Subject: Nucleic Acids Research Table of Contents for 11 January 2022 Oxford Academic
 
 
 
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 50 Issue 1
 
11 January 2022
 
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NAR Breakthrough Article
 
 
 
Three human RNA polymerases interact with TFIIH via a common RPB6 subunit border= 
 
Masahiko Okuda; Tetsufumi Suwa; Hidefumi Suzuki; Yuki Yamaguchi ; Yoshifumi Nishimura
 
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
Palmitic acid conjugation enhances potency of tricyclo-DNA splice switching oligonucleotides border= 
 
Karima Relizani; Lucía Echevarría; Faouzi Zarrouki ; Cécile Gastaldi; Chloe Dambrune ...
 
 
Kinetic explanations for the sequence biases observed in the nonenzymatic copying of RNA templates border= 
 
Dian Ding; Lijun Zhou; Constantin Giurgiu ; Jack W Szostak
 
 
 
Computational Biology
 
 
 
MarkovHC: Markov hierarchical clustering for the topological structure of high-dimensional single-cell omics data with transition pathway and critical point detection border= 
 
Zhenyi Wang; Yanjie Zhong; Zhaofeng Ye ; Lang Zeng; Yang Chen ...
 
 
cLoops2: a full-stack comprehensive analytical tool for chromatin interactions 
 
Yaqiang Cao; Shuai Liu; Gang Ren; Qingsong Tang ; Keji Zhao
 
 
 
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Unusual nucleosome formation and transcriptome influence by the histone H3mm18 variant border= 
 
Seiya Hirai; Kosuke Tomimatsu; Atsuko Miyawaki-Kuwakado ; Yoshimasa Takizawa; Tetsuro Komatsu ...
 
 
Dynamic modulation of enhancer responsiveness by core promoter elements in living Drosophila embryos border= 
 
Moe Yokoshi; Koji Kawasaki; Manuel Cambón ; Takashi Fukaya
 
 
Coordinated glucocorticoid receptor and MAFB action induces tolerogenesis and epigenome remodeling in dendritic cells border= 
 
Octavio Morante-Palacios; Laura Ciudad; Raphael Micheroli ; Carlos de la Calle-Fabregat; Tianlu Li ...
 
 
PsrA is a novel regulator contributes to antibiotic synthesis, bacterial virulence, cell motility and extracellular polysaccharides production in Serratia marcescens border= 
 
Xuewei Pan; Mi Tang; Jiajia You ; Tolbert Osire; Changhao Sun ...
 
 
Genome-wide mapping of Vibrio cholerae VpsT binding identifies a mechanism for c-di-GMP homeostasis border= 
 
Thomas Guest; James R J Haycocks; Gemma Z L Warren ; David C Grainger
 
 
 
Type I CRISPR-Cas provides robust immunity but incomplete attenuation of phage-induced cellular stress border= 
 
Lucia M Malone; Hannah G Hampton; Xochitl C Morgan ; Peter C Fineran
 
 
Super resolution microscopy reveals how elongating RNA polymerase II and nascent RNA interact with nucleosome clutches border= 
 
Alvaro Castells-Garcia; Ilyas Ed-daoui; Esther González-Almela ; Chiara Vicario; Jason Ottestrom ...
 
 
HIRA complex presets transcriptional potential through coordinating depositions of the histone variants H3.3 and H2A.Z on the poised genes in mESCs border= 
 
Yang Yang; Liwei Zhang; Chaoyang Xiong ; Jun Chen; Li Wang ...
 
 
CTCF-mediated chromatin looping provides a topological framework for the formation of phase-separated transcriptional condensates border= 
 
Ryanggeun Lee; Moo-Koo Kang; Yong-Jin Kim ; Bobae Yang; Hwanyong Shim ...
 
