Works matching IS 03051048 AND DT 2019 AND VI 47 AND IP 2

Results: 46

DNA mapping and kinetic modeling of the HrdB regulon in Streptomyces coelicolor.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 621, doi. 10.1093/nar/gky1018

By:

Šmídová, Klára;
Ziková, Alice;
Pospíšil, Jiří;
Schwarz, Marek;
Bobek, Jan;
Vohradsky, Jiri

Publication type:

Article

Degenerate minigene library analysis enables identification of altered branch point utilization by mutant splicing factor 3B1 (SF3B1).

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 970, doi. 10.1093/nar/gky1161

By:

Gupta, Abhishek K;
Murthy, Tushar;
Paul, Kiran V;
Ramirez, Oscar;
Fisher, Joseph B;
Rao, Sridhar;
Rosenberg, Alexander B;
Seelig, Georg;
Minella, Alex C;
Pillai, Manoj M

Publication type:

Article

Deciphering human ribonucleoprotein regulatory networks.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 570, doi. 10.1093/nar/gky1185

By:

Mukherjee, Neelanjan;
Wessels, Hans-Hermann;
Lebedeva, Svetlana;
Sajek, Marcin;
Ghanbari, Mahsa;
Garzia, Aitor;
Munteanu, Alina;
Yusuf, Dilmurat;
Farazi, Thalia;
Hoell, Jessica I;
Akat, Kemal M;
Akalin, Altuna;
Tuschl, Thomas;
Ohler, Uwe

Publication type:

Article

Classifying cells with Scasat, a single-cell ATAC-seq analysis tool.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. e10, doi. 10.1093/nar/gky950

By:

Baker, Syed Murtuza;
Rogerson, Connor;
Hayes, Andrew;
Sharrocks, Andrew D;
Rattray, Magnus

Publication type:

Article

BiFET: sequencing Bi as-free transcription factor F ootprint E nrichment T est.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. e11, doi. 10.1093/nar/gky1117

By:

Youn, Ahrim;
Marquez, Eladio J;
Lawlor, Nathan;
Stitzel, Michael L;
Ucar, Duygu

Publication type:

Article

Unique mechanism of target recognition by PfoI restriction endonuclease of the CCGG-family.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 997, doi. 10.1093/nar/gky1137

By:

Tamulaitiene, Giedre;
Manakova, Elena;
Jovaisaite, Virginija;
Tamulaitis, Gintautas;
Grazulis, Saulius;
Bochtler, Matthias;
Siksnys, Virginijus

Publication type:

Article

Temporospatial guidance of activity-dependent gene expression by microRNA: mechanisms and functional implications for neural plasticity.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 533, doi. 10.1093/nar/gky1235

By:

Kiltschewskij, Dylan;
Cairns, Murray J

Publication type:

Article

Systematic domain-based aggregation of protein structures highlights DNA-, RNA- and other ligand-binding positions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 582, doi. 10.1093/nar/gky1224

By:

Kobren, Shilpa Nadimpalli;
Singh, Mona

Publication type:

Article

Structural basis for acceptor RNA substrate selectivity of the 3′ terminal uridylyl transferase Tailor.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 1030, doi. 10.1093/nar/gky1164

By:

Kroupova, Alena;
Ivaşcu, Anastasia;
Reimão-Pinto, Madalena M;
Ameres, Stefan L;
Jinek, Martin

Publication type:

Article

Stoichiometry of triple-sieve tRNA editing complex ensures fidelity of aminoacyl-tRNA formation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 929, doi. 10.1093/nar/gky1153

By:

Chen, Lin;
Tanimoto, Akiko;
So, Byung Ran;
Bakhtina, Marina;
Magliery, Thomas J;
Wysocki, Vicki H;
Musier-Forsyth, Karin

Publication type:

Article

Splicing of long non-coding RNAs primarily depends on polypyrimidine tract and 5′ splice-site sequences due to weak interactions with SR proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 911, doi. 10.1093/nar/gky1147

By:

Krchňáková, Zuzana;
Thakur, Prasoon Kumar;
Krausová, Michaela;
Bieberstein, Nicole;
Haberman, Nejc;
Müller-McNicoll, Michaela;
Staněk, David

Publication type:

Article

RNF8 mediates NONO degradation following UV-induced DNA damage to properly terminate ATR-CHK1 checkpoint signaling.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 762, doi. 10.1093/nar/gky1166

By:

Deshar, Rakesh;
Yoo, Wonjin;
Cho, Eun-Bee;
Kim, Sungjoo;
Yoon, Jong-Bok

Publication type:

