Works matching IS 03051048 AND DT 2014 AND VI 42 AND IP 4

Results: 68

Protein–DNA binding: complexities and multi-protein codes.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2099, doi. 10.1093/nar/gkt1112

By:

Siggers, Trevor;
Gordân, Raluca

Publication type:

Article

Reprogramming homing endonuclease specificity through computational design and directed evolution.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2564, doi. 10.1093/nar/gkt1212

By:

Thyme, Summer B.;
Boissel, Sandrine J. S.;
Arshiya Quadri, S.;
Nolan, Tony;
Baker, Dean A.;
Park, Rachel U.;
Kusak, Lara;
Ashworth, Justin;
Baker, David

Publication type:

Article

Trans-splicing and RNA editing of LSU rRNA in Diplonema mitochondria.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2660, doi. 10.1093/nar/gkt1152

By:

Valach, Matus;
Moreira, Sandrine;
Kiethega, Georgette N.;
Burger, Gertraud

Publication type:

Article

Vespucci: a system for building annotated databases of nascent transcripts.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2433, doi. 10.1093/nar/gkt1237

By:

Allison, Karmel A.;
Kaikkonen, Minna U.;
Gaasterland, Terry;
Glass, Christopher K.

Publication type:

Article

Genetic robustness and functional evolution of gene duplicates.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2405, doi. 10.1093/nar/gkt1200

By:

Plata, Germán;
Vitkup, Dennis

Publication type:

Article

RNA-dependent RNA polymerase of Japanese encephalitis virus binds the initiator nucleotide GTP to form a mechanistically important pre-initiation state.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2758, doi. 10.1093/nar/gkt1106

By:

Surana, Parag;
Satchidanandam, Vijaya;
Nair, Deepak T.

Publication type:

Article

Quantifying the role of steric constraints in nucleosome positioning.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2147, doi. 10.1093/nar/gkt1239

By:

Rube, H. Tomas;
Song, Jun S.

Publication type:

Article

ARF induction in response to DNA strand breaks is regulated by PARP1.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2320, doi. 10.1093/nar/gkt1185

By:

Orlando, Giulia;
Khoronenkova, Svetlana V.;
Dianova, Irina I.;
Parsons, Jason L.;
Dianov, Grigory L.

Publication type:

Article

Phylo SI: a new genome-wide approach for prokaryotic phylogeny.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2391, doi. 10.1093/nar/gkt1138

By:

Shifman, Anton;
Ninyo, Noga;
Gophna, Uri;
Snir, Sagi

Publication type:

Article

Conformations of p53 response elements in solution deduced using site-directed spin labeling and Monte Carlo sampling.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2789, doi. 10.1093/nar/gkt1219

By:

Zhang, Xiaojun;
Dantas Machado, Ana Carolina;
Ding, Yuan;
Chen, Yongheng;
Lu, Yan;
Duan, Yankun;
Tham, Kenneth W.;
Chen, Lin;
Rohs, Remo;
Qin, Peter Z.

Publication type:

Article

Swi5-Sfr1 protein stimulates Rad51-mediated DNA strand exchange reaction through organization of DNA bases in the presynaptic filament.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2358, doi. 10.1093/nar/gkt1257

By:

Fornander, Louise H.;
Renodon-Cornière, Axelle;
Kuwabara, Naoyuki;
Ito, Kentaro;
Tsutsui, Yasuhiro;
Shimizu, Toshiyuki;
Iwasaki, Hiroshi;
Nordén, Bengt;
Takahashi, Masayuki

Publication type:

Article

Structural insight into DNA binding and oligomerization of the multifunctional Cox protein of bacteriophage P2.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2725, doi. 10.1093/nar/gkt1119

By:

Berntsson, Ronnie P.-A.;
Odegrip, Richard;
Sehlén, Wilhelmina;
Skaar, Karin;
Svensson, Linda M.;
Massad, Tariq;
Högbom, Martin;
Haggård-Ljungquist, Elisabeth;
Stenmark, Pål

Publication type:

Article

Poly(A) RNA and Paip2 act as allosteric regulators of poly(A)-binding protein.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2697, doi. 10.1093/nar/gkt1170

By:

Lee, Seung Hwan;
Oh, Jungsic;
Park, Jonghyun;
Paek, Ki Young;
Rho, Sangchul;
Jang, Sung Key;
Lee, Jong–Bong

Publication type:

Article

Structural mechanism of transcription regulation of the Staphylococcus aureus multidrug efflux operon mepRA by the MarR family repressor MepR.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2774, doi. 10.1093/nar/gkt1215

By:

Birukou, Ivan;
Seo, Susan M.;
Schindler, Bryan D.;
Kaatz, Glenn W.;
Brennan, Richard G.

