Works matching IS 03051048 AND DT 2024 AND VI 52 AND IP 6

Results: 56

Correction to 'A dual-activity topoisomerase complex promotes both transcriptional activation and repression in response to starvation'.

Published in:: Nucleic Acids Research, 2024, v. 52, n. 6, p. 3488, doi. 10.1093/nar/gkae200
Publication type:: Article

Correction to 'Cell cycle regulated DNA methyltransferase: fluorescent tracking of a DNA strand-separation mechanism and identification of the responsible protein motif'.

Published in:: Nucleic Acids Research, 2024, v. 52, n. 6, p. 3487, doi. 10.1093/nar/gkae196
Publication type:: Article

Correction to 'PathBank 2.0—the pathway database for model organism metabolomics'.

Published in:: Nucleic Acids Research, 2024, v. 52, n. 6, p. 3486, doi. 10.1093/nar/gkae191
Publication type:: Article

Comprehensive transcriptome analysis reveals altered mRNA splicing and post-transcriptional changes in the aged mouse brain.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2865, doi. 10.1093/nar/gkae172

By:

Kumar, Nisha Hemandhar;
Kluever, Verena;
Barth, Emanuel;
Krautwurst, Sebastian;
Furlan, Mattia;
Pelizzola, Mattia;
Marz, Manja;
Fornasiero, Eugenio F

Publication type:

Article

Molecular mechanism of the one-component regulator RccR on bacterial metabolism and virulence.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3433, doi. 10.1093/nar/gkae171

By:

Zhu, Yibo;
Mou, Xingyu;
Song, Yingjie;
Zhang, Qianqian;
Sun, Bo;
Liu, Huanxiang;
Tang, Hong;
Bao, Rui

Publication type:

Article

CRISPR antiphage defence mediated by the cyclic nucleotide-binding membrane protein Csx23.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2761, doi. 10.1093/nar/gkae167

By:

Grüschow, Sabine;
McQuarrie, Stuart;
Ackermann, Katrin;
McMahon, Stephen;
Bode, Bela E;
Gloster, Tracey M;
White, Malcolm F

Publication type:

Article

Correction to 'Functional identification of cis-regulatory long noncoding RNAs at controlled false discovery rates'.

Published in:: Nucleic Acids Research, 2024, v. 52, n. 6, p. 3485, doi. 10.1093/nar/gkae166
Publication type:: Article

Correction to 'Genomes OnLine Database (GOLD) v.8: overview and updates'.

Published in:: Nucleic Acids Research, 2024, v. 52, n. 6, p. 3484, doi. 10.1093/nar/gkae163
Publication type:: Article

Comprehensive map of ribosomal 2′-O-methylation and C/D box snoRNAs in Drosophila melanogaster.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2848, doi. 10.1093/nar/gkae139

By:

Sklias, Athena;
Cruciani, Sonia;
Marchand, Virginie;
Spagnuolo, Mariangela;
Lavergne, Guillaume;
Bourguignon, Valérie;
Brambilla, Alessandro;
Dreos, René;
Marygold, Steven J;
Novoa, Eva Maria;
Motorin, Yuri;
Roignant, Jean-Yves

Publication type:

Article

Correction to 'Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v.9'.

Published in:: Nucleic Acids Research, 2024, v. 52, n. 6, p. 3483, doi. 10.1093/nar/gkae162
Publication type:: Article

Peptide nucleic acid-assisted generation of targeted double-stranded DNA breaks with T7 endonuclease I.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3469, doi. 10.1093/nar/gkae148

By:

Aman, Rashid;
Syed, Muntjeeb M;
Saleh, Ahmed;
Melliti, Firdaws;
Gundra, Sivakrishna Rao;
Wang, Qiaochu;
Marsic, Tin;
Mahas, Ahmed;
Mahfouz, Magdy M

Publication type:

Article

Conserved structures and dynamics in 5′-proximal regions of Betacoronavirus RNA genomes.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3419, doi. 10.1093/nar/gkae144

By:

de Moura, Tales Rocha;
Purta, Elżbieta;
Bernat, Agata;
Martín-Cuevas, Eva M;
Kurkowska, Małgorzata;
Baulin, Eugene F;
Mukherjee, Sunandan;
Nowak, Jakub;
Biela, Artur P;
Rawski, Michał;
Glatt, Sebastian;
Moreno-Herrero, Fernando;
Bujnicki, Janusz M

