Works matching IS 03051048 AND DT 2025 AND VI 53 AND IP 1

Results: 77

Mechanism of activation of contact-dependent growth inhibition tRNase toxin by the amino acid biogenesis factor CysK in the bacterial competition system.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae735

By:

Feng, Zhaohang;
Yashiro, Yuka;
Tomita, Kozo

Publication type:

Article

Benchmarking cross-species single-cell RNA-seq data integration methods: towards a cell type tree of life.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1316

By:

Zhong, Huawen;
Han, Wenkai;
Gomez-Cabrero, David;
Tegner, Jesper;
Gao, Xin;
Cui, Guoxin;
Aranda, Manuel

Publication type:

Article

Cell cycle progression of under-replicated cells.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1311

By:

Huang, Min;
Yang, Chang;
Nie, Litong;
Zhang, Huimin;
Zhu, Dandan;
Wang, Chao;
Park, Jeong-Min;
Srivastava, Mrinal;
Mosa, Elina;
Li, Siting;
Tang, Mengfan;
Feng, Xu;
Keast, Sarah J;
Stossi, Fabio;
Chen, Junjie

Publication type:

Article

Cu<sup>2+</sup> mediates the oxidation of the transcription factor MscA to regulate the antioxidant defense of mycobacteria.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1309

By:

Xiang, Yuling;
Zheng, Jiachen;
Liu, Zhendong;
Cui, Xujie;
Zhang, Yunfan;
Guo, Minhao;
Li, Weihui

Publication type:

Article

The role of ribosomal protein networks in ribosome dynamics.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1308

By:

Timsit, Youri;
Sergeant-Perthuis, Grégoire;
Bennequin, Daniel

Publication type:

Article

Highly accurate Korean draft genomes reveal structural variation highlighting human telomere evolution.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1294

By:

Kim, Jun;
Park, Jong Lyul;
Yang, Jin Ok;
Kim, Sangok;
Joe, Soobok;
Park, Gunwoo;
Hwang, Taeyeon;
Cho, Mun-Jeong;
Lee, Seungjae;
Lee, Jong-Eun;
Park, Ji-Hwan;
Yeo, Min-Kyung;
Kim, Seon-Young

Publication type:

Article

Correction to 'GutMetaNet: an integrated database for exploring horizontal gene transfer and functional redundancy in the human gut microbiome'.

Published in:: 2025
Publication type:: Correction Notice

tRNA thiolation optimizes appressorium-mediated infection by enhancing codon-specific translation in Magnaporthe oryzae.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1302

By:

Zhang, Xinrong;
He, Rongrong;
Li, Yinan;
Ren, Shuchao;
Xiang, Shikun;
Zheng, Jing;
Qu, Zhiguang;
Zhou, Shu;
Zhou, Zhipeng;
Chen, Xiao-Lin

Publication type:

Article

Molecular mechanisms underlying allosteric behavior of Escherichia coli DgoR, a GntR/FadR family transcriptional regulator.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1299

By:

Singh, Swati;
Arya, Garima;
Mishra, Rajesh;
Singla, Shivam;
Pratap, Akhil;
Upadhayay, Krishna;
Sharma, Monika;
Chaba, Rachna

Publication type:

Article

Divergent evolution of opposite base specificity and single-stranded DNA activity in animal and plant AP endonucleases.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1297

By:

Jordano-Raya, Marina;
Schrader, Carol E;
Ariza, Rafael R;
Roldán-Arjona, Teresa;
Córdoba-Cañero, Dolores

Publication type:

Article

Deciphering ligand and metal ion dependent intricate folding landscape of Vc2 c-di-GMP riboswitch aptamer.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1296

By:

Shin, Ji-Yeon;
Choi, Seo-Ree;
An, So Young;
Bang, Kyeong-Mi;
Song, Hyun Kyu;
Suh, Jeong-Yong;
Kim, Nak-Kyoon

Publication type:

Article

Investigating the origins of the mutational signatures in cancer.

