Subject: Nucleic Acids Research Table of Contents for 9 January 2018 ------=_Part_12252872.1515776473510 Content-Type: text/plain;charset=UTF-8 Oxford Academic [[HeaderAdvertisingToken]] https://silverchair.emailcampaigns.net/media/50/509735/OUP/oxford_logo.jpg?g72331686458 (http://click.skem1.com/click/lyj9z-d9f9im-63so3tc9/) [[BannerToken]] [[AlertTitleToken]] [[SelfServeTextToken]] [[FirstAdvertisingToken]] [[TOCMainToken]] Unsubscribe (http://click.skem1.com/form?lyj9z--ply5-63so3tc8&sl=tq&t=5)Manage email alerts (http://click.skem1.com/click/lyj9z-d9f9in-63so3tc0/) Written requests to unsubscribe can be sent to: Journals Marketing, Oxford University Press, Great Clarendon Street, Oxford, OX2 6DP, UK. The content of this email is protected by copyright. https://silverchair.emailcampaigns.net/media/50/509735/OUP/oxforde_university.jpg?g72331733632 (http://click.skem1.com/click/lyj9z-d9f9io-63so3tc1/) [[BottomAdvertisingToken]] This email is intended for bionet@evol.biology.mcmaster.ca. ------=_Part_12252872.1515776473510 Content-Type: text/html;charset=UTF-8 Oxford Academic
 
 
 
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New issue alert
 
 
 
 
 
 
Nucleic Acids Research  
Volume 46 Issue 1
 
9 January 2018
 
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NAR Breakthrough Article
 
 
 
Designer tRNAs for efficient incorporation of non-canonical amino acids by the pyrrolysine system in mammalian cells border= 
 
Robert Serfling; Christian Lorenz; Maja Etzel; Gerda Schicht ; Thore Böttke ...
 
 
SURVEY AND SUMMARY
 
 
 
Diversity-generating retroelements: natural variation, classification and evolution inferred from a large-scale genomic survey border= 
 
Li Wu; Mari Gingery; Michael Abebe; Diego Arambula; Elizabeth Czornyj ...
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
Inhibition of DNA replication by an anti-PCNA aptamer/PCNA complex border= 
 
Ewa Kowalska ; Filip Bartnicki; Ryo Fujisawa; Piotr Bonarek; Paweł Hermanowicz ...
 
 
Structural basis of DNA duplex distortion induced by thiazole-containing hairpin polyamides border= 
 
Giacomo Padroni; John A Parkinson ; Keith R Fox; Glenn A Burley
 
 
Computational Biology
 
 
 
Integrating sequence and gene expression information predicts genome-wide DNA-binding proteins and suggests a cooperative mechanism border= 
 
Shandar Ahmad; Philip Prathipati; Lokesh P Tripathi; Yi-An Chen ; Ajay Arya ...
 
 
 
 
Human cancer tissues exhibit reduced A-to-I editing of miRNAs coupled with elevated editing of their targets border= 
 
Yishay Pinto ; Ilana Buchumenski; Erez Y Levanon; Eli Eisenberg
 
 
Shaping epigenetic memory via genomic bookmarking border= 
 
Davide Michieletto; Michael Chiang; Davide Colì; Argyris Papantonis; Enzo Orlandini ...
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Nanoscale dynamics of centromere nucleosomes and the critical roles of CENP-A border= 
 
Micah P Stumme-Diers; Siddhartha Banerjee; Mohtadin Hashemi; Zhiqiang Sun ; Yuri L Lyubchenko
 
 
Translational co-regulation of a ligand and inhibitor by a conserved RNA element border= 
 
Andreas Zaucker; Agnieszka Nagorska; Pooja Kumari; Nikolai Hecker; Yin Wang ...
 
 
The SIN3A histone deacetylase complex is required for a complete transcriptional response to hypoxia border= 
 
Maria Tiana ; Barbara Acosta-Iborra; Laura Puente-Santamaría; Pablo Hernansanz-Agustin; Rebecca Worsley-Hunt ...
 
