Works matching IS 03051048 AND DT 2023 AND VI 51 AND IP 8

Results: 45

The Escherichia coli Fur pan-regulon has few conserved but many unique regulatory targets.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3618, doi. 10.1093/nar/gkad253

By:

Gao, Ye;
Bang, Ina;
Seif, Yara;
Kim, Donghyuk;
Palsson, Bernhard O

Publication type:

Article

Correction to 'A clade of RHH proteins ubiquitous in Sulfolobales and their viruses regulates cell cycle progression'.

Published in:: 2023
Publication type:: Correction Notice

Characterization of the dual role of Plasmodium falciparum DNA methyltransferase in regulating transcription and translation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3918, doi. 10.1093/nar/gkad248

By:

Lucky, Amuza B;
Wang, Chengqi;
Li, Xiaolian;
Chim-Ong, Anongruk;
Adapa, Swamy R;
Quinlivan, Eoin P;
Jiang, Rays;
Cui, Liwang;
Miao, Jun

Publication type:

Article

DNA rehybridization drives product release from Cas9 ribonucleoprotein to enable multiple-turnover cleavage.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3903, doi. 10.1093/nar/gkad233

By:

Pan, Juan;
Mabuchi, Megumu;
Robb, Gregory Brett

Publication type:

Article

A computationally-enhanced hiCLIP atlas reveals Staufen1-RNA binding features and links 3′ UTR structure to RNA metabolism.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3573, doi. 10.1093/nar/gkad221

By:

Chakrabarti, Anob M;
Iosub, Ira A;
Lee, Flora C Y;
Ule, Jernej;
Luscombe, Nicholas M

Publication type:

Article

Super-enhancer-associated transcription factors collaboratively regulate trophoblast-active gene expression programs in human trophoblast stem cells.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3806, doi. 10.1093/nar/gkad215

By:

Kim, Mijeong;
Adu-Gyamfi, Enoch Appiah;
Kim, Jonghwan;
Lee, Bum-Kyu

Publication type:

Article

The temporal transcriptomic signature of cartilage formation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3590, doi. 10.1093/nar/gkad210

By:

Takács, Roland;
Vágó, Judit;
Póliska, Szilárd;
Pushparaj, Peter Natesan;
Ducza, László;
Kovács, Patrik;
Jin, Eun-Jung;
Barrett-Jolley, Richard;
Zákány, Róza;
Matta, Csaba

Publication type:

Article

Quantitative haplotype-resolved analysis of mitochondrial DNA heteroplasmy in Human single oocytes, blastoids, and pluripotent stem cells.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3793, doi. 10.1093/nar/gkad209

By:

Bi, Chongwei;
Wang, Lin;
Fan, Yong;
Yuan, Baolei;
Alsolami, Samhan;
Zhang, Yingzi;
Zhang, Pu-Yao;
Huang, Yanyi;
Yu, Yang;
Izpisua Belmonte, Juan Carlos;
Li, Mo

Publication type:

Article

Single-cell individual full-length mtDNA sequencing by iMiGseq uncovers unexpected heteroplasmy shifts in mtDNA editing.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. e48, doi. 10.1093/nar/gkad208

By:

Bi, Chongwei;
Wang, Lin;
Fan, Yong;
Yuan, Baolei;
Ramos-Mandujano, Gerardo;
Zhang, Yingzi;
Alsolami, Samhan;
Zhou, Xuan;
Wang, Jincheng;
Shao, Yanjiao;
Reddy, Pradeep;
Zhang, Pu-Yao;
Huang, Yanyi;
Yu, Yang;
Izpisua Belmonte, Juan Carlos;
Li, Mo

Publication type:

Article

Fission yeast Swi2 designates cell-type specific donor and stimulates Rad51-driven strand exchange for mating-type switching.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3869, doi. 10.1093/nar/gkad204

By:

Maki, Takahisa;
Thon, Geneviève;
Iwasaki, Hiroshi

Publication type:

Article

Cryo-EM reconstruction of the human 40S ribosomal subunit at 2.15 Å resolution.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4043, doi. 10.1093/nar/gkad194

By:

Pellegrino, Simone;
Dent, Kyle C;
Spikes, Tobias;
Warren, Alan J

Publication type:

Article

Structural basis of tRNA<sup>Pro</sup> acceptor stem recognition by a bacterial trans-editing domain.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3988, doi. 10.1093/nar/gkad192

By:

