Works matching IS 03051048 AND DT 2023 AND VI 51 AND IP 11

Results: 46

Dynamic accumulation of cyclobutane pyrimidine dimers and its response to changes in DNA conformation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5341, doi. 10.1093/nar/gkad434

By:

Moirangthem, Ravina;
Gamage, Manusha N;
Rokita, Steven E

Publication type:

Article

Correction to 'RecF protein targeting to postreplication (daughter strand) gaps I: DNA binding by RecF and RecFR'.

Published in:: 2023
Publication type:: Correction Notice

Correction to: 'Accurate profiling of full-length Fv in highly homologous antibody libraries using UMI tagged short reads'.

Published in:: 2023
Publication type:: Correction Notice

Correction to 'Thermodynamic stability and Watson–Crick base pairing in the seed duplex are major determinants of the efficiency of the siRNA-based off-target effect'.

Published in:: 2023
Publication type:: Correction Notice

Correction to 'Automating microbial taxonomy workflows with PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes'.

Published in:: 2023
Publication type:: Correction Notice

Correction to 'Pif1 family helicases promote mutation avoidance during DNA replication'.

Published in:: 2023
Publication type:: Correction Notice

Selection of allosteric dnazymes that can sense phenylalanine by expression-SELEX.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. e66, doi. 10.1093/nar/gkad424

By:

Chen, Binfen;
Yu, Xinmei;
Gao, Ting;
Wu, Yaoyao;
Zhang, Xiaojun;
Li, Sanshu

Publication type:

Article

Correction to 'Deacetylation of NAT10 by Sirt1 promotes the transition from rRNA biogenesis to autophagy upon energy stress'.

Published in:: 2023
Publication type:: Correction Notice

Biochemical and mechanistic analysis of the cleavage of branched DNA by human ANKLE1.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5743, doi. 10.1093/nar/gkad416

By:

Freeman, Alasdair D J;
Déclais, Anne-Cécile;
Wilson, Timothy J;
Lilley, David M J

Publication type:

Article

Conformational dynamics of RNA G4C2 and G2C4 repeat expansions causing ALS/FTD using NMR and molecular dynamics studies.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5325, doi. 10.1093/nar/gkad403

By:

Taghavi, Amirhossein;
Baisden, Jared T;
Childs-Disney, Jessica L;
Yildirim, Ilyas;
Disney, Matthew D

Publication type:

Article

UMSBP2 is chromatin remodeler that functions in regulation of gene expression and suppression of antigenic variation in trypanosomes.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5678, doi. 10.1093/nar/gkad402

By:

Soni, Awakash;
Klebanov-Akopyan, Olga;
Erben, Esteban;
Plaschkes, Inbar;
Benyamini, Hadar;
Mitesser, Vera;
Harel, Amnon;
Yamin, Katereena;
Onn, Itay;
Shlomai, Joseph

Publication type:

Article

Structural analysis of the Candida albicans mitochondrial DNA maintenance factor Gcf1p reveals a dynamic DNA-bridging mechanism.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5864, doi. 10.1093/nar/gkad397

By:

Tarrés-Solé, Aleix;
Battistini, Federica;
Gerhold, Joachim M;
Piétrement, Olivier;
Martínez-García, Belén;
Ruiz-López, Elena;
Lyonnais, Sébastien;
Bernadó, Pau;
Roca, Joaquim;
Orozco, Modesto;
Le Cam, Eric;
Sedman, Juhan;
Solà, Maria

Publication type:

Article

Histone chaperone Nap1 dismantles an H2A/H2B dimer from a partially unwrapped nucleosome.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5351, doi. 10.1093/nar/gkad396

By:

Nagae, Fritz;
Takada, Shoji;
Terakawa, Tsuyoshi

Publication type:

Article

Accurate quantification of DNA using on-site PCR (osPCR) by characterizing DNA amplification at single-molecule resolution.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. e65, doi. 10.1093/nar/gkad388

By:

Ding, Ruihua;
Liu, Liying;
Zhang, Jiali;
Lv, Pengxiao;
Zhou, Lin;
Zhang, Tinglu;
Li, Shenwei;
Zhao, Ran;
Yang, Zhuo;
Xiong, Peng;
Chen, Hu;
Wang, Wei;
Wang, Hualiang;
Tian, Zhengan;
Liu, Bo;
Chen, Chang

Publication type:

Article

DNA modifications impact natural transformation of Acinetobacter baumannii.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5661, doi. 10.1093/nar/gkad377

By:

Vesel, Nina;
Iseli, Christian;
Guex, Nicolas;
Lemopoulos, Alexandre;
Blokesch, Melanie

Publication type:

Article

DNA binding specificity of all four Saccharomyces cerevisiae forkhead transcription factors.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5621, doi. 10.1093/nar/gkad372

By:

Cooper, Brendon H;
Dantas Machado, Ana Carolina;
Gan, Yan;
Aparicio, Oscar M;
Rohs, Remo

Publication type:

Article

Thermally controlled intein splicing of engineered DNA polymerases provides a robust and generalizable solution for accurate and sensitive molecular diagnostics.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5883, doi. 10.1093/nar/gkad368

By:

Wang, You;
Shi, Yuqian;
Hellinga, Homme W;
Beese, Lorena S

Publication type:

Article

The Drosophila gene encoding JIG protein (CG14850) is critical for CrebA nuclear trafficking during development.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5647, doi. 10.1093/nar/gkad343

By:

Bhuiyan, Sayem H;
Bordet, Guillaume;
Bamgbose, Gbolahan;
Tulin, Alexei V

Publication type:

Article

AT-specific DNA visualization revisits the directionality of bacteriophage λ DNA ejection.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5634, doi. 10.1093/nar/gkad340

By:

Bong, Serang;
Park, Chung Bin;
Cho, Shin-Gyu;
Bae, Jaeyoung;
Hapsari, Natalia Diyah;
Jin, Xuelin;
Heo, Sujung;
Lee, Ji-eun;
Hashiya, Kaori;
Bando, Toshikazu;
Sugiyama, Hiroshi;
Jung, Kwang-Hwan;
Sung, Bong June;
Jo, Kyubong

Publication type:

Article

Screening for functional regulatory variants in open chromatin using GenIE-ATAC.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. e64, doi. 10.1093/nar/gkad332

By:

Cooper, Sarah;
Schwartzentruber, Jeremy;
Coomber, Eve L;
Wu, Qianxin;
Bassett, Andrew

Publication type:

Article

Position-dependent sequence motif preferences of SpCas9 are largely determined by scaffold-complementary spacer motifs.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5847, doi. 10.1093/nar/gkad323

By:

Huszár, Krisztina;
Welker, Zsombor;
Györgypál, Zoltán;
Tóth, Eszter;
Ligeti, Zoltán;
Kulcsár, Péter István;
Dancsó, János;
Tálas, András;
Krausz, Sarah Laura;
Varga, Éva;
Welker, Ervin

Publication type:

Article

RNA binding protein PRRC2B mediates translation of specific mRNAs and regulates cell cycle progression.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5831, doi. 10.1093/nar/gkad322

By:

Jiang, Feng;
Hedaya, Omar M;
Khor, EngSoon;
Wu, Jiangbin;
Auguste, Matthew;
Yao, Peng

Publication type:

Article

Kinetic principles of ParA2-ATP cycling guide dynamic subcellular localizations in Vibrio cholerae.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5603, doi. 10.1093/nar/gkad321

By:

Chodha, Satpal S;
Brooks, Adam C;
Davis, Peter J;
Ramachandran, Revathy;
Chattoraj, Dhruba K;
Hwang, Ling Chin

Publication type:

Article

Cytoplasmic aggregation of mutant FUS causes multistep RNA splicing perturbations in the course of motor neuron pathology.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5810, doi. 10.1093/nar/gkad319

By:

Rezvykh, Alexander P;
Ustyugov, Aleksey A;
Chaprov, Kirill D;
Teterina, Ekaterina V;
Nebogatikov, Vladimir O;
Spasskaya, Daria S;
Evgen'ev, Michael B;
Morozov, Alexey V;
Funikov, Sergei Yu

Publication type:

Article

Led-Seq: ligation-enhanced double-end sequence-based structure analysis of RNA.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. e63, doi. 10.1093/nar/gkad312

By:

Kolberg, Tim;
von Löhneysen, Sarah;
Ozerova, Iuliia;
Wellner, Karolin;
Hartmann, Roland K;
Stadler, Peter F;
Mörl, Mario

Publication type:

Article

RecF protein targeting to postreplication (daughter strand) gaps I: DNA binding by RecF and RecFR.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5699, doi. 10.1093/nar/gkad311

By:

Henry, Camille;
Mbele, Neema;
Cox, Michael M

Publication type:

Article

RecF protein targeting to post-replication (daughter strand) gaps II: RecF interaction with replisomes.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5714, doi. 10.1093/nar/gkad310

