Works matching IS 03051048 AND DT 2019 AND VI 47 AND IP 11

Results: 49

HOT or not: examining the basis of high-occupancy target regions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5735, doi. 10.1093/nar/gkz460

By:

Wreczycka, Katarzyna;
Franke, Vedran;
Uyar, Bora;
Wurmus, Ricardo;
Bulut, Selman;
Tursun, Baris;
Akalin, Altuna

Publication type:

Article

Limits in accuracy and a strategy of RNA structure prediction using experimental information.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5563, doi. 10.1093/nar/gkz427

By:

Wang, Jian;
Williams, Benfeard;
Chirasani, Venkata R;
Krokhotin, Andrey;
Das, Rajeshree;
Dokholyan, Nikolay V

Publication type:

Article

DNA repair enzymes ALKBH2, ALKBH3, and AlkB oxidize 5-methylcytosine to 5-hydroxymethylcytosine, 5-formylcytosine and 5-carboxylcytosine in vitro.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5522, doi. 10.1093/nar/gkz395

By:

Bian, Ke;
Lenz, Stefan A P;
Tang, Qi;
Chen, Fangyi;
Qi, Rui;
Jost, Marco;
Drennan, Catherine L;
Essigmann, John M;
Wetmore, Stacey D;
Li, Deyu

Publication type:

Article

Programmable DNA cleavage by Ago nucleases from mesophilic bacteria Clostridium butyricum and Limnothrix rosea.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5822, doi. 10.1093/nar/gkz379

By:

Kuzmenko, Anton;
Yudin, Denis;
Ryazansky, Sergei;
Kulbachinskiy, Andrey;
Aravin, Alexei A

Publication type:

Article

multiscale analysis of DNA phase separation: from atomistic to mesoscale level.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5550, doi. 10.1093/nar/gkz377

By:

Sun, Tiedong;
Mirzoev, Alexander;
Minhas, Vishal;
Korolev, Nikolay;
Lyubartsev, Alexander P;
Nordenskiöld, Lars

Publication type:

Article

Myg1 exonuclease couples the nuclear and mitochondrial translational programs through RNA processing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5852, doi. 10.1093/nar/gkz371

By:

Grover, Ritika;
Burse, Shaunak A;
Shankrit, Shambhavi;
Aggarwal, Ayush;
Kirty, Kritika;
Narta, Kiran;
Srivastav, Rajpal;
Ray, Ashwini Kumar;
Malik, Garima;
Vats, Archana;
Motiani, Rajender K;
Thukral, Lipi;
Roy, Soumya Sinha;
Bhattacharya, Sudha;
Sharma, Rakesh;
Natarajan, Krishnamurthy;
Mukerji, Mitali;
Pandey, Rajesh;
Gokhale, Rajesh S;
Natarajan, Vivek T

Publication type:

Article

Self-powered RNA nanomachine driven by metastable structure.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 6007, doi. 10.1093/nar/gkz364

By:

Kobori, Shungo;
Nomura, Yoko;
Yokobayashi, Yohei

Publication type:

Article

Fast hierarchical Bayesian analysis of population structure.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5539, doi. 10.1093/nar/gkz361

By:

Tonkin-Hill, Gerry;
Lees, John A;
Bentley, Stephen D;
Frost, Simon D W;
Corander, Jukka

Publication type:

Article

Alternative σ I /anti-σ I factors represent a unique form of bacterial σ/anti-σ complex.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5988, doi. 10.1093/nar/gkz355

By:

Wei, Zhen;
Chen, Chao;
Liu, Ya-Jun;
Dong, Sheng;
Li, Jie;
Qi, Kuan;
Liu, Shiyue;
Ding, Xiaoke;
Ortiz de Ora, Lizett;
Muñoz-Gutiérrez, Iván;
Li, Yifei;
Yao, Hongwei;
Lamed, Raphael;
Bayer, Edward A;
Cui, Qiu;
Feng, Yingang

Publication type:

Article

Carboxylate-functionalized foldamer inhibitors of HIV-1 integrase and Topoisomerase 1: artificial analogues of DNA mimic proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5511, doi. 10.1093/nar/gkz352

By:

Corvaglia, Valentina;
Carbajo, Daniel;
Prabhakaran, Panchami;
Ziach, Krzysztof;
Mandal, Pradeep Kumar;
Santos, Victor Dos;
Legeay, Carole;
Vogel, Rachel;
Parissi, Vincent;
Pourquier, Philippe;
Huc, Ivan

Publication type:

Article

Targeted amplification of a sequence of interest in artificial chromosome in mammalian cells.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5998, doi. 10.1093/nar/gkz343

By:

Asoshina, Manami;
Myo, Genki;
Tada, Natsuko;
Tajino, Koji;
Shimizu, Noriaki

Publication type:

Article

Ebola virus VP35 has novel NTPase and helicase-like activities.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5837, doi. 10.1093/nar/gkz340

By:

Shu, Ting;
Gan, Tianyu;
Bai, Peng;
Wang, Xiaotong;
Qian, Qi;
Zhou, Hui;
Cheng, Qi;
Qiu, Yang;
Yin, Lei;
Zhong, Jin;
Zhou, Xi

Publication type:

Article

Crystal structure of the Trypanosoma cruzi EIF4E5 translation factor homologue in complex with mRNA cap-4.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5973, doi. 10.1093/nar/gkz339

By:

Reolon, Lidia Watanabe;
Vichier-Guerre, Sophie;
de Matos, Bruno Moisés;
Dugué, Laurence;
Assunção, Tatiana Reichert da Silva;
Zanchin, Nilson Ivo Tonin;
Pochet, Sylvie;
Guimarães, Beatriz Gomes

Publication type:

Article

Structure-guided post-SELEX optimization of an ochratoxin A aptamer.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5963, doi. 10.1093/nar/gkz336

By:

Xu, Guohua;
Zhao, Jiajing;
Liu, Na;
Yang, Minghui;
Zhao, Qiang;
Li, Conggang;
Liu, Maili

Publication type:

Article

Structures of m aintenance of c arboxysome d istribution Walker-box McdA and McdB adaptor homologs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5950, doi. 10.1093/nar/gkz314

By:

Schumacher, Maria A;
Henderson, Max;
Zhang, Hengshan

Publication type:

Article

Quantifying the two-state facilitated diffusion model of protein–DNA interactions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5530, doi. 10.1093/nar/gkz308

By:

Leven, Itai;
Levy, Yaakov

Publication type:

Article

HCF-2 inhibits cell proliferation and activates differentiation-gene expression programs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5792, doi. 10.1093/nar/gkz307

By:

Gudkova, Daria;
Dergai, Oleksandr;
Praz, Viviane;
Herr, Winship

Publication type:

Article

DNA-guided DNA cleavage at moderate temperatures by Clostridium butyricum Argonaute.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5809, doi. 10.1093/nar/gkz306

By:

Hegge, Jorrit W;
Swarts, Daan C;
Chandradoss, Stanley D;
Cui, Tao Ju;
Kneppers, Jeroen;
Jinek, Martin;
Joo, Chirlmin;
van der Oost, John

Publication type:

Article

Non-canonical translation initiation in yeast generates a cryptic pool of mitochondrial proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5777, doi. 10.1093/nar/gkz301

By:

Monteuuis, Geoffray;
Miścicka, Anna;
Świrski, Michał;
Zenad, Lounis;
Niemitalo, Olli;
Wrobel, Lidia;
Alam, Jahangir;
Chacinska, Agnieszka;
Kastaniotis, Alexander J;
Kufel, Joanna

Publication type:

Article

Interplay between small RNA pathways shapes chromatin landscapes in C. elegans.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5603, doi. 10.1093/nar/gkz275

By:

Gushchanskaia, Ekaterina S;
Esse, Ruben;
Ma, Qicheng;
Lau, Nelson C;
Grishok, Alla

Publication type:

Article

ONECUT transcription factors induce neuronal characteristics and remodel chromatin accessibility.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5587, doi. 10.1093/nar/gkz273

By:

van der Raadt, Jori;
van Gestel, Sebastianus H C;
Nadif Kasri, Nael;
Albers, Cornelis A

Publication type:

Article

PTEN interacts with the transcription machinery on chromatin and regulates RNA polymerase II-mediated transcription.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5573, doi. 10.1093/nar/gkz272

By:

Steinbach, Nicole;
Hasson, Dan;
Mathur, Deepti;
Stratikopoulos, Elias E;
Sachidanandam, Ravi;
Bernstein, Emily;
Parsons, Ramon E

Publication type:

Article

Impact of intron removal from tRNA genes on Saccharomyces cerevisiae.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5936, doi. 10.1093/nar/gkz270

By:

Hayashi, Sachiko;
Mori, Shunsuke;
Suzuki, Takeo;
Suzuki, Tsutomu;
Yoshihisa, Tohru

Publication type:

Article

Reversible ADP-ribosylation of RNA.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5658, doi. 10.1093/nar/gkz305