Publication type:

Article

The output of the tRNA modification pathways controlled by the Escherichia coli MnmEG and MnmC enzymes depends on the growth conditions and the tRNA species.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2602, doi. 10.1093/nar/gkt1228

By:

Moukadiri, Ismaïl;
Garzón, M.-José;
Björk, Glenn R.;
Armengod, M.-Eugenia

Publication type:

Article

DNA secondary structures are associated with recombination in major Plasmodium falciparum variable surface antigen gene families.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2270, doi. 10.1093/nar/gkt1174

By:

Sander, Adam F.;
Lavstsen, Thomas;
Rask, Thomas S.;
Lisby, Michael;
Salanti, Ali;
Fordyce, Sarah L.;
Jespersen, Jakob S.;
Carter, Richard;
Deitsch, Kirk W.;
Theander, Thor G.;
Pedersen, Anders Gorm;
Arnot, David E.

Publication type:

Article

Molecular recognition by the KIX domain and its role in gene regulation.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2112, doi. 10.1093/nar/gkt1147

By:

Thakur, Jitendra K.;
Yadav, Archana;
Yadav, Gitanjali

Publication type:

Article

Identification of truncated forms of U1 snRNA reveals a novel RNA degradation pathway during snRNP biogenesis.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2708, doi. 10.1093/nar/gkt1271

By:

Ishikawa, Hideaki;
Nobe, Yuko;
Izumikawa, Keiichi;
Yoshikawa, Harunori;
Miyazawa, Naoki;
Terukina, Goro;
Kurokawa, Natsuki;
Taoka, Masato;
Yamauchi, Yoshio;
Nakayama, Hiroshi;
Isobe, Toshiaki;
Takahashi, Nobuhiro

Publication type:

Article

High-throughput, cost-effective verification of structural DNA assembly.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. e22, doi. 10.1093/nar/gkt1088

By:

Dharmadi, Yandi;
Patel, Kedar;
Shapland, Elaine;
Hollis, Daniel;
Slaby, Todd;
Klinkner, Nicole;
Dean, Jed;
Chandran, Sunil S.

Publication type:

Article

Intramolecular binding mode of the C-terminus of Escherichia coli single-stranded DNA binding protein determined by nuclear magnetic resonance spectroscopy.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2750, doi. 10.1093/nar/gkt1238

By:

Shishmarev, Dmitry;
Wang, Yao;
Mason, Claire E.;
Su, Xun-Cheng;
Oakley, Aaron J.;
Graham, Bim;
Huber, Thomas;
Dixon, Nicholas E.;
Otting, Gottfried

Publication type:

Article

Subscriptions.

Published in:: Nucleic Acids Research, 2014, v. 42, n. 4, p. iii, doi. 10.1093/nar/gku062
Publication type:: Article

Novel method for site-specific induction of oxidative DNA damage reveals differences in recruitment of repair proteins to heterochromatin and euchromatin.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2330, doi. 10.1093/nar/gkt1233

By:

Lan, Li;
Nakajima, Satoshi;
Wei, Leizhen;
Sun, Luxi;
Hsieh, Ching-Lung;
Sobol, Robert W.;
Bruchez, Marcel;
Van Houten, Bennett;
Yasui, Akira;
Levine, Arthur S.

Publication type:

Article

Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2646, doi. 10.1093/nar/gkt1139

By:

Espah Borujeni, Amin;
Channarasappa, Anirudh S.;
Salis, Howard M.

Publication type:

Article

Modification of picornavirus genomic RNA using ‘click’ chemistry shows that unlinking of the VPg peptide is dispensable for translation and replication of the incoming viral RNA.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2473, doi. 10.1093/nar/gkt1162

By:

Langereis, Martijn A.;
Feng, Qian;
Nelissen, Frank H. T.;
Virgen-Slane, Richard;
van der Heden van Noort, Gerbrand J.;
Maciejewski, Sonia;
Filippov, Dmitri V.;
Semler, Bert L.;
van Delft, Floris L.;
van Kuppeveld, Frank J.M.

