Subject: Nucleic Acids Research Table of Contents for 22 August 2019 ------=_Part_418447803.1566519757190 Content-Type: text/plain;charset=UTF-8 This email is intended for bionet@evol.mcmaster.ca. ------=_Part_418447803.1566519757190 Content-Type: text/html;charset=UTF-8 Oxford Academic
 
 
 
oxford_logo.jpg
 
 
 
 
New issue alert
 
 
 
 
 
 
Nucleic Acids Research  
Volume 47 Issue 14
 
22 August 2019
 
button-issue.png
 
 
NAR Breakthrough Article
 
 
 
Structural intermediates of a DNA'ligase complex illuminate the role of the catalytic metal ion and mechanism of phosphodiester bond formation border= 
 
Adele Williamson ; Hanna-Kirsti S Leiros
 
 
 
Survey and Summary
 
 
 
DNA damage tolerance in stem cells, ageing, mutagenesis, disease and cancer therapy border= 
 
Bas Pilzecker; Olimpia Alessandra Buoninfante; Heinz Jacobs
 
 
Closing the DNA replication cycle: from simple circular molecules to supercoiled and knotted DNA catenanes border=  
 
Jorge B Schvartzman; Pablo Hernández; Dora B Krimer ; Julien Dorier; Andrzej Stasiak
 
 
 
Chemical Biology and Nucleic Acid Chemistry
 
 
 
Single-molecule analysis of i-motif within self-assembled DNA duplexes and nanocircles border= 
 
Anoja Megalathan; Bobby D Cox ; Peter D Wilkerson; Anisa Kaur; Kumar Sapkota ...
 
 
Stability of an RNADNA'DNA triple helix depends on base triplet composition and length of the RNA third strand border=  
 
Charlotte N Kunkler; Jacob P Hulewicz; Sarah C Hickman ; Matthew C Wang; Phillip J McCown ...
 
 
The effect of adenine protonation on RNA phosphodiester backbone bond cleavage elucidated by deaza-nucleobase modifications and mass spectrometry border= 
 
Elisabeth Fuchs ; Christoph Falschlunger; Ronald Micura; Kathrin Breuker
 
 
 
Computational Biology
 
 
 
Integrative construction of regulatory region networks in 127 human reference epigenomes by matrix factorization border= 
 
Dianbo Liu; Jose Davila-Velderrain; Zhizhuo Zhang; Manolis Kellis
 
 
Mapping of scaffold/matrix attachment regions in human genome: a data mining exercise border=  
 
Nitin Narwade; Sonal Patel; Aftab Alam ; Samit Chattopadhyay; Smriti Mittal ...
 
 
Visualization and analysis of RNA-Seq assembly graphs border= 
 
Fahmi W Nazarie; Barbara Shih; Tim Angus ; Mark W Barnett; Sz-Hau Chen ...
 
 
Parallel G-triplexes and G-hairpins as potential transitory ensembles in the folding of parallel-stranded DNA G-Quadruplexes border= 
 
Petr Stadlbauer ; Petra Kührová; Lukáš Vicherek; Pavel Banáš; Michal Otyepka ...
 
 
 
Data Resources and Analyses
 
 
 
Transcriptome signature of cellular senescence 
 
Gabriel Casella; Rachel Munk; Kyoung Mi Kim; Yulan Piao ; Supriyo De ...
 
 
 
Gene Regulation, Chromatin and Epigenetics
 
 
 
Identification of LARK as a novel and conserved G-quadruplex binding protein in invertebrates and vertebrates border= 
 
Kangkang Niu; Lijun Xiang; Ying Jin; Yuling Peng; Feng Wu ...
 
 
Highly efficient silencing of microRNA by heteroduplex oligonucleotides border=  
 
Kotaro Yoshioka; Taiki Kunieda; Yutaro Asami ; Huijia Guo; Haruka Miyata ...
 
 
A CRISPR/Cas9 screen identifies the histone demethylase MINA53 as a novel HIV-1 latency-promoting gene (LPG) border=  
 
Huachao Huang; Weili Kong; Maxime Jean ; Guillaume Fiches; Dawei Zhou ...
 