By:

Munnur, Deeksha;
Bartlett, Edward;
Mikolčević, Petra;
Kirby, Ilsa T;
Matthias Rack, Johannes Gregor;
Mikoč, Andreja;
Cohen, Michael S;
Ahel, Ivan

Publication type:

Article

mitoribosome-specific protein mS38 is preferentially required for synthesis of cytochrome c oxidase subunits.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5746, doi. 10.1093/nar/gkz266

By:

Mays, Jeffri-Noelle;
Camacho-Villasana, Yolanda;
Garcia-Villegas, Rodolfo;
Perez-Martinez, Xochitl;
Barrientos, Antoni;
Fontanesi, Flavia

Publication type:

Article

Bacterial genome architecture shapes global transcriptional regulation by DNA supercoiling.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5648, doi. 10.1093/nar/gkz300

By:

El Houdaigui, Bilal;
Forquet, Raphaël;
Hindré, Thomas;
Schneider, Dominique;
Nasser, William;
Reverchon, Sylvie;
Meyer, Sam

Publication type:

Article

Two classes of EF1-family translational GTPases encoded by giant viruses.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5761, doi. 10.1093/nar/gkz296

By:

Zinoviev, Alexandra;
Kuroha, Kazushige;
Pestova, Tatyana V;
Hellen, Christopher U T

Publication type:

Article

Beyond CLIP: advances and opportunities to measure RBP–RNA and RNA–RNA interactions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5490, doi. 10.1093/nar/gkz295

By:

Lin, Chenyu;
Miles, Wayne O

Publication type:

Article

novel CRISPR-engineered prostate cancer cell line defines the AR-V transcriptome and identifies PARP inhibitor sensitivities.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5634, doi. 10.1093/nar/gkz286

By:

Kounatidou, Evangelia;
Nakjang, Sirintra;
McCracken, Stuart R C;
Dehm, Scott M;
Robson, Craig N;
Jones, Dominic;
Gaughan, Luke

Publication type:

Article

DNA sequence influences hexasome orientation to regulate DNA accessibility.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5617, doi. 10.1093/nar/gkz283

By:

Brehove, Matthew;
Shatoff, Elan;
Donovan, Benjamin T;
Jipa, Caroline M;
Bundschuh, Ralf;
Poirier, Michael G

Publication type:

Article

mitochondrial R-loop.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5480, doi. 10.1093/nar/gkz277

By:

Holt, Ian J

Publication type:

Article

Interplay of primary sequence, position and secondary RNA structure determines alternative splicing of LMNA in a pre-mature aging syndrome.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5922, doi. 10.1093/nar/gkz259

By:

Shilo, Asaf;
Tosto, Frances Anne;
Rausch, Jason W;
Le Grice, Stuart F J;
Misteli, Tom

Publication type:

Article

Maturation of atypical ribosomal RNA precursors in Helicobacter pylori.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5906, doi. 10.1093/nar/gkz258

By:

Iost, Isabelle;
Chabas, Sandrine;
Darfeuille, Fabien

Publication type:

Article

Proteomic and transcriptomic experiments reveal an essential role of RNA degradosome complexes in shaping the transcriptome of Mycobacterium tuberculosis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5892, doi. 10.1093/nar/gkz251

By:

Płociński, Przemysław;
Macios, Maria;
Houghton, Joanna;
Niemiec, Emilia;
Płocińska, Renata;
Brzostek, Anna;
Słomka, Marcin;
Dziadek, Jarosław;
Young, Douglas;
Dziembowski, Andrzej

Publication type:

Article

Replicative DNA polymerases promote active displacement of SSB proteins during lagging strand synthesis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5723, doi. 10.1093/nar/gkz249

By:

Cerrón, Fernando;
de Lorenzo, Sara;
Lemishko, Kateryna M;
Ciesielski, Grzegorz L;
Kaguni, Laurie S;
Cao, Francisco J;
Ibarra, Borja

Publication type:

Article

Structural evidence for an essential Fe–S cluster in the catalytic core domain of DNA polymerase ϵ.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5712, doi. 10.1093/nar/gkz248

By:

ter Beek, Josy;
Parkash, Vimal;
Bylund, Göran O;
Osterman, Pia;
Sauer-Eriksson, A Elisabeth;
Johansson, Erik

Publication type:

Article

Site-specific replacement of phosphorothioate with alkyl phosphonate linkages enhances the therapeutic profile of gapmer ASOs by modulating interactions with cellular proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5465, doi. 10.1093/nar/gkz247