Published in:

2025

By:

Boysen, Gunnar;
Alexandrov, Ludmil B;
Rahbari, Raheleh;
Nookaew, Intawat;
Ussery, Dave;
Chao, Mu-Rong;
Hu, Chiung-Wen;
Cooke, Marcus S

Publication type:

Literature Review

CRISPR/Cas13X-assisted programmable and multiplexed translation regulation for controlled biosynthesis.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1293

By:

Xu, Xianhao;
Lv, Xueqin;
Liu, Yanfeng;
Li, Jianghua;
Du, Guocheng;
Chen, Jian;
Ledesma-Amaro, Rodrigo;
Liu, Long

Publication type:

Article

Quadruplet codon decoding-based versatile genetic biocontainment system.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1292

By:

Choi, Yun-Nam;
Kim, Donghyeon;
Lee, Seongbeom;
Shin, Ye Rim;
Lee, Jeong Wook

Publication type:

Article

High hydrostatic pressure promotes gene transcription via a cystathionine-β-synthase domain-containing protein in the hyperthermophilic archaeon Pyrococcus yayanosii.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1289

By:

Li, Cong;
Li, Siyuan;
Song, Qinghao;
Da, Lin-tai;
Xu, Jun

Publication type:

Article

Enhanced RNAi does not provide efficient innate antiviral immunity in mice.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1288

By:

Kulmann, Marcos Iuri Roos;
Taborska, Eliska;
Benköova, Brigita;
Palus, Martin;
Drobek, Ales;
Horvat, Filip;
Pasulka, Josef;
Malik, Radek;
Salyova, Eva;
Hönig, Vaclav;
Pellerova, Michaela;
Borsanyiova, Maria;
Nedvedova, Lenka;
Stepanek, Ondrej;
Bopegamage, Shubhada;
Ruzek, Daniel;
Svoboda, Petr

Publication type:

Article

Correction to 'Accelerated discovery and miniaturization of novel single-stranded cytidine deaminases'.

Published in:: 2025
Publication type:: Correction Notice

A subcellular selective APEX2-based proximity labeling used for identifying mitochondrial G-quadruplex DNA binding proteins.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1259

By:

Wang, Xu;
Qin, Geng;
Yang, Jie;
Zhao, Chuanqi;
Ren, Jinsong;
Qu, Xiaogang

Publication type:

Article

Correction to "Growth-regulated co-occupancy of Mediator and Lsm3 at intronic ribosomal protein genes".

Published in:: 2025
Publication type:: Correction Notice

Broad repression of DNA repair genes in senescent cells identified by integration of transcriptomic data.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1257

By:

Frey, Yann;
Haj, Majd;
Ziv, Yael;
Elkon, Ran;
Shiloh, Yosef

Publication type:

Article

Interplay between the Xer recombination system and the dissemination of antibioresistance in Acinetobacter baumannii.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1255

By:

Blanchais, Corentin;
Pages, Carine;
Campos, Manuel;
Boubekeur, Kenza;
Contarin, Rachel;
Orlando, Mathias;
Siguier, Patricia;
Laaberki, Maria-Halima;
Cornet, François;
Charpentier, Xavier;
Rousseau, Philippe

Publication type:

Article

Design and in vitro anticancer assessment of a click chemistry-derived dinuclear copper artificial metallo-nuclease.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1250

By:

Poole, Simon;
Aning, Obed Akwasi;
McKee, Vickie;
Catley, Thomas;
Nielsen, Aaraby Yoheswaran;
Thisgaard, Helge;
Johansson, Pegah;
Menounou, Georgia;
Hennessy, Joseph;
Slator, Creina;
Gibney, Alex;
Pyne, Alice;
McGorman, Bríonna;
Westerlund, Fredrik;
Kellett, Andrew

Publication type:

Article

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

Published in:: 2025
Publication type:: Correction Notice

Correction to 'AlPaCas: allele-specific CRISPR gene editing through a protospacer-adjacent-motif (PAM) approach'.

Published in:: 2025
Publication type:: Correction Notice

Correction to 'ADAR3 modulates neuronal differentiation and regulates mRNA stability and translation'.

Published in:: 2025
Publication type:: Correction Notice

Unveiling the unusual i-motif-derived architecture of a DNA aptamer exhibiting high affinity for influenza A virus.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1282

By:

Tsvetkov, Vladimir;
Mir, Bartomeu;
Alieva, Rugiya;
Arutyunyan, Alexander;
Oleynikov, Ilya;
Novikov, Roman;
Boravleva, Elizaveta;
Kamzeeva, Polina;
Zatsepin, Timofei;
Aralov, Andrey;
González, Carlos;
Zavyalova, Elena

Publication type:

Article

Single-molecule analysis reveals that IPMK enhances the DNA-binding activity of the transcription factor SRF.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1281

