Works matching IS 03051048 AND DT 2016 AND VI 44 AND IP 7

Results: 50

Methanopyrus kandleri topoisomerase V contains three distinct AP lyase active sites in addition to the topoisomerase active site.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3464, doi. 10.1093/nar/gkw122

By:

Rajan, Rakhi;
Osterman, Amy;
Mondragόn, Alfonso

Publication type:

Article

TopDom: an efficient and deterministic method for identifying topological domains in genomes.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e70, doi. 10.1093/nar/gkv1505

By:

Hanjun Shin;
Yi Shi;
Chao Dai;
Harianto Tjong;
Ke Gong;
Alber, Frank;
Xianghong Jasmine Zhou

Publication type:

Article

The Arabidopsis homologs of trithorax (ATX1) and enhancer of zeste (CLF) establish ‘bivalent chromatin marks’ at the silent AGAMOUS locus.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3475, doi. 10.1093/nar/gkv1489

By:

Saleh, Abdelaty;
Al-Abdallat, Ayed;
Ndamukong, Ivan;
Alvarez-Venegas, Raul;
Avramova, Zoya

Publication type:

Article

Standardizing chromatin research: a simple and universal method for ChIP-seq.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e67, doi. 10.1093/nar/gkv1495

By:

Arrigoni, Laura;
Richter, Andreas S.;
Betancourt, Emily;
Bruder, Kerstin;
Diehl, Sarah;
Manke, Thomas;
Bönisch, Ulrike

Publication type:

Article

SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e63, doi. 10.1093/nar/gkv1479

By:

Boniecki, Michal J.;
Lach, Grzegorz;
Dawson, Wayne K.;
Tomala, Konrad;
Lukasz, Pawel;
Soltysinski, Tomasz;
Rother, Kristian M.;
Bujnicki, Janusz M.

Publication type:

Article

Sequence-independent characterization of viruses based on the pattern of viral small RNAs produced by the host.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3477, doi. 10.1093/nar/gkw044

By:

Eric Roberto Guimarães Rocha Aguiar;
Olmo, Roenick Proveti;
Paro, Simona;
Ferreira, Flavia Viana;
da Silva de Faria, Isaque João;
Honore Todjro, Yaovi Mathias;
Lobo, Francisco Pereira;
Kroon, Erna Geessien;
Meignin, Carine;
Gatherer, Derek;
Imler, Jean-Luc;
Marques, João Trindade

Publication type:

Article

Integrating gene synthesis and microfluidic protein analysis for rapid protein engineering.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e68, doi. 10.1093/nar/gkv1497

By:

Blackburn, Matthew C.;
Petrova, Ekaterina;
Correia, Bruno E.;
Maerkl, Sebastian J.

Publication type:

Article

Gene integrated set profile analysis: a context-based approach for inferring biological endpoints.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e69, doi. 10.1093/nar/gkv1503

By:

Kowalski, Jeanne;
Dwivedi, Bhakti;
Newman, Scott;
Switchenko, Jeffery M.;
Pauly, Rini;
Gutman, David A.;
Arora, Jyoti;
Gandhi, Khanjan;
Ainslie, Kylie;
Doho, Gregory;
Qin, Zhaohui;
Moreno, Carlos S.;
Rossi, Michael R.;
Vertino, Paula M.;
Lonial, Sagar;
Bernal-Mizrachi, Leon;
Boise, Lawrence H.

Publication type:

Article

Enhanced sequencing coverage with digital droplet multiple displacement amplification.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e66, doi. 10.1093/nar/gkv1493

By:

Sidore, Angus M.;
Lan, Freeman;
Lim, Shaun W.;
Abate, Adam R.

