-canonical LexA proteins regulate the SOS response in the Bacteroidetes border= 
 
Miquel Sánchez-Osuna; Pilar Cortés; Mark Lee; Aaron T Smith ; Jordi Barbé ...
 
 
Oncogenic KRAS drives radioresistance through upregulation of NRF2-53BP1-mediated non-homologous end-joining repair border= 
 
Linlin Yang; Changxian Shen; Adriana Estrada-Bernal ; Ryan Robb; Moumita Chatterjee ...
 
 
USP39 promotes non-homologous end-joining repair by poly(ADP-ribose)-induced liquid demixing border= 
 
Jae Jin Kim; Seo Yun Lee; Yiseul Hwang ; Soyeon Kim; Jee Min Chung ...
 
 
A replication-linked mutational gradient drives somatic mutation accumulation and influences germline polymorphisms and genome composition in mitochondrial DNA border= 
 
Monica Sanchez-Contreras; Mariya T Sweetwyne; Brendan F Kohrn ; Kristine A Tsantilas; Michael J Hipp ...
 
 
The coordinated replication of Vibrio cholerae's two chromosomes required the acquisition of a unique domain by the RctB initiator border= 
 
Florian Fournes; Theophile Niault; Jakub Czarnecki ; Alvise Tissier-Visconti; Didier Mazel ...
 
 
 
Genomics
 
 
 
A standard knockout procedure alters expression of adjacent loci at the translational level border= 
 
Artyom A Egorov; Alexander I Alexandrov; Valery N Urakov ; Desislava S Makeeva; Roman O Edakin ...
 
 
 
Molecular Biology
 
 
 
Translational activators and mitoribosomal isoforms cooperate to mediate mRNA-specific translation in Schizosaccharomyces pombe mitochondria border= 
 
Christopher J Herbert; Sylvie Labarre-Mariotte; David Cornu ; Cyrielle Sophie; Cristina Panozzo ...
 
 
Screening by deep sequencing reveals mediators of microRNA tailing in C. elegans 
 
Karl-Frédéric Vieux; Katherine P Prothro; Leanne H Kelley; Cameron Palmer ; Eleanor M Maine ...
 
 
eIF3j facilitates loading of release factors into the ribosome border= 
 
Tatiana Egorova; Nikita Biziaev; Alexey Shuvalov; Elizaveta Sokolova ; Sabina Mukba ...
 
 
Nucleolar TFIIE plays a role in ribosomal biogenesis and performance border= 
 
Tamara Phan; Pallab Maity; Christina Ludwig; Lisa Streit ; Jens Michaelis ...
 
 
Single-molecule conformational dynamics of a transcription factor reveals a continuum of binding modes controlling association and dissociation border= 
 
Wei Chen; Wei Lu; Peter G Wolynes ; Elizabeth A Komives
 
 
 
Nucleic Acid Enzymes
 
 
 
USP37 regulates DNA damage response through stabilizing and deubiquitinating BLM border= 
 
Chenming Wu; Yiming Chang; Junliang Chen ; Yang Su; Lei Li ...
 
 
Modulation of the intrinsic chromatin binding property of HIV-1 integrase by LEDGF/p75 border= 
 
Delphine Lapaillerie; Benoît Lelandais; Eric Mauro ; Floriane Lagadec; Camille Tumiotto ...
 
 
The phage defence island of a multidrug resistant plasmid uses both BREX and type IV restriction for complementary protection from viruses border= 
 
David M Picton; Yvette A Luyten; Richard D Morgan ; Andrew Nelson; Darren L Smith ...
 
 
 
RNA and RNA-protein complexes
 
 
 
Atypical molecular features of RNA silencing against the phloem-restricted polerovirus TuYV border= 
 
Marion Clavel; Esther Lechner; Marco Incarbone ; Timothée Vincent; Valerie Cognat ...
 
