Works matching IS 03051048 AND DT 2019 AND VI 47 AND IP 3

Results: 52

Super-enhancer-associated MEIS1 promotes transcriptional dysregulation in Ewing sarcoma in co-operation with EWS-FLI1.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1255, doi. 10.1093/nar/gky1207

By:

Lin, Lehang;
Huang, Moli;
Shi, Xianping;
Mayakonda, Anand;
Hu, Kaishun;
Jiang, Yan-Yi;
Guo, Xiao;
Chen, Li;
Pang, Brendan;
Doan, Ngan;
Said, Jonathan W;
Xie, Jianjun;
Gery, Sigal;
Cheng, Xu;
Lin, Zhaoyu;
Li, Jinsong;
Berman, Benjamin P;
Yin, Dong;
Lin, De-Chen;
Koeffler, H Phillip

Publication type:

Article

ultra-high affinity ligand of HIV-1 TAR reveals the RNA structure recognized by P-TEFb.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1523, doi. 10.1093/nar/gky1197

By:

Shortridge, Matthew D;
Wille, Paul T;
Jones, Alisha N;
Davidson, Amy;
Bogdanovic, Jasmina;
Arts, Eric;
Karn, Jonathan;
Robinson, John A;
Varani, Gabriele

Publication type:

Article

T5 exonuclease-dependent assembly offers a low-cost method for efficient cloning and site-directed mutagenesis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. e15, doi. 10.1093/nar/gky1169

By:

Xia, Yongzhen;
Li, Kai;
Li, Jingjing;
Wang, Tianqi;
Gu, Lichuan;
Xun, Luying

Publication type:

Article

Temporal enhancer profiling of parallel lineages identifies AHR and GLIS1 as regulators of mesenchymal multipotency.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1141, doi. 10.1093/nar/gky1240

By:

Gérard, Deborah;
Schmidt, Florian;
Ginolhac, Aurélien;
Schmitz, Martine;
Halder, Rashi;
Ebert, Peter;
Schulz, Marcel H;
Sauter, Thomas;
Sinkkonen, Lasse

Publication type:

Article

Synthetic switch to minimize CRISPR off-target effects by self-restricting Cas9 transcription and translation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. e13, doi. 10.1093/nar/gky1165

By:

Shen, Chih-Che;
Hsu, Mu-Nung;
Chang, Chin-Wei;
Lin, Mei-Wei;
Hwu, Jih-Ru;
Tu, Yi;
Hu, Yu-Chen

Publication type:

Article

Structure of a (3+1) hybrid G-quadruplex in the PARP1 promoter.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1564, doi. 10.1093/nar/gky1179

By:

Sengar, Anjali;
Vandana, J Jeya;
Chambers, Vicki S;
Di Antonio, Marco;
Winnerdy, Fernaldo Richtia;
Balasubramanian, Shankar;
Phan, Anh Tuân

Publication type:

Article

Structure and two-metal mechanism of fungal tRNA ligase.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1428, doi. 10.1093/nar/gky1275

By:

Banerjee, Ankan;
Ghosh, Shreya;
Goldgur, Yehuda;
Shuman, Stewart

Publication type:

Article

Structural insights into chromosome attachment to the nuclear envelope by an inner nuclear membrane protein Bqt4 in fission yeast.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1573, doi. 10.1093/nar/gky1186

By:

Hu, Chunyi;
Inoue, Haruna;
Sun, Wenqi;
Takeshita, Yumiko;
Huang, Yaoguang;
Xu, Ying;
Kanoh, Junko;
Chen, Yong

Publication type:

Article

Stress-inducible NHEJ in bacteria: function in DNA repair and acquisition of heterologous DNA.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1335, doi. 10.1093/nar/gky1212

By:

Dupuy, Pierre;
Sauviac, Laurent;
Bruand, Claude

Publication type:

Article

Stem-loops direct precise processing of 3′ UTR-derived small RNA MicL.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1482, doi. 10.1093/nar/gky1175

By:

Updegrove, Taylor B;
Kouse, Andrew B;
Bandyra, Katarzyna J;
Storz, Gisela

Publication type:

Article

Start-Stop Assembly: a functionally scarless DNA assembly system optimized for metabolic engineering.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. e17, doi. 10.1093/nar/gky1182

By:

Taylor, George M;
Mordaka, Paweł M;
Heap, John T

Publication type:

Article

SMYD3 promotes the epithelial–mesenchymal transition in breast cancer.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1278, doi. 10.1093/nar/gky1221

By:

Fenizia, Claudio;
Bottino, Cinzia;
Corbetta, Silvia;
Fittipaldi, Raffaella;
Floris, Pamela;
Gaudenzi, Germano;
Carra, Silvia;
Cotelli, Franco;
Vitale, Giovanni;
Caretti, Giuseppina

