Works matching IS 03051048 AND DT 2015 AND VI 43 AND IP 2

Results: 61

Transcriptional inhibition and mutagenesis induced by N-nitroso compound-derived carboxymethylated thymidine adducts in DNA.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1012, doi. 10.1093/nar/gku1391

By:

Changjun You;
Jianshuang Wang;
Xiaoxia Dai;
Yinsheng Wang

Publication type:

Article

RNA helicase A activity is inhibited by oncogenic transcription factor EWS-FLI1.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1069, doi. 10.1093/nar/gku1328

By:

Erkizan, Hayriye Verda;
Schneider, Jeffrey A.;
Sajwan, Kamal;
Graham, Garrett T.;
Griffin, Brittany;
Chasovskikh, Sergey;
Youbi, Sarah E.;
Kallarakal, Abraham;
Chruszcz, Maksymilian;
Padmanabhan, Radhakrishnan;
Casey, John L.;
Üren, Aykut;
Toretsky, Jeffrey A.

Publication type:

Article

A structural determinant in the uracil DNA glycosylase superfamily for the removal of uracil from adenine/uracil base pairs.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1081, doi. 10.1093/nar/gku1332

By:

Dong-Hoon Lee;
Yinling Liu;
Hyun-Wook Lee;
Bo Xia;
Brice, Allyn R.;
Park, Sung-Hyun;
Balduf, Hunter;
Dominy, Brian N.;
Weiguo Cao

Publication type:

Article

Inter-individual variability contrasts with regional homogeneity in the human brain DNA methylome.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 732, doi. 10.1093/nar/gku1305

By:

Illingworth, Robert S.;
Gruenewald-Schneider, Ulrike;
De Sousa, Dina;
Webb, Shaun;
Merusi, Cara;
Kerr, Alastair R. W.;
James, Keith D.;
Smith, Colin;
Walker, Robert;
Andrews, Robert;
Bird, Adrian P.

Publication type:

Article

Transcriptional regulator-mediated activation of adaptation genes triggers CRISPR de novo spacer acquisition.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1044, doi. 10.1093/nar/gku1383

By:

Tao Liu;
Yingjun Li;
Xiaodi Wang;
Qing Ye;
Huan Li;
Yunxiang Liang;
Qunxin She;
Nan Peng

Publication type:

Article

Recognition of duplex RNA by the deaminase domain of the RNA editing enzyme ADAR2.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1123, doi. 10.1093/nar/gku1345

By:

Phelps, Kelly J.;
Tran, Kiet;
Eifler, Tristan;
Erickson, Anna I.;
Fisher, Andrew J.;
Beal, Peter A.

Publication type:

Article

Escherichia coli antitoxin MazE as transcription factor: insights into MazE-DNA binding.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1241, doi. 10.1093/nar/gku1352

By:

Zorzini, Valentina;
Buts, Lieven;
Schrank, Evelyne;
Sterckx, Yann G. J.;
Respondek, Michal;
Engelberg-Kulka, Hanna;
Loris, Remy;
Zangger, Klaus;
van Nuland, Nico A. J.

Publication type:

Article

Specific and non-specific interactions of ParB with DNA: implications for chromosome segregation.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 719, doi. 10.1093/nar/gku1295

By:

Taylor, James A.;
Pastrana, Cesar L.;
Butterer, Annika;
Pernstich, Christian;
Gwynn, Emma J.;
Sobott, Frank;
Moreno-Herrero, Fernando;
Dillingham, Mark S.

Publication type:

Article

A composite enhancer regulates p63 gene expression in epidermal morphogenesis and in keratinocyte differentiation by multiple mechanisms.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 862, doi. 10.1093/nar/gku1396

By:

Antonini, Dario;
Sirico, Anna;
Aberdam, Edith;
Ambrosio, Raffaele;
Campanile, Carmen;
Fagoonee, Sharmila;
Altruda, Fiorella;
Aberdam, Daniel;
Brissette, Janice L.;
Missero, Caterina

Publication type:

Article

DNA binding by FOXP3 domain-swapped dimer suggests mechanisms of long-range chromosomal interactions.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1268, doi. 10.1093/nar/gku1373

By:

Yongheng Chen;
Chunxia Chen;
Zhe Zhang;
Chun-Chi Liu;
Johnson, Matthew E.;
Espinoza, Celso A.;
Edsall, Lee E.;
Bing Ren;
Xianghong Jasmine Zhou;
Grant, Struan F.A.;
Wells, Andrew D.;
Lin Chen

Publication type:

Article

Recognition and cleavage of 5-methylcytosine DNA by bacterial SRA-HNH proteins.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1147, doi. 10.1093/nar/gku1376

By:

Tiesheng Han;
Yamada-Mabuchi, Megumu;
Gong Zhao;
Li Li;
Guang liu;
Hong-Yu Ou;
Zixin Deng;
Yu Zheng;
Xinyi He

Publication type:

Article

REV7 is essential for DNA damage tolerance via two REV3L binding sites in mammalian DNA polymerase ζ.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1000, doi. 10.1093/nar/gku1385

By:

Junya Tomida;
Kei-ichi Takata;
Lange, Sabine S.;
Schibler, Andria C.;
Yousefzadeh, Matthew J.;
Bhetawal, Sarita;
Dent, Sharon Y. R.;
Wood, Richard D.

