Works matching IS 03051048 AND DT 2024 AND VI 52 AND IP 11

Results: 48

rAAV capsid mutants eliminate leaky expression from DNA donor template for homologous recombination.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6518, doi. 10.1093/nar/gkae401

By:

Ling, Chen;
Yu, Chenghui;
Wang, Cong;
Yang, Ming;
Yang, Hengbin;
Yang, Keying;
He, Yun;
Shen, Yajie;
Tang, Shiyi;
Yu, Xiaomin;
Zhou, Zhengjun;
Zhou, Shaolai;
Zhou, Jian;
Zhu, Liqing;
Li, Jixi

Publication type:

Article

Correction to 'The Uba4 domain interplay is mediated via a thioester that is critical for tRNA thiolation through Urm1 thiocarboxylation'.

Published in:: 2024
Publication type:: Correction Notice

Orphan nuclear receptors-induced ALT-associated PML bodies are targets for ALT inhibition.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6472, doi. 10.1093/nar/gkae389

By:

Gaela, Venus Marie;
Hsia, Hsuan-Yu;
Joseph, Nithila A;
Tzeng, Wan-Yi;
Ting, Pin-Chao;
Shen, Yi-Ling;
Tsai, Chia-Tsen;
Boudier, Thomas;
Chen, Liuh-Yow

Publication type:

Article

The TIMELESS and PARP1 interaction suppresses replication-associated DNA gap accumulation.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6424, doi. 10.1093/nar/gkae445

By:

Saldanha, Joanne;
Rageul, Julie;
Patel, Jinal A;
Phi, Amy L;
Lo, Natalie;
Park, Jennifer J;
Kim, Hyungjin

Publication type:

Article

Structural basis for double-stranded RNA recognition by SID1.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6718, doi. 10.1093/nar/gkae395

By:

Wang, Runhao;
Cong, Ye;
Qian, Dandan;
Yan, Chuangye;
Gong, Deshun

Publication type:

Article

Correction to 'Senescence of human pancreatic beta cells enhances functional maturation through chromatin reorganization and promotes interferon responsiveness'.

Published in:: 2024
Publication type:: Correction Notice

Single-molecule imaging reveals a direct role of CTCF's zinc fingers in SA interaction and cluster-dependent RNA recruitment.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6490, doi. 10.1093/nar/gkae391

By:

Huber, Jonas;
Tanasie, Nicoleta-Loredana;
Zernia, Sarah;
Stigler, Johannes

Publication type:

Article

Species-specific design of artificial promoters by transfer-learning based generative deep-learning model.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6145, doi. 10.1093/nar/gkae429

By:

Xia, Yan;
Du, Xiaowen;
Liu, Bin;
Guo, Shuyuan;
Huo, Yi-Xin

Publication type:

Article

Two residues in the DNA binding site of Pif1 helicase are essential for nuclear functions but dispensable for mitochondrial respiratory growth.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6543, doi. 10.1093/nar/gkae403

By:

Gao, Jun;
Proffitt, David R;
Marecki, John C;
Protacio, Reine U;
Wahls, Wayne P;
Byrd, Alicia K;
Raney, Kevin D

Publication type:

Article

Stress-induced nucleoid remodeling in Deinococcus radiodurans is associated with major changes in Heat Unstable (HU) protein dynamics.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6406, doi. 10.1093/nar/gkae379

By:

Vauclare, Pierre;
Wulffelé, Jip;
Lacroix, Françoise;
Servant, Pascale;
Confalonieri, Fabrice;
Kleman, Jean-Philippe;
Bourgeois, Dominique;
Timmins, Joanna

Publication type:

Article

Kinetics of programmed and spontaneous ribosome sliding along the mRNA.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6507, doi. 10.1093/nar/gkae396

By:

Senyushkina, Tamara;
Samatova, Ekaterina;
Klimova, Maria;
Rodnina, Marina V

Publication type:

Article

Antisense RNA C9orf72 hexanucleotide repeat associated with amyotrophic lateral sclerosis and frontotemporal dementia forms a triplex-like structure and binds small synthetic ligand.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6707, doi. 10.1093/nar/gkae376

By:

Błaszczyk, Leszek;
Ryczek, Marcin;
Das, Bimolendu;
Mateja-Pluta, Martyna;
Bejger, Magdalena;
Śliwiak, Joanna;
Nakatani, Kazuhiko;
Kiliszek, Agnieszka

Publication type:

Article

Visualization of oxidized guanine nucleotides accumulation in living cells with split MutT.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6532, doi. 10.1093/nar/gkae371

By:

Fujikawa, Yoshihiro;
Kawai, Hidehiko;
Suzuki, Tetsuya;
Kamiya, Hiroyuki

Publication type:

