Subject: Nucleic Acids Research Table of Contents for 16 March 2018 Oxford Academic
 
 
 
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New issue alert
 
 
 
 
 
 
Nucleic Acids Research  
Volume 46 Issue 5
 
16 March 2018
 
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NAR Breakthrough Article
 
 
 
The mechanisms of a mammalian splicing enhancer border= 
 
Andrew M Jobbins; Linus F Reichenbach; Christian M Lucas; Andrew J Hudson ; Glenn A Burley ...
 
 
SURVEY AND SUMMARY
 
 
 
Single molecule real-time (SMRT) sequencing comes of age: applications and utilities for medical diagnostics border= 
 
Simon Ardui; Adam Ameur; Joris R Vermeesch; Matthew S Hestand
 
 
Splicing regulation by long noncoding RNAs border= 
 
Natali Romero-Barrios; Maria Florencia Legascue ; Moussa Benhamed; Federico Ariel; Martin Crespi
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
Comparison of partially and fully chemically-modified siRNA in conjugate-mediated delivery in vivo border= 
 
Matthew R Hassler; Anton A Turanov; Julia F Alterman; Reka A Haraszti; Andrew H Coles ...
 
 
Unique tRNA gene profile suggests paucity of nucleotide modifications in anticodons of a deep-sea symbiotic Spiroplasma border=  
 
Yong Wang; Fang-Chao Zhu; Li-Sheng He ; Antoine Danchin
 
 
 
 
Acute hepatotoxicity of 2² fluoro-modified 5'10'5 gapmer phosphorothioate oligonucleotides in mice correlates with intracellular protein binding and the loss of DBHS proteins border= 
 
Wen Shen; Cheryl L De Hoyos; Hong Sun; Timothy A Vickers; Xue-hai Liang ...
 
 
Coupling the core of the anticancer drug etoposide to an oligonucleotide induces topoisomerase II-mediated cleavage at specific DNA sequences border= 
 
Lorena Infante Lara; Sabine Fenner; Steven Ratcliffe; Albert Isidro-Llobet; Michael Hann ...
 
 
Computational Biology
 
 
 
Structure and electrical properties of DNA nanotubes embedded in lipid bilayer membranes border= 
 
Himanshu Joshi ; Prabal K Maiti
 
 
Phosphorylation of an intrinsically disordered region of Ets1 shifts a multi-modal interaction ensemble to an auto-inhibitory state border= 
 
Kota Kasahara; Masaaki Shiina; Junichi Higo; Kazuhiro Ogata; Haruki Nakamura
 
 
Epigenomics in 3D: importance of long-range spreading and specific interactions in epigenomic maintenance border= 
 
Daniel Jost ; Cédric Vaillant
 
 
 
 
Selection, periodicity and potential function for Highly Iterative Palindrome-1 (HIP1) in cyanobacterial genomes border= 
 
Minli Xu ; Jeffrey G Lawrence; Dannie Durand
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Structural characterization of the Asf1'Rtt109 interaction and its role in histone acetylation border= 
 
Lukas Lercher; Nataliya Danilenko; John Kirkpatrick; Teresa Carlomagno
 
 
Brain-specific deletion of histone variant H2A.z results in cortical neurogenesis defects and neurodevelopmental disorder border= 
 
Tianjin Shen; Fen Ji; Yuanyuan Wang; Xuepei Lei; Dongming Zhang ...
 
 
Structural and functional adaptation of Haloferax volcanii TFEalpha /beta  border= 
 
Fabian Blombach; Darya Ausiannikava ; Angelo Miguel Figueiredo; Zoja Soloviev; Tanya Prentice ...
 
 
The elongation factor Spn1 is a multi-functional chromatin binding protein border= 
 
Sha Li; Adam R Almeida; Catherine A Radebaugh ; Ling Zhang; Xu Chen ...
 
 
The cohesion establishment factor Esco1 acetylates alpha -tubulin to ensure proper spindle assembly in oocyte meiosis border= 
 
Yajuan Lu; Sen Li; Zhaokang Cui; Xiaoxin Dai ; Mianqun Zhang ...
 
