Works matching IS 03051048 AND DT 2021 AND VI 49 AND IP 7

Results: 51

Corrigendum to article "Quantitative proteomics reveals that long non-coding RNA MALAT1 interacts with DBC1 to regulate p53 acetylation".

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4199, doi. 10.1093/nar/gkab222

By:

Chen, Ruibing;
Liu, Yun;
Zhuang, Hao;
Yang, Baicai;
Hei, Kaiwen;
Xiao, Mingming;
Hou, Chunyu;
Gao, Huajun;
Zhang, Xinran;
Jia, Chenxi;
Li, Lingjun;
Li, Yongmei;
Zhang, Ning

Publication type:

Article

Correction to article "The forkhead transcription factor FOXK2 premarks lineage-specific genes in human embryonic stem cells for activation during differentiation".

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4198, doi. 10.1093/nar/gkab221

By:

Ji, Zongling;
Li, Yaoyong;
Liu, Sean X;
Sharrocks, Andrew D

Publication type:

Article

Corrigendum to article "Micro-homology intermediates: RecA's transient sampling revealed at the single molecule level".

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4197, doi. 10.1093/nar/gkab220

By:

Lee, Andrew J;
Endo, Masayuki;
Hobbs, Jamie K;
Davies, A Giles;
Wälti, Christoph

Publication type:

Article

RPA2 winged-helix domain facilitates UNG-mediated removal of uracil from ssDNA; implications for repair of mutagenic uracil at the replication fork.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3948, doi. 10.1093/nar/gkab195

By:

Kavli, Bodil;
Iveland, Tobias S;
Buchinger, Edith;
Hagen, Lars;
Liabakk, Nina B;
Aas, Per A;
Obermann, Tobias S;
Aachmann, Finn L;
Slupphaug, Geir

Publication type:

Article

Effect of small molecule eRF3 degraders on premature termination codon readthrough.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3692, doi. 10.1093/nar/gkab194

By:

Baradaran-Heravi, Alireza;
Balgi, Aruna D;
Hosseini-Farahabadi, Sara;
Choi, Kunho;
Has, Cristina;
Roberge, Michel

Publication type:

Article

Structures of Neisseria gonorrhoeae MtrR-operator complexes reveal molecular mechanisms of DNA recognition and antibiotic resistance-conferring clinical mutations.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4155, doi. 10.1093/nar/gkab213

By:

Beggs, Grace A;
Ayala, Julio C;
Kavanaugh, Logan G;
Read, Timothy D;
Hooks, Grace M;
Schumacher, Maria A;
Shafer, William M;
Brennan, Richard G

Publication type:

Article

Choice of fluorophore affects dynamic DNA nanostructures.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4186, doi. 10.1093/nar/gkab201

By:

Jahnke, Kevin;
Grubmüller, Helmut;
Igaev, Maxim;
Göpfrich, Kerstin

Publication type:

Article

An RNA-binding protein complex regulates the purine-dependent expression of a nucleobase transporter in trypanosomes.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3814, doi. 10.1093/nar/gkab181

By:

Rico-Jiménez, Miriam;
Ceballos-Pérez, Gloria;
Gómez-Liñán, Claudia;
Estévez, Antonio M

Publication type:

Article

Local structure of DNA toroids reveals curvature-dependent intermolecular forces.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3709, doi. 10.1093/nar/gkab197

By:

Barberi, Luca;
Livolant, Françoise;
Leforestier, Amélie;
Lenz, Martin

Publication type:

Article

Rif1 regulates telomere length through conserved HEAT repeats.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3967, doi. 10.1093/nar/gkab206

By:

Shubin, Calla B;
Mayangsari, Rini;
Swett, Ariel D;
Greider, Carol W

Publication type:

Article

Crystal structures of influenza nucleoprotein complexed with nucleic acid provide insights into the mechanism of RNA interaction.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4144, doi. 10.1093/nar/gkab203

By:

Tang, Yun-Sang;
Xu, Shutong;
Chen, Yu-Wai;
Wang, Jia-Huai;
Shaw, Pang-Chui

Publication type:

Article

Corrigendum to article "DriverML: a machine learning algorithm for identifying driver genes in cancer sequencing studies".

