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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 20
 
18 November 2021
 
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NAR Breakthrough Article
 
 
 
High-affinity five/six-letter DNA aptamers with superior specificity enabling the detection of dengue NS1 protein variants beyond the serotype identification border= 
 
Ken-ichiro Matsunaga; Michiko Kimoto; Vanessa Weixun Lim ; Hui Pen Tan; Yu Qian Wong ...
 
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
Revealing structural peculiarities of homopurine GA repetition stuck by i-motif clip border= 
 
AleÅ¡ Novotný; Jan Novotný; Iva Kejnovská ; Michaela Vorlíčková; Radovan Fiala ...
 
 
Transliteration of synthetic genetic enzymes border= 
 
Yajun Wang; Xiaolin Liu; Mouhamad Shehabat; Nicholas Chim ; John C Chaput
 
 
 
Computational Biology
 
 
 
Inferring primase-DNA specific recognition using a data driven approach border= 
 
Adam Soffer; Sarah A Eisdorfer; Morya Ifrach; Stefan Ilic ; Ariel Afek ...
 
 
DNA sequence and methylation prescribe the inside-out conformational dynamics and bending energetics of DNA minicircles border= 
 
Jejoong Yoo; Sangwoo Park; Christopher Maffeo ; Taekjip Ha; Aleksei Aksimentiev
 
 
 
 
 
Data Resources and Analyses
 
 
 
Determination of the two-component systems regulatory network reveals core and accessory regulations across Pseudomonas aeruginosa lineages border= 
 
Julian Trouillon; Lionel Imbert; Anne-Marie Villard ; Thierry Vernet; Ina Attrée ...
 
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Large-scale movement of eIF3 domains during translation initiation modulate start codon selection border= 
 
Jose L Llácer; Tanweer Hussain; Jinsheng Dong ; Laura Villamayor; Yuliya Gordiyenko ...
 
 
Nrd1p identifies aberrant and natural exosomal target messages during the nuclear mRNA surveillance in Saccharomyces cerevisiae border= 
 
Pragyan Singh; Anusha Chaudhuri; Mayukh Banerjea ; Neeraja Marathe; Biswadip Das
 
 
A balancing act in transcription regulation by response regulators: titration of transcription factor activity by decoy DNA binding sites border= 
 
Rong Gao; Libby J Helfant; Ti Wu ; Zeyue Li; Samantha E Brokaw ...
 
 
Negative DNA supercoiling makes protein-mediated looping deterministic and ergodic within the bacterial doubling time border= 
 
Yan Yan; Wenxuan Xu; Sandip Kumar ; Alexander Zhang; Fenfei Leng ...
 
 
 
Targeting 3² and 5² untranslated regions with antisense oligonucleotides to stabilize frataxin mRNA and increase protein expression border= 
 
Yanjie Li; Jixue Li; Jun Wang ; David R Lynch; Xiulong Shen ...
 
 
Enhancer architecture-dependent multilayered transcriptional regulation orchestrates RA signaling-induced early lineage differentiation of ESCs border= 
 
Guangsong Su; Wenbin Wang; Xueyuan Zhao ; Jun Chen; Jian Zheng ...
 
 
The lupus autoantigen La/Ssb is an Xist-binding protein involved in Xist folding and cloud formation border= 
 
Norbert Ha; Nan Ding; Ru Hong ; Rubing Liu; Xavier Roca ...
 
 
RNA chaperone activates Salmonella virulence program during infection border= 
 
Jeongjoon Choi; Hubert Salvail; Eduardo A Groisman
 
 
 
Genome Integrity, Repair and Replication
 
 
 
Human MettL3-MettL14 RNA adenine methyltransferase complex is active on double-stranded DNA containing lesions border= 
 
Dan Yu; John R Horton; Jie Yang ; Taraneh Hajian; Masoud Vedadi ...
 