By:

Migawa, Michael T;
Shen, Wen;
Wan, W Brad;
Vasquez, Guillermo;
Oestergaard, Michael E;
Low, Audrey;
De Hoyos, Cheryl L;
Gupta, Ruchi;
Murray, Susan;
Tanowitz, Michael;
Bell, Melanie;
Nichols, Joshua G;
Gaus, Hans;
Liang, Xue-hai;
Swayze, Eric E;
Crooke, Stanley T;
Seth, Punit P

Publication type:

Article

Primed adaptation tolerates extensive structural and size variations of the CRISPR RNA guide in Haloarcula hispanica.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5880, doi. 10.1093/nar/gkz244

By:

Gong, Luyao;
Li, Ming;
Cheng, Feiyue;
Zhao, Dahe;
Chen, Yihua;
Xiang, Hua

Publication type:

Article

Increased versatility despite reduced molecular complexity: evolution, structure and function of metazoan splicing factor PRPF39.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5867, doi. 10.1093/nar/gkz243

By:

De Bortoli, Francesca;
Neumann, Alexander;
Kotte, Ana;
Timmermann, Bernd;
Schüler, Thomas;
Wahl, Markus C;
Loll, Bernhard;
Heyd, Florian

Publication type:

Article

new role for Escherichia coli Dam DNA methylase in prevention of aberrant chromosomal replication.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5698, doi. 10.1093/nar/gkz242

By:

Raghunathan, Nalini;
Goswami, Sayantan;
Leela, Jakku K;
Pandiyan, Apuratha;
Gowrishankar, Jayaraman

Publication type:

Article

KEOPS complex promotes homologous recombination via DNA resection.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5684, doi. 10.1093/nar/gkz228

By:

He, Ming-Hong;
Liu, Jia-Cheng;
Lu, Yi-Si;
Wu, Zhi-Jing;
Liu, Ying-Ying;
Wu, Zhenfang;
Peng, Jing;
Zhou, Jin-Qiu

Publication type:

Article

SCRE serves as a unique synaptonemal complex fastener and is essential for progression of meiosis prophase I in mice.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5670, doi. 10.1093/nar/gkz226

By:

Liu, Hongbin;
Huang, Tao;
Li, Mengjing;
Li, Miao;
Zhang, Chuanxin;
Jiang, Jing;
Yu, Xiaochen;
Yin, Yingying;
Zhang, Fan;
Lu, Gang;
Luo, Meng-Cheng;
Zhang, Liang-Ran;
Li, Jinsong;
Liu, Kui;
Chen, Zi-Jiang

Publication type:

Article

Small-molecule affinity capture of DNA/RNA quadruplexes and their identification in vitro and in vivo through the G4RP protocol.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. 5502, doi. 10.1093/nar/gkz215

By:

Renard, Isaline;
Grandmougin, Michael;
Roux, Apolline;
Yang, Sunny Y;
Lejault, Pauline;
Pirrotta, Marc;
Wong, Judy M Y;
Monchaud, David

Publication type:

Article

Cell lineage and communication network inference via optimization for single-cell transcriptomics.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. e66, doi. 10.1093/nar/gkz204

By:

Wang, Shuxiong;
Karikomi, Matthew;
MacLean, Adam L;
Nie, Qing

Publication type:

Article

MSTD: an efficient method for detecting multi-scale topological domains from symmetric and asymmetric 3D genomic maps.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. e65, doi. 10.1093/nar/gkz201

By:

Ye, Yusen;
Gao, Lin;
Zhang, Shihua

Publication type:

Article

AlleleHMM: a data-driven method to identify allele specific differences in distributed functional genomic marks.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. e64, doi. 10.1093/nar/gkz176

By:

Chou, Shao-Pei;
Danko, Charles G

Publication type:

Article

MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. e63, doi. 10.1093/nar/gkz173

By:

Meng, Guanliang;
Li, Yiyuan;
Yang, Chentao;
Liu, Shanlin

Publication type:

Article

Cell-specific network constructed by single-cell RNA sequencing data.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. e62, doi. 10.1093/nar/gkz172

By:

Dai, Hao;
Li, Lin;
Zeng, Tao;
Chen, Luonan

Publication type:

Article

panel of colorimetric assays to measure enzymatic activity in the base excision DNA repair pathway.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 11, p. e61, doi. 10.1093/nar/gkz171

By:

Healing, Eleanor;
Charlier, Clara F;
Meira, Lisiane B;
Elliott, Ruan M

Publication type:

Article