 
RpoN/Sfa2-dependent activation of the Pseudomonas aeruginosa H2-T6SS and its cognate arsenal of antibacterial toxins border= 
 
Luke P Allsopp; Alice C Z Collins; Eleanor Hawkins ; Thomas E Wood; Alain Filloux
 
 
 
Genome Integrity, Repair and Replication
 
 
 
Zebularine induces enzymatic DNA'protein crosslinks in 45S rDNA heterochromatin of Arabidopsis nuclei border= 
 
Klara Prochazkova; Andreas Finke; Eva DvoÅ™ák TomaÅ¡tíková ; Jaroslav Filo; Heinrich Bente ...
 
 
Canonical and novel non-canonical activities of the Holliday junction resolvase Yen1 border= 
 
Raquel Carreira; F Javier Aguado; Vanesa Hurtado-Nieves ; Miguel G Blanco
 
 
The telomeric 5² end nucleotide is regulated in the budding yeast Naumovozyma castellii border= 
 
Humberto Itriago; Rishi K Jaiswal; Susanne Philipp ; Marita Cohn
 
 
 
Genomics
 
 
 
High throughput single-cell genome sequencing gives insights into the generation and evolution of mosaic aneuploidy in Leishmania donovani border= 
 
Gabriel H Negreira; Pieter Monsieurs; Hideo Imamura ; Ilse Maes; Nada Kuk ...
 
 
 
Molecular Biology
 
 
 
The flip-flop configuration of the PABP-dimer leads to switching of the translation function border= 
 
Sohyun Gu; Hyung-Min Jeon; Seung Woo Nam ; Ka Young Hong; Md Shafiqur Rahman ...
 
 
A minimal motif for sequence recognition by mitochondrial transcription factor A (TFAM) border= 
 
Woo Suk Choi; Miguel Garcia-Diaz
 
 
Targeting genomic SARS-CoV-2 RNA with siRNAs allows efficient inhibition of viral replication and spread border= 
 
Shubhankar Ambike; Cho-Chin Cheng; Martin Feuerherd ; Stoyan Velkov; Domizia Baldassi ...
 
 
Genome-wide chromosomal association of Upf1 is linked to Pol II transcription in Schizosaccharomyces pombe border= 
 
Sandip De; David M Edwards; Vibha Dwivedi ; Jianming Wang; Wazeer Varsally ...
 
 
 
Nucleic Acid Enzymes
 
 
 
RNA self-splicing by engineered hairpin ribozyme variants border= 
 
Robert Hieronymus; Jikang Zhu; Sabine Müller
 
 
 
RNA and RNA-protein complexes
 
 
 
Alternative splicing modulation mediated by G-quadruplex structures in MALAT1 lncRNA border= 
 
Arpita Ghosh; Satya Prakash Pandey; Asgar Hussain Ansari ; Jennifer Seematti Sundar; Praveen Singh ...
 
 
Identification and targeting of G-quadruplex structures in MALAT1 long non-coding RNA border= 
 
Xi Mou; Shiau Wei Liew; Chun Kit Kwok
 
 
The double-stranded RNA-binding protein, Staufen1, is an IRES-transacting factor regulating HIV-1 cap-independent translation initiation border= 
 
Hade Ramos; Anne Monette; Meijuan Niu ; Aldo Barrera; Brenda López-Ulloa ...
 
 
A novel role for gag as a cis-acting element regulating RNA structure, dimerization and packaging in HIV-1 lentiviral vectors border= 
 
Eirini Vamva; Alex Griffiths; Conrad A Vink ; Andrew M L Lever; Julia C Kenyon
 
 
Recognition of G-quadruplex RNA by a crucial RNA methyltransferase component, METTL14 border= 
 
Atsuhiro Yoshida; Takanori Oyoshi; Akiyo Suda ; Shiroh Futaki; Miki Imanishi
 
 
Nuclear poly(A) binding protein 1 (PABPN1) mediates zygotic genome activation-dependent maternal mRNA clearance during mouse early embryonic development border= 
 
Long-Wen Zhao; Ye-Zhang Zhu; Yun-Wen Wu ; Shuai-Bo Pi; Li Shen ...
 
