Works matching IS 03051048 AND DT 2013 AND VI 41 AND IP 4

Results: 66

RAG and HMGB1 create a large bend in the 23RSS in the V(D)J recombination synaptic complexes.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2437, doi. 10.1093/nar/gks1294

By:

Ciubotaru, Mihai;
Trexler, Adam J.;
Spiridon, Laurentiu N.;
Surleac, Marius D.;
Rhoades, Elizabeth;
Petrescu, Andrei J.;
Schatz, David G.

Publication type:

Article

A new structural framework for integrating replication protein A into DNA processing machinery.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2313, doi. 10.1093/nar/gks1332

By:

Brosey, Chris A.;
Yan, Chunli;
Tsutakawa, Susan E.;
Heller, William T.;
Rambo, Robert P.;
Tainer, John A.;
Ivanov, Ivaylo;
Chazin, Walter J.

Publication type:

Article

A large-scale in vivo analysis reveals that TALENs are significantly more mutagenic than ZFNs generated using context-dependent assembly.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2769, doi. 10.1093/nar/gks1356

By:

Chen, Shijia;
Oikonomou, Grigorios;
Chiu, Cindy N.;
Niles, Brett J.;
Liu, Justin;
Lee, Daniel A.;
Antoshechkin, Igor;
Prober, David A.

Publication type:

Article

Nucleic Acids Research.

Published in:: Nucleic Acids Research, 2013, v. 41, n. 4, p. i, doi. 10.1093/nar/gks1366
Publication type:: Article

Spatial localization of co-regulated genes exceeds genomic gene clustering in the Saccharomyces cerevisiae genome.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2191, doi. 10.1093/nar/gks1360

By:

Ben-Elazar, Shay;
Yakhini, Zohar;
Yanai, Itai

Publication type:

Article

Space exploration by the promoter of a long human gene during one transcription cycle.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2216, doi. 10.1093/nar/gks1441

By:

Larkin, Joshua D.;
Papantonis, Argyris;
Cook, Peter R.;
Marenduzzo, Davide

Publication type:

Article

The high kinetic stability of a G-quadruplex limits hnRNP F qRRM3 binding to G-tract RNA.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2505, doi. 10.1093/nar/gks1289

By:

Samatanga, Brighton;
Dominguez, Cyril;
Jelesarov, Ilian;
Allain, Frédéric H.-T.

Publication type:

Article

Crystal structure of an intermediate of rotating dimers within the synaptic tetramer of the G-segment invertase.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2673, doi. 10.1093/nar/gks1303

By:

Ritacco, Christopher J.;
Kamtekar, Satwik;
Wang, Jimin;
Steitz, Thomas A.

Publication type:

Article

Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2073, doi. 10.1093/nar/gks1205

By:

Shabalina, Svetlana A.;
Spiridonov, Nikolay A.;
Kashina, Anna

Publication type:

Article

Functional characterization of motif sequences under purifying selection.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2105, doi. 10.1093/nar/gks1456

By:

Chen, De-Hua;
Chang, Andrew Ying-Fei;
Liao, Ben-Yang;
Yeang, Chen-Hsiang

Publication type:

Article

iSLIM: a comprehensive approach to mapping and characterizing gene regulatory networks.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e52, doi. 10.1093/nar/gks1323

By:

Rockel, Sylvie;
Geertz, Marcel;
Hens, Korneel;
Deplancke, Bart;
Maerkl, Sebastian J.

Publication type:

Article

Alternative translation initiation augments the human mitochondrial proteome.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2354, doi. 10.1093/nar/gks1347

By:

Kazak, Lawrence;
Reyes, Aurelio;
Duncan, Anna L.;
Rorbach, Joanna;
Wood, Stuart R.;
Brea-Calvo, Gloria;
Gammage, Payam A.;
Robinson, Alan J.;
Minczuk, Michal;
Holt, Ian J.

Publication type:

Article

Transcription-independent role for human mitochondrial RNA polymerase in mitochondrial ribosome biogenesis.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2479, doi. 10.1093/nar/gks1447

By:

Surovtseva, Yulia V.;
Shadel, Gerald S.