By:

Ahn, Hyoungjoon;
Yu, Jeongmin;
Ryu, Kwangmin;
Ryu, Jaeseung;
Kim, Sera;
Park, Jae Yeong;
Kim, Ji Kwang;
Jung, Inhong;
An, Haejin;
Hong, Sehoon;
Kim, Eunha;
Park, Kihyun;
Ahn, Myunghwan;
Min, Sunwoo;
Jung, Inkyung;
Lee, Daeyoup;
Lee, Thomas;
Byun, Youngjoo;
Song, Ji-Joon;
Kim, Jaehoon

Publication type:

Article

One-pot ligation of multiple mRNA fragments on dsDNA splint advancing regional modification and translation.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1280

By:

Xu, Yunfan;
Qi, Shuopeng;
Zhang, Gongrui;
Liu, Dan;
Xu, Dejin;
Qin, Tong;
Cheng, Qin;
Kang, Han;
Hu, Bei;
Huang, Zhen

Publication type:

Article

Correction to 'The Pfam protein families database: embracing AI/ML'.

Published in:: 2025
Publication type:: Correction Notice

Pervasive RNA-binding protein enrichment on TAD boundaries regulates TAD organization.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1271

By:

Sun, Qiang;
Zhou, Qin;
Qiao, Yulong;
Chen, Xiaona;
Sun, Hao;
Wang, Huating

Publication type:

Article

Correction to 'Circular oligomeric particles formed by Ros/MucR family members mediate DNA organization in α-proteobacteria'.

Published in:: 2025
Publication type:: Correction Notice

Defining serine tRNA knockout as a strategy for effective repression of gene expression in organisms with a recoded genome.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1266

By:

Voorhees, Peter J;
Chang, Xinyou;
Lai, Samuel K

Publication type:

Article

PerR functions as a redox-sensing transcription factor regulating metal homeostasis in the thermoacidophilic archaeon Saccharolobus islandicus REY15A.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1263

By:

Zhang, Xuemei;
Wu, Pengju;
Bai, Ruining;
Gan, Qi;
Yang, Yunfeng;
Li, Haodun;
Ni, Jinfeng;
Huang, Qihong;
Shen, Yulong

Publication type:

Article

Selecting genes for analysis using historically contingent progress: from RNA changes to protein–protein interactions.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1246

By:

Lalit, Farhaan;
Jose, Antony M

Publication type:

Article

Discovery of highly active kynureninases for cancer immunotherapy through protein language model.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1245

By:

Eom, Hyunuk;
Park, Sukhwan;
Cho, Kye Soo;
Lee, Jihyeon;
Kim, Hyunbin;
Kim, Stephanie;
Yang, Jinsol;
Han, Young-Hyun;
Lee, Juyong;
Seok, Chaok;
Lee, Myeong Sup;
Song, Woon Ju;
Steinegger, Martin

Publication type:

Article

Experimental and computational investigations of RNA duplexes containing N7-regioisomers of adenosine and LNA-adenosine.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1222

By:

Yildirim, Ilyas;
Andralojc, Witold;
Taghavi, Amirhossein;
Baranowski, Daniel;
Gdaniec, Zofia;
Kierzek, Ryszard;
Kierzek, Elzbieta

Publication type:

Article

An sRNA overexpression library reveals AbnZ as a negative regulator of an essential translocation module in Caulobacter crescentus.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1139

By:

Velasco-Gomariz, Manuel;
Sulzer, Johannes;
Faber, Franziska;
Fröhlich, Kathrin S

Publication type:

Article

CRISPR-based dissection of miRNA binding sites using isogenic cell lines is hampered by pervasive noise.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1138

By:

Prajapat, Mahendra K;
Maria, Andrea G;
Vidigal, Joana A

Publication type:

Article

Accurate quantification of nascent and mature RNAs from single-cell and single-nucleus RNA-seq.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1137

By:

Sullivan, Delaney K;
Hjörleifsson, Kristján Eldjárn;
Swarna, Nikhila P;
Oakes, Conrad;
Holley, Guillaume;
Melsted, Páll;
Pachter, Lior

Publication type:

Article

Correction to 'Enhancing disease risk gene discovery by integrating transcription factor-linked trans-variants into transcriptome-wide association analyses'.