Publication type:

Article

An engineered baculoviral protein and DNA co-delivery system for CRISPR-based mammalian genome editing.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3450, doi. 10.1093/nar/gkae142

By:

Capin, Julien;
Harrison, Alexandra;
Raele, Renata A;
Yadav, Sathish K N;
Baiwir, Dominique;
Mazzucchelli, Gabriel;
Quinton, Loic;
Satchwell, Timothy J;
Toye, Ashley M;
Schaffitzel, Christiane;
Berger, Imre;
Aulicino, Francesco

Publication type:

Article

Chemical modification patterns for microRNA therapeutic mimics: a structure-activity relationship (SAR) case-study on miR-200c.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2792, doi. 10.1093/nar/gkae141

By:

Garreau, Marion;
Weidner, Julie;
Hamilton, Russell;
Kolosionek, Ewa;
Toki, Naoko;
Stavenhagen, Kathrin;
Paris, Clément;
Bonetti, Alessandro;
Czechtizky, Werngard;
Gnerlich, Felix;
Rydzik, Anna

Publication type:

Article

Bioorthogonal labeling and profiling of N6-isopentenyladenosine (i6A) modified RNA.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2808, doi. 10.1093/nar/gkae150

By:

Li, Yuanyuan;
Zhou, Hongling;
Chen, Shasha;
Li, Yinan;
Guo, Yuyang;
Chen, Xiaoqian;
Wang, Sheng;
Wang, Li;
Gan, Youfang;
Zhang, Shusheng;
Zheng, Ya Ying;
Sheng, Jia;
Zhou, Zhipeng;
Wang, Rui

Publication type:

Article

Structural insights into the N-terminal APHB domain of HrpA: mediating canonical and i-motif recognition.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3406, doi. 10.1093/nar/gkae138

By:

Xin, Ben-Ge;
Huang, Ling-Yun;
Yuan, Ling-Gang;
Liu, Na-Nv;
Li, Hai-Hong;
Ai, Xia;
Lei, Dong-Sheng;
Hou, Xi-Miao;
Rety, Stephane;
Xi, Xu-Guang

Publication type:

Article

Structural insights into the morpholino nucleic acid/RNA duplex using the new XNA builder Ducque in a molecular modeling pipeline.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2836, doi. 10.1093/nar/gkae135

By:

Rihon, Jérôme;
Mattelaer, Charles-Alexandre;
Montalvão, Rinaldo Wander;
Froeyen, Mathy;
Pinheiro, Vitor Bernardes;
Lescrinier, Eveline

Publication type:

Article

Cryptic proteins translated from deletion-containing viral genomes dramatically expand the influenza virus proteome.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3199, doi. 10.1093/nar/gkae133

By:

Ranum, Jordan N;
Ledwith, Mitchell P;
Alnaji, Fadi G;
Diefenbacher, Meghan;
Orton, Richard;
Sloan, Elizabeth;
Güereca, Melissa;
Feltman, Elizabeth M;
Smollett, Katherine;
da Silva Filipe, Ana;
Conley, Michaela;
Russell, Alistair B;
Brooke, Christopher B;
Hutchinson, Edward;
Mehle, Andrew

Publication type:

Article

Novel mechanisms of diversity generation in Acinetobacter baumannii resistance islands driven by Tn7-like elements.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3180, doi. 10.1093/nar/gkae129

By:

Correa, Alberto;
Shehreen, Saadlee;
Machado, Laura Chacon;
Thesier, Jordan;
Cunic, Lille M;
Petassi, Michael T;
Chu, Joshua;
Kapili, Bennett J;
Jia, Yu;
England, Kevin A;
Peters, Joseph E

Publication type:

Article

A system of reporters for comparative investigation of EJC-independent and EJC-enhanced nonsense-mediated mRNA decay.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. e34, doi. 10.1093/nar/gkae121

By:

Kolakada, Divya;
Campbell, Amy E;
Galvis, Laura Baquero;
Li, Zhongyou;
Lore, Mlana;
Jagannathan, Sujatha

Publication type:

Article

A sensitive and scalable fluorescence anisotropy single stranded RNA targeting approach for monitoring riboswitch conformational states.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3164, doi. 10.1093/nar/gkae118