Article

EXO1 and DNA2-mediated ssDNA gap expansion is essential for ATR activation and to maintain viability in BRCA1-deficient cells.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6376, doi. 10.1093/nar/gkae317

By:

García-Rodríguez, Néstor;
Domínguez-García, Iria;
Domínguez-Pérez, María del Carmen;
Huertas, Pablo

Publication type:

Article

Simultaneous profiling of chromatin accessibility and DNA methylation in complete plant genomes using long-read sequencing.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6285, doi. 10.1093/nar/gkae306

By:

Leduque, Basile;
Edera, Alejandro;
Vitte, Clémentine;
Quadrana, Leandro

Publication type:

Article

SpatialSPM: statistical parametric mapping for the comparison of gene expression pattern images in multiple spatial transcriptomic datasets.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. e51, doi. 10.1093/nar/gkae293

By:

Ohn, Jungyoon;
Seo, Mi-Kyoung;
Park, Jeongbin;
Lee, Daeseung;
Choi, Hongyoon

Publication type:

Article

Correction to 'Global Hfq-mediated RNA interactome of nitrogen starved Escherichia coli uncovers a conserved post-transcriptional regulatory axis required for optimal growth recovery'.

Published in:: 2024
Publication type:: Correction Notice

DNA-PK participates in pre-rRNA biogenesis independent of DNA double-strand break repair.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6360, doi. 10.1093/nar/gkae316

By:

Li, Peng;
Gai, Xiaochen;
Li, Qilin;
Yang, Qianqian;
Yu, Xiaochun

Publication type:

Article

Correction to 'RNase E searches for cleavage sites in RNA by linear diffusion: direct evidence from single-molecule FRET'.

Published in:: 2024
Publication type:: Correction Notice

A programmable dual-targeting siRNA scaffold supports potent two-gene modulation in the central nervous system.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6099, doi. 10.1093/nar/gkae368

By:

Belgrad, Jillian;
Tang, Qi;
Hildebrand, Sam;
Summers, Ashley;
Sapp, Ellen;
Echeverria, Dimas;
O'Reilly, Dan;
Luu, Eric;
Bramato, Brianna;
Allen, Sarah;
Cooper, David;
Alterman, Julia;
Yamada, Ken;
Aronin, Neil;
DiFiglia, Marian;
Khvorova, Anastasia

Publication type:

Article

asteRIa enables robust interaction modeling between chromatin modifications and epigenetic readers.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6129, doi. 10.1093/nar/gkae361

By:

Stadler, Mara;
Lukauskas, Saulius;
Bartke, Till;
Müller, Christian L

Publication type:

Article

Structure of an internal loop motif with three consecutive U•U mismatches from stem–loop 1 in the 3′-UTR of the SARS-CoV-2 genomic RNA.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6687, doi. 10.1093/nar/gkae349

By:

Vögele, Jennifer;
Duchardt-Ferner, Elke;
Bains, Jasleen Kaur;
Knezic, Bozana;
Wacker, Anna;
Sich, Christian;
Weigand, Julia E;
Šponer, Jiří;
Schwalbe, Harald;
Krepl, Miroslav;
Wöhnert, Jens

Publication type:

Article

AcrIIA28 is a metalloprotein that specifically inhibits targeted-DNA loading to SpyCas9 by binding to the REC3 domain.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6459, doi. 10.1093/nar/gkae357

By:

Kim, Gi Eob;
Park, Hyun Ho

Publication type:

Article

SCTC: inference of developmental potential from single-cell transcriptional complexity.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6114, doi. 10.1093/nar/gkae340

By:

Lin, Hai;
Hu, Huan;
Feng, Zhen;
Xu, Fei;
Lyu, Jie;
Li, Xiang;
Liu, Liyu;
Yang, Gen;
Shuai, Jianwei

Publication type:

Article

Controlling genome topology with sequences that trigger post-replication gap formation during replisome passage: the E. coli RRS elements.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6392, doi. 10.1093/nar/gkae320

By:

Pham, Phuong;
Wood, Elizabeth A;
Dunbar, Emma L;
Cox, Michael M;
Goodman, Myron F

Publication type:

Article

Interplay of the Tfb1 pleckstrin homology domain with Rad2 and Rad4 in transcription coupled and global genomic nucleotide excision repair.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6333, doi. 10.1093/nar/gkae286

By:

Gong, Wenzhi;
Holmberg, Hannah;
Lu, Cheng;
Huang, Michelle;
Li, Shisheng

Publication type:

Article

RNase E searches for cleavage sites in RNA by linear diffusion: direct evidence from single-molecule FRET.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6674, doi. 10.1093/nar/gkae279

By:

Banerjee, Tithi;
Rothenberg, Eli;
Belasco, Joel G

Publication type:

Article

Single-stranded pre-methylated 5mC adapters uncover the methylation profile of plasma ultrashort Single-stranded cell-free DNA.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. e50, doi. 10.1093/nar/gkae276

By:

Cheng, Jordan C;
Swarup, Neeti;
Morselli, Marco;
Huang, Wei-Lun;
Aziz, Mohammad;
Caggiano, Christa;
Kordi, Misagh;
Patel, Abhijit A;
Chia, David;
Kim, Yong;
Li, Feng;
Wei, Fang;
Zaitlen, Noah;
Krysan, Kostyantyn;
Dubinett, Steve;
Pellegrini, Matteo;
Wong, David T W

Publication type:

Article

Senescence of human pancreatic beta cells enhances functional maturation through chromatin reorganization and promotes interferon responsiveness.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6298, doi. 10.1093/nar/gkae313

By:

Patra, Milan;
Klochendler, Agnes;
Condiotti, Reba;
Kaffe, Binyamin;
Elgavish, Sharona;
Drawshy, Zeina;
Avrahami, Dana;
Narita, Masashi;
Hofree, Matan;
Drier, Yotam;
Meshorer, Eran;
Dor, Yuval;
Ben-Porath, Ittai

Publication type:

Article

Structural and biochemical characterization of the mitomycin C repair exonuclease MrfB.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6347, doi. 10.1093/nar/gkae308

By:

Manthei, Kelly A;
Munson, Lia M;
Nandakumar, Jayakrishnan;
Simmons, Lyle A

Publication type:

Article

Proximal telomeric decompaction due to telomere shortening drives FOXC1-dependent myocardial senescence.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6269, doi. 10.1093/nar/gkae274

By:

Li, Bin;
Xiong, Weiyao;
Zuo, Wu;
Shi, Yuanyuan;
Wang, Teng;
Chang, Lingling;
Wu, Yueheng;
Ma, Heng;
Bian, Qian;
Chang, Alex C Y

Publication type:

Article

Interaction between a J-domain co-chaperone and a specific Argonaute protein contributes to microRNA function in animals.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6253, doi. 10.1093/nar/gkae272

By:

Frédérick, Pierre-Marc;
Jannot, Guillaume;
Banville, Isabelle;
Simard, Martin J

Publication type:

Article

Extensive long-range polycomb interactions and weak compartmentalization are hallmarks of human neuronal 3D genome.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6234, doi. 10.1093/nar/gkae271

By:

Pletenev, Ilya A;
Bazarevich, Maria;
Zagirova, Diana R;
Kononkova, Anna D;
Cherkasov, Alexander V;
Efimova, Olga I;
Tiukacheva, Eugenia A;
Morozov, Kirill V;
Ulianov, Kirill A;
Komkov, Dmitriy;
Tvorogova, Anna V;
Golimbet, Vera E;
Kondratyev, Nikolay V;
Razin, Sergey V;
Khaitovich, Philipp;
Ulianov, Sergey V;
Khrameeva, Ekaterina E

Publication type:

Article

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

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6220, doi. 10.1093/nar/gkae266

By:

Abdel-Fattah, Wael R;
Carlsson, Mattias;
Hu, Guo-Zhen;
Singh, Ajeet;
Vergara, Alexander;
Aslam, Rameen;
Ronne, Hans;
Björklund, Stefan

Publication type:

Article

Cdc13 exhibits dynamic DNA strand exchange in the presence of telomeric DNA.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6317, doi. 10.1093/nar/gkae265

By:

Nickens, David G;
Feng, Zhitong;
Shen, Jiangchuan;
Gray, Spencer J;
Simmons, Robert H;
Niu, Hengyao;
Bochman, Matthew L

Publication type:

Article

Mitolnc controls cardiac BCAA metabolism and heart hypertrophy by allosteric activation of BCKDH.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6629, doi. 10.1093/nar/gkae226

By:

Weiss, Maria;
Hettrich, Sara;
Hofmann, Theresa;
Hachim, Salma;
Günther, Stefan;
Braun, Thomas;
Boettger, Thomas

Publication type:

Article

The clade-specific target recognition mechanisms of plant RISCs.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6662, doi. 10.1093/nar/gkae257

By:

Iwakawa, Hiro-oki

Publication type:

Article

Ribosomal RNA modification enzymes stimulate large ribosome subunit assembly in E. coli.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6614, doi. 10.1093/nar/gkae222

By:

Ero, Rya;
Leppik, Margus;
Reier, Kaspar;
Liiv, Aivar;
Remme, Jaanus

Publication type:

Article

The long non-coding RNA Meg3 mediates imprinted gene expression during stem cell differentiation.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6183, doi. 10.1093/nar/gkae247

By:

Farhadova, Sabina;
Ghousein, Amani;
Charon, François;
Surcis, Caroline;
Gomez-Velazques, Melisa;
Roidor, Clara;
Di Michele, Flavio;
Borensztein, Maud;
De Sario, Albertina;
Esnault, Cyril;
Noordermeer, Daan;
Moindrot, Benoit;
Feil, Robert

Publication type:

Article

KDM5-mediated transcriptional activation of ribosomal protein genes alters translation efficiency to regulate mitochondrial metabolism in neurons.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6201, doi. 10.1093/nar/gkae261

By:

Yheskel, Matanel;
Hatch, Hayden A M;
Pedrosa, Erika;
Terry, Bethany K;
Siebels, Aubrey A;
Zheng, Xiang Yu;
Blok, Laura E R;
Fencková, Michaela;
Sidoli, Simone;
Schenck, Annette;
Zheng, Deyou;
Lachman, Herbert M;
Secombe, Julie

Publication type:

Article

Assembly of SARS-CoV-2 nucleocapsid protein with nucleic acid.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6647, doi. 10.1093/nar/gkae256

By:

Zhao, Huaying;
Syed, Abdullah M;
Khalid, Mir M;
Nguyen, Ai;
Ciling, Alison;
Wu, Di;
Yau, Wai-Ming;
Srinivasan, Sanjana;
Esposito, Dominic;
Doudna, Jennifer A;
Piszczek, Grzegorz;
Ott, Melanie;
Schuck, Peter

Publication type:

Article

HELLS regulates transcription in T-cell lymphomas by reducing unscheduled R-loops and by facilitating RNAPII progression.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6171, doi. 10.1093/nar/gkae239

By:

Tameni, Annalisa;
Mallia, Selene;
Manicardi, Veronica;
Donati, Benedetta;
Torricelli, Federica;
Vitale, Emanuele;
Salviato, Elisa;
Gambarelli, Giulia;
Muccioli, Silvia;
Zanelli, Magda;
Ascani, Stefano;
Martino, Giovanni;
Sanguedolce, Francesca;
Sauta, Elisabetta;
Tamagnini, Ione;
Puccio, Noemi;
Neri, Antonino;
Ciarrocchi, Alessia;
Fragliasso, Valentina

Publication type:

Article

Fine-tuning the tRNA anticodon arm for multiple/consecutive incorporations of β-amino acids and analogs.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6586, doi. 10.1093/nar/gkae219

By:

Katoh, Takayuki;
Suga, Hiroaki

Publication type:

Article

H3.1/3.2 regulate the initial progression of the gene expression program.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6158, doi. 10.1093/nar/gkae214

By:

Funaya, Satoshi;
Takahashi, Yusuke;
Suzuki, Masataka G;
Suzuki, Yutaka;
Aoki, Fugaku

Publication type:

Article

The RNA secondary structure of androgen receptor-FL and V7 transcripts reveals novel regulatory regions.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6596, doi. 10.1093/nar/gkae220

By:

Rouse, Warren B;
Tompkins, Van S;
O'Leary, Collin A;
Moss, Walter N

Publication type:

Article

Despite the odds: formation of the SARS-CoV-2 methylation complex.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6441, doi. 10.1093/nar/gkae165

By:

Matsuda, Alex;
Plewka, Jacek;
Rawski, Michał;
Mourão, André;
Zajko, Weronika;
Siebenmorgen, Till;
Kresik, Leanid;
Lis, Kinga;
Jones, Alisha N;
Pachota, Magdalena;
Karim, Abdulkarim;
Hartman, Kinga;
Nirwal, Shivlee;
Sonani, Ravi;
Chykunova, Yuliya;
Minia, Igor;
Mak, Paweł;
Landthaler, Markus;
Nowotny, Marcin;
Dubin, Grzegorz

Publication type:

Article

Distinct and overlapping RNA determinants for binding and target-primed reverse transcription by Bombyx mori R2 retrotransposon protein.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6571, doi. 10.1093/nar/gkae194

By:

Rodríguez-Vargas, Anthony;
Collins, Kathleen

Publication type:

Article

MIWI N-terminal arginines orchestrate generation of functional pachytene piRNAs and spermiogenesis.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 11, p. 6558, doi. 10.1093/nar/gkae193

By:

Vrettos, Nicholas;
Oppelt, Jan;
Zoch, Ansgar;
Sgourdou, Paraskevi;
Yoshida, Haruka;
Song, Brian;
Fink, Ryan;
O'Carroll, Dónal;
Mourelatos, Zissimos

Publication type:

Article