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The Journal Citation Reports, from Clarivate, 2022 have been released and we are excited to share the latest Impact Factor for NAR has risen to 19.160. Congratulations and appreciation to the high standards and work of our authors, editors, reviewers, and readers. Whether you've published with us in the past or not, we welcome you to learn more about submitting your cutting-edge research with us.
 
 
 
 
 
 
Nucleic Acids Research  
Volume 50 Issue 12
 
8 July 2022
 
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NAR Breakthrough Article
 
 
 
Deficiency of ribosomal proteins reshapes the transcriptional and translational landscape in human cells border= 
 
Yizhao Luan; Nan Tang; Jiaqi Yang ; Shuting Liu; Chichi Cheng ...
 
 
 
Critical Reviews and Perspectives
 
 
 
Anatomy of four human Argonaute proteins border= 
 
Kotaro Nakanishi
 
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
The cotranscriptional folding landscape for two cyclic di-nucleotide-sensing riboswitches with highly homologous aptamer domains acting either as ON- or OFF-switches border= 
 
Tom Landgraf; Albrecht Eduard Völklein; Boris Fürtig ; Harald Schwalbe
 
 
From bench to bedside: Improving the clinical safety of GalNAc'siRNA conjugates using seed-pairing destabilization border= 
 
Mark K Schlegel; Maja M Janas; Yongfeng Jiang ; Joseph D Barry; Wendell Davis ...
 
 
 
Computational Biology
 
 
 
Torsional behaviour of supercoiled DNA regulates recognition of architectural protein Fis on minicircle DNA border= 
 
Anupam Mondal; Sangeeta; Arnab Bhattacherjee
 
 
 
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Genome-wide CRISPR/Cas9 transcriptional activation screen identifies a histone acetyltransferase inhibitor complex as a regulator of HIV-1 integration border= 
 
Qiong Zhang; Shaobo Wang; Wanyu Li ; Edwin Yau; Hui Hui ...
 
 
Ep300 sequestration to functionally distinct glucocorticoid receptor binding loci underlie rapid gene activation and repression border= 
 
Avital Sarusi Portuguez; Ivana Grbesa; Moran Tal ; Rachel Deitch; Dana Raz ...
 
 
AtNusG, a chloroplast nucleoid protein of bacterial origin linking chloroplast transcriptional and translational machineries, is required for proper chloroplast gene expression in Arabidopsis thaliana border= 
 
Hai-Bo Xiong; Hui-Min Pan; Qiao-Ying Long ; Zi-Yuan Wang; Wan-Tong Qu ...
 
 
Tissue- and ethnicity-independent hypervariable DNA methylation states show evidence of establishment in the early human embryo border= 
 
Maria Derakhshan; Noah J Kessler; Miho Ishida ; Charalambos Demetriou; Nicolas Brucato ...
 
 
Synthesis of the NarP response regulator of nitrate respiration in Escherichia coli is regulated at multiple levels by Hfq and small RNAs border= 
 
Anaïs Brosse; Pierre Boudry; Anne Walburger ; Axel Magalon; Maude Guillier
 
 
 
Body temperature variation controls pre-mRNA processing and transcription of antiviral genes and SARS-CoV-2 replication border= 
 
Bruna Los; Marco Preußner; Kathrin Eschke ; Ricardo Martin Vidal; Azza Abdelgawad ...
 
 
H3K36me2 methyltransferase NSD2 orchestrates epigenetic reprogramming during spermatogenesis border= 
 
Zhiming Li; Xinzong Zhang; Shiming Xie ; Xingping Liu; Caifeng Fei ...
 
 
The transcription factor network of E. coli steers global responses to shifts in RNAP concentration border= 
 
Bilena L.B. Almeida; Mohamed N M. Bahrudeen; Vatsala Chauhan ; Suchintak Dash; Vinodh Kandavalli ...
 
 
 
Genome Integrity, Repair and Replication
 
 
 
TEB/POLQ plays dual roles in protecting Arabidopsis from NO-induced DNA damage border= 
 
Qiang Lv; Shuang Han; Lei Wang ; Jinchan Xia; Peng Li ...
 