 
FAN1's protection against CGG repeat expansion requires its nuclease activity and is FANCD2-independent 
 
Xiaonan Zhao; Huiyan Lu; Karen Usdin
 
 
CST does not evict elongating telomerase but prevents initiation by ssDNA binding border= 
 
Arthur J Zaug; Ci Ji Lim; Conner L Olson ; Maria T Carilli; Karen J Goodrich ...
 
 
ID3 promotes homologous recombination via non-transcriptional and transcriptional mechanisms and its loss confers sensitivity to PARP inhibition border= 
 
Ali Bakr; Joschka Hey; Gianluca Sigismondo ; Chun-Shan Liu; Ahmed Sadik ...
 
 
Homologous recombination-mediated irreversible genome damage underlies telomere-induced senescence border= 
 
Sabrina Ghadaouia; Marc-Alexandre Olivier; Aurélie Martinez ; Tibila Kientega; Jian Qin ...
 
 
RBM6 splicing factor promotes homologous recombination repair of double-strand breaks and modulates sensitivity to chemotherapeutic drugs border= 
 
Feras E Machour; Enas R Abu-Zhayia; Samah W Awwad ; Tirza Bidany-Mizrahi; Stefan Meinke ...
 
 
Phospho-Ku70 induced by DNA damage interacts with RNA Pol II and promotes the formation of phospho-53BP1 foci to ensure optimal cNHEJ border= 
 
Amelie Schellenbauer; Marie-Noelle Guilly; Romain Grall ; Romain Le Bars; Vincent Paget ...
 
 
Timely termination of repair DNA synthesis by ATAD5 is important in oxidative DNA damage-induced single-strand break repair border= 
 
Su Hyung Park; Youyoung Kim; Jae Sun Ra ; Min woo Wie; Mi-Sun Kang ...
 
 
 
Genomics
 
 
 
Recurrent mutations promote widespread structural and functional divergence of MULE-derived genes in plants border= 
 
Geun Young Chae; Woo-Jong Hong; Min Jeong Jang ; Ki-Hong Jung; Seungill Kim
 
 
 
Molecular Biology
 
 
 
Nanomechanics of negatively supercoiled diaminopurine-substituted DNA border= 
 
Domenico Salerno; Claudia Adriana Marrano; Valeria Cassina; Matteo Cristofalo ; Qing Shao ...
 
 
MicroDNA levels are dependent on MMEJ, repressed by c-NHEJ pathway, and stimulated by DNA damage border= 
 
Teressa Paulsen; Pumoli Malapati; Yoshiyuki Shibata ; Briana Wilson; Rebeka Eki ...
 
 
 
Nucleic Acid Enzymes
 
 
 
Oxidation alters the architecture of the phenylalanyl-tRNA synthetase editing domain to confer hyperaccuracy border= 
 
Pooja Srinivas; Rebecca E Steiner; Ian J Pavelich ; Ricardo Guerrero-Ferreira; Puneet Juneja ...
 
 
The human pseudouridine synthase PUS7 recognizes RNA with an extended multi-domain binding surface border= 
 
Julia Guegueniat; Levon Halabelian; Hong Zeng ; Aiping Dong; Yanjun Li ...
 
 
Constraints on error rate revealed by computational study of G¢U tautomerization in translation border= 
 
Andriy Kazantsev; Zoya Ignatova
 
 
Residues at the interface between zinc binding and winged helix domains of human RECQ1 play a significant role in DNA strand annealing activity border= 
 
Swagata Mukhopadhyay; Tulika Das; Madhuparna Bose ; Chetan Kumar Jain; Mayukh Chakraborty ...
 
 
 
RNA and RNA-protein complexes
 
 
 
Cooperative methylation of human tRNA3Lys at positions A58 and U54 drives the early and late steps of HIV-1 replication border= 
 
Hiroyuki Fukuda; Takeshi Chujo; Fan-Yan Wei ; Sheng-Lan Shi; Mayumi Hirayama ...
 
 
Diverse functional elements in RNA predicted transcriptome-wide by orthogonal RNA structure probing border= 
 
Dalen Chan; Chao Feng; Whitney E England ; Dana Wyman; Ryan A Flynn ...
 
