Works matching IS 03051048 AND DT 2019 AND VI 47 AND IP 13

Results: 49

Extreme divergence between one-to-one orthologs: the structure of N15 Cro bound to operator DNA and its relationship to the λ Cro complex.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7118, doi. 10.1093/nar/gkz507

By:

Hall, Branwen M.;
Roberts, Sue A.;
Cordes, Matthew H.J.

Publication type:

Article

Cell-specific CRISPR–Cas9 activation by microRNA-dependent expression of anti-CRISPR proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 1, doi. 10.1093/nar/gkz271

By:

Hoffmann, Mareike D.;
Aschenbrenner, Sabine;
Grosse, Stefanie;
Rapti, Kleopatra;
Domenger, Claire;
Fakhiri, Julia;
Mastel, Manuel;
Börner, Kathleen;
Eils, Roland;
Grimm, Dirk;
Niopek, Dominik

Publication type:

Article

A tunable assay for modulators of genome-destabilizing DNA structures.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 1, doi. 10.1093/nar/gkz237

By:

del Mundo, Imee M.A.;
Eun Jeong Cho;
Dalby, Kevin N.;
Vasquez, Karen M.

Publication type:

Article

Erratum: Probing G-quadruplex topologies and recognition concurrently in real time and 3D using a dual-app nucleoside probe.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7145, doi. 10.1093/nar/gkz516

By:

Nuthanakanti, Ashok;
Ahmed, Ishtiyaq;
Khatik, Saddam Y.;
Saikrishnan, Kayarat;
Srivatsan, Seergazhi G.

Publication type:

Article

Corrigendum: Setting boundaries for genome-wide heterochromatic DNA deletions through flanking inverted repeats in Tetrahymena thermophile.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7143, doi. 10.1093/nar/gkz481

By:

Chih-Yi Gabriela Lin;
Ju-Lan Chao;
Huai-Kuang Tsai;
Chalker, Douglas;
Meng-Chao Yao

Publication type:

Article

Data-driven characterization of molecular phenotypes across heterogeneous sample collections.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 1, doi. 10.1093/nar/gkz281

By:

Mehtonen, Juha;
Pölönen, Petri;
Häyrynen, Sergei;
Dufva, Olli;
Lin, Jake;
Liuksiala, Thomas;
Granberg, Kirsi;
Lohi, Olli;
Hautamäki, Ville;
Nykter, Matti;
Heinäniemi, Merja

Publication type:

Article

Accurate prediction of boundaries of high resolution topologically associated domains (TADs) in fruit flies using deep learning.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 1, doi. 10.1093/nar/gkz315

By:

Henderson, John;
Vi Ly;
Olichwier, Shawn;
Chainani, Pranik;
Yu Liu;
Soibam, Benjamin

Publication type:

Article

CRISPRai for simultaneous gene activation and inhibition to promote stem cell chondrogenesis and calvarial bone regeneration.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 1, doi. 10.1093/nar/gkz267

By:

Vu Anh Truong;
Mu-Nung Hsu;
Nuong Thi Kieu Nguyen;
Mei-Wei Lin;
Chih-Che Shen;
Chin-Yu Lin;
Yu-Chen Hu

Publication type:

Article

EpiAlign: an alignment-based bioinformatic tool for comparing chromatin state sequences.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 1, doi. 10.1093/nar/gkz287

By:

Xinzhou Ge;
Haowen Zhang;
Lingjue Xie;
Wei Vivian Li;
Soo Bin Kwon;
Jingyi Jessica Li

Publication type:

Article

Rational design of an XNA ligase through docking of unbound nucleic acids to toroidal proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7130, doi. 10.1093/nar/gkz551

By:

Vanmeert, Michiel;
Razzokov, Jamoliddin;
Mirza, Muhammad Usman;
Weeks, Stephen D.;
Schepers, Guy;
Bogaerts, Annemie;
Rozenski, Jef;
Froeyen, Mathy;
Herdewijn, Piet;
Pinheiro, Vitor B.;
Lescrinier, Eveline

Publication type:

Article

Quantifying gene selection in cancer through protein functional alteration bias.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6642, doi. 10.1093/nar/gkz546

By:

Brandes, Nadav;
Linial, Nathan;
Linial, Michal

Publication type:

Article

Co-SELECT reveals sequence non-specific contribution of DNA shape to transcription factor binding in vitro.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6632, doi. 10.1093/nar/gkz540

By:

Pal, Soumitra;
Hoinka, Jan;
Przytycka, Teresa M

Publication type:

Article

Limits to a classic paradigm: most transcription factors in E. coli regulate genes involved in multiple biological processes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6656, doi. 10.1093/nar/gkz525

By:

Ledezma-Tejeida, Daniela;
Altamirano-Pacheco, Luis;
Fajardo, Vicente;
Collado-Vides, Julio

Publication type:

Article

SOXE transcription factors—SOX8, SOX9 and SOX10—share a bi-partite transactivation mechanism.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6917, doi. 10.1093/nar/gkz523

By:

Haseeb, Abdul;
Lefebvre, Véronique

Publication type:

Article

Study of conformational transitions of i -motif DNA using time-resolved fluorescence and multivariate analysis methods.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6590, doi. 10.1093/nar/gkz522

By:

Benabou, Sanae;
Ruckebusch, Cyril;
Sliwa, Michel;
Aviñó, Anna;
Eritja, Ramon;
Gargallo, Raimundo;
de Juan, Anna

Publication type:

Article

Coding palindromes in mitochondrial genes of Nematomorpha.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6858, doi. 10.1093/nar/gkz517

By:

Mikhailov, Kirill V;
Efeykin, Boris D;
Panchin, Alexander Y;
Knorre, Dmitry A;
Logacheva, Maria D;
Penin, Aleksey A;
Muntyan, Maria S;
Nikitin, Mikhail A;
Popova, Olga V;
Zanegina, Olga N;
Vyssokikh, Mikhail Y;
Spiridonov, Sergei E;
Aleoshin, Vladimir V;
Panchin, Yuri V

Publication type:

Article

Crystal structures of a natural DNA polymerase that functions as an XNA reverse transcriptase.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6973, doi. 10.1093/nar/gkz513

By:

Jackson, Lynnette N;
Chim, Nicholas;
Shi, Changhua;
Chaput, John C

Publication type:

Article

Reactive OFF-ON type alkylating agents for higher-ordered structures of nucleic acids.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6578, doi. 10.1093/nar/gkz512

By:

Onizuka, Kazumitsu;
Hazemi, Madoka E;
Sato, Norihiro;
Tsuji, Gen-ichiro;
Ishikawa, Shunya;
Ozawa, Mamiko;
Tanno, Kousuke;
Yamada, Ken;
Nagatsugi, Fumi

Publication type:

Article

mRNA levels can be reduced by antisense oligonucleotides via no-go decay pathway.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6900, doi. 10.1093/nar/gkz500

By:

Liang, Xue-hai;
Nichols, Joshua G;
Hsu, Chih-Wei;
Vickers, Timothy A;
Crooke, Stanley T

Publication type:

Article

Effect of mutations on binding of ligands to guanine riboswitch probed by free energy perturbation and molecular dynamics simulations.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6618, doi. 10.1093/nar/gkz499

By:

Chen, Jianzhong;
Wang, Xingyu;
Pang, Laixue;
Zhang, John Z H;
Zhu, Tong

Publication type:

Article

Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev-binding site.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7105, doi. 10.1093/nar/gkz498

By:

Chu, Chia-Chieh;
Plangger, Raphael;
Kreutz, Christoph;
Al-Hashimi, Hashim M

Publication type:

Article

DNA-segment-capture model for loop extrusion by structural maintenance of chromosome (SMC) protein complexes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6956, doi. 10.1093/nar/gkz497

By:

Marko, John F;
De Los Rios, Paolo;
Barducci, Alessandro;
Gruber, Stephan

Publication type:

Article

Solvent viscosity facilitates replication and ribozyme catalysis from an RNA duplex in a model prebiotic process.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6569, doi. 10.1093/nar/gkz496

By:

He, Christine;
Lozoya-Colinas, Adriana;
Gállego, Isaac;
Grover, Martha A;
Hud, Nicholas V

Publication type:

Article

Mn-sensing riboswitch activates expression of a Mn 2+ /Ca 2+ ATPase transporter in Streptococcus.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6885, doi. 10.1093/nar/gkz494

By:

Martin, Julia E;
Le, My T;
Bhattarai, Nabin;
Capdevila, Daiana A;
Shen, Jiangchuan;
Winkler, Malcolm E;
Giedroc, David P

Publication type:

Article

Transcriptional supercoiling boosts topoisomerase II-mediated knotting of intracellular DNA.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6946, doi. 10.1093/nar/gkz491

By:

Valdés, Antonio;
Coronel, Lucia;
Martínez-García, Belén;
Segura, Joana;
Dyson, Sílvia;
Díaz-Ingelmo, Ofelia;
Micheletti, Cristian;
Roca, Joaquim

Publication type:

Article

Diverse families of transposable elements affect the transcriptional regulation of stress-response genes in Drosophila melanogaster.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6842, doi. 10.1093/nar/gkz490

By:

Villanueva-Cañas, José Luis;
Horvath, Vivien;
Aguilera, Laura;
González, Josefa

Publication type:

Article

Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6606, doi. 10.1093/nar/gkz488

By:

Zhang, Lihua;
Zhang, Shihua

Publication type:

Article

Identification of DNA motifs that regulate DNA methylation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6753, doi. 10.1093/nar/gkz483

By:

Wang, Mengchi;
Zhang, Kai;
Ngo, Vu;
Liu, Chengyu;
Fan, Shicai;
Whitaker, John W;
Chen, Yue;
Ai, Rizi;
Chen, Zhao;
Wang, Jun;
Zheng, Lina;
Wang, Wei

Publication type:

Article

distal enhancer maintaining Hoxa1 expression orchestrates retinoic acid-induced early ESCs differentiation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6737, doi. 10.1093/nar/gkz482

By:

Su, Guangsong;
Guo, Dianhao;
Chen, Jun;
Liu, Man;
Zheng, Jian;
Wang, Wenbin;
Zhao, Xueyuan;
Yin, Qingqing;
Zhang, Lei;
Zhao, Zhongfang;
Shi, Jiandang;
Lu, Wange

Publication type:

Article

Disordered region of H3K9 methyltransferase Clr4 binds the nucleosome and contributes to its activity.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6726, doi. 10.1093/nar/gkz480

By:

Akoury, Elias;
Ma, Guoli;
Demolin, Segolene;
Brönner, Cornelia;
Zocco, Manuel;
Cirilo, Alexandre;
Ivic, Nives;
Halic, Mario

Publication type:

Article

structure of human EXD2 reveals a chimeric 3′ to 5′ exonuclease domain that discriminates substrates via metal coordination.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7078, doi. 10.1093/nar/gkz454

By:

Park, Jumi;
Lee, Song-Yi;
Jeong, Hanbin;
Kang, Myeong-Gyun;
Van Haute, Lindsey;
Minczuk, Michal;
Seo, Jeong Kon;
Jun, Youngsoo;
Myung, Kyungjae;
Rhee, Hyun-Woo;
Lee, Changwook

Publication type:

Article

RNA polymerase II-independent recruitment of SPT6L at transcription start sites in Arabidopsis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6714, doi. 10.1093/nar/gkz465

By:

Chen, Chen;
Shu, Jie;
Li, Chenlong;
Thapa, Raj K;
Nguyen, Vi;
Yu, Kangfu;
Yuan, Ze-Chun;
Kohalmi, Susanne E;
Liu, Jun;
Marsolais, Frédéric;
Huang, Shangzhi;
Cui, Yuhai

Publication type:

Article

Acute depletion of CTCF directly affects MYC regulation through loss of enhancer–promoter looping.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6699, doi. 10.1093/nar/gkz462

By:

Hyle, Judith;
Zhang, Yang;
Wright, Shaela;
Xu, Beisi;
Shao, Ying;
Easton, John;
Tian, Liqing;
Feng, Ruopeng;
Xu, Peng;
Li, Chunliang

Publication type:

Article

Casein kinase 2 regulates telomere protein complex formation through Rap1 phosphorylation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6871, doi. 10.1093/nar/gkz458

By:

Inoue, Haruna;
Horiguchi, Mayuri;
Ono, Kota;
Kanoh, Junko

Publication type:

Article

post-transcriptional respiratome regulon in trypanosomes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7063, doi. 10.1093/nar/gkz455

By:

Trenaman, Anna;
Glover, Lucy;
Hutchinson, Sebastian;
Horn, David

Publication type:

Article

Structures and mechanism of transcription initiation by bacterial ECF factors.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7094, doi. 10.1093/nar/gkz470

By:

Fang, Chengli;
Li, Lingting;
Shen, Liqiang;
Shi, Jing;
Wang, Sheng;
Feng, Yu;
Zhang, Yu

Publication type:

Article

CarD and RbpA modify the kinetics of initial transcription and slow promoter escape of the Mycobacterium tuberculosis RNA polymerase.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6685, doi. 10.1093/nar/gkz449

By:

Jensen, Drake;
Manzano, Ana Ruiz;
Rammohan, Jayan;
Stallings, Christina L;
Galburt, Eric A

Publication type:

Article

Effective mismatch repair depends on timely control of PCNA retention on DNA by the Elg1 complex.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6826, doi. 10.1093/nar/gkz441

By:

Paul Solomon Devakumar, Lovely Jael;
Gaubitz, Christl;
Lundblad, Victoria;
Kelch, Brian A;
Kubota, Takashi

Publication type:

Article

Hypoosmotic stress induces R loop formation in nucleoli and ATR/ATM-dependent silencing of nucleolar transcription.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6811, doi. 10.1093/nar/gkz436

By:

Velichko, Artem K;
Petrova, Nadezhda V;
Luzhin, Artem V;
Strelkova, Olga S;
Ovsyannikova, Natalia;
Kireev, Igor I;
Petrova, Natalia V;
Razin, Sergey V;
Kantidze, Omar L

Publication type:

Article

5′ fragment of Xist can sequester RNA produced from adjacent genes on chromatin.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7049, doi. 10.1093/nar/gkz432

By:

Lee, David M;
Trotman, Jackson B;
Cherney, Rachel E;
Inoue, Kaoru;
Schertzer, Megan D;
Bischoff, Steven R;
Cowley, Dale O;
Calabrese, J Mauro

Publication type:

Article

RAD51 and mitotic function of mus81 are essential for recovery from low-dose of camptothecin in the absence of the WRN exonuclease.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6796, doi. 10.1093/nar/gkz431

By:

Aiello, Francesca Antonella;
Palma, Anita;
Malacaria, Eva;
Zheng, Li;
Campbell, Judith L;
Shen, Binghui;
Franchitto, Annapaola;
Pichierri, Pietro

Publication type:

Article

Direct role for the Drosophila GIGYF protein in 4EHP-mediated mRNA repression.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7035, doi. 10.1093/nar/gkz429

By:

Ruscica, Vincenzo;
Bawankar, Praveen;
Peter, Daniel;
Helms, Sigrun;
Igreja, Cátia;
Izaurralde, Elisa

Publication type:

Article

Remodeling and destabilization of chromosome 1 pericentromeric heterochromatin by SSX proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6668, doi. 10.1093/nar/gkz396

By:

Traynor, Sofie;
Møllegaard, Niels Erik;
Jørgensen, Mikkel G;
Brückmann, Nadine H;
Pedersen, Christina B;
Terp, Mikkel G;
Johansen, Simone;
Dejardin, Jerome;
Ditzel, Henrik J;
Gjerstorff, Morten F

Publication type:

Article

extruded non-template strand determines the architecture of R-loops.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6783, doi. 10.1093/nar/gkz341

By:

Carrasco-Salas, Yeraldinne;
Malapert, Amélie;
Sulthana, Shaheen;
Molcrette, Bastien;
Chazot-Franguiadakis, Léa;
Bernard, Pascal;
Chédin, Frédéric;
Faivre-Moskalenko, Cendrine;
Vanoosthuyse, Vincent

Publication type:

Article

Biochemical reconstitution of UV-induced mutational processes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6769, doi. 10.1093/nar/gkz335

By:

Sugiyama, Tomohiko;
Chen, Yizhang

Publication type:

Article

dual role of the ribosome-bound chaperones RAC/Ssb in maintaining the fidelity of translation termination.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7018, doi. 10.1093/nar/gkz334

By:

Gribling-Burrer, Anne-Sophie;
Chiabudini, Marco;
Zhang, Ying;
Qiu, Zonghao;
Scazzari, Mario;
Wölfle, Tina;
Wohlwend, Daniel;
Rospert, Sabine

Publication type:

Article

In vivo analysis of influenza A mRNA secondary structures identifies critical regulatory motifs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7003, doi. 10.1093/nar/gkz318

By:

Simon, Lisa Marie;
Morandi, Edoardo;
Luganini, Anna;
Gribaudo, Giorgio;
Martinez-Sobrido, Luis;
Turner, Douglas H;
Oliviero, Salvatore;
Incarnato, Danny

Publication type:

Article

Tsr4 and Nap1, two novel members of the ribosomal protein chaperOME.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6984, doi. 10.1093/nar/gkz317

By:

Rössler, Ingrid;
Embacher, Julia;
Pillet, Benjamin;
Murat, Guillaume;
Liesinger, Laura;
Hafner, Jutta;
Unterluggauer, Julia Judith;
Birner-Gruenberger, Ruth;
Kressler, Dieter;
Pertschy, Brigitte

Publication type:

Article

Mimivirus encodes a multifunctional primase with DNA/RNA polymerase, terminal transferase and translesion synthesis activities.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 6932, doi. 10.1093/nar/gkz236

By:

Gupta, Ankita;
Lad, Shailesh B;
Ghodke, Pratibha P;
Pradeepkumar, P I;
Kondabagil, Kiran

Publication type:

Article