Publication type:

Article

Gene-specific factors determine mitotic expression and bookmarking via alternate regulatory elements.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2202, doi. 10.1093/nar/gks1365

By:

Arampatzi, Panagiota;
Gialitakis, Manolis;
Makatounakis, Takis;
Papamatheakis, Joseph

Publication type:

Article

ellipsoidFN: a tool for identifying a heterogeneous set of cancer biomarkers based on gene expressions.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e53, doi. 10.1093/nar/gks1288

By:

Ren, Xianwen;
Wang, Yong;
Chen, Luonan;
Zhang, Xiang-Sun;
Jin, Qi

Publication type:

Article

Distinct transcriptional regulatory modules underlie STAT3’s cell type-independent and cell type-specific functions.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2155, doi. 10.1093/nar/gks1300

By:

Hutchins, Andrew Paul;
Diez, Diego;
Takahashi, Yoshiko;
Ahmad, Shandar;
Jauch, Ralf;
Tremblay, Michel Lucien;
Miranda-Saavedra, Diego

Publication type:

Article

Patterns of methylation heritability in a genome-wide analysis of four brain regions.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2095, doi. 10.1093/nar/gks1449

By:

Quon, Gerald;
Lippert, Christoph;
Heckerman, David;
Listgarten, Jennifer

Publication type:

Article

Hepatitis C virus RNA: molecular switches mediated by long-range RNA–RNA interactions?

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2526, doi. 10.1093/nar/gks1318

By:

Shetty, Sumangala;
Stefanovic, Snezana;
Mihailescu, Mihaela Rita

Publication type:

Article

Structure, stability and function of 5-chlorouracil modified A:U and G:U base pairs.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2689, doi. 10.1093/nar/gks1316

By:

Patra, Amritraj;
Harp, Joel;
Pallan, Pradeep S.;
Zhao, Linlin;
Abramov, Mikhail;
Herdewijn, Piet;
Egli, Martin

Publication type:

Article

GBSA: a comprehensive software for analysing whole genome bisulfite sequencing data.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e55, doi. 10.1093/nar/gks1281

By:

Benoukraf, Touati;
Wongphayak, Sarawut;
Hadi, Luqman Hakim Abdul;
Wu, Mengchu;
Soong, Richie

Publication type:

Article

Molecular determinants of HIV-1 NCp7 chaperone activity in maturation of the HIV-1 dimerization initiation site.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2565, doi. 10.1093/nar/gks1350

By:

Aduri, Raviprasad;
Briggs, Katharine T.;
Gorelick, Robert J.;
Marino, John P.

Publication type:

Article

Nucleic Acids Research - Editorial Board.

Published in:: Nucleic Acids Research, 2013, v. 41, n. 4, p. ii, doi. 10.1093/nar/gks1406
Publication type:: Article

Cell cycle stage-specific roles of Rad18 in tolerance and repair of oxidative DNA damage.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2296, doi. 10.1093/nar/gks1325

By:

Yang, Yang;
Durando, Michael;
Smith-Roe, Stephanie L.;
Sproul, Chris;
Greenwalt, Alicia M.;
Kaufmann, William;
Oh, Sehyun;
Hendrickson, Eric A.;
Vaziri, Cyrus

Publication type:

Article

Rbm20 regulates titin alternative splicing as a splicing repressor.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2659, doi. 10.1093/nar/gks1362

By:

Li, Shijun;
Guo, Wei;
Dewey, Colin N.;
Greaser, Marion L.

Publication type:

Article

Engineering of a target site-specific recombinase by a combined evolution- and structure-guided approach.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2394, doi. 10.1093/nar/gks1308

By:

Abi-Ghanem, Josephine;
Chusainow, Janet;
Karimova, Madina;
Spiegel, Christopher;
Hofmann-Sieber, Helga;
Hauber, Joachim;
Buchholz, Frank;
Pisabarro, M. Teresa

Publication type:

Article

Rev3, the catalytic subunit of Polζ, is required for maintaining fragile site stability in human cells.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2328, doi. 10.1093/nar/gks1442

By:

Bhat, Audesh;
Andersen, Parker L.;
Qin, Zhoushuai;
Xiao, Wei

Publication type:

Article

Coordinated induction of multi-gene pathways in Saccharomyces cerevisiae.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e54, doi. 10.1093/nar/gks1293

By:

Liang, Jing;
Ning, Jonathan C.;
Zhao, Huimin

Publication type:

Article

Evidence that a consensus element found in naturally intronless mRNAs promotes mRNA export.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2517, doi. 10.1093/nar/gks1314

By:

Lei, Haixin;
Zhai, Bo;
Yin, Shanye;
Gygi, Steve;
Reed, Robin

Publication type:

Article

A dual-site simultaneous binding mode in the interaction between parallel-stranded G-quadruplex [d(TGGGGT)]4 and cyanine dye 2,2′-diethyl-9-methyl-selenacarbocyanine bromide.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2709, doi. 10.1093/nar/gks1328

By:

Gai, Wei;
Yang, Qianfan;
Xiang, Junfeng;
Jiang, Wei;
Li, Qian;
Sun, Hongxia;
Guan, Aijiao;
Shang, Qian;
Zhang, Hong;
Tang, Yalin

Publication type:

Article

Imprinting at the PLAGL1 domain is contained within a 70-kb CTCF/cohesin-mediated non-allelic chromatin loop.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2171, doi. 10.1093/nar/gks1355

By:

Iglesias-Platas, Isabel;
Court, Franck;
Camprubi, Cristina;
Sparago, Angela;
Guillaumet-Adkins, Amy;
Martin-Trujillo, Alex;
Riccio, Andrea;
Moore, Gudrun E.;
Monk, David

Publication type:

Article

Mechanical unfolding of human telomere G-quadruplex DNA probed by integrated fluorescence and magnetic tweezers spectroscopy.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2746, doi. 10.1093/nar/gks1341

By:

Long, Xi;
Parks, Joseph W.;
Bagshaw, Clive R.;
Stone, Michael D.

Publication type:

Article

The structural stabilization of the κ three-way junction by Mg(II) represents the first step in the folding of a group II intron.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2489, doi. 10.1093/nar/gks1179

By:

Donghi, Daniela;
Pechlaner, Maria;
Finazzo, Cinzia;
Knobloch, Bernd;
Sigel, Roland K. O.

Publication type:

Article

Transcriptome-wide expansion of non-coding regulatory switches: evidence from co-occurrence of Alu exonization, antisense and editing.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2121, doi. 10.1093/nar/gks1457

By:

Mandal, Amit K.;
Pandey, Rajesh;
Jha, Vineet;
Mukerji, Mitali

Publication type:

Article

Thermodynamic properties distinguish human mitochondrial aspartyl-tRNA synthetase from bacterial homolog with same 3D architecture.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2698, doi. 10.1093/nar/gks1322

By:

Neuenfeldt, Anne;
Lorber, Bernard;
Ennifar, Eric;
Gaudry, Agnès;
Sauter, Claude;
Sissler, Marie;
Florentz, Catherine

Publication type:

Article

Phosphorylation and ubiquitination-dependent degradation of CABIN1 releases p53 for transactivation upon genotoxic stress.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2180, doi. 10.1093/nar/gks1319

By:

Choi, Soo-Youn;
Jang, Hyonchol;
Roe, Jae-Seok;
Kim, Seong-Tae;
Cho, Eun-Jung;
Youn, Hong-Duk

Publication type:

Article

Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e57, doi. 10.1093/nar/gks1313

By:

McIsaac, R. Scott;
Oakes, Benjamin L.;
Wang, Xin;
Dummit, Krysta A.;
Botstein, David;
Noyes, Marcus B.

Publication type:

Article

RNA dimerization plays a role in ribosomal frameshifting of the SARS coronavirus.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2594, doi. 10.1093/nar/gks1361

By:

Ishimaru, Daniella;
Plant, Ewan P.;
Sims, Amy C.;
Yount, Boyd L.;
Roth, Braden M.;
Eldho, Nadukkudy V.;
Pérez-Alvarado, Gabriela C.;
Armbruster, David W.;
Baric, Ralph S.;
Dinman, Jonathan D.;
Taylor, Deborah R.;
Hennig, Mirko

Publication type:

Article

Mycobacterium fluoroquinolone resistance protein B, a novel small GTPase, is involved in the regulation of DNA gyrase and drug resistance.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2370, doi. 10.1093/nar/gks1351

By:

Tao, Jun;
Han, Jiao;
Wu, Hanyu;
Hu, Xinling;
Deng, Jiaoyu;
Fleming, Joy;
Maxwell, Anthony;
Bi, Lijun;
Mi, Kaixia

Publication type:

Article

A Myc–microRNA network promotes exit from quiescence by suppressing the interferon response and cell-cycle arrest genes.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2239, doi. 10.1093/nar/gks1452

By:

Polioudakis, Damon;
Bhinge, Akshay A.;
Killion, Patrick J.;
Lee, Bum-Kyu;
Abell, Nathan S.;
Iyer, Vishwanath R.