 
Boundaries of eliminated heterochromatin of Tetrahymena are positioned by the DNA-binding protein Ltl1 border=  
 
Vita N Jaspan; Marta E Taye; Christine M Carle ; Joyce J Chung; Douglas L Chalker
 
 
Characterization of the pleiotropic LysR-type transcription regulator LeuO of Escherichia coli border=  
 
Susann M Fragel; Anna Montada; Ralf Heermann ; Ulrich Baumann; Magdalena Schacherl ...
 
 
Two factor authentication: Asf1 mediates crosstalk between H3 K14 and K56 acetylation 
 
Joy M Cote; Yin-Ming Kuo; Ryan A Henry; Hataichanok Scherman ; Daniel D Krzizike ...
 
 
 
Genome Integrity, Repair and Replication
 
 
 
Histone H4 H75E mutation attenuates global genomic and Rad26-independent transcription-coupled nucleotide excision repair border= 
 
Kathiresan Selvam ; Sheikh Arafatur Rahman; Shisheng Li
 
 
Microhomologies are prevalent at Cas9-induced larger deletions border= 
 
Dominic D G Owens; Adam Caulder; Vincent Frontera ; Joe R Harman; Alasdair J Allan ...
 
 
Restriction of AID activity and somatic hypermutation by PARP-1 border= 
 
Sandra Tepper; Oliver Mortusewicz; Ewelina Członka ; Amanda Bello; Angelika Schmidt ...
 
 
Understanding mitochondrial DNA maintenance disorders at the single muscle fibre level border=  
 
Diana Lehmann; Helen A L Tuppen; Georgia E Campbell ; Charlotte L Alston; Conor Lawless ...
 
 
A Drosophila cell-free system that senses DNA breaks and triggers phosphorylation signalling border=  
 
Lisa Harpprecht; Sandro Baldi; Tamas Schauer ; Andreas Schmidt; Tanja Bange ...
 
 
 
Genomics
 
 
 
DNMT3B shapes the mCA landscape and regulates mCG for promoter bivalency in human embryonic stem cells border= 
 
Hong Kee Tan; Chan-Shuo Wu; Jia Li; Zi Hui Tan; Jordan R Hoffman ...
 
 
 
Molecular Biology
 
 
 
Metal sensing and regulation of adaptive responses to manganese limitation by MtsR is critical for group A streptococcus virulence border= 
 
Hackwon Do ; Nishanth Makthal; Pete Chandrangsu; Randall J Olsen; John D Helmann ...
 
 
Direct quantification of the translocation activities of Saccharomyces cerevisiae Pif1 helicase border=  
 
Chen Lu; Shimin Le; Jin Chen ; Alicia K Byrd; Daniela Rhodes ...
 
 
Quantitative proteomics revealed C6orf203/MTRES1 as a factor preventing stress-induced transcription deficiency in human mitochondria border= 
 
Anna V Kotrys ; Dominik Cysewski; Sylwia D Czarnomska; Zbigniew Pietras; Lukasz S Borowski ...
 
 
CRISPR repeat sequences and relative spacing specify DNA integration by Pyrococcus furiosus Cas1 and Cas2 border= 
 
Julie Grainy; Sandra Garrett ; Brenton R Graveley; Michael P. Terns
 
 
 
Nucleic Acid Enzymes
 
 
 
A Fanci knockout mouse model reveals common and distinct functions for FANCI and FANCD2 border= 
 
Emilie L Dubois; Laure Guitton-Sert ; Mariline Béliveau; Kalindi Parmar; Jalila Chagraoui ...
 
 
The DEAH-box RNA helicase Dhr1 contains a remarkable carboxyl terminal domain essential for small ribosomal subunit biogenesis border= 
 
Amlan Roychowdhury ; Clément Joret; Gabrielle Bourgeois; Valérie Heurgué-Hamard; Denis L J Lafontaine ...
 
 
TRAF6 mediates human DNA2 polyubiquitination and nuclear localization to maintain nuclear genome integrity border=  
 
Yuan Meng; Changwei Liu; Lei Shen ; Mian Zhou; Wenpeng Liu ...
 
 
 
RNA and RNA-protein complexes
 
 
 
hnRNPC regulates cancer-specific alternative cleavage and polyadenylation profiles border= 
 
Harry Fischl; Jonathan Neve ; Zhiqiao Wang; Radhika Patel; Alastair Louey ...
 
