Works matching IS 03051048 AND DT 2023 AND VI 51 AND IP 16

Results: 43

Click display: a rapid and efficient in vitro protein display method for directed evolution.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. e89, doi. 10.1093/nar/gkad643

By:

Zeng, Yu;
Woolley, Michael;
Chockalingam, Karuppiah;
Thomas, Benjamin;
Arora, Srishtee;
Hook, Magnus;
Chen, Zhilei

Publication type:

Article

BurstDECONV: a signal deconvolution method to uncover mechanisms of transcriptional bursting in live cells.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. e88, doi. 10.1093/nar/gkad629

By:

Douaihy, Maria;
Topno, Rachel;
Lagha, Mounia;
Bertrand, Edouard;
Radulescu, Ovidiu

Publication type:

Article

Transcriptome-wide profiling of A-to-I RNA editing by Slic-seq.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. e87, doi. 10.1093/nar/gkad604

By:

Wei, Qi;
Han, Shaoqing;
Yuan, Kexin;
He, Zhiyong;
Chen, Yuqi;
Xi, Xin;
Han, Jingyu;
Yan, Shen;
Chen, Yingying;
Yuan, Bifeng;
Weng, Xiaocheng;
Zhou, Xiang

Publication type:

Article

IGHV allele similarity clustering improves genotype inference from adaptive immune receptor repertoire sequencing data.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. e86, doi. 10.1093/nar/gkad603

By:

Peres, Ayelet;
Lees, William D;
Rodriguez, Oscar L;
Lee, Noah Y;
Polak, Pazit;
Hope, Ronen;
Kedmi, Meirav;
Collins, Andrew M;
Ohlin, Mats;
Kleinstein, Steven H;
Watson, Corey T;
Yaari, Gur

Publication type:

Article

Expression of concern on 'transcription factor binding sites in the pol gene intragenic regulatory region of HIV-1 are important for virus infectivity'.

Published in:: Nucleic Acids Research, 2023, v. 51, n. 16, p. 8908, doi. 10.1093/nar/gkad653
Publication type:: Article

Crystal structure of a cap-independent translation enhancer RNA.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8891, doi. 10.1093/nar/gkad649

By:

Lewicka, Anna;
Roman, Christina;
Jones, Stacey;
Disare, Michael;
Rice, Phoebe A;
Piccirilli, Joseph A

Publication type:

Article

Dimerization of an umbravirus RNA genome activates subgenomic mRNA transcription.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8787, doi. 10.1093/nar/gkad550

By:

Chkuaseli, Tamari;
White, K Andrew

Publication type:

Article

Steric hindrance and structural flexibility shape the functional properties of a guanine-rich oligonucleotide.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8880, doi. 10.1093/nar/gkad634

By:

Troisi, Romualdo;
Napolitano, Valeria;
Rossitto, Emanuele;
Osman, Waleed;
Nagano, Masanobu;
Wakui, Koji;
Popowicz, Grzegorz M;
Yoshimoto, Keitaro;
Sica, Filomena

Publication type:

Article

Structural basis for cloverleaf RNA-initiated viral genome replication.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8850, doi. 10.1093/nar/gkad618

By:

Gottipati, Keerthi;
McNeme, Sean C;
Tipo, Jerricho;
White, Mark A;
Choi, Kyung H

Publication type:

Article

The translational repressor Glorund uses interchangeable RNA recognition domains to recognize Drosophila nanos.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8836, doi. 10.1093/nar/gkad586

By:

Warden, Meghan S;
DeRose, Eugene F;
Tamayo, Joel V;
Mueller, Geoffrey A;
Gavis, Elizabeth R;
Hall, Traci M Tanaka

Publication type:

Article

The fission yeast methyl phosphate capping enzyme Bmc1 guides 2′-O-methylation of the U6 snRNA.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8805, doi. 10.1093/nar/gkad563

By:

Porat, Jennifer;
Slat, Viktor A;
Rader, Stephen D;
Bayfield, Mark A

Publication type:

Article

Paralogous translation factors target distinct mRNAs to differentially regulate tolerance to oxidative stress in yeast.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8820, doi. 10.1093/nar/gkad568

By:

Cunningham, Joanne;
Sfakianos, Aristeidis P;
Kritsiligkou, Paraskevi;
Kershaw, Christopher J;
Whitmarsh, Alan J;
Hubbard, Simon J;
Ashe, Mark P;
Grant, Chris M