Publication type:

Article

Bcl2 inhibits recruitment of Mre11 complex to DNA double-strand breaks in response to high-linear energy transfer radiation.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 960, doi. 10.1093/nar/gku1358

By:

Maohua Xie;
Dongkyoo Park;
Shuo You;
Rui Li;
Owonikoko, Taofeek K.;
Ya Wang;
Doetsch, Paul W.;
Xingming Deng

Publication type:

Article

Structural insight into operator dre-sites recognition and effector binding in the GntR/HutC transcription regulator NagR.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1283, doi. 10.1093/nar/gku1374

By:

Fillenberg, Simon B.;
Grau, Florian C.;
Seidel, Gerald;
Muller, Yves A.

Publication type:

Article

Global coordination in adaptation to gene rewiring.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1304, doi. 10.1093/nar/gku1366

By:

Yoshie Murakami;
Yuki Matsumoto;
Saburo Tsuru;
Bei-Wen Ying;
Tetsuya Yomo

Publication type:

Article

A modular system of DNA enhancer elements mediates tissue-specific activation of transcription by high dietary zinc in C. elegans.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 803, doi. 10.1093/nar/gku1360

By:

Roh, Hyun Cheol;
Dimitrov, Ivan;
Deshmukh, Krupa;
Guoyan Zhao;
Warnhoff, Kurt;
Cabrera, Daniel;
Tsai, Wendy;
Kornfeld, Kerry

Publication type:

Article

Switching between polymerase and exonuclease sites in DNA polymerase ε.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 932, doi. 10.1093/nar/gku1353

By:

Ganai, Rais A.;
Bylund, Göran O.;
Johansson, Erik

Publication type:

Article

Absolute binding-free energies between standard RNA/DNA nucleobases and amino-acid sidechain analogs in different environments.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 708, doi. 10.1093/nar/gku1344

By:

de Ruiter, Anita;
Zagrovic, Bojan

Publication type:

Article

The architecture of the 12RSS in V(D)J recombination signal and synaptic complexes.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 917, doi. 10.1093/nar/gku1348

By:

Ciubotaru, Mihai;
Surleac, Marius D.;
Metskas, Lauren Ann;
Koo, Peter;
Rhoades, Elizabeth;
Petrescu, Andrei J.;
Schatz, David G.

Publication type:

Article

SUMO ligase PIAS1 functions as a target gene selective androgen receptor coregulator on prostate cancer cell chromatin.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 848, doi. 10.1093/nar/gku1375

By:

Toropainen, Sari;
Malinen, Marjo;
Kaikkonen, Sanna;
Rytinki, Miia;
Jääskeläinen, Tiina;
Sahu, Biswajyoti;
Jänne, Olli A.;
Palvimo, Jorma J.

Publication type:

Article

Five checkpoints maintaining the fidelity of transcription by RNA polymerases in structural and energetic details.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1133, doi. 10.1093/nar/gku1370

By:

Beibei Wang;
Opron, Kristopher;
Burton, Zachary F.;
Cukier, Robert I.;
Feig, Michael

Publication type:

Article

Systematic evaluation of antibody-mediated siRNA delivery using an industrial platform of THIOMAB–siRNA conjugates.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1189, doi. 10.1093/nar/gku1362

By:

Cuellar, Trinna L.;
Barnes, Dwight;
Nelson, Christopher;
Tanguay, Joshua;
Shang-Fan Yu;
Xiaohui Wen;
Scales, Suzie J.;
Gesch, Julie;
Davis, David;
van Brabant Smith, Anja;
Leake, Devin;
Vandlen, Richard;
Siebel, Christian W.