Published in:: 2025
Publication type:: Correction Notice

QClus: a droplet filtering algorithm for enhanced snRNA-seq data quality in challenging samples.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1145

By:

Schmauch, Eloi;
Ojanen, Johannes;
Galani, Kyriakitsa;
Jalkanen, Juho;
Harju, Kristiina;
Hollmén, Maija;
Kokki, Hannu;
Gunn, Jarmo;
Halonen, Jari;
Hartikainen, Juha;
Kiviniemi, Tuomas;
Tavi, Pasi;
Kaikkonen, Minna U;
Kellis, Manolis;
Linna-Kuosmanen, Suvi

Publication type:

Article

Structural and bioinformatics analyses identify deoxydinucleotide-specific nucleases and their association with genomic islands in gram-positive bacteria.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1235

By:

Mortensen, Sofia;
Kuncová, Stanislava;
Lormand, Justin D;
Myers, Tanner M;
Kim, Soo-Kyoung;
Lee, Vincent T;
Winkler, Wade C;
Sondermann, Holger

Publication type:

Article

Mechanistic insights into Sindbis virus infection: noncapped genomic RNAs enhance the translation of capped genomic RNAs to promote viral infectivity.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1230

By:

Karki, Deepa;
LaPointe, Autumn T;
Isom, Cierra;
Thomas, Milton;
Sokoloski, Kevin J

Publication type:

Article

Correction to 'Characterization of an interplay between a Mycobacterium tuberculosis MazF homolog, Rv1495 and its sole DNA topoisomerase I'.

Published in:: 2025
Publication type:: Correction Notice

Direct delivery of Cas-embedded cytosine base editors as ribonucleoprotein complexes for efficient and accurate editing of clinically relevant targets.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1217

By:

Lee, Jeong Min;
Zeng, Jing;
Liu, Pengpeng;
Nguyen, My Anh;
Suchenski Loustaunau, Diego;
Bauer, Daniel E;
Kurt Yilmaz, Nese;
Wolfe, Scot A;
Schiffer, Celia A

Publication type:

Article

Use of a small molecule microarray screen to identify inhibitors of the catalytic RNA subunit of Methanobrevibacter smithii RNase P.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1190

By:

Sidharthan, Vaishnavi;
Sibley, Christopher D;
Dunne-Dombrink, Kara;
Yang, Mo;
Zahurancik, Walter J;
Balaratnam, Sumirtha;
Wilburn, Damien B;
Schneekloth, John S;
Gopalan, Venkat

Publication type:

Article

When repetita no-longer iuvant: somatic instability of the CAG triplet in Huntington's disease.

Published in:

2025

By:

Cattaneo, Elena;
Scalzo, Davide;
Zobel, Martina;
Iennaco, Raffaele;
Maffezzini, Camilla;
Besusso, Dario;
Maestri, Simone

Publication type:

Literature Review

High resistance barrier and prophylactic protection in preclinical models of SARS-CoV-2 with two siRNA combination.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1195

By:

Anglero-Rodriguez, Yesseinia I;
Lempp, Florian A;
Subramanian, Megha;
McIninch, James;
Schlegel, Mark K;
Bohan, Dana;
Wong, Emily;
Brown, Christopher R;
Foster, Donald J;
Castoreno, Adam B;
Nguyen, Tuyen;
Cuffe, Dara;
Montiel-Ruiz, Martin;
Kaiser, Hannah;
Sahakyan, Anna;
Spreafico, Roberto;
Morskaya, Svetlana Shulga;
Barry, Joseph D;
Berman, Daniel;
Zhang, Ligang

Publication type:

Article

Instruction-responsive programmable assemblies with DNA origami block pieces.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1193

By:

Wang, Fang;
Shi, Xiaolong;
Chen, Xin;
Deng, Di;
Li, Sirui;
Sun, Si;
Kou, Zheng;
Xu, Jin;
Qiang, Xiaoli

Publication type:

Article

Visualizing the modification landscape of the human 60S ribosomal subunit at close to atomic resolution.

Published in:

Nucleic Acids Research, 2025, v. 53, n. 1, p. 1, doi. 10.1093/nar/gkae1191

By:

Wiechert, Franziska;
Unbehaun, Anett;
Sprink, Thiemo;
Seibel, Helena;
Bürger, Jörg;
Loerke, Justus;
Mielke, Thorsten;
Diebolder, Christoph A;
Schacherl, Magdalena;
Spahn, Christian M T

Publication type:

Article