Publication type:

Article

Asymmetric dimerization in a transcription factor superfamily is promoted by allosteric interactions with DNA.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8864, doi. 10.1093/nar/gkad632

By:

Patel, Abdul Kareem Mohideen;
Vilela, Pierre;
Shaik, Tajith Baba;
McEwen, Alastair G;
Hazemann, Isabelle;
Brillet, Karl;
Ennifar, Eric;
Hamiche, Ali;
Markov, Gabriel V;
Laudet, Vincent;
Moras, Dino;
Klaholz, Bruno P;
Billas, Isabelle M L

Publication type:

Article

Direct m6A recognition by IMP1 underlays an alternative model of target selection for non-canonical methyl-readers.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8774, doi. 10.1093/nar/gkad534

By:

Nicastro, Giuseppe;
Abis, Giancarlo;
Klein, Pierre;
Esteban-Serna, Sofia;
Gallagher, Christopher;
Chaves-Arquero, Belen;
Cai, Yuyang;
Figueiredo, Angelo Miguel;
Martin, Stephen R;
Patani, Rickie;
Taylor, Ian A;
Ramos, Andres

Publication type:

Article

Surveillance of 3′ mRNA cleavage during transcription termination requires CF IB/Hrp1.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8758, doi. 10.1093/nar/gkad530

By:

Li, Jing;
Querl, Luisa;
Coban, Ivo;
Salinas, Gabriela;
Krebber, Heike

Publication type:

Article

Mutation signature filtering enables high-fidelity RNA structure probing at all four nucleobases with DMS.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8744, doi. 10.1093/nar/gkad522

By:

Mitchell III, David;
Cotter, Jennifer;
Saleem, Irfana;
Mustoe, Anthony M

Publication type:

Article

A DNA unwinding equilibrium serves as a checkpoint for CRISPR-Cas12a target discrimination.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8730, doi. 10.1093/nar/gkad636

By:

Singh, Jaideep;
Liu, Kevin G;
Allen, Aleique;
Jiang, Wei;
Qin, Peter Z

Publication type:

Article

Structure–function analysis of an ancient TsaD–TsaC–SUA5–TcdA modular enzyme reveals a prototype of tRNA t6A and ct6A synthetases.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8711, doi. 10.1093/nar/gkad587

By:

Jin, Mengqi;
Zhang, Zelin;
Yu, Zhijiang;
Chen, Wei;
Wang, Xiaolei;
Lei, Dongsheng;
Zhang, Wenhua

Publication type:

Article

The FLIP-FIGNL1 complex regulates the dissociation of RAD51/DMC1 in homologous recombination and replication fork restart.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8606, doi. 10.1093/nar/gkad596

By:

Zhang, Qianting;
Fan, Jiayi;
Xu, Wei;
Cao, Huiwen;
Qiu, Cheng;
Xiong, Yi;
Zhao, Huacun;
Wang, Yong;
Huang, Jun;
Yu, Chao

Publication type:

Article

Human TRMT2A methylates tRNA and contributes to translation fidelity.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8691, doi. 10.1093/nar/gkad565

By:

Witzenberger, Monika;
Burczyk, Sandra;
Settele, David;
Mayer, Wieland;
Welp, Luisa M;
Heiss, Matthias;
Wagner, Mirko;
Monecke, Thomas;
Janowski, Robert;
Carell, Thomas;
Urlaub, Henning;
Hauck, Stefanie M;
Voigt, Aaron;
Niessing, Dierk

Publication type:

Article

A novel Queuovirinae lineage of Pseudomonas aeruginosa phages encode dPreQ0 DNA modifications with a single GA motif that provide restriction and CRISPR Cas9 protection in vitro.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8663, doi. 10.1093/nar/gkad622

By:

Olsen, Nikoline S;
Nielsen, Tue K;
Cui, Liang;
Dedon, Peter;
Neve, Horst;
Hansen, Lars H;
Kot, Witold

Publication type:

Article

TLK1-mediated RAD54 phosphorylation spatio-temporally regulates Homologous Recombination Repair.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8643, doi. 10.1093/nar/gkad589

By:

Ghosh, Ishita;
Kwon, Youngho;
Shabestari, Aida Badamchi;
Chikhale, Rupesh;
Chen, Jing;
Wiese, Claudia;
Sung, Patrick;
De Benedetti, Arrigo