 
Epigenetic features of human telomeres border= 
 
María D Cubiles; Sonia Barroso; María I Vaquero-Sedas; Alicia Enguix; Andrés Aguilera ...
 
 
WOX11 recruits a histone H3K27me3 demethylase to promote gene expression during shoot development in rice border= 
 
Saifeng Cheng ; Feng Tan; Yue Lu; Xiaoyun Liu; Tiantian Li ...
 
 
Protein-mediated looping of DNA under tension requires supercoiling border= 
 
Yan Yan; Fenfei Leng ; Laura Finzi; David Dunlap
 
 
The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum border= 
 
Dongyan Zhao; John P Hamilton; Brieanne Vaillancourt; Wenli Zhang ; Georgia C Eizenga ...
 
 
Genome Integrity, Repair and Replication
 
 
 
Single-molecule localization microscopy reveals molecular transactions during RAD51 filament assembly at cellular DNA damage sites border= 
 
Kalina T Haas; MiYoung Lee; Alessandro Esposito; Ashok R Venkitaraman
 
 
Characterization of DNA ADP-ribosyltransferase activities of PARP2 and PARP3: new insights into DNA ADP-ribosylation border= 
 
Gabriella Zarkovic; Ekaterina A Belousova; Ibtissam Talhaoui; Christine Saint-Pierre; Mikhail M Kutuzov ...
 
 
RAD51 and RTEL1 compensate telomere loss in the absence of telomerase border= 
 
Margaux Olivier; Cyril Charbonnel ; Simon Amiard; Charles I White; Maria E Gallego
 
 
Single-particle trajectories reveal two-state diffusion-kinetics of hOGG1 proteins on DNA border= 
 
Christian L Vestergaard; Paul C Blainey; Henrik Flyvbjerg
 
 
The prolyl isomerase FKBP25 regulates microtubule polymerization impacting cell cycle progression and genomic stability border= 
 
David Dilworth ; Geoff Gudavicius; Xiaoxue Xu; Andrew K J Boyce; Connor O'Sullivan ...
 
 
APE2 promotes DNA damage response pathway from a single-strand break border= 
 
Yunfeng Lin; Liping Bai ; Steven Cupello; Md Akram Hossain; Bradley Deem ...
 
 
Molecular Biology
 
 
 
A fungal Argonaute interferes with RNA interference border=  
 
Quyet Nguyen; Akihide Iritani; Shuhei Ohkita ; Ba V Vu; Kana Yokoya ...
 
 
DNA-binding landscape of IRF3, IRF5 and IRF7 dimers: implications for dimer-specific gene regulation border= 
 
Kellen K Andrilenas; Vijendra Ramlall; Jesse Kurland; Brandon Leung ; Allen G Harbaugh ...
 
 
A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2 border= 
 
Jiao Wang; Yingchun Liu; Ying Liu; Kaixin Du; Shuqi Xu ...
 
 
The hepatitis C viral nonstructural protein 5A stabilizes growth-regulatory human transcripts border= 
 
Liang Guo ; Suresh D Sharma; Jose Debes; Daniel Beisang; Bernd Rattenbacher ...
 
 
Nucleic Acid Enzymes
 
 
 
RecA requires two molecules of Mg2+ ions for its optimal strand exchange activity in vitro border= 
 
Raeyeong Kim; Shuji Kanamaru ; Tsutomu Mikawa; Chantal Prévost; Kentaro Ishii ...
 
 
The H-subunit of the restriction endonuclease CglI contains a prototype DEAD-Z1 helicase-like motor border= 
 
Paulius Toliusis; Giedre Tamulaitiene; Rokas Grigaitis ; Donata Tuminauskaite; Arunas Silanskas ...
 
 
RNA and RNA-protein complexes
 
 
 
Probing of RNA structures in a positive sense RNA virus reveals selection pressures for structural elements border= 
 
Kyle E Watters; Krishna Choudhary; Sharon Aviran; Julius B Lucks; Keith L Perry ...
 