 
Dynamic 23S rRNA modification ho5C2501 benefits Escherichia coli under oxidative stress border= 
 
Michel Fasnacht; Stefano Gallo; Puneet Sharma ; Maximilian Himmelstoß; Patrick A Limbach ...
 
 
 
Structural Biology
 
 
 
Structural basis of DNA methylation-dependent site selectivity of the Epstein'Barr virus lytic switch protein ZEBRA/Zta/BZLF1 border= 
 
Florent Bernaudat; Montse Gustems; Johannes Günther ; Mizar F Oliva; Alexander Buschle ...
 
 
Inhibition mechanisms of CRISPR-Cas9 by AcrIIA17 and AcrIIA18 border= 
 
Xiaoshen Wang; Xuzichao Li; Yongjian Ma; Jiaqi He ; Xiang Liu ...
 
 
Structural basis of dimerization and nucleic acid binding of human DBHS proteins NONO and PSPC1 border= 
 
Gavin J Knott; Yee Seng Chong; Daniel M Passon ; Xue-hai Liang; Evelyne Deplazes ...
 
 
Bipartite interaction sites differentially modulate RNA-binding affinity of a protein complex essential for germline stem cell self-renewal 
 
Chen Qiu; Robert N Wine; Zachary T Campbell; Traci M Tanaka Hall
 
 
 
Synthetic Biology and Bioengineering
 
 
 
Multiplexed activation in mammalian cells using a split-intein CRISPR/Cas12a based synthetic transcription factor border= 
 
James W Bryson; Jamie Y Auxillos; Susan J Rosser
 
 
Rational design and construction of multi-copy biomanufacturing islands in mammalian cells border= 
 
Raffaele Altamura; Jiten Doshi; Yaakov Benenson
 
 
Mutation and selection explain why many eukaryotic centromeric DNA sequences are often A + T rich border= 
 
Anne C Barbosa; Zhengyao Xu; Kazhal Karari ; Wendi Williams; Silke Hauf ...
 
 
 
Corrigendum
 
 
 
Correction to ˜BAP18 coactivates androgen receptor action and promotes prostate cancer progression' border= 
 
Shiying Sun; Xinping Zhong; Chunyu Wang ; Hongmiao Sun; Shengli Wang ...
 
 
Correction to ˜The double-stranded RNA-binding protein, Staufen1, is an IRES-transacting factor regulating HIV-1 cap-independent translation initiation' border= 
 
Hade Ramos; Anne Monette; Meijuan Niu ; Aldo Barrera; Brenda López-Ulloa ...
 
 
 
Methods Online
 
 
 
Duplex-Repair enables highly accurate sequencing, despite DNA damage border= 
 
Kan Xiong; Douglas Shea; Justin Rhoades; Timothy Blewett ; Ruolin Liu ...
 
 
Chemical capping improves template switching and enhances sequencing of small RNAs border= 
 
Madalee G Wulf; Sean Maguire; Nan Dai ; Alice Blondel; Dora Posfai ...
 
 
Ethylenediamine derivatives efficiently react with oxidized RNA 3² ends providing access to mono and dually labelled RNA probes for enzymatic assays and in vivo translation border= 
 
Adam Mamot; Pawel J Sikorski; Aleksandra Siekierska ; Peter de Witte; Joanna Kowalska ...
 
 
SBSA: an online service for somatic binding sequence annotation border= 
 
Limin Jiang; Fei Guo; Jijun Tang; Hui Yu ; Scott Ness ...
 
 
Coupling high-throughput mapping with proteomics analysis delineates cis-regulatory elements at high resolution border= 
 
Ting Wu; Danli Jiang; Meijuan Zou ; Wei Sun; Di Wu ...
 
 
Prioritization of regulatory variants with tissue-specific function in the non-coding regions of human genome border= 
 
Shengcheng Dong; Alan P Boyle
 
 
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