By:

Henry, Camille;
Kaur, Gurleen;
Cherry, Megan E;
Henrikus, Sarah S;
Bonde, Nina J;
Sharma, Nischal;
Beyer, Hope A;
Wood, Elizabeth A;
Chitteni-Pattu, Sindhu;
van Oijen, Antoine M;
Robinson, Andrew;
Cox, Michael M

Publication type:

Article

MSH2-MSH3 promotes DNA end resection during homologous recombination and blocks polymerase theta-mediated end-joining through interaction with SMARCAD1 and EXO1.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5584, doi. 10.1093/nar/gkad308

By:

Oh, Jung-Min;
Kang, Yujin;
Park, Jumi;
Sung, Yubin;
Kim, Dayoung;
Seo, Yuri;
Lee, Eun A;
Ra, Jae Sun;
Amarsanaa, Enkhzul;
Park, Young-Un;
Lee, Seon Young;
Hwang, Jung Me;
Kim, Hongtae;
Schärer, Orlando;
Cho, Seung Woo;
Lee, Changwook;
Takata, Kei-ichi;
Lee, Ja Yil;
Myung, Kyungjae

Publication type:

Article

Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identity.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. e62, doi. 10.1093/nar/gkad307

By:

Sun, Yuliangzi;
Shim, Woo Jun;
Shen, Sophie;
Sinniah, Enakshi;
Pham, Duy;
Su, Zezhuo;
Mizikovsky, Dalia;
White, Melanie D;
Ho, Joshua W K;
Nguyen, Quan;
Bodén, Mikael;
Palpant, Nathan J

Publication type:

Article

KREH1 RNA helicase activity promotes utilization of initiator gRNAs across multiple mRNAs in trypanosome RNA editing.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5791, doi. 10.1093/nar/gkad292

By:

Dubey, Ashutosh P;
Tylec, Brianna L;
Mishra, Amartya;
Sortino, Katherine;
Chen, Runpu;
Sun, Yijun;
Read, Laurie K

Publication type:

Article

Proper RPA acetylation promotes accurate DNA replication and repair.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5565, doi. 10.1093/nar/gkad291

By:

Gan, Xiaoli;
Zhang, Yueyue;
Jiang, Donghao;
Shi, Jingyao;
Zhao, Han;
Xie, Chengyu;
Wang, Yanyan;
Xu, Jingyan;
Zhang, Xinghua;
Cai, Gang;
Wang, Hailong;
Huang, Jun;
Chen, Xuefeng

Publication type:

Article

Dynamics of release factor recycling during translation termination in bacteria.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5774, doi. 10.1093/nar/gkad286

By:

Prabhakar, Arjun;
Pavlov, Michael Y;
Zhang, Jingji;
Indrisiunaite, Gabriele;
Wang, Jinfan;
Lawson, Michael R;
Ehrenberg, Måns;
Puglisi, Joseph D

Publication type:

Article

Saccharomyces cerevisiae DNA polymerase IV overcomes Rad51 inhibition of DNA polymerase δ in Rad52-mediated direct-repeat recombination.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5547, doi. 10.1093/nar/gkad281

By:

Cerqueira, Paula G;
Meyer, Damon;
Zhang, Lilin;
Mallory, Benjamin;
Liu, Jie;
Hua Fu, Becky Xu;
Zhang, Xiaoping;
Heyer, Wolf-Dietrich

Publication type:

Article

Interaction of the La-related protein Slf1 with colliding ribosomes maintains translation of oxidative-stress responsive mRNAs.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5755, doi. 10.1093/nar/gkad272

By:

Jennings, Martin D;
Srivastava, Priya;
Kershaw, Christopher J;
Talavera, David;
Grant, Christopher M;
Pavitt, Graham D

Publication type:

Article

RecA and SSB genome-wide distribution in ssDNA gaps and ends in Escherichia coli.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5527, doi. 10.1093/nar/gkad263

By:

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

Publication type:

Article

CDK12/13 promote splicing of proximal introns by enhancing the interaction between RNA polymerase II and the splicing factor SF3B1.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5512, doi. 10.1093/nar/gkad258

By:

Panzeri, Valentina;
Pieraccioli, Marco;
Cesari, Eleonora;
de la Grange, Pierre;
Sette, Claudio

Publication type:

Article

Accurate profiling of full-length Fv in highly homologous antibody libraries using UMI tagged short reads.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. e61, doi. 10.1093/nar/gkad235

By:

Levin, Itay;
Štrajbl, Marek;
Fastman, Yair;
Baran, Dror;
Twito, Shir;
Mioduser, Jessica;
Keren, Adi;
Fischman, Sharon;
Zhenin, Michael;
Nimrod, Guy;
Levitin, Natalie;
Mayor, May Ben;
Gadrich, Meital;
Ofran, Yanay

Publication type:

Article

Defining the fine structure of promoter activity on a genome-wide scale with CISSECTOR.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5499, doi. 10.1093/nar/gkad232

By:

FitzPatrick, Vincent D;
Leemans, Christ;
van Arensbergen, Joris;
van Steensel, Bas;
Bussemaker, Harmen J

Publication type:

Article

Dual functions of TET1 in germ layer lineage bifurcation distinguished by genomic context and dependence on 5-methylcytosine oxidation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5469, doi. 10.1093/nar/gkad231

By:

van der Veer, Bernard K;
Chen, Lehua;
Custers, Colin;
Athanasouli, Paraskevi;
Schroiff, Mariana;
Cornelis, Riet;
Chui, Jonathan Sai-Hong;
Finnell, Richard H;
Lluis, Frederic;
Koh, Kian Peng

Publication type:

Article

Transcription factor clusters enable target search but do not contribute to target gene activation.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5449, doi. 10.1093/nar/gkad227

By:

Meeussen, Joseph V W;
Pomp, Wim;
Brouwer, Ineke;
de Jonge, Wim J;
Patel, Heta P;
Lenstra, Tineke L

Publication type:

Article

HPr prevents FruR-mediated facilitation of RNA polymerase binding to the fru promoter in Vibrio cholerae.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5432, doi. 10.1093/nar/gkad220

By:

Yoon, Chang-Kyu;
Lee, Seung-Hwan;
Zhang, Jing;
Lee, Hye-Young;
Kim, Min-Kyu;
Seok, Yeong-Jae

Publication type:

Article

RBBP4 is an epigenetic barrier for the induced transition of pluripotent stem cells into totipotent 2C-like cells.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5414, doi. 10.1093/nar/gkad219

By:

Ping, Wangfang;
Sheng, Yingliang;
Hu, Gongcheng;
Zhong, Hongxin;
Li, Yaoyi;
Liu, YanJiang;
Luo, Wei;
Yan, Chenghong;
Wen, Yulin;
Wang, Xinxiu;
Li, Qing;
Guo, Rong;
Zhang, Jie;
Liu, Ake;
Pan, Guangjin;
Yao, Hongjie

Publication type:

Article

ATXN3 controls DNA replication and transcription by regulating chromatin structure.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5396, doi. 10.1093/nar/gkad212

By:

Hernández‐Carralero, Esperanza;
Cabrera, Elisa;
Rodríguez-Torres, Gara;
Hernández-Reyes, Yeray;
Singh, Abhay N;
Santa-María, Cristina;
Fernández-Justel, José Miguel;
Janssens, Roel C;
Marteijn, Jurgen A;
Evert, Bernd O;
Mailand, Niels;
Gómez, María;
Ramadan, Kristijan;
Smits, Veronique A J;
Freire, Raimundo

Publication type:

Article

Probabilistic establishment of speckle-associated inter-chromosomal interactions.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5377, doi. 10.1093/nar/gkad211

By:

Joo, Jaegeon;
Cho, Sunghyun;
Hong, Sukbum;
Min, Sunwoo;
Kim, Kyukwang;
Kumar, Rajeev;
Choi, Jeong-Mo;
Shin, Yongdae;
Jung, Inkyung

Publication type:

Article

On the dependent recognition of some long zinc finger proteins.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5364, doi. 10.1093/nar/gkad207

By:

Zuo, Zheng;
Billings, Timothy;
Walker, Michael;
Petkov, Petko M;
Fordyce, Polly M;
Stormo, Gary D

Publication type:

Article

Dynamic interplay between RPL3- and RPL3L-containing ribosomes modulates mitochondrial activity in the mammalian heart.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 11, p. 5301, doi. 10.1093/nar/gkad121

By:

Milenkovic, Ivan;
Santos Vieira, Helaine Graziele;
Lucas, Morghan C;
Ruiz-Orera, Jorge;
Patone, Giannino;
Kesteven, Scott;
Wu, Jianxin;
Feneley, Michael;
Espadas, Guadalupe;
Sabidó, Eduard;
Hübner, Norbert;
van Heesch, Sebastiaan;
Völkers, Mirko;
Novoa, Eva Maria

Publication type:

Article