Ma, Xiao;
Bakhtina, Marina;
Shulgina, Irina;
Cantara, William A;
Kuzmishin Nagy, Alexandra B;
Goto, Yuki;
Suga, Hiroaki;
Foster, Mark P;
Musier-Forsyth, Karin

Publication type:

Article

Specific targeting of plasmids with Argonaute enables genome editing.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4086, doi. 10.1093/nar/gkad191

By:

Esyunina, Daria;
Okhtienko, Anastasiia;
Olina, Anna;
Panteleev, Vladimir;
Prostova, Maria;
Aravin, Alexei A;
Kulbachinskiy, Andrey

Publication type:

Article

Basis for the discrimination of supercoil handedness during DNA cleavage by human and bacterial type II topoisomerases.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3888, doi. 10.1093/nar/gkad190

By:

Jian, Jeffrey Y;
McCarty, Kevin D;
Byl, Jo Ann W;
Guengerich, F Peter;
Neuman, Keir C;
Osheroff, Neil

Publication type:

Article

Genome manipulation by guide-directed Argonaute cleavage.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4078, doi. 10.1093/nar/gkad188

By:

Huang, Shan;
Wang, Kaihang;
Mayo, Stephen L

Publication type:

Article

DNA supercoiling-induced shapes alter minicircle hydrodynamic properties.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4027, doi. 10.1093/nar/gkad183

By:

Waszkiewicz, Radost;
Ranasinghe, Maduni;
Fogg, Jonathan M;
Catanese, Daniel J;
Ekiel-Jeżewska, Maria L;
Lisicki, Maciej;
Demeler, Borries;
Zechiedrich, Lynn;
Szymczak, Piotr

Publication type:

Article

Structural basis for the tRNA-dependent activation of the terminal complex of selenocysteine synthesis in humans.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4012, doi. 10.1093/nar/gkad182

By:

Puppala, Anupama K;
Castillo Suchkou, Jennifer;
French, Rachel L;
Kiernan, Kaitlyn A;
Simonović, Miljan

Publication type:

Article

Cavity hairpin ThT-light nucleic acid switches: the construction of label- and enzyme-free sensing and imaging platforms.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3556, doi. 10.1093/nar/gkad179

By:

Lan, Xinyue;
Zhu, Longjiao;
Zhang, Yangzi;
Chen, Keren;
Wang, Jia;
Du, Zaihui;
Li, Shuting;
Chen, Xu;
Xu, Wentao

Publication type:

Article

G-quadruplex-based CRISPR photoswitch for spatiotemporal control of genomic modulation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4064, doi. 10.1093/nar/gkad178

By:

Deng, Huaping;
Xu, Han;
Wang, Yiru;
Jia, Ruizhen;
Ma, Xiaoqian;
Feng, Yushuo;
Chen, Hongmin

Publication type:

Article

A dual-purpose polymerase engineered for direct sequencing of pseudouridine and queuosine.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3971, doi. 10.1093/nar/gkad177

By:

Huber, Luisa B;
Kaur, Navpreet;
Henkel, Melanie;
Marchand, Virginie;
Motorin, Yuri;
Ehrenhofer-Murray, Ann E;
Marx, Andreas

Publication type:

Article

CAF-1 deposits newly synthesized histones during DNA replication using distinct mechanisms on the leading and lagging strands.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3770, doi. 10.1093/nar/gkad171

By:

Rouillon, Clément;
Eckhardt, Bruna V;
Kollenstart, Leonie;
Gruss, Fabian;
Verkennis, Alexander E E;
Rondeel, Inge;
Krijger, Peter H L;
Ricci, Giulia;
Biran, Alva;
van Laar, Theo;
Delvaux de Fenffe, Charlotte M;
Luppens, Georgiana;
Albanese, Pascal;
Sato, Koichi;
Scheltema, Richard A;
de Laat, Wouter;
Knipscheer, Puck;
Dekker, Nynke H;
Groth, Anja;
Mattiroli, Francesca

Publication type:

Article

The spatial landscape of gene expression isoforms in tissue sections.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. e47, doi. 10.1093/nar/gkad169

By:

Lebrigand, Kevin;
Bergenstråhle, Joseph;
Thrane, Kim;
Mollbrink, Annelie;
Meletis, Konstantinos;
Barbry, Pascal;
Waldmann, Rainer;
Lundeberg, Joakim

Publication type:

Article

Base excision repair of the N-(2-deoxy-d-erythro-pentofuranosyl)-urea lesion by the hNEIL1 glycosylase.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3754, doi. 10.1093/nar/gkad164