 
Translational regulation by bacterial small RNAs via an unusual Hfq-dependent mechanism border= 
 
Muhammad S Azam; Carin K Vanderpool
 
 
Contrasting silencing mechanisms of the same target mRNA by two regulatory RNAs in Escherichia coli border= 
 
David Lalaouna; Karine Prévost; Guillaume Laliberté; Vincent Houé ; Eric Massé
 
 
RNA-binding specificity landscapes of designer pentatricopeptide repeat proteins elucidate principles of PPR'RNA interactions border= 
 
Rafael G Miranda; James J McDermott; Alice Barkan
 
 
Affinity maturation of a portable Fab'RNA module for chaperone-assisted RNA crystallography border= 
 
Deepak Koirala; Sandip A Shelke; Marcel Dupont ; Stormy Ruiz; Saurja DasGupta ...
 
 
Structural Biology
 
 
 
Experimental maps of DNA structure at nucleotide resolution distinguish intrinsic from protein-induced DNA deformations border= 
 
Robert N Azad; Dana Zafiropoulos; Douglas Ober; Yining Jiang ; Tsu-Pei Chiu ...
 
 
A conserved structural element in the RNA helicase UPF1 regulates its catalytic activity in an isoform-specific manner border= 
 
Manjeera Gowravaram; Fabien Bonneau; Joanne Kanaan; Vincent D Maciej; Francesca Fiorini ...
 
 
Sequence-specific DNA binding activity of the cross-brace zinc finger motif of the piggyBac transposase border= 
 
Nelly Morellet ; Xianghong Li; Silke A Wieninger; Jennifer L Taylor; Julien Bischerour ...
 
 
Structure of a human cap-dependent 48S translation pre-initiation complex border= 
 
Boris Eliseev; Lahari Yeramala ; Alexander Leitner; Manikandan Karuppasamy; Etienne Raimondeau ...
 
 
Synthetic Biology and Bioengineering
 
 
 
Bacterial gene control by DNA looping using engineered dimeric transcription activator like effector (TALE) proteins border= 
 
Nicole A Becker ; Tanya L Schwab; Karl J Clark; L. James Maher, III
 
 
Corrigendum
 
 
 
ExoCET: exonuclease in vitro assembly combined with RecET recombination for highly efficient direct DNA cloning from complex genomes border= 
 
Hailong Wang ; Zhen Li; Ruonan Jia; Jia Yin; Aiying Li ...
 
 
A fungal Argonaute interferes with RNA interference border= 
 
Quyet Nguyen; Akihide Iritani ; Shuhei Ohkita; Ba V Vu; Kana Yokoya ...
 
 
UniProt: the universal protein knowledgebase border= 
 
The UniProt Consortium
 
 
Erratum
 
 
 
The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum border= 
 
Dongyan Zhao; John P Hamilton; Brieanne Vaillancourt ; Wenli Zhang; Georgia C Eizenga ...
 
 
Methods Online
 
 
 
Multimode drug inducible CRISPR/Cas9 devices for transcriptional activation and genome editing border= 
 
Jia Lu; Chen Zhao; Yingze Zhao; Jingfang Zhang ; Yue Zhang ...
 
 
CRISPR/Cas9-mediated modulation of splicing efficiency reveals short splicing isoform of Xist RNA is sufficient to induce X-chromosome inactivation border= 
 
Minghui Yue; Yuya Ogawa
 
 
TAD-free analysis of architectural proteins and insulators border= 
 
Raphaël Mourad; Olivier Cuvier
 
 
ExoCET: exonuclease in vitro assembly combined with RecET recombination for highly efficient direct DNA cloning from complex genomes border=  
 
Hailong Wang; Zhen Li; Ruonan Jia ; Jia Yin; Aiying Li ...
 
 
THiCweed: fast, sensitive detection of sequence features by clustering big datasets border= 
 
Ankit Agrawal; Snehal V Sambare; Leelavati Narlikar; Rahul Siddharthan
 
 
(Po)STAC (Polycistronic SunTAg modified CRISPR) enables live-cell and fixed-cell super-resolution imaging of multiple genes border= 
 
Maria V Neguembor; Ruben Sebastian-Perez; Francesco Aulicino; Pablo A Gomez-Garcia; Maria P Cosma ...
 
 
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