Publication type:

Article

Single-nucleotide-resolution mapping of DNA gyrase cleavage sites across the Escherichia coli genome.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1373, doi. 10.1093/nar/gky1222

By:

Sutormin, Dmitry;
Rubanova, Natalia;
Logacheva, Maria;
Ghilarov, Dmitry;
Severinov, Konstantin

Publication type:

Article

scFTD-seq: freeze-thaw lysis based, portable approach toward highly distributed single-cell 3′ mRNA profiling.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. e16, doi. 10.1093/nar/gky1173

By:

Dura, Burak;
Choi, Jin-Young;
Zhang, Kerou;
Damsky, William;
Thakral, Durga;
Bosenberg, Marcus;
Craft, Joe;
Fan, Rong

Publication type:

Article

RNA–DNA fibers and polygons with controlled immunorecognition activate RNAi, FRET and transcriptional regulation of NF-κB in human cells.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1350, doi. 10.1093/nar/gky1215

By:

Ke, Weina;
Hong, Enping;
Saito, Renata F;
Rangel, Maria Cristina;
Wang, Jian;
Viard, Mathias;
Richardson, Melina;
Khisamutdinov, Emil F;
Panigaj, Martin;
Dokholyan, Nikolay V;
Chammas, Roger;
Dobrovolskaia, Marina A;
Afonin, Kirill A

Publication type:

Article

Ribosomal ambiguity (ram) mutations promote the open (off) to closed (on) transition and thereby increase miscoding.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1557, doi. 10.1093/nar/gky1178

By:

Hoffer, Eric D;
Maehigashi, Tatsuya;
Fredrick, Kurt;
Dunham, Christine M

Publication type:

Article

Prediction of developmental chemical toxicity based on gene networks of human embryonic stem cells.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1600, doi. 10.1093/nar/gky1285

By:

Yamane, Junko;
Aburatani, Sachiyo;
Imanishi, Satoshi;
Akanuma, Hiromi;
Nagano, Reiko;
Kato, Tsuyoshi;
Sone, Hideko;
Ohsako, Seiichiroh;
Fujibuchi, Wataru

Publication type:

Article

Post-mitotic BET-induced reshaping of integrase quaternary structure supports wild-type MLV integration.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1195, doi. 10.1093/nar/gky1157

By:

Borrenberghs, Doortje;
Zurnic, Irena;
De Wit, Flore;
Acke, Aline;
Dirix, Lieve;
Cereseto, Anna;
Debyser, Zeger;
Hendrix, Jelle

Publication type:

Article

Plasmid-based gap-repair recombineered transgenes reveal a central role for introns in mutually exclusive alternative splicing in Down Syndrome Cell Adhesion Molecule exon 4.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1389, doi. 10.1093/nar/gky1254

By:

Haussmann, Irmgard U;
Ustaoglu, Pinar;
Brauer, Ulrike;
Hemani, Yash;
Dix, Thomas C;
Soller, Matthias

Publication type:

Article

Perturbing cohesin dynamics drives MRE11 nuclease-dependent replication fork slowing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1294, doi. 10.1093/nar/gky519

By:

Carvajal-Maldonado, Denisse;
Byrum, Andrea K;
Jackson, Jessica;
Wessel, Sarah;
Lemaçon, Delphine;
Guitton-Sert, Laure;
Quinet, Annabel;
Tirman, Stephanie;
Graziano, Simona;
Masson, Jean-Yves;
Cortez, David;
Gonzalo, Susana;
Mosammaparast, Nima;
Vindigni, Alessandro

Publication type:

Article

Pan-cancer transcriptomic analysis dissects immune and proliferative functions of APOBEC3 cytidine deaminases.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1178, doi. 10.1093/nar/gky1316

By:

Ng, Joseph C F;
Quist, Jelmar;
Grigoriadis, Anita;
Malim, Michael H;
Fraternali, Franca

Publication type:

Article

Non-canonical translation initiation of the spliced mRNA encoding the human T-cell leukemia virus type 1 basic leucine zipper protein.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1599, doi. 10.1093/nar/gky1249

By:

Cáceres, C Joaquín;
Angulo, Jenniffer;
Lowy, Fernando;
Contreras, Nataly;
Walters, Beth;
Olivares, Eduardo;
Allouche, Delphine;
Merviel, Anne;
Pino, Karla;
Sargueil, Bruno;
Thompson, Sunnie R;
López-Lastra, Marcelo

Publication type:

Article

NMR solution structure of an asymmetric intermolecular leaped V-shape G-quadruplex: selective recognition of the d(G2NG3NG4) sequence motif by a short linear G-rich DNA probe.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1544, doi. 10.1093/nar/gky1167

By:

Wan, Chanjuan;
Fu, Wenqiang;
Jing, Haitao;
Zhang, Na

Publication type:

Article

N 6 -Hydroxymethyladenine: a hydroxylation derivative of N 6 -methyladenine in genomic DNA of mammals.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1268, doi. 10.1093/nar/gky1218

By:

Xiong, Jun;
Ye, Tian-Tian;
Ma, Cheng-Jie;
Cheng, Qing-Yun;
Yuan, Bi-Feng;
Feng, Yu-Qi

Publication type:

Article

Mobilization of Pack-CACTA transposons in Arabidopsis suggests the mechanism of gene shuffling.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1311, doi. 10.1093/nar/gky1196

By:

Catoni, Marco;
Jonesman, Thomas;
Cerruti, Elisa;
Paszkowski, Jerzy

Publication type:

Article

Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1602, doi. 10.1093/nar/gkz013

By:

Davis-Turak, Jeremy;
Johnson, Tracy L;
Hoffmann, Alexander

Publication type:

Article

LncRNA Meg3 protects endothelial function by regulating the DNA damage response.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1505, doi. 10.1093/nar/gky1190

By:

Shihabudeen Haider Ali, Mohamed Sham;
Cheng, Xiao;
Moran, Matthew;
Haemmig, Stefan;
Naldrett, Michael J;
Alvarez, Sophie;
Feinberg, Mark W;
Sun, Xinghui

Publication type:

Article

Leishmania PABP1–eIF4E4 interface: a novel 5′–3′ interaction architecture for trans-spliced mRNAs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1493, doi. 10.1093/nar/gky1187

By:

dos Santos Rodrigues, Fabio Henrique;
Firczuk, Helena;
Breeze, Alexander L;
Cameron, Alexander D;
Walko, Martin;
Wilson, Andrew J;
Zanchin, Nilson I T;
McCarthy, John E G

Publication type:

Article

Hydrophobicity drives the systemic distribution of lipid-conjugated siRNAs via lipid transport pathways.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1070, doi. 10.1093/nar/gky1232

By:

Osborn, Maire F;
Coles, Andrew H;
Biscans, Annabelle;
Haraszti, Reka A;
Roux, Loic;
Davis, Sarah;
Ly, Socheata;
Echeverria, Dimas;
Hassler, Matthew R;
Godinho, Bruno M D C;
Nikan, Mehran;
Khvorova, Anastasia

Publication type:

Article

Human DNA ligase IV is able to use NAD + as an alternative adenylation donor for DNA ends ligation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1321, doi. 10.1093/nar/gky1202

By:

Chen, Shih-Hsun;
Yu, Xiaochun

Publication type:

Article

How methyl–sugar interactions determine DNA structure and flexibility.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1132, doi. 10.1093/nar/gky1237

By:

Liebl, Korbinian;
Zacharias, Martin

Publication type:

Article

Genome-wide mapping of Topoisomerase I activity sites reveal its role in chromosome segregation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1416, doi. 10.1093/nar/gky1271

By:

Rani, Phoolwanti;
Nagaraja, Valakunja

Publication type:

Article

Finely tuned conformational dynamics regulate the protective function of the lncRNA MALAT1 triple helix.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1468, doi. 10.1093/nar/gky1171

By:

Ageeli, Abeer A;
McGovern-Gooch, Kayleigh R;
Kaminska, Magdalena M;
Baird, Nathan J

Publication type:

Article

ExtRamp: a novel algorithm for extracting the ramp sequence based on the tRNA adaptation index or relative codon adaptiveness.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1123, doi. 10.1093/nar/gky1193

By:

Miller, Justin B;
Brase, Logan R;
Ridge, Perry G

Publication type:

Article

Evidence that a catalytic glutamate and an 'Arginine Toggle' act in concert to mediate ATP hydrolysis and mechanochemical coupling in a viral DNA packaging motor.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1404, doi. 10.1093/nar/gky1217

By:

Ortiz, David;
delToro, Damian;
Ordyan, Mariam;
Pajak, Joshua;
Sippy, Jean;
Catala, Alexis;
Oh, Choon-Seok;
Vu, Amber;
Arya, Gaurav;
Feiss, Michael;
Smith, Douglas E;
Catalano, Carlos E

Publication type:

Article

ERASE: a novel surface reconditioning strategy for single-molecule experiments.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. e14, doi. 10.1093/nar/gky1168

By:

Broadwater, D W Bo;
Altman, Roger B;
Blanchard, Scott C;
Kim, Harold D

Publication type:

Article

effect of macromolecular crowding on single-round transcription by Escherichia coli RNA polymerase.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1440, doi. 10.1093/nar/gky1277

By:

Chung, SangYoon;
Lerner, Eitan;
Jin, Yan;
Kim, Soohong;
Alhadid, Yazan;
Grimaud, Logan Wilson;
Zhang, Irina X;
Knobler, Charles M;
Gelbart, William M;
Weiss, Shimon