 
ZNF598 co-translationally titrates poly(GR) protein implicated in the pathogenesis of C9ORF72-associated ALS/FTD border= 
 
Jumin Park; Jongbo Lee; Ji-hyung Kim ; Jongbin Lee; Heeju Park ...
 
 
Quantitative assessment of engineered Cas9 variants for target specificity enhancement by single-molecule reaction pathway analysis border= 
 
So Young Bak; Youngri Jung; Jinho Park ; Keewon Sung; Hyeon-Ki Jang ...
 
 
G3BP1 binds to guanine quadruplexes in mRNAs to modulate their stabilities border= 
 
Xiaomei He; Jun Yuan; Yinsheng Wang
 
 
The RNA chaperone StpA enables fast RNA refolding by destabilization of mutually exclusive base pairs within competing secondary structure elements border= 
 
Katharina F Hohmann; Anja Blümler; Alexander Heckel ; Boris Fürtig
 
 
 
Structural Biology
 
 
 
Structural dissection of sequence recognition and catalytic mechanism of human LINE-1 endonuclease border= 
 
Ian Miller; Max Totrov; Lioubov Korotchkina ; Denis N Kazyulkin; Andrei V Gudkov ...
 
 
Bacteriophage Twort protein Gp168 is a beta -clamp inhibitor by occupying the DNA sliding channel border= 
 
Bing Liu; Shanshan Li; Yang Liu ; Huan Chen; Zhenyue Hu ...
 
 
Structural basis of chromatin regulation by histone variant H2A.Z border= 
 
Tyler S Lewis; Vladyslava Sokolova; Harry Jung; Honkit Ng ; Dongyan Tan
 
 
 
Synthetic Biology and Bioengineering
 
 
 
Streamlined CRISPR genome engineering in wild-type bacteria using SIBR-Cas border= 
 
Constantinos Patinios; Sjoerd C A Creutzburg; Adini Q Arifah; Belén Adiego-Pérez ; Evans A Gyimah ...
 
 
 
Corrigendum
 
 
 
Correction to ˜Theoretical basis for stabilizing messenger RNA through secondary structure design' border= 
 
Hannah K Wayment-Steele; Do Soon Kim; Christian A Choe ; John J Nicol; Roger Wellington-Oguri ...
 
 
Correction to ˜Optimized design of antisense oligomers for targeted rRNA depletion' border= 
 
Wesley A Phelps; Anne E Carlson; Miler T Lee
 
 
 
Methods Online
 
 
 
Calling differentially methylated regions from whole genome bisulphite sequencing with DMRcate border= 
 
Timothy J Peters; Michael J Buckley; Yunshun Chen ; Gordon K Smyth; Christopher C Goodnow ...
 
 
Epitome: predicting epigenetic events in novel cell types with multi-cell deep ensemble learning border= 
 
Alyssa Kramer Morrow; John Weston Hughes; Jahnavi Singh ; Anthony Douglas Joseph; Nir Yosef
 
 
Kinetics of protein-assisted nucleic acid interconversion monitored by transient time resolved fluorescence in microfluidic droplets border= 
 
Natalia Grytsyk; Damien Cianfarani; Olivier Crégut ; Ludovic Richert; Christian Boudier ...
 
 
Single molecule/particle tracking analysis program SMTracker 2.0 reveals different dynamics of proteins within the RNA degradosome complex in Bacillus subtilis border= 
 
Luis M Oviedo-Bocanegra; Rebecca Hinrichs; Daniel Andreas Orlando Rotter ; Simon Dersch; Peter L Graumann
 
 
Rapid identification of methylase specificity (RIMS-seq) jointly identifies methylated motifs and generates shotgun sequencing of bacterial genomes border= 
 
Chloé Baum; Yu-Cheng Lin; Alexey Fomenkov ; Brian P Anton; Lixin Chen ...
 
 
SpecHap: a diploid phasing algorithm based on spectral graph theory border= 
 
Yonghan YU; Lingxi Chen; Xinyao Miao; Shuai Cheng Li
 
 
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