By:

Tomar, Rachana;
Minko, Irina G;
Sharma, Pankaj;
Kellum, Andrew H;
Lei, Li;
Harp, Joel M;
Iverson, T M;
Lloyd, R Stephen;
Egli, Martin;
Stone, Michael P

Publication type:

Article

Interaction with the carboxy-terminal tip of SSB is critical for RecG function in E. coli.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3735, doi. 10.1093/nar/gkad162

By:

Bonde, Nina J;
Henry, Camille;
Wood, Elizabeth A;
Cox, Michael M;
Keck, James L

Publication type:

Article

RNA binding proteins Smaug and Cup induce CCR4–NOT-dependent deadenylation of the nanos mRNA in a reconstituted system.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3950, doi. 10.1093/nar/gkad159

By:

Pekovic, Filip;
Rammelt, Christiane;
Kubíková, Jana;
Metz, Jutta;
Jeske, Mandy;
Wahle, Elmar

Publication type:

Article

SCRAPT: an iterative algorithm for clustering large 16S rRNA gene data sets.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. e46, doi. 10.1093/nar/gkad158

By:

Luan, Tu;
Muralidharan, Harihara Subrahmaniam;
Alshehri, Marwan;
Mittra, Ipsa;
Pop, Mihai

Publication type:

Article

Multi-task learning from multimodal single-cell omics with Matilda.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. e45, doi. 10.1093/nar/gkad157

By:

Liu, Chunlei;
Huang, Hao;
Yang, Pengyi

Publication type:

Article

Synergistic binding of actinomycin D and echinomycin to DNA mismatch sites and their combined anti-tumour effects.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3540, doi. 10.1093/nar/gkad156

By:

Satange, Roshan;
Chang, Chih-Chun;
Li, Long‐Yuan;
Lin, Sheng-Hao;
Neidle, Stephen;
Hou, Ming-Hon

Publication type:

Article

SPIDR is required for homologous recombination during mammalian meiosis.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3855, doi. 10.1093/nar/gkad154

By:

Huang, Tao;
Wu, Xinyue;
Wang, Shiyu;
Bao, Ziyou;
Wan, Yanling;
Wang, Ziqi;
Li, Mengjing;
Yu, Xiaochen;
Lv, Yue;
Liu, Zhaojian;
Chen, Xiangfeng;
Chan, Wai-Yee;
Gao, Fei;
Lu, Gang;
Chen, Zi-Jiang;
Liu, Hongbin

Publication type:

Article

The ubiquitin-specific protease USP36 SUMOylates EXOSC10 and promotes the nucleolar RNA exosome function in rRNA processing.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3934, doi. 10.1093/nar/gkad140

By:

Chen, Yingxiao;
Li, Yanping;
Dai, Roselyn S;
Savage, Jonathan C;
Shinde, Ujwal;
Klimek, John;
David, Larry L;
Young, Emma A;
Hafner, Markus;
Sears, Rosalie C;
Sun, Xiao-Xin;
Dai, Mu-Shui

Publication type:

Article

Rye: genetic ancestry inference at biobank scale.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. e44, doi. 10.1093/nar/gkad149

By:

Conley, Andrew B;
Rishishwar, Lavanya;
Ahmad, Maria;
Sharma, Shivam;
Norris, Emily T;
Jordan, I King;
Mariño-Ramírez, Leonardo

Publication type:

Article

Structural basis of a two-step tRNA recognition mechanism for plastid glycyl-tRNA synthetase.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4000, doi. 10.1093/nar/gkad144

By:

Yu, Zhaoli;
Wu, Zihan;
Li, Ye;
Hao, Qiang;
Cao, Xiaofeng;
Blaha, Gregor M;
Lin, Jinzhong;
Lu, Guoliang

Publication type:

Article

Generating minimum set of gRNA to cover multiple targets in multiple genomes with MINORg.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. e43, doi. 10.1093/nar/gkad142

By:

Lee, Rachelle R Q;
Cher, Wei Yuan;
Wang, Jinge;
Chen, Yujie;
Chae, Eunyoung

Publication type:

Article

7-Deazaguanines in DNA: functional and structural elucidation of a DNA modification system.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3836, doi. 10.1093/nar/gkad141

By:

Gedara, Samanthi Herath;
Wood, Evan;
Gustafson, Andrew;
Liang, Cui;
Hung, Shr-Hau;
Savage, Joshua;
Phan, Phuc;
Luthra, Amit;
de Crécy-Lagard, Valérie;
Dedon, Peter;
Swairjo, Manal A;
Iwata-Reuyl, Dirk

Publication type:

Article

Widely spaced and divergent inverted repeats become a potent source of chromosomal rearrangements in long single-stranded DNA regions.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3722, doi. 10.1093/nar/gkad153

By:

Ait Saada, Anissia;
Guo, Wenying;
Costa, Alex B;
Yang, Jiaxin;
Wang, Jianrong;
Lobachev, Kirill S

Publication type:

Article

Cell-to-cell natural transformation in Bacillus subtilis facilitates large scale of genomic exchanges and the transfer of long continuous DNA regions.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3820, doi. 10.1093/nar/gkad138

By:

Deng, Liping;
Wang, Chao;
Zhang, Xiaoming;
Yang, Wenjie;
Tang, Hao;
Chen, Xinru;
Du, Shishen;
Chen, Xiangdong

Publication type:

Article

Goldilocks and RNA: where Mg<sup>2+</sup> concentration is just right.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3529, doi. 10.1093/nar/gkad124

By:

Guth-Metzler, Rebecca;
Mohamed, Ahmad Mohyeldin;
Cowan, Elizabeth T;
Henning, Ashleigh;
Ito, Chieri;
Frenkel-Pinter, Moran;
Wartell, Roger M;
Glass, Jennifer B;
Williams, Loren Dean

Publication type:

Article

Differential requirements for Gcn5 and NuA4 HAT activities in the starvation-induced versus basal transcriptomes.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3696, doi. 10.1093/nar/gkad099

By:

Zheng, Qiaoyun;
Qiu, Hongfang;
Zhang, Hongen;
Hinnebusch, Alan G

Publication type:

Article

Localized modulation of DNA supercoiling, triggered by the Shigella anti-silencer VirB, is sufficient to relieve H-NS-mediated silencing.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3679, doi. 10.1093/nar/gkad088

By:

Picker, Michael A;
Karney, Monika M A;
Gerson, Taylor M;
Karabachev, Alexander D;
Duhart, Juan C;
McKenna, Joy A;
Wing, Helen J

Publication type:

Article

Structure, substrate binding and activity of a unique AAA+ protein: the BrxL phage restriction factor.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3513, doi. 10.1093/nar/gkad083

By:

Shen, Betty W;
Doyle, Lindsey A;
Werther, Rachel;
Westburg, Abigail A;
Bies, Daniel P;
Walter, Stephanie I;
Luyten, Yvette A;
Morgan, Richard D;
Stoddard, Barry L;
Kaiser, Brett K

Publication type:

Article

Role of the histone tails in histone octamer transfer.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3671, doi. 10.1093/nar/gkad079

By:

Lorch, Yahli;
Kornberg, Roger D;
Maier-Davis, Barbara

Publication type:

Article

Genomic targets of the IRE1-XBP1s pathway in mediating metabolic adaptation in epithelial plasticity.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3650, doi. 10.1093/nar/gkad077

By:

Qiao, Dianhua;
Skibba, Melissa;
Xu, Xiaofang;
Brasier, Allan R

Publication type:

Article

HIBLUP: an integration of statistical models on the BLUP framework for efficient genetic evaluation using big genomic data.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3501, doi. 10.1093/nar/gkad074

By:

Yin, Lilin;
Zhang, Haohao;
Tang, Zhenshuang;
Yin, Dong;
Fu, Yuhua;
Yuan, Xiaohui;
Li, Xinyun;
Liu, Xiaolei;
Zhao, Shuhong

Publication type:

Article

PBRM1 bromodomains associate with RNA to facilitate chromatin association.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 3631, doi. 10.1093/nar/gkad072

By:

De Silva, Saumya M;
Dhiman, Alisha;
Sood, Surbhi;
Mercedes, Kilsia F;
Simmons, William J;
Henen, Morkos A;
Vögeli, Beat;
Dykhuizen, Emily C;
Musselman, Catherine A

Publication type:

Article

Toehold clipping: A mechanism for remote control of DNA strand displacement.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 8, p. 4055, doi. 10.1093/nar/gkac1152

By:

Faheem, Hiba;
Mathivanan, Johnsi;
Talbot, Hannah;
Zeghal, Hana;
Vangaveti, Sweta;
Sheng, Jia;
Chen, Alan A;
Chandrasekaran, Arun Richard

Publication type:

Article