 
 
 
Modulation of extracytoplasmic function (ECF) sigma factor promoter selectivity by spacer region sequence border= 
 
Ahmed Gaballa; Veronica Guariglia-Oropeza; Franziska Dürr; Bronwyn G Butcher; Albert Y Chen ...
 
 
Snail1 transcription factor controls telomere transcription and integrity border= 
 
Rocco Mazzolini; Núria Gonzàlez; Andrea Garcia-Garijo ; Alba Millanes-Romero; Sandra Peiró ...
 
 
Small RNA-mediated Cry toxin silencing allows Bacillus thuringiensis to evade Caenorhabditis elegans avoidance behavioral defenses border= 
 
Donghai Peng; Xiaoxia Luo; Ni Zhang; Suxia Guo ; Jinshui Zheng ...
 
 
Dynamic site-specific recruitment of RBP2 by pocket protein p130 modulates H3K4 methylation on E2F-responsive promoters border= 
 
Zaffer Ullah Zargar; Mallikharjuna Rao Kimidi; Shweta Tyagi
 
 
Regulation of transcriptional silencing and chromodomain protein localization at centromeric heterochromatin by histone H3 tyrosine 41 phosphorylation in fission yeast border=  
 
Bingbing Ren; Hwei Ling Tan; Thi Thuy Trang Nguyen ; Ahmed Mahmoud Mohammed Sayed; Ying Li ...
 
 
Conventional and pioneer modes of glucocorticoid receptor interaction with enhancer chromatin in vivo 
 
Thomas A Johnson; Răzvan V Chereji; Diana A Stavreva; Stephanie A Morris; Gordon L Hager ...
 
 
Heme promotes transcriptional and demethylase activities of Gis1, a member of the histone demethylase JMJD2/KDM4 family border= 
 
Sneha Lal ; Jonathan M Comer; Purna C Konduri; Ajit Shah; Tianyuan Wang ...
 
 
Genome Integrity, Repair and Replication
 
 
 
The human papillomavirus DNA helicase E1 binds, stimulates, and confers processivity to cellular DNA polymerase epsilon border= 
 
Michaelle Chojnacki; Thomas Melendy
 
 
DNA polymerase beta participates in DNA End-joining border= 
 
Sreerupa Ray ; Gregory Breuer; Michelle DeVeaux; Daniel Zelterman; Ranjit Bindra ...
 
 
Mechanism of formation of a toroid around DNA by the mismatch sensor protein border= 
 
Shivlee Nirwal; Dhananjaya S Kulkarni ; Amit Sharma; Desirazu N Rao; Deepak T Nair
 
 
Separase prevents genomic instability by controlling replication fork speed border= 
 
Francesco Cucco; Elisa Palumbo; Serena Camerini; Barbara D'Alessio ; Valentina Quarantotti ...
 
 
Conformational dynamics of the Hop1 HORMA domain reveal a common mechanism with the spindle checkpoint protein Mad2 border= 
 
Alan M V West; Elizabeth A Komives; Kevin D Corbett
 
 
Molecular Biology
 
 
 
Translation can affect the antisense activity of RNase H1-dependent oligonucleotides targeting mRNAs border= 
 
Xue-Hai Liang; Joshua G Nichols ; Hong Sun; Stanley T Crooke
 
 
RNA and RNA-protein complexes
 
 
 
Modeling RNA secondary structure folding ensembles using SHAPE mapping data border= 
 
Aleksandar Spasic; Sarah M Assmann; Philip C Bevilacqua; David H Mathews
 
 
The intrinsically disordered N-terminal arm of the brome mosaic virus coat protein specifically recognizes the RNA motif that directs the initiation of viral RNA replication border= 
 
Alexander Jacobs ; Haley Hoover; Edward Smith; David E Clemmer; Chul-Hyun Kim ...
 