Publication type:

Article

Engineering of the DNA replication and repair machinery to develop binary mutators for rapid genome evolution of Corynebacterium glutamicum.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8623, doi. 10.1093/nar/gkad602

By:

Cai, Ningyun;
Chen, Jiuzhou;
Gao, Ning;
Ni, Xiaomeng;
Lei, Yu;
Pu, Wei;
Wang, Lixian;
Che, Bin;
Fan, Liwen;
Zhou, Wenjuan;
Feng, Jinhui;
Wang, Yu;
Zheng, Ping;
Sun, Jibin

Publication type:

Article

SARS-CoV-2 NSP1 induces mRNA cleavages on the ribosome.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8677, doi. 10.1093/nar/gkad627

By:

Tardivat, Yann;
Sosnowski, Piotr;
Tidu, Antonin;
Westhof, Eric;
Eriani, Gilbert;
Martin, Franck

Publication type:

Article

Dynamic structure of T4 gene 32 protein filaments facilitates rapid noncooperative protein dissociation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8587, doi. 10.1093/nar/gkad595

By:

Cashen, Ben A;
Morse, Michael;
Rouzina, Ioulia;
Karpel, Richard L;
Williams, Mark C

Publication type:

Article

Enhanced frequency of transcription pre-initiation complexes assembly after exposure to UV irradiation results in increased repair activity and reduced probabilities for mutagenesis.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8575, doi. 10.1093/nar/gkad593

By:

Liakos, Anastasios;
Synacheri, Anna-Chloe;
Konstantopoulos, Dimitris;
Stefos, Georgios C;
Lavigne, Matthieu D;
Fousteri, Maria

Publication type:

Article

Archaeal Hel308 suppresses recombination through a catalytic switch that controls DNA annealing.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8563, doi. 10.1093/nar/gkad572

By:

Lever, Rebecca J;
Simmons, Emily;
Gamble-Milner, Rebecca;
Buckley, Ryan J;
Harrison, Catherine;
Parkes, Ashley J;
Mitchell, Laura;
Gausden, Jacob A;
Škulj, Sanja;
Bertoša, Branimir;
Bolt, Edward L;
Allers, Thorsten

Publication type:

Article

Hop2-Mnd1 and Swi5-Sfr1 stimulate Dmc1 filament assembly using distinct mechanisms.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8550, doi. 10.1093/nar/gkad561

By:

Lee, Wei;
Iwasaki, Hiroshi;
Tsubouchi, Hideo;
Li, Hung-Wen

Publication type:

Article

Large-scale expansions of Friedreich's ataxia GAA•TTC repeats in an experimental human system: role of DNA replication and prevention by LNA-DNA oligonucleotides and PNA oligomers.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8532, doi. 10.1093/nar/gkad441

By:

Rastokina, Anastasia;
Cebrián, Jorge;
Mozafari, Negin;
Mandel, Nicholas H;
Smith, C I Edvard;
Lopes, Massimo;
Zain, Rula;
Mirkin, Sergei M

Publication type:

Article

NAT10-mediated N4-acetylcytidine mRNA modification regulates self-renewal in human embryonic stem cells.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8514, doi. 10.1093/nar/gkad628

By:

Liu, Rucong;
Wubulikasimu, Zibaguli;
Cai, Runze;
Meng, Fanyi;
Cui, Qinghua;
Zhou, Yuan;
Li, Yang

Publication type:

Article

Nucleosome retention by histone chaperones and remodelers occludes pervasive DNA–protein binding.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8496, doi. 10.1093/nar/gkad615

By:

Jonas, Felix;
Vidavski, Matan;
Benuck, Eli;
Barkai, Naama;
Yaakov, Gilad

Publication type:

Article

Structures of CTCF–DNA complexes including all 11 zinc fingers.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8447, doi. 10.1093/nar/gkad594

By:

Yang, Jie;
Horton, John R;
Liu, Bin;
Corces, Victor G;
Blumenthal, Robert M;
Zhang, Xing;
Cheng, Xiaodong

Publication type:

Article

Identification of mammalian transcription factors that bind to inaccessible chromatin.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8480, doi. 10.1093/nar/gkad614

By:

Pop, Romana T;
Pisante, Alessandra;
Nagy, Dorka;
Martin, Patrick C N;
Mikheeva, Liudmila A;
Hayat, Ateequllah;
Ficz, Gabriella;
Zabet, Nicolae Radu