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4196, doi. 10.1093/nar/gkab193

By:

Han, Yi;
Yang, Juze;
Qian, Xinyi;
Cheng, Wei-Chung;
Liu, Shu-Hsuan;
Hua, Xing;
Zhou, Liyuan;
Yang, Yaning;
Wu, Qingbiao;
Liu, Pengyuan;
Lu, Yan

Publication type:

Article

Computational meta-analysis of ribosomal RNA fragments: potential targets and interaction mechanisms.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4085, doi. 10.1093/nar/gkab190

By:

Guan, Lingyu;
Grigoriev, Andrey

Publication type:

Article

Profiling of RNA ribose methylation in Arabidopsis thaliana.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4104, doi. 10.1093/nar/gkab196

By:

Wu, Songlin;
Wang, Yuqiu;
Wang, Jiayin;
Li, Xilong;
Li, Jiayang;
Ye, Keqiong

Publication type:

Article

Androgen and glucocorticoid receptor direct distinct transcriptional programs by receptor-specific and shared DNA binding sites.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3856, doi. 10.1093/nar/gkab185

By:

Kulik, Marina;
Bothe, Melissa;
Kibar, Gözde;
Fuchs, Alisa;
Schöne, Stefanie;
Prekovic, Stefan;
Mayayo-Peralta, Isabel;
Chung, Ho-Ryun;
Zwart, Wilbert;
Helsen, Christine;
Claessens, Frank;
Meijsing, Sebastiaan H

Publication type:

Article

Di-phosphorylated BAF shows altered structural dynamics and binding to DNA, but interacts with its nuclear envelope partners.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3841, doi. 10.1093/nar/gkab184

By:

Marcelot, Agathe;
Petitalot, Ambre;
Ropars, Virginie;
Le Du, Marie-Hélène;
Samson, Camille;
Dubois, Stevens;
Hoffmann, Guillaume;
Miron, Simona;
Cuniasse, Philippe;
Marquez, Jose Antonio;
Thai, Robert;
Theillet, François-Xavier;
Zinn-Justin, Sophie

Publication type:

Article

Regulator-dependent temporal dynamics of a restriction-modification system's gene expression upon entering new host cells: single-cell and population studies.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3826, doi. 10.1093/nar/gkab183

By:

Negri, Alessandro;
Werbowy, Olesia;
Wons, Ewa;
Dersch, Simon;
Hinrichs, Rebecca;
Graumann, Peter L;
Mruk, Iwona

Publication type:

Article

A programmable pAgo nuclease with universal guide and target specificity from the mesophilic bacterium Kurthia massiliensis.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4054, doi. 10.1093/nar/gkab182

By:

Kropocheva, Ekaterina;
Kuzmenko, Anton;
Aravin, Alexei A;
Esyunina, Daria;
Kulbachinskiy, Andrey

Publication type:

Article

Structural and functional studies of SF1B Pif1 from Thermus oshimai reveal dimerization-induced helicase inhibition.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4129, doi. 10.1093/nar/gkab188

By:

Dai, Yang-Xue;
Chen, Wei-Fei;
Liu, Na-Nv;
Teng, Fang-Yuan;
Guo, Hai-Lei;
Hou, Xi-Miao;
Dou, Shuo-Xing;
Rety, Stephane;
Xi, Xu-Guang

Publication type:

Article

Structural basis for substrate recognition and cleavage by the dimerization-dependent CRISPR–Cas12f nuclease.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4120, doi. 10.1093/nar/gkab179

By:

Xiao, Renjian;
Li, Zhuang;
Wang, Shukun;
Han, Ruijie;
Chang, Leifu

Publication type:

Article

MiniCAFE, a CRISPR/Cas9-based compact and potent transcriptional activator, elicits gene expression in vivo.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4171, doi. 10.1093/nar/gkab174