 
Mechanism of lesion verification by the human XPD helicase in nucleotide excision repair border= 
 
Iwen Fu; Hong Mu; Nicholas E Geacintov ; Suse Broyde
 
 
Host cell RecA activates a mobile element-encoded mutagenic DNA polymerase border= 
 
Debika Ojha; Malgorzata M Jaszczur; Adhirath Sikand; John P McDonald ; Andrew Robinson ...
 
 
Migrating bubble synthesis promotes mutagenesis through lesions in its template border= 
 
Beth Osia; Jerzy Twarowski; Tyler Jackson; Kirill Lobachev ; Liping Liu ...
 
 
Ribodysgenesis: sudden genome instability in the yeast Saccharomyces cerevisiae arising from RNase H2 cleavage at genomic-embedded ribonucleotides border= 
 
Yang Sui; Anastasiya Epstein; Margaret Dominska ; Dao-Qiong Zheng; Thomas D Petes ...
 
 
 
Molecular Biology
 
 
 
TWIST1 methylation by SETD6 selectively antagonizes LINC-PINT expression in glioma border= 
 
Lee Admoni-Elisha; Tzofit Elbaz; Anand Chopra ; Guy Shapira; Mark T Bedford ...
 
 
Experimental paradigms revisited: oxidative stress-induced tRNA fragmentation does not correlate with stress granule formation but is associated with delayed cell death border= 
 
Nasim Sanadgol; Lisa König; Aleksej Drino ; Michaela Jovic; Matthias R Schaefer
 
 
Decoding phage resistance by mpr and its role in survivability of Mycobacterium smegmatis border= 
 
Surya Pratap Seniya; Vikas Jain
 
 
DNA G-quadruplex structure participates in regulation of lipid metabolism through acyl-CoA binding protein border= 
 
Lijun Xiang; Kangkang Niu; Yuling Peng ; Xiaojuan Zhang; Xiaoyu Li ...
 
 
 
Nucleic Acid Enzymes
 
 
 
Insights into the product release mechanism of dengue virus NS3 helicase border= 
 
Natalia S Adler; Leila A Cababie; Carolina Sarto; Claudio N Cavasotto ; Leopoldo G Gebhard ...
 
 
Direct tracking of reverse-transcriptase speed and template sensitivity: implications for sequencing and analysis of long RNA molecules border= 
 
Li-Tao Guo; Sara Olson; Shivali Patel ; Brenton R Graveley; Anna Marie Pyle
 
 
HSP90 and Aha1 modulate microRNA maturation through promoting the folding of Dicer1 border= 
 
Xiaochuan Liu; Yen-Yu Yang; Yinsheng Wang
 
 
Identification of flexible Pif1'DNA interactions and their impacts on enzymatic activities border= 
 
Jinghua Li; Jianbing Ma; Vikash Kumar ; Hang Fu; Chunhua Xu ...
 
 
A dual-activity topoisomerase complex regulates mRNA translation and turnover 
 
Shuaikun Su; Yutong Xue; Alexei Sharov; Yongqing Zhang ; Seung Kyu Lee ...
 
 
 
RNA and RNA-protein complexes
 
 
 
The dsRBP Staufen2 governs RNP assembly of neuronal Argonaute proteins border= 
 
Janina Ehses; Melina Schlegel; Luise Schröger; Rico Schieweck ; Sophia Derdak ...
 
 
PUMILIO competes with AUF1 to control DICER1 RNA levels and miRNA processing border= 
 
Swetha Rajasekaran; Eshan Khan; Samuel R Ching; Misbah Khan ; Jalal K Siddiqui ...
 
 
The Drosophila hnRNP F/H homolog Glorund recruits dFMRP to inhibit nanos translation elongation border= 
 
Yingshi Peng; Elizabeth R Gavis
 
 
A new bacterial tRNA enhances antibiotic production in Streptomyces by circumventing inefficient wobble base-pairing border= 
 
Ximing Chen; Shuyan Li; Binglin Zhang ; Haili Sun; Jinxiu Wang ...
 