Publication type:

Article

Defective histone supply causes condensin-dependent chromatin alterations, SAC activation and chromosome decatenation impairment.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3479, doi. 10.1093/nar/gkw058

By:

Murillo-Pineda, Marina;
Cabello-Lobato, María J.;
Clemente-Ruiz, Marta;
Monje-Casas, Fernando;
Prado, Félix

Publication type:

Article

CrossHub: a tool for multi-way analysis of The Cancer Genome Atlas (TCGA) in the context of gene expression regulation mechanisms.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e62, doi. 10.1093/nar/gkv1478

By:

Krasnov, George S.;
Dmitriev, Alexey A.;
Melnikova, Nataliya V.;
Zaretsky, Andrew R.;
Nasedkina, Tatiana V.;
Zasedatelev, Alexander S.;
Senchenko, Vera N.;
Kudryavtseva, Anna V.

Publication type:

Article

Controlled DNA double-strand break induction in mice reveals post-damage transcriptome stability.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e64, doi. 10.1093/nar/gkv1482

By:

Kim, Jeongkyu;
Sturgill, David;
Tran, Andy D.;
Sinclair, David A.;
Oberdoerffer, Philipp

Publication type:

Article

ChIP-BIT: Bayesian inference of target genes using a novel joint probabilistic model of ChIP-seq profiles.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e65, doi. 10.1093/nar/gkv1491

By:

Xi Chen;
Jung, Jin-Gyoung;
Shajahan-Haq, Ayesha N.;
Clarke, Robert;
Shih, Ie-Ming;
Yue Wang;
Magnani, Luca;
Wang, Tian-Li;
Jianhua Xuan

Publication type:

Article

A comprehensive comparison of general RNA–RNA interaction prediction methods.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. e61, doi. 10.1093/nar/gkv1477

By:

Lai, Daniel;
Meyer, Irmtraud M.

Publication type:

Article

Integrin α4β1 controls G9a activity that regulates epigenetic changes and nuclear properties required for lymphocyte migration.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3031, doi. 10.1093/nar/gkv1348

By:

Xiaohong Zhang;
Cook, Peter C.;
Zindy, Egor;
Williams, Craig J.;
Jowitt, Thomas A.;
Streuli, Charles H.;
MacDonald, Andrew S.;
Redondo-Muñoz, Javier

Publication type:

Article

Differential contribution of cis-regulatory elements to higher order chromatin structure and expression of the CFTR locus.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3082, doi. 10.1093/nar/gkv1358

By:

Rui Yang;
Kerschner, Jenny L.;
Gosalia, Nehal;
Neems, Daniel;
Gorsic, Lidija K.;
Safi, Alexias;
Crawford, Gregory E.;
Kosak, Steven T.;
Shih-Hsing Leir;
Harris, Ann

Publication type:

Article

Quantitative sampling of conformational heterogeneity of a DNA hairpin using molecular dynamics simulations and ultrafast fluorescence spectroscopy.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3408, doi. 10.1093/nar/gkw077

By:

Voltz, Karine;
Léonard, Jérémie;
Tourón Touceda, Patricia;
Conyard, Jamie;
Chaker, Ziyad;
Dejaegere, Annick;
Godet, Julien;
Mély, Yves;
Haacke, Stefan;
Stote, Roland H.

Publication type:

Article

'Modulation of the enzymatic activities of replicative helicase (DnaB) by interaction with Hp0897: a possible mechanism for helicase loading in Helicobacter pylori'.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3288, doi. 10.1093/nar/gkw148

By:

Verma, Vijay;
Kumar, Ajay;
Nitharwal, Ram Gopal;
Alam, Jawed;
Mukhopadhyay, Asish Kumar;
Dasgupta, Santanu;
Dhar, Suman Kumar

Publication type:

Article

Kissing-loop interaction between 5' and 3' ends of tick-borne Langat virus genome 'bridges the gap' between mosquito- and tick-borne flaviviruses in mechanisms of viral RNA cyclization: applications for virus attenuation and vaccine development.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3330, doi. 10.1093/nar/gkw061

By:

Tsetsarkin, Konstantin A.;
Guangping Liu;
Kui Shen;
Pletnev, Alexander G.