Publication type:

Article

Diverse lipid conjugates for functional extra-hepatic siRNA delivery in vivo.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1082, doi. 10.1093/nar/gky1239

By:

Biscans, Annabelle;
Coles, Andrew;
Haraszti, Reka;
Echeverria, Dimas;
Hassler, Matthew;
Osborn, Maire;
Khvorova, Anastasia

Publication type:

Article

Distributive enzyme binding controlled by local RNA context results in 3′ to 5′ directional processing of dicistronic tRNA precursors by Escherichia coli ribonuclease P.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1451, doi. 10.1093/nar/gky1162

By:

Zhao, Jing;
Harris, Michael E

Publication type:

Article

Direct interaction between the PRDM3 and PRDM16 tumor suppressors and the NuRD chromatin remodeling complex.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1225, doi. 10.1093/nar/gky1192

By:

Ivanochko, Danton;
Halabelian, Levon;
Henderson, Elizabeth;
Savitsky, Pavel;
Jain, Harshika;
Marcon, Edyta;
Duan, Shili;
Hutchinson, Ashley;
Seitova, Alma;
Barsyte-Lovejoy, Dalia;
Filippakopoulos, Panagis;
Greenblatt, Jack;
Lima-Fernandes, Evelyne;
Arrowsmith, Cheryl H

Publication type:

Article

Developmental Xist induction is mediated by enhanced splicing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1532, doi. 10.1093/nar/gky1198

By:

Stork, Cheryl;
Li, Zhelin;
Lin, Lin;
Zheng, Sika

Publication type:

Article

Deep repeat resolution—the assembly of the Drosophila Histone Complex.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. e18, doi. 10.1093/nar/gky1194

By:

Bongartz, Philipp;
Schloissnig, Siegfried

Publication type:

Article

CstF-64 and 3′-UTR cis-element determine Star-PAP specificity for target mRNA selection by excluding PAPα.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1598, doi. 10.1093/nar/gky1248

By:

Kandala, Divya T;
Mohan, Nimmy;
A, Vivekanand;
AP, Sudheesh;
G, Reshmi;
Laishram, Rakesh S

Publication type:

Article

Conservation of location of several specific inhibitory codon pairs in the Saccharomyces sensu stricto yeasts reveals translational selection.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1164, doi. 10.1093/nar/gky1262

By:

Ghoneim, Dalia H;
Zhang, Xiaoju;
Brule, Christina E;
Mathews, David H;
Grayhack, Elizabeth J

Publication type:

Article

Coarse-grained modelling of the structural properties of DNA origami.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1585, doi. 10.1093/nar/gky1304

By:

Snodin, Benedict E K;
Schreck, John S;
Romano, Flavio;
Louis, Ard A;
Doye, Jonathan P K

Publication type:

Article

Characterizing the nuclease accessibility of DNA in human cells to map higher order structures of chromatin.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1239, doi. 10.1093/nar/gky1203

By:

Schwartz, Uwe;
Németh, Attila;
Diermeier, Sarah;
Exler, Josef H;
Hansch, Stefan;
Maldonado, Rodrigo;
Heizinger, Leonhard;
Merkl, Rainer;
Längst, Gernot

Publication type:

Article

Characterization of the interactions of chemically-modified therapeutic nucleic acids with plasma proteins using a fluorescence polarization assay.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1110, doi. 10.1093/nar/gky1260

By:

Gaus, Hans J;
Gupta, Ruchi;
Chappell, Alfred E;
Østergaard, Michael E;
Swayze, Eric E;
Seth, Punit P

Publication type:

Article

Centromeric and ectopic assembly of CENP-A chromatin in health and cancer: old marks and new tracks.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1051, doi. 10.1093/nar/gky1298

By:

Sharma, Abhishek Bharadwaj;
Dimitrov, Stefan;
Hamiche, Ali;
Van Dyck, Eric

Publication type:

Article

autoregulatory loop controlling orphan nuclear receptor DAX-1 gene expression by orphan nuclear receptor ERRγ.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1604, doi. 10.1093/nar/gky1272

By:

Park, Yun-Yong;
Ahn, Seung-Won;
Kim, Hye-Jin;
Kim, Jin-Man;
Lee, In-Kyu;
Kang, Heonjoong;
Choi, Hueng-Sik

Publication type:

Article

Allosteric DNAzyme-based DNA logic circuit: operations and dynamic analysis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 3, p. 1097, doi. 10.1093/nar/gky1245

By:

Zheng, Xuedong;
Yang, Jing;
Zhou, Changjun;
Zhang, Cheng;
Zhang, Qiang;
Wei, Xiaopeng

Publication type:

Article