By:

Rivera, Maira;
Ayon, Omma S;
Diaconescu-Grabari, Suzana;
Pottel, Joshua;
Moitessier, Nicolas;
Mittermaier, Anthony;
McKeague, Maureen

Publication type:

Article

Structure of native four-repeat satellite III sequence with non-canonical base interactions.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3390, doi. 10.1093/nar/gkae113

By:

Chen, Erin;
Trajkovski, Marko;
Lee, Hyun Kyung;
Nyovanie, Samantha;
Martin, Kailey N;
Dean, William L;
Tahiliani, Mamta;
Plavec, Janez;
Yatsunyk, Liliya A

Publication type:

Article

Programmable RNA 5-methylcytosine (m5C) modification of cellular RNAs by dCasRx conjugated methyltransferase and demethylase.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2776, doi. 10.1093/nar/gkae110

By:

Zhang, Tao;
Zhao, Feiyu;
Li, Jinze;
Sun, Xiaodi;
Zhang, Xiyun;
Wang, Hejun;
Fan, Peng;
Lai, Liangxue;
Li, Zhanjun;
Sui, Tingting

Publication type:

Article

Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3121, doi. 10.1093/nar/gkae109

By:

Edelbroek, Bart;
Kjellin, Jonas;
Biryukova, Inna;
Liao, Zhen;
Lundberg, Torgny;
Noegel, Angelika A;
Eichinger, Ludwig;
Friedländer, Marc R;
Söderbom, Fredrik

Publication type:

Article

Site-specific incorporation of a fluorescent nucleobase analog enhances i-motif stability and allows monitoring of i-motif folding inside cells.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3375, doi. 10.1093/nar/gkae106

By:

Mir, Bartomeu;
Serrano-Chacón, Israel;
Medina, Pedro;
Macaluso, Veronica;
Terrazas, Montserrat;
Gandioso, Albert;
Garavís, Miguel;
Orozco, Modesto;
Escaja, Núria;
González, Carlos

Publication type:

Article

Employing bimodal representations to predict DNA bendability within a self-supervised pre-trained framework.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. e33, doi. 10.1093/nar/gkae099

By:

Yang, Minghao;
Zhang, Shichen;
Zheng, Zhihang;
Zhang, Pengfei;
Liang, Yan;
Tang, Shaojun

Publication type:

Article

BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. e32, doi. 10.1093/nar/gkae097

By:

Zhou, Wanding;
Johnson, Benjamin K;
Morrison, Jacob;
Beddows, Ian;
Eapen, James;
Katsman, Efrat;
Semwal, Ayush;
Habib, Walid Abi;
Heo, Lyong;
Laird, Peter W;
Berman, Benjamin P;
Triche, Timothy J;
Shen, Hui

Publication type:

Article

The chromatin accessibility dynamics during cell fate specifications in zebrafish early embryogenesis.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3106, doi. 10.1093/nar/gkae095

By:

Xu, Qiushi;
Zhang, Yunlong;
Xu, Wei;
Liu, Dong;
Jin, Wenfei;
Chen, Xi;
Hong, Ni

Publication type:

Article

CRISPR-COPIES: an in silico platform for discovery of neutral integration sites for CRISPR/Cas-facilitated gene integration.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. e30, doi. 10.1093/nar/gkae062

By:

Boob, Aashutosh Girish;
Zhu, Zhixin;
Intasian, Pattarawan;
Jain, Manan;
Petrov, Vassily Andrew;
Lane, Stephan Thomas;
Tan, Shih-I;
Xun, Guanhua;
Zhao, Huimin

Publication type:

Article

Resection of DNA double-strand breaks activates Mre11–Rad50–Nbs1- and Rad9–Hus1–Rad1-dependent mechanisms that redundantly promote ATR checkpoint activation and end processing in Xenopus egg extracts.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3146, doi. 10.1093/nar/gkae082

By:

Tatsukawa, Kensuke;
Sakamoto, Reihi;
Kawasoe, Yoshitaka;
Kubota, Yumiko;
Tsurimoto, Toshiki;
Takahashi, Tatsuro S;
Ohashi, Eiji

Publication type:

Article

Prediction of protein-RNA interactions from single-cell transcriptomic data.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. e31, doi. 10.1093/nar/gkae076

By:

Fiorentino, Jonathan;
Armaos, Alexandros;
Colantoni, Alessio;
Tartaglia, Gian Gaetano

Publication type:

Article

Functional identification of cis-regulatory long noncoding RNAs at controlled false discovery rates.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2821, doi. 10.1093/nar/gkae075

By:

Dhaka, Bhavya;
Zimmerli, Marc;
Hanhart, Daniel;
Moser, Mario B;
Guillen-Ramirez, Hugo;
Mishra, Sanat;
Esposito, Roberta;
Polidori, Taisia;
Widmer, Maro;
García-Pérez, Raquel;
Julio, Marianna Kruithof-de;
Pervouchine, Dmitri;
Melé, Marta;
Chouvardas, Panagiotis;
Johnson, Rory

Publication type:

Article

Cross-contamination of CRISPR guides and other unrelated nucleotide sequences among commercial oligonucleotides.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3137, doi. 10.1093/nar/gkae068

By:

Arakawa, Hiroshi;
Miura, Hiromi;
Quadros, Rolen M;
Ohtsuka, Masato;
Gurumurthy, Channabasavaiah B

Publication type:

Article

Influence of RNA circularity on Target RNA-Directed MicroRNA Degradation.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3358, doi. 10.1093/nar/gkae094

By:

Fuchs Wightman, Federico;
Lukin, Jerónimo;
Giusti, Sebastián A;
Soutschek, Michael;
Bragado, Laureano;
Pozzi, Berta;
Pierelli, María L;
González, Paula;
Fededa, Juan P;
Schratt, Gerhard;
Fujiwara, Rina;
Wilusz, Jeremy E;
Refojo, Damián;
de la Mata, Manuel

Publication type:

Article

Global identification of mRNA-interacting circular RNAs by CLiPPR-Seq.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. e29, doi. 10.1093/nar/gkae058

By:

Singh, Suman;
Shyamal, Sharmishtha;
Das, Arundhati;
Panda, Amaresh C

Publication type:

Article

A jingmenvirus RNA-dependent RNA polymerase structurally resembles the flavivirus counterpart but with different features at the initiation phase.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3278, doi. 10.1093/nar/gkae042

By:

Wang, Xinyu;
Jing, Xuping;
Shi, Junming;
Liu, Qiaojie;
Shen, Shu;
Cheung, Peter Pak-Hang;
Wu, Jiqin;
Deng, Fei;
Gong, Peng

Publication type:

Article

Linear DNA-driven recombination in mammalian mitochondria.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3088, doi. 10.1093/nar/gkae040

By:

Fragkoulis, Georgios;
Hangas, Anu;
Fekete, Zsófia;
Michell, Craig;
Moraes, Carlos T;
Willcox, Smaranda;
Griffith, Jack D;
Goffart, Steffi;
Pohjoismäki, Jaakko L O

Publication type:

Article

Identification of Hammerhead-variant ribozyme sequences in SARS-CoV-2.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3262, doi. 10.1093/nar/gkae037

By:

Liu, Getong;
Jiang, Hengyi;
Chen, Dongrong;
Murchie, Alastair I H

Publication type:

Article

DNA hypomethylation activates Cdk4/6 and Atr to induce DNA replication and cell cycle arrest to constrain liver outgrowth in zebrafish.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3069, doi. 10.1093/nar/gkae031

By:

Madakashira, Bhavani P;
Magnani, Elena;
Ranjan, Shashi;
Sadler, Kirsten C

Publication type:

Article

Single-molecule characterization of Sen1 translocation properties provides insights into eukaryotic factor-dependent transcription termination.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3249, doi. 10.1093/nar/gkae026

By:

Wang, Shuang;
Han, Zhong;
Strick, Terence R

Publication type:

Article

Innate programmable DNA binding by CRISPR-Cas12m effectors enable efficient base editing.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3234, doi. 10.1093/nar/gkae016

By:

Bigelyte, Greta;
Duchovska, Brigita;
Zedaveinyte, Rimante;
Sasnauskas, Giedrius;
Sinkunas, Tomas;
Dalgediene, Indre;
Tamulaitiene, Giedre;
Silanskas, Arunas;
Kazlauskas, Darius;
Valančauskas, Lukas;
Madariaga-Marcos, Julene;
Seidel, Ralf;
Siksnys, Virginijus;
Karvelis, Tautvydas