Publication type:

Article

RTEL1 is required for silencing and epigenome stability.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8463, doi. 10.1093/nar/gkad610

By:

Olivier, Margaux;
Hesketh, Amy;
Pouch-Pélissier, Marie-Noëlle;
Pélissier, Thierry;
Huang, Ying;
Latrasse, David;
Benhamed, Moussa;
Mathieu, Olivier

Publication type:

Article

Targeted RNA condensation in living cells via genetically encodable triplet repeat tags.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8337, doi. 10.1093/nar/gkad621

By:

Xue, Zhaolin;
Ren, Kewei;
Wu, Rigumula;
Sun, Zhining;
Zheng, Ru;
Tian, Qian;
Ali, Ahsan Ausaf;
Mi, Lan;
You, Mingxu

Publication type:

Article

G-quadruplex DNA contributes to RNA polymerase II-mediated 3D chromatin architecture.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8434, doi. 10.1093/nar/gkad588

By:

Yuan, Jun;
He, Xiaomei;
Wang, Yinsheng

Publication type:

Article

A systematic approach to classify and characterize genomic islands driven by conjugative mobility using protein signatures.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8402, doi. 10.1093/nar/gkad644

By:

Audrey, Bioteau;
Cellier, Nicolas;
White, Frédérique;
Jacques, Pierre-Étienne;
Burrus, Vincent

Publication type:

Article

JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8383, doi. 10.1093/nar/gkad616

By:

Sreedasyam, Avinash;
Plott, Christopher;
Hossain, Md Shakhawat;
Lovell, John T;
Grimwood, Jane;
Jenkins, Jerry W;
Daum, Christopher;
Barry, Kerrie;
Carlson, Joseph;
Shu, Shengqiang;
Phillips, Jeremy;
Amirebrahimi, Mojgan;
Zane, Matthew;
Wang, Mei;
Goodstein, David;
Haas, Fabian B;
Hiss, Manuel;
Perroud, Pierre-François;
Jawdy, Sara S;
Yang, Yongil

Publication type:

Article

A comprehensive survey of long-range tertiary interactions and motifs in non-coding RNA structures.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8367, doi. 10.1093/nar/gkad605

By:

Bohdan, Davyd R;
Voronina, Valeria V;
Bujnicki, Janusz M;
Baulin, Eugene F

Publication type:

Article

iSMOD: an integrative browser for image-based single-cell multi-omics data.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8348, doi. 10.1093/nar/gkad580

By:

Zhang, Weihang;
Suo, Jinli;
Yan, Yan;
Yang, Runzhao;
Lu, Yiming;
Jin, Yiqi;
Gao, Shuochen;
Li, Shao;
Gao, Juntao;
Zhang, Michael;
Dai, Qionghai

Publication type:

Article

DeSUMOylation of chromatin-bound proteins limits the rapid transcriptional reprogramming induced by daunorubicin in acute myeloid leukemias.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8413, doi. 10.1093/nar/gkad581

By:

Boulanger, Mathias;
Aqrouq, Mays;
Tempé, Denis;
Kifagi, Chamseddine;
Ristic, Marko;
Akl, Dana;
Hallal, Rawan;
Carusi, Aude;
Gabellier, Ludovic;
de Toledo, Marion;
Sigurdsson, Jon-Otti;
Kaoma, Tony;
Andrieu-Soler, Charlotte;
Forné, Thierry;
Soler, Eric;
Hicheri, Yosr;
Gueret, Elise;
Vallar, Laurent;
Olsen, Jesper V;
Cartron, Guillaume

Publication type:

Article

Genetically encoded RNA-based sensors with Pepper fluorogenic aptamer.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8322, doi. 10.1093/nar/gkad620

By:

Chen, Zhenyin;
Chen, Wei;
Reheman, Zhayila;
Jiang, Haodong;
Wu, Jiahui;
Li, Xing

Publication type:

Article

Genome-wide mapping of i-motifs reveals their association with transcription regulation in live human cells.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 16, p. 8309, doi. 10.1093/nar/gkad626

By:

Zanin, Irene;
Ruggiero, Emanuela;
Nicoletto, Giulia;
Lago, Sara;
Maurizio, Ilaria;
Gallina, Irene;
Richter, Sara N

Publication type:

Article