Publication type:

Article

A naturally occurring 4-bp deletion in the intron 4 of p53 creates a spectrum of novel p53 isoforms with anti-apoptosis function.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1035, doi. 10.1093/nar/gku1359

By:

Hui Shi;
Ting Tao;
Delai Huang;
Zhao Ou;
Jun Chen;
Jinrong Peng

Publication type:

Article

Identification of the endosomal sorting complex required for transport-I (ESCRT-I) as an important modulator of anti-miR uptake by cancer cells.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1204, doi. 10.1093/nar/gku1367

By:

Wagenaar, Timothy R.;
Tolstykh, Tatiana;
Chaomei Shi;
Lan Jiang;
JingXin Zhang;
Zhifang Li;
Qunyan Yu;
Hui Qu;
Fangxian Sun;
Hui Cao;
Pollard, Jack;
Shujia Dai;
Qiang Gao;
Bailin Zhang;
Arlt, Heike;
Cindhuchao, May;
Hoffmann, Dietmar;
Light, Madelyn;
Jensen, Karin;
Hopke, Joern

Publication type:

Article

Structural basis of DNA recognition by PCG2 reveals a novel DNA binding mode for winged helix-turn-helix domains.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1231, doi. 10.1093/nar/gku1351

By:

Junfeng Liu;
Jinguang Huang;
Yanxiang Zhao;
Huaian Liu;
Dawei Wang;
Jun Yang;
Wensheng Zhao;
Taylor, Ian A.;
You-Liang Peng

Publication type:

Article

Modified ribosome profiling reveals high abundance of ribosome protected mRNA fragments derived from 3′ untranslated regions.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1019, doi. 10.1093/nar/gku1310

By:

Miettinen, Teemu P.;
Björklund, Mikael

Publication type:

Article

RNA structure generates natural cooperativity between single-stranded RNA binding proteins targeting 5′ and 3′UTRs.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1160, doi. 10.1093/nar/gku1320

By:

Yi-Hsuan Lin;
Bundschuh, Ralf

Publication type:

Article

Molecular crowding overcomes the destabilizing effects of mutations in a bacterial ribozyme.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1170, doi. 10.1093/nar/gku1335

By:

Hui-Ting Lee;
Kilburn, Duncan;
Behrouzi, Reza;
Briber, Robert M.;
Woodson, Sarah A.

Publication type:

Article

Creating a monomeric endonuclease TALE-I-SceI with high specificity and low genotoxicity in human cells.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1112, doi. 10.1093/nar/gku1339

By:

Jianfei Lin;
He Chen;
Ling Luo;
Yongrong Lai;
Wei Xie;
Kehkooi Kee

Publication type:

Article

Cmr4 is the slicer in the RNA-targeting Cmr CRISPR complex.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1257, doi. 10.1093/nar/gku1355

By:

Xing Zhu;
Keqiong Ye

Publication type:

Article

Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 699, doi. 10.1093/nar/gku1338

By:

Davis-Turak, Jeremy C.;
Allison, Karmel;
Shokhirev, Maxim N.;
Ponomarenko, Petr;
Tsimring, Lev S.;
Glass, Christopher K.;
Johnson, Tracy L.;
Hoffmann, Alexander

Publication type:

Article

Regulation of the transcriptional program by DNA methylation during human αβ T-cell development.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 760, doi. 10.1093/nar/gku1340

By:

Rodriguez, Ramon M.;
Suarez-Alvarez, Beatriz;
Mosén-Ansorena, David;
García-Peydró, Marina;
Fuentes, Patricia;
García-León, María J.;
Gonzalez-Lahera, Aintzane;
Macias-Camara, Nuria;
Toribio, María L.;
Aransay, Ana M.;
Lopez-Larrea, Carlos

Publication type:

Article

Mechanism of RecQ helicase mechanoenzymatic coupling reveals that the DNA interactions of the ADP-bound enzyme control translocation run terminations.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1090, doi. 10.1093/nar/gku1333

By:

Sarlós, Kata;
Gyimesi, Máté;
Kele, Zoltán;
Kovács, Mihály

Publication type:

Article

Sequence-dependent off-target inhibition of TLR7/8 sensing by synthetic microRNA inhibitors.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1177, doi. 10.1093/nar/gku1343

By:

Sarvestani, Soroush T.;
Stunden, H. James;
Behlke, Mark A.;
Forster, Samuel C.;
McCoy, Claire E.;
Tate, Michelle D.;
Ferrand, Jonathan;
Lennox, Kim A.;
Latz, Eicke;
Williams, Bryan R. G.;
Gantier, Michael P.

Publication type:

Article

Tumor-associated mutations in a conserved structural motif alter physical and biochemical properties of human RAD51 recombinase.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1098, doi. 10.1093/nar/gku1337

By:

Jianhong Chen;
Morrical, Milagros D.;
Donigan, Katherine A.;
Weidhaas, Joanne B.;
Sweasy, Joann B.;
Averill, April M.;
Tomczak, Jennifer A.;
Morrical, Scott W.