 
Maintenance of translational elongation rate underlies the survival of Escherichia coli during oxidative stress border= 
 
Manlu Zhu; Xiongfeng Dai
 
 
A group II intron-encoded protein interacts with the cellular replicative machinery through the beta -sliding clamp border=  
 
Fernando M García-Rodríguez; José L Neira; Marco Marcia ; María D Molina-Sánchez; Nicolás Toro
 
 
Rescue of spinal muscular atrophy mouse models with AAV9-Exon-specific U1 snRNA border=  
 
Irving Donadon; Erica Bussani; Federico Riccardi ; Danilo Licastro; Giulia Romano ...
 
 
Pseudouridines on Trypanosoma brucei spliceosomal small nuclear RNAs and their implication for RNA and protein interactions border= 
 
K Shanmugha Rajan; Tirza Doniger; Smadar Cohen-Chalamish; Dana Chen; Oz Semo ...
 
 
 
Structural Biology
 
 
 
Structural insights into dimethylation of 12S rRNA by TFB1M: indispensable role in translation of mitochondrial genes and mitochondrial function border= 
 
Xiaodan Liu ; Shengqi Shen; Pengzhi Wu; Fudong Li; Xing Liu ...
 
 
Structure and ligand binding of the glutamine-II riboswitch border= 
 
Lin Huang; Jia Wang; Andrew M Watkins ; Rhiju Das; David M J Lilley
 
 
Mechanism for APOBEC3G catalytic exclusion of RNA and non-substrate DNA border=  
 
William C Solomon; Wazo Myint; Shurong Hou ; Tapan Kanai; Rashmi Tripathi ...
 
 
Toxin'antitoxin operon kacAT of Klebsiella pneumoniae is regulated by conditional cooperativity via a W-shaped KacA'KacT complex border= 
 
Hongliang Qian; Hao Yu ; Peifei Li; E Zhu; Qingqing Yao ...
 
 
 
Synthetic Biology and Bioengineering
 
 
 
Noise-reducing optogenetic negative-feedback gene circuits in human cells border=  
 
Michael Tyler Guinn; Gábor Balázsi
 
 
 
Corrigendum
 
 
 
A map of direct TF'DNA interactions in the human genome border=  
 
Marius Gheorghe; Geir Kjetil Sandve; Aziz Khan ; Jeanne Chèneby; Benoit Ballester ...
 
 
An E2F7-dependent transcriptional program modulates DNA damage repair and genomic stability border=  
 
Jone Mitxelena; Aintzane Apraiz; Jon Vallejo-Rodríguez ; Iraia García-Santisteban; Asier Fullaondo ...
 
 
 
Methods Online
 
 
 
TAGOOS: genome-wide supervised learning of non-coding loci associated to complex phenotypes border= 
 
Aitor González; Marie Artufel; Pascal Rihet
 
 
MOSClip: multi-omic and survival pathway analysis for the identification of survival associated gene and modules border=  
 
Paolo Martini; Monica Chiogna; Enrica Calura ; Chiara Romualdi
 
 
MethylCal: Bayesian calibration of methylation levels border= 
 
Eguzkine Ochoa; Verena Zuber; Nora Fernandez-Jimenez ; Jose Ramon Bilbao; Graeme R Clark ...
 
 
Regulostat Inferelator: a novel network biology platform to uncover molecular devices that predetermine cellular response phenotypes border= 
 
Choong Yong Ung ; Mehrab Ghanat Bari; Cheng Zhang; Jingjing Liang; Cristina Correia ...
 
 
FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences border=  
 
Jenai Quan; Charles Langelier; Alison Kuchta ; Joshua Batson; Noam Teyssier ...
 
 
CRISPR/Cas9-targeted removal of unwanted sequences from small-RNA sequencing libraries border=  
 
Andrew A. Hardigan; Brian S Roberts; Dianna E Moore ; Ryne C Ramaker; Angela L Jones ...
 
 
Unsubscribe       Manage email alerts
 
Written requests to unsubscribe can be sent to: Journals Marketing, Oxford University Press, Great Clarendon Street, Oxford, OX2 6DP, UK.

Our Privacy Policy sets out how Oxford University Press handles your personal information.

The content of this email is protected by copyright.
 
oxforde_university.jpg
 
 
 
                                 


This email is intended for bionet@evol.mcmaster.ca. ------=_Part_418447803.1566519757190--