Publication type:

Article

FANCM interacts with PCNA to promote replication traverse of DNA interstrand crosslinks.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3219, doi. 10.1093/nar/gkw037

By:

Rohleder, Florian;
Jing Huang;
Yutong Xue;
Kuper, Jochen;
Round, Adam;
Seidman, Michael;
Weidong Wang;
Kisker, Caroline

Publication type:

Article

Influence of major-groove chemical modifications of DNA on transcription by bacterial RNA polymerases.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3000, doi. 10.1093/nar/gkw171

By:

Raindlová, Veronika;
Janoušková, Martina;
Slavíčková, Michaela;
Perlíková, Pavla;
Boháčová, Soňa;
Milisavljevič, Nemanja;
Šanderová, Hana;
Benda, Martin;
Barvík, Ivan;
Krásný, Libor;
Hocek, Michal

Publication type:

Article

p53 coordinates base excision repair to prevent genomic instability.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3165, doi. 10.1093/nar/gkw015

By:

Poletto, Mattia;
Legrand, Arnaud J.;
Fletcher, Sally C.;
Dianov, Grigory L.

Publication type:

Article

The crystal structure of human GlnRS provides basis for the development of neurological disorders.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3420, doi. 10.1093/nar/gkw082

By:

Ognjenović, Jana;
Jiang Wu;
Matthies, Doreen;
Baxa, Ulrich;
Subramaniam, Sriram;
Jiqiang Ling;
Simonović, Miljan

Publication type:

Article

Transcriptional, post-transcriptional and chromatin-associated regulation of pri-miRNAs, pre-miRNAs and moRNAs.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3070, doi. 10.1093/nar/gkv1354

By:

Nepal, Chirag;
Coolen, Marion;
Hadzhiev, Yavor;
Cussigh, Delphine;
Mydel, Piotr;
Steen, Vidar M.;
Carninci, Piero;
Andersen, Jesper B.;
Bally-Cuif, Laure;
Müller, Ferenc;
Lenhard, Boris

Publication type:

Article

Opportunities in the design and application of RNA for gene expression control.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 2987, doi. 10.1093/nar/gkw151

By:

McKeague, Maureen;
Wong, Remus S.;
Smolke, Christina D.

Publication type:

Article

Suppression of gyrase-mediated resistance by C7 aryl fluoroquinolones.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3304, doi. 10.1093/nar/gkw161

By:

Malik, Muhammad;
Mustaev, Arkady;
Schwanz, Heidi A.;
Gan Luan;
Shah, Nirali;
Oppegard, Lisa M.;
de Souza, Ernane C.;
Hiasa, Hiroshi;
Xilin Zhao;
Kerns, Robert J.;
Drlica, Karl

Publication type:

Article

De novoreconstruction of DNA origami structures through atomistic molecular dynamics simulation.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3013, doi. 10.1093/nar/gkw155

By:

Maffeo, Christopher;
Jejoong Yoo;
Aksimentiev, Aleksei

Publication type:

Article

Expression of multiple Bacillus subtilisgenes is controlled by decay of slrA mRNA from Rho-dependent 3' ends.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3364, doi. 10.1093/nar/gkw069

By:

Bo Liu;
Kearns, Daniel B.;
Bechhofer, David H.

Publication type:

Article

RNA cleavage products generated by antisense oligonucleotides and siRNAs are processed by the RNA surveillance machinery.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3351, doi. 10.1093/nar/gkw065

By:

Lima, Walt F.;
De Hoyos, Cheryl L.;
Xue-hai Liang;
Crooke, Stanley T.