Publication type:

Article

Using defined finger–finger interfaces as units of assembly for constructing zinc-finger nucleases.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2455, doi. 10.1093/nar/gks1357

By:

Zhu, Cong;
Gupta, Ankit;
Hall, Victoria L.;
Rayla, Amy L.;
Christensen, Ryan G.;
Dake, Benjamin;
Lakshmanan, Abirami;
Kuperwasser, Charlotte;
Stormo, Gary D.;
Wolfe, Scot A.

Publication type:

Article

Octamer-dependent transcription in T cells is mediated by NFAT and NF-κB.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2138, doi. 10.1093/nar/gks1349

By:

Mueller, Kerstin;
Quandt, Jasmin;
Marienfeld, Ralf B.;
Weihrich, Petra;
Fiedler, Katja;
Claussnitzer, Melina;
Laumen, Helmut;
Vaeth, Martin;
Berberich-Siebelt, Friederike;
Serfling, Edgar;
Wirth, Thomas;
Brunner, Cornelia

Publication type:

Article

De novo design of a synthetic riboswitch that regulates transcription termination.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2541, doi. 10.1093/nar/gks1330

By:

Wachsmuth, Manja;
Findeiß, Sven;
Weissheimer, Nadine;
Stadler, Peter F.;
Mörl, Mario

Publication type:

Article

Structural and functional evidence that Rad4 competes with Rad2 for binding to the Tfb1 subunit of TFIIH in NER.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2736, doi. 10.1093/nar/gks1321

By:

Lafrance-Vanasse, Julien;
Arseneault, Geneviève;
Cappadocia, Laurent;
Legault, Pascale;
Omichinski, James G.

Publication type:

Article

p300-mediated acetylation of TRF2 is required for maintaining functional telomeres.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2267, doi. 10.1093/nar/gks1354

By:

Her, Yoon Ra;
Chung, In Kwon

Publication type:

Article

Competitive folding of anti-terminator/terminator hairpins monitored by single molecule FRET.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2632, doi. 10.1093/nar/gks1315

By:

Clerte, Caroline;
Declerck, Nathalie;
Margeat, Emmanuel

Publication type:

Article

TrueSight: a new algorithm for splice junction detection using RNA-seq.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. e51, doi. 10.1093/nar/gks1311

By:

Li, Yang;
Li-Byarlay, Hongmei;
Burns, Paul;
Borodovsky, Mark;
Robinson, Gene E.;
Ma, Jian

Publication type:

Article

Temporal sequence and cell cycle cues in the assembly of host factors at the yeast 2 micron plasmid partitioning locus.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2340, doi. 10.1093/nar/gks1338

By:

Ma, Chien-Hui;
Cui, Hong;
Hajra, Sujata;
Rowley, Paul A.;
Fekete, Christie;
Sarkeshik, Ali;
Ghosh, Santanu Kumar;
Yates, John R.;
Jayaram, Makkuni

Publication type:

Article

Unwinding of primer-templates by archaeal family-B DNA polymerases in response to template-strand uracil.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2466, doi. 10.1093/nar/gks1364

By:

Richardson, Tomas T.;
Wu, Xiaohua;
Keith, Brian J.;
Heslop, Pauline;
Jones, Anita C.;
Connolly, Bernard A.

Publication type:

Article

Tight intramolecular regulation of the human Upf1 helicase by its N- and C-terminal domains.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2404, doi. 10.1093/nar/gks1320

By:

Fiorini, Francesca;
Boudvillain, Marc;
Le Hir, Hervé

Publication type:

Article

Replication-independent nucleosome exchange is enhanced by local and specific acetylation of histone H4.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 4, p. 2228, doi. 10.1093/nar/gks1451

By:

Elliott, Giles O.;
Murphy, Kevin J.;
Hayes, Jeffrey J.;
Thiriet, Christophe

Publication type:

Article