Article

AtTrm5a catalyses 1-methylguanosine and 1-methylinosine formation on tRNAs and is important for vegetative and reproductive growth in Arabidopsis thaliana.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 883, doi. 10.1093/nar/gky1205

By:

Jin, Xiaohuan;
Lv, Zhengyi;
Gao, Junbao;
Zhang, Rui;
Zheng, Ting;
Yin, Ping;
Li, Dongqin;
Peng, Liangcai;
Cao, Xintao;
Qin, Yan;
Zheng, Bo;
Chen, Peng

Publication type:

Article

Single and double box HMGB proteins differentially destabilize nucleosomes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 666, doi. 10.1093/nar/gky1119

By:

McCauley, Micah J;
Huo, Ran;
Becker, Nicole;
Holte, Molly Nelson;
Muthurajan, Uma M;
Rouzina, Ioulia;
Luger, Karolin;
Maher, L James;
Israeloff, Nathan E;
Williams, Mark C

Publication type:

Article

RPA resolves conflicting activities of accessory proteins during reconstitution of Dmc1-mediated meiotic recombination.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 747, doi. 10.1093/nar/gky1160

By:

Chan, Yuen-Ling;
Zhang, Annie;
Weissman, Benjamin P;
Bishop, Douglas K

Publication type:

Article

Role of the uS9/yS16 C-terminal tail in translation initiation and elongation in Saccharomyces cerevisiae.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 806, doi. 10.1093/nar/gky1180

By:

Jindal, Supriya;
Ghosh, Arnab;
Ismail, Amra;
Singh, Nishant;
Komar, Anton A

Publication type:

Article

Sources of erroneous sequences and artifact chimeric reads in next generation sequencing of genomic DNA from formalin-fixed paraffin-embedded samples.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. e12, doi. 10.1093/nar/gky1142

By:

Haile, Simon;
Corbett, Richard D;
Bilobram, Steve;
Bye, Morgan H;
Kirk, Heather;
Pandoh, Pawan;
Trinh, Eva;
MacLeod, Tina;
McDonald, Helen;
Bala, Miruna;
Miller, Diane;
Novik, Karen;
Coope, Robin J;
Moore, Richard A;
Zhao, Yongjun;
Mungall, Andrew J;
Ma, Yussanne;
Holt, Rob A;
Jones, Steven J;
Marra, Marco A

Publication type:

Article

Retrograde BMP signaling activates neuronal gene expression through widespread deployment of a conserved BMP-responsive cis -regulatory activation element.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 679, doi. 10.1093/nar/gky1135

By:

Vuilleumier, Robin;
Lian, Tianshun;
Flibotte, Stephane;
Khan, Zaynah N;
Fuchs, Alisa;
Pyrowolakis, George;
Allan, Douglas W

Publication type:

Article

Regulation of (p)ppGpp hydrolysis by a conserved archetypal regulatory domain.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 843, doi. 10.1093/nar/gky1201

By:

Ronneau, Séverin;
Caballero-Montes, Julien;
Coppine, Jérôme;
Mayard, Aurélie;
Garcia-Pino, Abel;
Hallez, Régis

Publication type:

Article

RefSeq curation and annotation of stop codon recoding in vertebrates.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 594, doi. 10.1093/nar/gky1234

By:

Rajput, Bhanu;
Pruitt, Kim D;
Murphy, Terence D

Publication type:

Article

Quantitative fluorescence imaging determines the absolute number of locked nucleic acid oligonucleotides needed for suppression of target gene expression.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 953, doi. 10.1093/nar/gky1158

By:

Buntz, Annette;
Killian, Tobias;
Schmid, Daniela;
Seul, Heike;
Brinkmann, Ulrich;
Ravn, Jacob;
Lindholm, Marie;
Knoetgen, Hendrik;
Haucke, Volker;
Mundigl, Olaf

Publication type:

Article

psichomics: graphical application for alternative splicing quantification and analysis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. e7, doi. 10.1093/nar/gky888

By:

Saraiva-Agostinho, Nuno;
Barbosa-Morais, Nuno L

Publication type:

Article

protein shuttle system to target RNA into mitochondria.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 1045, doi. 10.1093/nar/gky1246

By:

Sieber, François;
Placido, Antonio;
Farouk-Ameqrane, Samira El;
Duchêne, Anne-Marie;
Maréchal-Drouard, Laurence

Publication type:

Article

Are TADs supercoiled?