 
C/EBPbeta mediates RNA polymerase III-driven transcription of oncomiR-138 in malignant gliomas border= 
 
Federica Di Pascale; Srikanth Nama ; Manish Muhuri; Shan Quah; Hisyam M Ismail ...
 
 
The initiation, propagation and dynamics of CRISPR-SpyCas9 R-loop complex border= 
 
Yan Zeng; Yang Cui; Yong Zhang; Yanruo Zhang ; Meng Liang ...
 
 
Identification of diverse target RNAs that are functionally regulated by human Pumilio proteins border= 
 
Jennifer A Bohn; Jamie L Van Etten; Trista L Schagat; Brittany M Bowman; Richard C McEachin ...
 
 
Structural Biology
 
 
 
Analysis of the natively unstructured RNA/protein-recognition core in the Escherichia coli RNA degradosome and its interactions with regulatory RNA/Hfq complexes border= 
 
Heather A Bruce; Dijun Du; Dijana Matak-Vinkovic; Katarzyna J Bandyra; R William Broadhurst ...
 
 
Novel structural features drive DNA binding properties of Cmr, a CRP family protein in TB complex mycobacteria border= 
 
Sridevi Ranganathan ; Jonah Cheung; Michael Cassidy; Christopher Ginter; Janice D Pata ...
 
 
Yaf9 subunit of the NuA4 and SWR1 complexes targets histone H3K27ac through its YEATS domain border= 
 
Brianna J Klein; Salar Ahmad ; Kendra R Vann; Forest H Andrews; Zachary A Mayo ...
 
 
A Thermus phage protein inhibits host RNA polymerase by preventing template DNA strand loading during open promoter complex formation border=  
 
Wei-Yang Ooi; Yuko Murayama; Vladimir Mekler ; Leonid Minakhin; Konstantin Severinov ...
 
 
Structure of mycobacterial 3-to-5 RNA:DNA helicase Lhr bound to a ssDNA tracking strand highlights distinctive features of a novel family of bacterial helicases border= 
 
Anam Ejaz; Heather Ordonez; Agata Jacewicz; Ryan Ferrao ; Stewart Shuman
 
 
Conformational dynamism for DNA interaction in the Salmonella RcsB response regulator border= 
 
Patricia Casino; Laura Miguel-Romero; Juanjo Huesa; Pablo García; Francisco García-del Portillo ...
 
 
Crystal structure of NucB, a biofilm-degrading endonuclease border= 
 
Arnaud Baslé ; Lorraine Hewitt; Alan Koh; Heather K Lamb; Paul Thompson ...
 
 
Crystal structure of an anti-CRISPR protein, AcrIIA1 border= 
 
Donghyun Ka; So Young An ; Jeong-Yong Suh; Euiyoung Bae
 
 
Methods Online
 
 
 
Detection of expanded RNA repeats using thermostable group II intron reverse transcriptase border= 
 
Samuel T Carrell; Zhenzhi Tang; Sabine Mohr; Alan M Lambowitz ; Charles A Thornton
 
 
Dynamic motif occupancy (DynaMO) analysis identifies transcription factors and their binding sites driving dynamic biological processes border= 
 
Zheng Kuang; Zhicheng Ji; Jef D Boeke; Hongkai Ji
 
 
Polysome-profiling in small tissue samples border= 
 
Shuo Liang; Hermano Martins Bellato ; Julie Lorent; Fernanda C S Lupinacci; Christian Oertlin ...
 
 
Evaluation of fluorescence in situ hybridization techniques to study long non-coding RNA expression in cultured cells border= 
 
Ricardo J Soares; Giulia Maglieri; Tony Gutschner ; Sven Diederichs; Anders H Lund ...
 
 
panX: pan-genome analysis and exploration border= 
 
Wei Ding; Franz Baumdicker; Richard A Neher
 
 
Incorporation of aptamers in the terminal loop of shRNAs yields an effective and novel combinatorial targeting strategy border= 
 
Ka Ming Pang; Daniela Castanotto; Haitang Li; Lisa Scherer; John J Rossi
 
 
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