 
Formation and persistence of polyglutamine aggregates in mistranslating cells border= 
 
Jeremy T Lant; Rashmi Kiri; Martin L Duennwald; Patrick O'Donoghue
 
 
THUMPD3'TRMT112 is a m2G methyltransferase working on a broad range of tRNA substrates border= 
 
Wen-Qing Yang; Qing-Ping Xiong; Jian-Yang Ge ; Hao Li; Wen-Yu Zhu ...
 
 
A post-transcriptional regulon controlled by TtpA, the single tristetraprolin family member expressed in Dictyostelium discoideum 
 
Wenli Bai; Melissa L Wells; Wi S Lai; Stephanie N Hicks ; Adam B Burkholder ...
 
 
Investigating molecular mechanisms of 2A-stimulated ribosomal pausing and frameshifting in Theilovirus border= 
 
Chris H Hill; Georgia M Cook; Sawsan Napthine ; Anuja Kibe; Katherine Brown ...
 
 
 
Structural Biology
 
 
 
An integrative NMR-SAXS approach for structural determination of large RNAs defines the substrate-free state of a trans-cleaving Neurospora Varkud Satellite ribozyme border= 
 
Pierre Dagenais; Geneviève Desjardins; Pascale Legault
 
 
Structural dynamics and determinants of 2-aminoadenine specificity in DNA polymerase DpoZ of vibriophage Ï-VC8 border= 
 
Dariusz Czernecki; Haidai Hu; Filippo Romoli ; Marc Delarue
 
 
 
Synthetic Biology and Bioengineering
 
 
 
Broadening the reach and investigating the potential of prime editors through fully viral gene-deleted adenoviral vector delivery border= 
 
Qian Wang; Jin Liu; Josephine M Janssen ; Francesca Tasca; Hailiang Mei ...
 
 
 
Corrigendum
 
 
 
Correction to ˜Genomic impact of stress-induced transposable element mobility in Arabidopsis' border= 
 
David Roquis; Marta Robertson; Liang Yu ; Michael Thieme; Magdalena Julkowska ...
 
 
Correction to ˜The effect of hairpin loop on the structure and gene expression activity of the long-loop G-quadruplex' border= 
 
Subramaniyam Ravichandran; Maria Razzaq; Nazia Parveen ; Ambarnil Ghosh; Kyeong Kyu Kim
 
 
 
Expression of Concern
 
 
 
Editorial Expression of Concern on ˜Activation of APE1/Ref-1 is dependent on reactive oxygen species generated after purinergic receptor stimulation by ATP' border= 
 
 
 
 
Retraction
 
 
 
Retraction of ˜CK1delta modulates the transcriptional activity of ERalpha via AIB1 in an estrogen-dependent manner and regulates ERalpha 'AIB1 interactions' border= 
 
 
 
 
Methods Online
 
 
 
TERA-Seq: true end-to-end sequencing of native RNA molecules for transcriptome characterization border= 
 
Fadia Ibrahim; Jan Oppelt; Manolis Maragkakis ; Zissimos Mourelatos
 
 
m6A-express: uncovering complex and condition-specific m6A regulation of gene expression border= 
 
Teng Zhang; Shao-Wu Zhang; Song-Yao Zhang ; Shou-Jiang Gao; Yidong Chen ...
 
 
SWALO: scaffolding with assembly likelihood optimization border= 
 
Atif Rahman; Lior Pachter
 
 
ENDO-Pore: high-throughput linked-end mapping of single DNA cleavage events using nanopore sequencing border= 
 
Oscar E Torres Montaguth; Stephen J Cross; Kincaid W A Ingram ; Laura Lee; Fiona M Diffin ...
 
 
Unveiling mRNP composition by fluorescence correlation and cross-correlation spectroscopy using cell lysates border= 
 
Àngels Mateu-Regué; Jan Christiansen; Frederik Otzen Bagger ; Christian Hellriegel; Finn Cilius Nielsen
 
 
ΩqPCR measures telomere length from single-cells in base pair units border= 
 
Fusheng Xiong; Wayne D Frasch
 
 
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