 
TRIM25 inhibits influenza A virus infection, destabilizes viral mRNA, but is redundant for activating the RIG-I pathway border= 
 
Nila Roy Choudhury; Ivan Trus; Gregory Heikel ; Magdalena Wolczyk; Jacek Szymanski ...
 
 
LncRNA OIP5-AS1-directed miR-7 degradation promotes MYMX production during human myogenesis 
 
Jen-Hao Yang; Ming-Wen Chang; Dimitrios Tsitsipatis; Xiaoling Yang ; Jennifer L Martindale ...
 
 
 
Structural Biology
 
 
 
G-quadruplex structure of the C. elegans telomeric repeat: a two tetrads basket type conformation stabilized by a non-canonical C'T base-pair border= 
 
Julien Marquevielle; Aurore De Rache; Brune Vialet ; Estelle Morvan; Jean-Louis Mergny ...
 
 
Structural and dynamic studies of DNA recognition by NF-kappa B p50 RHR homodimer using methyl NMR spectroscopy border= 
 
Amrinder Singh; Maria A Martinez-Yamout; Peter E Wright ; H Jane Dyson
 
 
Guiding the folding of G-quadruplexes through loop residue interactions border= 
 
Jagannath Jana; Yoanes Maria Vianney; Nina Schröder; Klaus Weisz
 
 
 
Synthetic Biology and Bioengineering
 
 
 
Utilizing RNA origami scaffolds in Saccharomyces cerevisiae for dCas9-mediated transcriptional control border= 
 
Georgios Pothoulakis; Michael T A Nguyen; Ebbe S Andersen
 
 
Controllable assembly of synthetic constructs with programmable ternary DNA interaction border= 
 
Huangchen Cui; Tianqing Zhang; Yuhan Kong ; Hang Xing; Bryan Wei
 
 
 
Correction
 
 
 
Correction to ˜Effects of chain length and geometry on the activation of DNA damage bypass by polyubiquitylated PCNA' and ˜Structural basis of ubiquitin recognition by the winged-helix domain of Cockayne syndrome group B protein' border= 
 
 
 
Correction to ˜SynergyFinder 2.0: visual analytics of multi-drug combination synergies' border= 
 
 
 
Correction to ˜Deep sequencing of non-enzymatic RNA primer extension' border= 
 
 
 
 
Expression of Concern
 
 
 
Expression of Concern on ˜DICER-dependent biogenesis of let-7 miRNAs affects human cell response to DNA damage via targeting p21/p27' border= 
 
 
 
 
Methods Online
 
 
 
Expanding the DNA-encoded library toolbox: identifying small molecules targeting RNA border= 
 
Qiuxia Chen; You Li; Chunrong Lin ; Liu Chen; Hao Luo ...
 
 
Stitchr: stitching coding TCR nucleotide sequences from V/J/CDR3 information border= 
 
James M Heather; Matthew J Spindler; Marta Herrero Alonso; Yifang Ivana Shui ; David G Millar ...
 
 
Optical control of protein delivery and partitioning in the nucleolus border= 
 
Peng Tan; Tingting Hong; Xiaoli Cai; Wenbo Li ; Yun Huang ...
 
 
EPIMUTESTR: a nearest neighbor machine learning approach to predict cancer driver genes from the evolutionary action of coding variants border= 
 
Saeid Parvandeh; Lawrence A Donehower; Katsonis Panagiotis ; Teng-Kuei Hsu; Jennifer K Asmussen ...
 
 
MarcoPolo: a method to discover differentially expressed genes in single-cell RNA-seq data without depending on prior clustering border= 
 
Chanwoo Kim; Hanbin Lee; Juhee Jeong ; Keehoon Jung; Buhm Han
 
 
Joint dimension reduction and clustering analysis of single-cell RNA-seq and spatial transcriptomics data border= 
 
Wei Liu; Xu Liao; Yi Yang; Huazhen Lin; Joe Yeong ...
 
 
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