Publication type:

Article

megaTALs: a rare-cleaving nuclease architecture for therapeutic genome engineering.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2591, doi. 10.1093/nar/gkt1224

By:

Boissel, Sandrine;
Jarjour, Jordan;
Astrakhan, Alexander;
Adey, Andrew;
Gouble, Agnès;
Duchateau, Philippe;
Shendure, Jay;
Stoddard, Barry L.;
Certo, Michael T.;
Baker, David;
Scharenberg, Andrew M.

Publication type:

Article

Human RECQ5 helicase promotes repair of DNA double-strand breaks by synthesis-dependent strand annealing.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2380, doi. 10.1093/nar/gkt1263

By:

Paliwal, Shreya;
Kanagaraj, Radhakrishnan;
Sturzenegger, Andreas;
Burdova, Kamila;
Janscak, Pavel

Publication type:

Article

UnSplicer: mapping spliced RNA-seq reads in compact genomes and filtering noisy splicing.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. e25, doi. 10.1093/nar/gkt1141

By:

Burns, Paul D.;
Li, Yang;
Ma, Jian;
Borodovsky, Mark

Publication type:

Article

One-step zero-background IgG reformatting of phage-displayed antibody fragments enabling rapid and high-throughput lead identification.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. e26, doi. 10.1093/nar/gkt1142

By:

Chen, Chao-Guang;
Fabri, Louis J.;
Wilson, Michael J.;
Panousis, Con

Publication type:

Article

The chromatin remodeller CHD8 is required for E2F-dependent transcription activation of S-phase genes.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2185, doi. 10.1093/nar/gkt1161

By:

Subtil-Rodríguez, Alicia;
Vázquez-Chávez, Elena;
Ceballos-Chávez, María;
Rodríguez-Paredes, Manuel;
Martín-Subero, José I.;
Esteller, Manel;
Reyes, José C.

Publication type:

Article

The complex methylome of the human gastric pathogen Helicobacter pylori.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2415, doi. 10.1093/nar/gkt1201

By:

Krebes, Juliane;
Morgan, Richard D.;
Bunk, Boyke;
Spröer, Cathrin;
Luong, Khai;
Parusel, Raphael;
Anton, Brian P.;
König, Christoph;
Josenhans, Christine;
Overmann, Jörg;
Roberts, Richard J.;
Korlach, Jonas;
Suerbaum, Sebastian

Publication type:

Article

TRF1 and TRF2 use different mechanisms to find telomeric DNA but share a novel mechanism to search for protein partners at telomeres.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2493, doi. 10.1093/nar/gkt1132

By:

Lin, Jiangguo;
Countryman, Preston;
Buncher, Noah;
Kaur, Parminder;
E, Longjiang;
Zhang, Yiyun;
Gibson, Greg;
You, Changjiang;
Watkins, Simon C.;
Piehler, Jacob;
Opresko, Patricia L.;
Kad, Neil M.;
Wang, Hong

Publication type:

Article

Differences between cotranscriptional and free riboswitch folding.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2687, doi. 10.1093/nar/gkt1213

By:

Lutz, Benjamin;
Faber, Michael;
Verma, Abhinav;
Klumpp, Stefan;
Schug, Alexander

Publication type:

Article

Transcription factor abundance controlled by an auto-regulatory mechanism involving a transcription start site switch.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2171, doi. 10.1093/nar/gkt1136

By:

Ngondo, Richard Patryk;
Carbon, Philippe

Publication type:

Article

A cypovirus VP5 displays the RNA chaperone-like activity that destabilizes RNA helices and accelerates strand annealing.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2538, doi. 10.1093/nar/gkt1256

By:

Yang, Jie;
Cheng, Zhenyun;
Zhang, Songliu;
Xiong, Wei;
Xia, Hongjie;
Qiu, Yang;
Wang, Zhaowei;
Wu, Feige;
Qin, Cheng-Feng;
Yin, Lei;
Hu, Yuanyang;
Zhou, Xi

Publication type:

Article

Adaptation of the Haloarcula hispanica CRISPR-Cas system to a purified virus strictly requires a priming process.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2483, doi. 10.1093/nar/gkt1154

By:

Li, Ming;
Wang, Rui;
Zhao, Dahe;
Xiang, Hua

Publication type:

Article

The Ddx5 and Ddx17 RNA helicases are cornerstones in the complex regulatory array of steroid hormone-signaling pathways.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2197, doi. 10.1093/nar/gkt1216

By:

Samaan, Samaan;
Tranchevent, Léon-Charles;
Dardenne, Etienne;
Polay Espinoza, Micaela;
Zonta, Eleonora;
Germann, Sophie;
Gratadou, Lise;
Dutertre, Martin;
Auboeuf, Didier

Publication type:

Article

Nucleic Acids Research.