Publication type:

Article

Directing an artificial zinc finger protein to new targets by fusion to a non-DNA-binding domain.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3118, doi. 10.1093/nar/gkv1380

By:

Lim, Wooi F.;
Burdach, Jon;
Funnell, Alister P. W.;
Pearson, Richard C. M.;
Quinlan, Kate G. R.;
Crossley, Merlin

Publication type:

Article

Functional annotation of the vlinc class of non-coding RNAs using systems biology approach.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3233, doi. 10.1093/nar/gkw162

By:

Laurent, Georges St.;
Vyatkin, Yuri;
Antonets, Denis;
Ri, Maxim;
Yao Qi;
Saik, Olga;
Shtokalo, Dmitry;
de Hoon, Michiel J. L.;
Hideya Kawaji;
Masayoshi Itoh;
Lassmann, Timo;
Arner, Erik;
Forrest, Alistair R. R.;
Nicolas, Estelle;
McCaffrey, Timothy A.;
Carninci, Piero;
Yoshihide Hayashizaki;
Wahlestedt, Claes;
Kapranov, Philipp

Publication type:

Article

Molecular dynamics simulations reveal the balance of forces governing the formation of a guanine tetrad--a common structural unit of G-quadruplex DNA.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3020, doi. 10.1093/nar/gkw160

By:

Kogut, Mateusz;
Kleist, Cyprian;
Czub, Jacek

Publication type:

Article

Identification of a mismatch-specific endonuclease in hyperthermophilic Archaea.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 2977, doi. 10.1093/nar/gkw153

By:

Sonoko Ishino;
Yuki Nishi;
Soichiro Oda;
Takashi Uemori;
Takehiro Sagara;
Nariaki Takatsu;
Takeshi Yamagami;
Tsuyoshi Shirai;
Yoshizumi Ishino

Publication type:

Article

The intrinsic mechanics of B-DNA in solution characterized by NMR.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3432, doi. 10.1093/nar/gkw084

By:

Imeddourene, Akli Ben;
Xiaoqian Xu;
Zargarian, Loussiné;
Oguey, Christophe;
Foloppe, Nicolas;
Mauffret, Olivier;
Hartmann, Brigitte

Publication type:

Article

Linc-RoR promotes c-Myc expression through hnRNP I and AUF1.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3059, doi. 10.1093/nar/gkv1353

By:

Jianguo Huang;
Ali Zhang;
Tsui-Ting Ho;
Ziqiang Zhang;
Nanjiang Zhou;
Xianfeng Ding;
Xu Zhang;
Min Xu;
Yin-Yuan Mo

Publication type:

Article

PolDIP2 interacts with human PrimPol and enhances its DNA polymerase activities.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3317, doi. 10.1093/nar/gkw175

By:

Guilliam, Thomas A.;
Bailey, Laura J.;
Brissett, Nigel C.;
Doherty, Aidan J.

Publication type:

Article

Endonuclease domain of non-LTR retrotransposons: loss-of-function mutants and modeling of the R2Bm endonuclease.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3276, doi. 10.1093/nar/gkw134

By:

Govindaraju, Aruna;
Cortez, Jeremy D.;
Reveal, Brad;
Christensen, Shawn M.

Publication type:

Article

Mapping of internal monophosphate 5' ends of Bacillus subtilis messenger RNAs and ribosomal RNAs in wild-type and ribonuclease-mutant strains.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3373, doi. 10.1093/nar/gkw073

By:

DiChiara, Jeanne M.;
Bo Liu;
Figaro, Sabine;
Condon, Ciarán;
Bechhofer, David H.

Publication type:

Article

Rad61/Wpl1 (Wapl), a cohesin regulator, controls chromosome compaction during meiosis.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3190, doi. 10.1093/nar/gkw034

By:

Challa, Kiran;
Min-Su Lee;
Miki Shinohara;
Kim, Keun P.;
Akira Shinohara

Publication type:

Article

Global analyses of endonucleolytic cleavage in mammals reveal expanded repertoires of cleavage-inducing small RNAs and their targets.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3253, doi. 10.1093/nar/gkw164

By:

Cass, Ashley A.;
Jae Hoon Bahn;
Jae-Hyung Lee;
Greer, Christopher;
Xianzhi Lin;
Yong Kim;
Hsiao, Yun-Hua Esther;
Xinshu Xiao

Publication type:

Article

The PCNA-associated protein PARI negatively regulates homologous recombination via the inhibition of DNA repair synthesis.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3176, doi. 10.1093/nar/gkw024

By:

Burkovics, Peter;
Dome, Lili;
Juhasz, Szilvia;
Altmannova, Veronika;
Sebesta, Marek;
Pacesa, Martin;
Fugger, Kasper;
Storgaard Sorensen, Claus;
Lee, Marietta Y. W. T.;
Haracska, Lajos;
Krejci, Lumir

Publication type:

Article

ΔNp63 activates the Fanconi anemia DNA repair pathway and limits the efficacy of cisplatin treatment in squamous cell carcinoma.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3204, doi. 10.1093/nar/gkw036

By:

Bretz, Anne Catherine;
Gittler, Miriam P.;
Charles, Joël P.;
Gremke, Niklas;
Eckhardt, Ines;
Mernberger, Marco;
Mandic, Robert;
Thomale, Jürgen;
Nist, Andrea;
Wanzel, Michael;
Stiewe, Thorsten

Publication type:

Article

The histone chaperone sNASP binds a conserved peptide motif within the globular core of histone H3 through its TPR repeats.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3105, doi. 10.1093/nar/gkv1372

By:

Bowman, Andrew;
Lercher, Lukas;
Singh, Hari R.;
Zinne, Daria;
Timinszky, Gyula;
Carlomagno, Teresa;
Ladurner, Andreas G.

Publication type:

Article

Mechanism of fusidic acid inhibition of RRF- and EF-G-dependent splitting of the bacterial post-termination ribosome.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3264, doi. 10.1093/nar/gkw178

By:

Borg, Anneli;
Pavlov, Michael;
Ehrenberg, Måns

Publication type:

Article

Structural basis for PHDVC5HCHNSD1--C2HRNizp1 interaction: implications for Sotos syndrome.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3448, doi. 10.1093/nar/gkw103

By:

Berardi, Andrea;
Quilici, Giacomo;
Spiliotopoulos, Dimitrios;
Corral-Rodriguez, Maria Angeles;
Martin-Garcia, Fernando;
Degano, Massimo;
Tonon, Giovanni;
Ghitti, Michela;
Musco, Giovanna

Publication type:

Article

Quantification of transcription factor-DNA binding affinity in a living cell.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3045, doi. 10.1093/nar/gkv1350

By:

Belikov, Sergey;
Berg, Otto G.;
Wrange, Örjan

Publication type:

Article

Transcriptional regulatory networks in Arabidopsis thalianaduring single and combined stresses.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3147, doi. 10.1093/nar/gkv1463

By:

Barah, Pankaj;
B. N., Mahantesha Naika;
Jayavelu, Naresh Doni;
Sowdhamini, Ramanathan;
Shameer, Khader;
Bones, Atle M.

Publication type:

Article

Endoplasmic reticulum stress increases AT1R mRNA expression via TIA-1-dependent mechanism.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3095, doi. 10.1093/nar/gkv1368

By:

Backlund, Michael;
Paukku, Kirsi;
Kontula, Kimmo K.;
Lehtonen, Jukka Y. A.

Publication type:

Article

Initiation on the divergent Type I cadicivirus IRES: factor requirements and interactions with the translation apparatus.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3390, doi. 10.1093/nar/gkw074

By:

Asnani, Mukta;
Pestova, Tatyana V.;
Hellen, Christopher U. T.

Publication type:

Article

A transcription-independent epigenetic mechanism is associated with antigenic switching in Trypanosoma brucei.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 7, p. 3131, doi. 10.1093/nar/gkv1459

By:

Aresta-Branco, Francisco;
Pimenta, Silvia;
Figueiredo, Luisa M.

Publication type:

Article