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 521, doi. 10.1093/nar/gky1091

By:

Racko, Dusan;
Benedetti, Fabrizio;
Dorier, Julien;
Stasiak, Andrzej

Publication type:

Article

Plant RNases T2, but not Dicer-like proteins, are major players of tRNA-derived fragments biogenesis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 941, doi. 10.1093/nar/gky1156

By:

Megel, Cyrille;
Hummel, Guillaume;
Lalande, Stéphanie;
Ubrig, Elodie;
Cognat, Valérie;
Morelle, Geoffrey;
Salinas-Giegé, Thalia;
Duchêne, Anne-Marie;
Maréchal-Drouard, Laurence

Publication type:

Article

OTUD5–UBR5 complex regulates FACT-mediated transcription at damaged chromatin.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 729, doi. 10.1093/nar/gky1219

By:

de Vivo, Angelo;
Sanchez, Anthony;
Yegres, Jose;
Kim, Jeonghyeon;
Emly, Sylvia;
Kee, Younghoon

Publication type:

Article

Multi-omic and multi-view clustering algorithms: review and cancer benchmark.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 1044, doi. 10.1093/nar/gky1226

By:

Rappoport, Nimrod;
Shamir, Ron

Publication type:

Article

Mrc1 and Tof1 prevent fragility and instability at long CAG repeats by their fork stabilizing function.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 794, doi. 10.1093/nar/gky1195

By:

Gellon, Lionel;
Kaushal, Simran;
Cebrián, Jorge;
Lahiri, Mayurika;
Mirkin, Sergei M;
Freudenreich, Catherine H

Publication type:

Article

Molecular basis for the differential interaction of plant mitochondrial VDAC proteins with tRNAs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 1048, doi. 10.1093/nar/gky1247

By:

Salinas, Thalia;
Farouk-Ameqrane, Samira El;
Ubrig, Elodie;
Sauter, Claude;
Duchêne, Anne-Marie;
Maréchal-Drouard, Laurence

Publication type:

Article

Aberrant splicing in B-cell acute lymphoblastic leukemia.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 1043, doi. 10.1093/nar/gky1231

By:

Black, Kathryn L;
Naqvi, Ammar S;
Asnani, Mukta;
Hayer, Katharina E;
Yang, Scarlett Y;
Gillespie, Elisabeth;
Bagashev, Asen;
Pillai, Vinodh;
Tasian, Sarah K;
Gazzara, Matthew R;
Carroll, Martin;
Taylor, Deanne;
Lynch, Kristen W;
Barash, Yoseph;
Thomas-Tikhonenko, Andrei

Publication type:

Article

MEHMO syndrome mutation EIF2S3-I259M impairs initiator Met-tRNA i Met binding to eukaryotic translation initiation factor eIF2.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 855, doi. 10.1093/nar/gky1213

By:

Young-Baird, Sara K;
Shin, Byung-Sik;
Dever, Thomas E

Publication type:

Article

ITCH nuclear translocation and H1.2 polyubiquitination negatively regulate the DNA damage response.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 824, doi. 10.1093/nar/gky1199

By:

Chang, Lufen;
Shen, Lei;
Zhou, Hu;
Gao, Jing;
Pan, Hangyi;
Zheng, Li;
Armstrong, Brian;
Peng, Yang;
Peng, Guang;
Zhou, Binhua P;
Rosen, Steven T;
Shen, Binghui

Publication type:

Article

HuR biological function involves RRM3-mediated dimerization and RNA binding by all three RRMs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 1011, doi. 10.1093/nar/gky1138

By:

Pabis, Marta;
Popowicz, Grzegorz M;
Stehle, Ralf;
Fernández-Ramos, David;
Asami, Sam;
Warner, Lisa;
García-Mauriño, Sofía M;
Schlundt, Andreas;
Martínez-Chantar, María L;
Díaz-Moreno, Irene;
Sattler, Michael

Publication type:

Article

Hexameric assembly of the AAA+ protein McrB is necessary for GTPase activity.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 868, doi. 10.1093/nar/gky1170

By:

Nirwan, Neha;
Singh, Pratima;
Mishra, Gyana Gourab;
Johnson, Christopher M;
Szczelkun, Mark D;
Inoue, Katsuaki;
Vinothkumar, Kutti R;
Saikrishnan, Kayarat

Publication type:

Article

MIR sequences recruit zinc finger protein ZNF768 to expressed genes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 700, doi. 10.1093/nar/gky1148

By:

Rohrmoser, Michaela;
Kluge, Michael;
Yahia, Yousra;
Gruber-Eber, Anita;
Maqbool, Muhammad Ahmad;
Forné, Ignasi;
Krebs, Stefan;
Blum, Helmut;
Greifenberg, Ann Katrin;
Geyer, Matthias;
Descostes, Nicolas;
Imhof, Axel;
Andrau, Jean-Christophe;
Friedel, Caroline C;
Eick, Dirk