Published in:: Nucleic Acids Research, 2014, v. 42, n. 4, p. i, doi. 10.1093/nar/gku015
Publication type:: Article

Identification of genes involved in low aminoglycoside-induced SOS response in Vibrio cholerae: a role for transcription stalling and Mfd helicase.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2366, doi. 10.1093/nar/gkt1259

By:

Baharoglu, Zeynep;
Babosan, Anamaria;
Mazel, Didier

Publication type:

Article

Differential contribution of basic residues to HIV-1 nucleocapsid protein’s nucleic acid chaperone function and retroviral replication.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2525, doi. 10.1093/nar/gkt1227

By:

Wu, Hao;
Mitra, Mithun;
Naufer, M. Nabuan;
McCauley, Micah J.;
Gorelick, Robert J.;
Rouzina, Ioulia;
Musier-Forsyth, Karin;
Williams, Mark C.

Publication type:

Article

Discrimination between thermodynamic models of cis-regulation using transcription factor occupancy data.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2224, doi. 10.1093/nar/gkt1230

By:

Zeigler, Robert D.;
Cohen, Barak A.

Publication type:

Article

Bacillus subtilis RecA and its accessory factors, RecF, RecO, RecR and RecX, are required for spore resistance to DNA double-strand break.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2295

By:

Vlašić, Ignacija;
Mertens, Ramona;
Seco, Elena M.;
Carrasco, Begoña;
Ayora, Silvia;
Reitz, Günther;
Commichau, Fabian M.;
Alonso, Juan C.;
Moeller, Ralf

Publication type:

Article

Expanding the catalog of cas genes with metagenomes.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2448, doi. 10.1093/nar/gkt1262

By:

Zhang, Quan;
Doak, Thomas G.;
Ye, Yuzhen

Publication type:

Article

Multiple replication origins with diverse control mechanisms in Haloarcula hispanica.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2282, doi. 10.1093/nar/gkt1214

By:

Wu, Zhenfang;
Liu, Jingfang;
Yang, Haibo;
Liu, Hailong;
Xiang, Hua

Publication type:

Article

The dual role of HOP2 in mammalian meiotic homologous recombination.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2346, doi. 10.1093/nar/gkt1234

By:

Pezza, Roberto J.;
Voloshin, Oleg N.;
Volodin, Alexander A.;
Boateng, Kingsley A.;
Bellani, Marina A.;
Mazin, Alexander V.;
Camerini-Otero, R. Daniel

Publication type:

Article

Discover context-specific combinatorial transcription factor interactions by integrating diverse ChIP-Seq data sets.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. e24, doi. 10.1093/nar/gkt1105

By:

Teng, Li;
He, Bing;
Gao, Peng;
Gao, Long;
Tan, Kai

Publication type:

Article

Collaboration between CpG sites is needed for stable somatic inheritance of DNA methylation states.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2235, doi. 10.1093/nar/gkt1235

By:

Haerter, Jan O.;
Lövkvist, Cecilia;
Dodd, Ian B.;
Sneppen, Kim

Publication type:

Article

Highly specific and sensitive method for measuring nucleotide excision repair kinetics of ultraviolet photoproducts in human cells.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. e29, doi. 10.1093/nar/gkt1179

By:

Choi, Jun-Hyuk;
Gaddameedhi, Shobhan;
Kim, So-Young;
Hu, Jinchuan;
Kemp, Michael G.;
Sancar, Aziz

Publication type:

Article

Nucleotide selection by the Y-family DNA polymerase Dpo4 involves template translocation and misalignment.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2555, doi. 10.1093/nar/gkt1149

By:

Brenlla, Alfonso;
Markiewicz, Radoslaw P.;
Rueda, David;
Romano, Louis J.

Publication type:

Article

Structural determinants of DNA recognition by plant MADS-domain transcription factors.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2138, doi. 10.1093/nar/gkt1172

By:

Muiño, Jose M.;
Smaczniak, Cezary;
Angenent, Gerco C.;
Kaufmann, Kerstin;
van Dijk, Aalt D.J.

Publication type:

Article

Structure-based model for light-harvesting properties of nucleic acid nanostructures.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 4, p. 2159, doi. 10.1093/nar/gkt1269

By:

Pan, Keyao;
Boulais, Etienne;
Yang, Lun;
Bathe, Mark

Publication type:

Article