By:

Zhang, Xin;
Lv, Sihan;
Luo, Zhenhuan;
Hu, Yongfei;
Peng, Xin;
Lv, Jie;
Zhao, Shanshan;
Feng, Jianqi;
Huang, Guanjie;
Wan, Qin-Li;
Liu, Jun;
Huang, Hongxin;
Luan, Bing;
Wang, Dong;
Zhao, Xiaoyang;
Lin, Ying;
Zhou, Qinghua;
Zhang, Zhen-Ning;
Rong, Zhili

Publication type:

Article

Competition between bridged dinucleotides and activated mononucleotides determines the error frequency of nonenzymatic RNA primer extension.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3681, doi. 10.1093/nar/gkab173

By:

Duzdevich, Daniel;
Carr, Christopher E;
Ding, Dian;
Zhang, Stephanie J;
Walton, Travis S;
Szostak, Jack W

Publication type:

Article

Single-molecule optical mapping of the distribution of DNA phosphorothioate epigenetics.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3672, doi. 10.1093/nar/gkab169

By:

Wei, Yue;
Huang, Qinqin;
Tian, Xihao;
Zhang, Mingmin;
He, Junkai;
Chen, Xingxiang;
Chen, Chao;
Deng, Zixin;
Li, Zhiqiang;
Chen, Shi;
Wang, Lianrong

Publication type:

Article

Structural parameters of palindromic repeats determine the specificity of nuclease attack of secondary structures.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3932, doi. 10.1093/nar/gkab168

By:

Ait Saada, Anissia;
Costa, Alex B;
Sheng, Ziwei;
Guo, Wenying;
Haber, James E;
Lobachev, Kirill S

Publication type:

Article

Interaction of the NRF2 and p63 transcription factors promotes keratinocyte proliferation in the epidermis.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3748, doi. 10.1093/nar/gkab167

By:

Kurinna, Svitlana;
Seltmann, Kristin;
Bachmann, Andreas L;
Schwendimann, Andreas;
Thiagarajan, Lalitha;
Hennig, Paulina;
Beer, Hans-Dietmar;
Mollo, Maria Rosaria;
Missero, Caterina;
Werner, Sabine

Publication type:

Article

What defines a synthetic riboswitch? – Conformational dynamics of ciprofloxacin aptamers with similar binding affinities but varying regulatory potentials.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3661, doi. 10.1093/nar/gkab166

By:

Kaiser, Christoph;
Schneider, Jeannine;
Groher, Florian;
Suess, Beatrix;
Wachtveitl, Josef

Publication type:

Article

Systematic in vitro specificity profiling reveals nicking defects in natural and engineered CRISPR–Cas9 variants.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4037, doi. 10.1093/nar/gkab163

By:

Murugan, Karthik;
Suresh, Shravanti K;
Seetharam, Arun S;
Severin, Andrew J;
Sashital, Dipali G

Publication type:

Article

Mutagenic mechanisms of cancer-associated DNA polymerase ϵ alleles.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3919, doi. 10.1093/nar/gkab160

By:

Herzog, Mareike;
Alonso-Perez, Elisa;
Salguero, Israel;
Warringer, Jonas;
Adams, David J;
Jackson, Stephen P;
Puddu, Fabio

Publication type:

Article

RNA helicase-mediated regulation of snoRNP dynamics on pre-ribosomes and rRNA 2′-O-methylation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4066, doi. 10.1093/nar/gkab159

By:

Aquino, Gerald Ryan R;
Krogh, Nicolai;
Hackert, Philipp;
Martin, Roman;
Gallesio, Jimena Davila;
van Nues, Robert W;
Schneider, Claudia;
Watkins, Nicholas J;
Nielsen, Henrik;
Bohnsack, Katherine E;
Bohnsack, Markus T

Publication type:

Article

Regulation of RNA editing by intracellular acidification.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4020, doi. 10.1093/nar/gkab157

By:

Malik, Turnee N;
Doherty, Erin E;
Gaded, Vandana M;
Hill, Theodore M;
Beal, Peter A;
Emeson, Ronald B

Publication type:

Article

MKRN3-mediated ubiquitination of Poly(A)-binding proteins modulates the stability and translation of GNRH1 mRNA in mammalian puberty.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3796, doi. 10.1093/nar/gkab155

By:

Li, Chuanyin;
Han, Tianting;
Li, Qingrun;
Zhang, Menghuan;
Guo, Rong;
Yang, Yun;
Lu, Wenli;
Li, Zhengwei;
Peng, Chao;
Wu, Ping;
Tian, Xiaoxu;
Wang, Qinqin;
Wang, Yuexiang;
Zhou, Vincent;
Han, Ziyan;
Li, Hecheng;
Wang, Feng;
Hu, Ronggui

Publication type:

Article

Methylation-directed acetylation of histone H3 regulates developmental sensitivity to histone deacetylase inhibition.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3781, doi. 10.1093/nar/gkab154

By:

Huang, Li-Yao;
Hsu, Duen-Wei;
Pears, Catherine J

Publication type:

Article

Sequence-dependent cost for Z-form shapes the torsion-driven B–Z transition via close interplay of Z-DNA and DNA bubble.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3651, doi. 10.1093/nar/gkab153

By:

Kim, Sook Ho;
Jung, Hae Jun;
Lee, Il-Buem;
Lee, Nam-Kyung;
Hong, Seok-Cheol

Publication type:

Article

Somatic CAG expansion in Huntington's disease is dependent on the MLH3 endonuclease domain, which can be excluded via splice redirection.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3907, doi. 10.1093/nar/gkab152

By:

Roy, Jennie C L;
Vitalo, Antonia;
Andrew, Marissa A;
Mota-Silva, Eduarda;
Kovalenko, Marina;
Burch, Zoe;
Nhu, Anh M;
Cohen, Paula E;
Grabczyk, Ed;
Wheeler, Vanessa C;
Mouro Pinto, Ricardo

Publication type:

Article

A ProQ/FinO family protein involved in plasmid copy number control favours fitness of bacteria carrying mcr-1-bearing IncI2 plasmids.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3981, doi. 10.1093/nar/gkab149

By:

Yang, Jun;
Wang, Hai-Hong;
Lu, Yaoyao;
Yi, Ling-Xian;
Deng, Yinyue;
Lv, Luchao;
Burrus, Vincent;
Liu, Jian-Hua

Publication type:

Article

Discovery and engineering of small SlugCas9 with broad targeting range and high specificity and activity.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 4008, doi. 10.1093/nar/gkab148

By:

Hu, Ziying;
Zhang, Chengdong;
Wang, Shuai;
Gao, Siqi;
Wei, Jingjing;
Li, Miaomiao;
Hou, Linghui;
Mao, Huilin;
Wei, Yanyan;
Qi, Tao;
Liu, Hongmao;
Liu, Dong;
Lan, Feng;
Lu, Daru;
Wang, Hongyan;
Li, Jixi;
Wang, Yongming

Publication type:

Article

Ultraviolet-induced RNA:DNA hybrids interfere with chromosomal DNA synthesis.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3888, doi. 10.1093/nar/gkab147

By:

Kouzminova, Elena A;
Kuzminov, Andrei

Publication type:

Article

Oligomeric quaternary structure of Escherichia coli and Mycobacterium smegmatis Lhr helicases is nucleated by a novel C-terminal domain composed of five winged-helix modules.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3876, doi. 10.1093/nar/gkab145

By:

Warren, Garrett M;
Wang, Juncheng;
Patel, Dinshaw J;
Shuman, Stewart

Publication type:

Article

Ethidium bromide interactions with DNA: an exploration of a classic DNA–ligand complex with unbiased molecular dynamics simulations.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3735, doi. 10.1093/nar/gkab143

By:

Galindo-Murillo, Rodrigo;
Cheatham, Thomas E

Publication type:

Article

Iron–sulfur biology invades tRNA modification: the case of U34 sulfuration.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3997, doi. 10.1093/nar/gkab138

By:

Jingjing, Zhou;
Marine, Lénon;
Jean-Luc, Ravanat;
Touati, Nadia;
Christophe, Velours;
Karolina, Podskoczyj;
Grazyna, Leszczynska;
Marc, Fontecave;
Frédéric, Barras;
Béatrice, Golinelli-Pimpaneau

Publication type:

Article

ADP-ribosylation of RNA and DNA: from in vitro characterization to in vivo function.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3634, doi. 10.1093/nar/gkab136

By:

Weixler, Lisa;
Schäringer, Katja;
Momoh, Jeffrey;
Lüscher, Bernhard;
Feijs, Karla L H;
Žaja, Roko

Publication type:

Article

SDC mediates DNA methylation-controlled clock pace by interacting with ZTL in Arabidopsis.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3764, doi. 10.1093/nar/gkab128

By:

Tian, Wenwen;
Wang, Ruyi;
Bo, Cunpei;
Yu, Yingjun;
Zhang, Yuanyuan;
Shin, Gyeong-Im;
Kim, Woe-Yeon;
Wang, Lei

Publication type:

Article

Biological relevance and therapeutic potential of G-quadruplex structures in the human noncoding transcriptome.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3617, doi. 10.1093/nar/gkab127

By:

Tassinari, Martina;
Richter, Sara N;
Gandellini, Paolo

Publication type:

Article

Modeling multi-species RNA modification through multi-task curriculum learning.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. 3719, doi. 10.1093/nar/gkab124

By:

Xiong, Yuanpeng;
He, Xuan;
Zhao, Dan;
Tian, Tingzhong;
Hong, Lixiang;
Jiang, Tao;
Zeng, Jianyang

Publication type:

Article

Flexible comparison of batch correction methods for single-cell RNA-seq using BatchBench.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. e42, doi. 10.1093/nar/gkab004

By:

Chazarra-Gil, Ruben;
van Dongen, Stijn;
Kiselev, Vladimir Yu;
Hemberg, Martin

Publication type:

Article

Solid-phase XRN1 reactions for RNA cleavage: application in single-molecule sequencing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. e41, doi. 10.1093/nar/gkab001

By:

Athapattu, Uditha S;
Amarasekara, Charuni A;
Immel, Jacob R;
Bloom, Steven;
Barany, Francis;
Nagel, Aaron C;
Soper, Steven A

Publication type:

Article

A novel all-in-one conditional knockout system uncovered an essential role of DDX1 in ribosomal RNA processing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. e40, doi. 10.1093/nar/gkaa1296

By:

Suzuki, Teruhiko;
Katada, Eiji;
Mizuoka, Yuki;
Takagi, Satoko;
Kazuki, Yasuhiro;
Oshimura, Mitsuo;
Shindo, Mayumi;
Hara, Takahiko

Publication type:

Article

The loopometer: a quantitative in vivo assay for DNA-looping proteins.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. e39, doi. 10.1093/nar/gkaa1284

By:

Hao, Nan;
Sullivan, Adrienne E;
Shearwin, Keith E;
Dodd, Ian B

Publication type:

Article

In vivo phage display: identification of organ-specific peptides using deep sequencing and differential profiling across tissues.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. e38, doi. 10.1093/nar/gkaa1279

By:

Pleiko, Karlis;
Põšnograjeva, Kristina;
Haugas, Maarja;
Paiste, Päärn;
Tobi, Allan;
Kurm, Kaarel;
Riekstina, Una;
Teesalu, Tambet

Publication type:

Article

Network controllability-based algorithm to target personalized driver genes for discovering combinatorial drugs of individual patients.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 7, p. e37, doi. 10.1093/nar/gkaa1272

By:

Guo, Wei-Feng;
Zhang, Shao-Wu;
Feng, Yue-Hua;
Liang, Jing;
Zeng, Tao;
Chen, Luonan

Publication type:

Article