Publication type:

Article

H3.3K4M destabilizes enhancer H3K4 methyltransferases MLL3/MLL4 and impairs adipose tissue development.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 607, doi. 10.1093/nar/gky982

By:

Jang, Younghoon;
Broun, Aaron;
Wang, Chaochen;
Park, Young-Kwon;
Zhuang, Lenan;
Lee, Ji-Eun;
Froimchuk, Eugene;
Liu, Chengyu;
Ge, Kai

Publication type:

Article

Exploring the effects of cosolutes and crowding on the volumetric and kinetic profile of the conformational dynamics of a poly dA loop DNA hairpin: a single-molecule FRET study.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 981, doi. 10.1093/nar/gky1122

By:

Patra, Satyajit;
Schuabb, Vitor;
Kiesel, Irena;
Knop, Jim-Marcel;
Oliva, Rosario;
Winter, Roland

Publication type:

Article

3D organization of chicken genome demonstrates evolutionary conservation of topologically associated domains and highlights unique architecture of erythrocytes' chromatin.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 648, doi. 10.1093/nar/gky1103

By:

Fishman, Veniamin;
Battulin, Nariman;
Nuriddinov, Miroslav;
Maslova, Antonina;
Zlotina, Anna;
Strunov, Anton;
Chervyakova, Darya;
Korablev, Alexey;
Serov, Oleg;
Krasikova, Alla

Publication type:

Article

new full-length circular DNA sequencing method for viral-sized genomes reveals that RNAi transgenic plants provoke a shift in geminivirus populations in the field.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. e9, doi. 10.1093/nar/gky914

By:

Mehta, Devang;
Hirsch-Hoffmann, Matthias;
Were, Mariam;
Patrignani, Andrea;
Zaidi, Syed Shan-e-Ali;
Were, Hassan;
Gruissem, Wilhelm;
Vanderschuren, Hervé

Publication type:

Article

Genome-wide function of MCM-BP in Trypanosoma brucei DNA replication and transcription.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 634, doi. 10.1093/nar/gky1088

By:

Kim, Hee-Sook

Publication type:

Article

Fast and global detection of periodic sequence repeats in large genomic resources.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. e8, doi. 10.1093/nar/gky890

By:

Mori, Hideto;
Evans-Yamamoto, Daniel;
Ishiguro, Soh;
Tomita, Masaru;
Yachie, Nozomu

Publication type:

Article

Extensive CRISPR RNA modification reveals chemical compatibility and structure-activity relationships for Cas9 biochemical activity.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 546, doi. 10.1093/nar/gky1214

By:

O'Reilly, Daniel;
Kartje, Zachary J;
Ageely, Eman A;
Malek-Adamian, Elise;
Habibian, Maryam;
Schofield, Annabelle;
Barkau, Christopher L;
Rohilla, Kushal J;
DeRossett, Lauren B;
Weigle, Austin T;
Damha, Masad J;
Gagnon, Keith T

Publication type:

Article

Excision of uracil from DNA by hSMUG1 includes strand incision and processing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 779, doi. 10.1093/nar/gky1184

By:

Alexeeva, Marina;
Moen, Marivi N;
Grøsvik, Kristin;
Tesfahun, Almaz N;
Xu, Xiang Ming;
Muruzábal-Lecumberri, Izaskun;
Olsen, Kristine M;
Rasmussen, Anette;
Ruoff, Peter;
Kirpekar, Finn;
Klungland, Arne;
Bjelland, Svein

Publication type:

Article

Dynamic protein–RNA interactions in mediating splicing catalysis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 899, doi. 10.1093/nar/gky1089

By:

Chung, Che-Sheng;
Tseng, Chi-Kang;
Lai, Yung-Hua;
Wang, Hui-Fang;
Newman, Andrew J;
Cheng, Soo-Chen

Publication type:

Article

Updating genome annotation for the microbial cell factory Aspergillus niger using gene co-expression networks.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 559, doi. 10.1093/nar/gky1183

By:

Schäpe, P;
Kwon, MJ;
Baumann, B;
Gutschmann, B;
Jung, S;
Lenz, S;
Nitsche, B;
Paege, N;
Schütze, T;
Cairns, TC;
Meyer, V

Publication type:

Article

DNA sequence elements required for partitioning competence of the Saccharomyces cerevisiae 2-micron plasmid STB locus.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 2, p. 716, doi. 10.1093/nar/gky1150

By:

McQuaid, Mary E;
Polvi, Elizabeth J;
Dobson, Melanie J

Publication type:

Article