Publication type:

Article

High-resolution HDX-MS reveals distinct mechanisms of RNA recognition and activation by RIG-I and MDA5.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1216, doi. 10.1093/nar/gku1329

By:

Jie Zheng;
Hui Yee Yong;
Panutdaporn, Nantika;
Chuanfa Liu;
Kai Tang;
Dahai Luo

Publication type:

Article

The prion protein is critical for DNA repair and cell survival after genotoxic stress.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 904, doi. 10.1093/nar/gku1342

By:

Bravard, Anne;
Auvré, Frédéric;
Fantini, Damiano;
Bernardino-Sgherri, Jacqueline;
Sissoëff, Ludmilla;
Daynac, Mathieu;
Zhou Xu;
Etienne, Olivier;
Dehen, Capucine;
Comoy, Emmanuel;
Boussin, François D.;
Tell, Gianluca;
Deslys, Jean-Philippe;
Radicella, J. Pablo

Publication type:

Article

Annotating RNA motifs in sequences and alignments.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 691, doi. 10.1093/nar/gku1327

By:

Gardner, Paul P.;
Eldai, Hisham

Publication type:

Article

CRISPR-based self-cleaving mechanism for controllable gene delivery in human cells.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1297, doi. 10.1093/nar/gku1326

By:

Moore, Richard;
Spinhirne, Alec;
Lai, Michael J.;
Preisser, Samantha;
Yi Li;
Taek Kang;
Bleris, Leonidas

Publication type:

Article

Exploiting post-transcriptional regulation to probe RNA structures in vivo via fluorescence.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1191

By:

Sowa, Steven W.;
Vazquez-Anderson, Jorge;
Clark, Chelsea A.;
De La Peña, Ricardo;
Dunn, Kaitlin;
Fung, Emily K.;
Khoury, Mark J.;
Contreras, Lydia M.

Publication type:

Article

Direct observation of mobility state transitions in RNA trajectories by sensitive single molecule feedback tracking.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1194

By:

Spille, Jan-Hendrik;
Kaminski, Tim P.;
Scherer, Katharina;
Rinne, Jennifer S.;
Heckel, Alexander;
Kubitscheck, Ulrich

Publication type:

Article

Reference-free detection of isolated SNPs.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1187

By:

Uricaru, Raluca;
Rizk, Guillaume;
Lacroix, Vincent;
Quillery, Elsa;
Plantard, Olivier;
Chikhi, Rayan;
Lemaitre, Claire;
Peterlongo, Pierre

Publication type:

Article

New insights into the QuikChangeTM process guide the use of Phusion DNA polymerase for site-directed mutagenesis.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1189

By:

Yongzhen Xia;
Wenqiao Chu;
Qingsheng Qi;
Luying Xun

Publication type:

Article

Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1094

By:

Betts, Matthew J.;
Qianhao Lu;
Ying Ying Jiang;
Drusko, Armin;
Wichmann, Oliver;
Utz, Mathias;
Valtierra-Gutiérrez, Ilse A.;
Schlesner, Matthias;
Jaeger, Natalie;
Jones, David T.;
Pfister, Stefan;
Lichter, Peter;
Eils, Roland;
Siebert, Reiner;
Bork, Peer;
Apic, Gordana;
Gavin, Anne-Claude;
Russell, Robert B.

Publication type:

Article

Short loop-targeting oligoribonucleotides antagonize Lin28 and enable pre-let-7 processing and suppression of cell growth in let-7-deficient cancer cells.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1090

By:

Roos, Martina;
Rebhan, Mario A. E.;
Lucic, Matije;
Pavlicek, David;
Pradere, Ugo;
Towbin, Harry;
Civenni, Gianluca;
Catapano, Carlo V.;
Hall, Jonathan

Publication type:

Article

Epidaurus: aggregation and integration analysis of prostate cancer epigenome.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 1, doi. 10.1093/nar/gku1079

By:

Liguo Wang;
Haojie Huang;
Dougherty, Gregory;
Yu Zhao;
Hossain, Asif;
Kocher, Jean-Pierre A.

Publication type:

Article

Revealing the amino acid composition of proteins within an expanded genetic code.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. e8, doi. 10.1093/nar/gku1087

By:

Aerni, Hans R.;
Shifman, Mark A.;
Rogulina, Svetlana;
O'Donoghue, Patrick;
Rinehart, Jesse

Publication type:

Article

Chromatin-dependent regulation of RNA polymerases II and III activity throughout the transcription cycle.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 787, doi. 10.1093/nar/gku1349

By:

Jordán-Pla, Antonio;
Gupta, Ishaan;
de Miguel-Jiménez, Lola;
Steinmetz, Lars M.;
Chávez, Sebastián;
Pelechano, Vicent;
Pérez-Ortín, José E.

Publication type:

Article

RECQL5 and BLM exhibit divergent functions in cells defective for the Fanconi anemia pathway.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 2, p. 893, doi. 10.1093/nar/gku1334

By:

Kim, Tae Moon;
Son, Mi Young;
Dodds, Sherry;
Hu, Lingchuan;
Luo, Guangbin;
Hasty, Paul

Publication type:

Article

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Published in:: Nucleic Acids Research, 2015, v. 43, n. 2, p. iii, doi. 10.1093/nar/gkv065
Publication type:: Article