Publication type:

Article

H2A.Z is involved in premature aging and DSB repair initiation in muscle fibers.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3031, doi. 10.1093/nar/gkae020

By:

Belotti, Edwige;
Lacoste, Nicolas;
Iftikhar, Arslan;
Simonet, Thomas;
Papin, Christophe;
Osseni, Alexis;
Streichenberger, Nathalie;
Mari, Pierre-Olivier;
Girard, Emmanuelle;
Graies, Mohamed;
Giglia-Mari, Giuseppina;
Dimitrov, Stefan;
Hamiche, Ali;
Schaeffer, Laurent

Publication type:

Article

Identification of promoter activity in gene-less cassettes from Vibrionaceae superintegrons.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2961, doi. 10.1093/nar/gkad1252

By:

Blanco, Paula;
Hipólito, Alberto;
García-Pastor, Lucía;
Trigo da Roza, Filipa;
Toribio-Celestino, Laura;
Ortega, Alba Cristina;
Vergara, Ester;
San Millán, Álvaro;
Escudero, José Antonio

Publication type:

Article

LINE-1 mRNA 3′ end dynamics shape its biology and retrotransposition potential.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3327, doi. 10.1093/nar/gkad1251

By:

Janecki, Damian M;
Sen, Raneet;
Szóstak, Natalia;
Kajdasz, Arkadiusz;
Kordyś, Martyna;
Plawgo, Kinga;
Pandakov, Dmytro;
Philips, Anna;
Warkocki, Zbigniew

Publication type:

Article

Dissolution of ribonucleoprotein condensates by the embryonic stem cell protein L1TD1.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3310, doi. 10.1093/nar/gkad1244

By:

Jin, Sang Woo;
Seong, Youngmo;
Yoon, Dayoung;
Kwon, Young-Soo;
Song, Hoseok

Publication type:

Article

Nucleolar detention of NONO shields DNA double-strand breaks from aberrant transcripts.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3050, doi. 10.1093/nar/gkae022

By:

Trifault, Barbara;
Mamontova, Victoria;
Cossa, Giacomo;
Ganskih, Sabina;
Wei, Yuanjie;
Hofstetter, Julia;
Bhandare, Pranjali;
Baluapuri, Apoorva;
Nieto, Blanca;
Solvie, Daniel;
Ade, Carsten P;
Gallant, Peter;
Wolf, Elmar;
Larsen, Dorthe H;
Munschauer, Mathias;
Burger, Kaspar

Publication type:

Article

Chromatin remodeler CHD8 is required for spermatogonial proliferation and early meiotic progression.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2995, doi. 10.1093/nar/gkad1256

By:

Nitahara, Kenta;
Kawamura, Atsuki;
Kitamura, Yuka;
Kato, Kiyoko;
Namekawa, Satoshi H;
Nishiyama, Masaaki

Publication type:

Article

Lethal perturbation of an Escherichia coli regulatory network is triggered by a restriction-modification system's regulator and can be mitigated by excision of the cryptic prophage Rac.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2942, doi. 10.1093/nar/gkad1234

By:

Gucwa, Katarzyna;
Wons, Ewa;
Wisniewska, Aleksandra;
Jakalski, Marcin;
Dubiak, Zuzanna;
Kozlowski, Lukasz Pawel;
Mruk, Iwona

Publication type:

Article

Multifaceted roles of t6A biogenesis in efficiency and fidelity of mitochondrial gene expression.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3213, doi. 10.1093/nar/gkae013

By:

Zhang, Yong;
Zhou, Jing-Bo;
Yin, Yue;
Wang, En-Duo;
Zhou, Xiao-Long

Publication type:

Article

NAC and Zuotin/Hsp70 chaperone systems coexist at the ribosome tunnel exit in vivo.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 3346, doi. 10.1093/nar/gkae005

By:

Ziegelhoffer, Thomas;
Verma, Amit K;
Delewski, Wojciech;
Schilke, Brenda A;
Hill, Paige M;
Pitek, Marcin;
Marszalek, Jaroslaw;
Craig, Elizabeth A

Publication type:

Article