Works matching IS 03051048 AND DT 2021 AND VI 49 AND IP 16

Results: 44

Correction to 'Argonaute-based programmable RNase as a tool for cleavage of highly-structured RNA'.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9606, doi. 10.1093/nar/gkab742

By:

Dayeh, Daniel M;
Cantara, William A;
Kitzrow, Jonathan P;
Musier-Forsyth, Karin;
Nakanishi, Kotaro

Publication type:

Article

The Rsm (Csr) post-transcriptional regulatory pathway coordinately controls multiple CRISPR–Cas immune systems.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9508, doi. 10.1093/nar/gkab704

By:

Campa, Aroa Rey;
Smith, Leah M;
Hampton, Hannah G;
Sharma, Sahil;
Jackson, Simon A;
Bischler, Thorsten;
Sharma, Cynthia M;
Fineran, Peter C

Publication type:

Article

De-dimerization of PTB is catalyzed by PDI and is involved in the regulation of p53 translation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9342, doi. 10.1093/nar/gkab708

By:

Gong, Fu-Xing;
Zhan, Guoqin;
Han, Rong;
Yang, Zhigang;
Fu, Xin;
Xiao, Ran

Publication type:

Article

Codon usage and protein length-dependent feedback from translation elongation regulates translation initiation and elongation speed.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9404, doi. 10.1093/nar/gkab729

By:

Lyu, Xueliang;
Yang, Qian;
Zhao, Fangzhou;
Liu, Yi

Publication type:

Article

ESA1 regulates meiotic chromosome axis and crossover frequency via acetylating histone H4.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9353, doi. 10.1093/nar/gkab722

By:

Wang, Ying;
Zhai, Binyuan;
Tan, Taicong;
Yang, Xiao;
Zhang, Jiaming;
Song, Meihui;
Tan, Yingjin;
Yang, Xuan;
Chu, Tingting;
Zhang, Shuxian;
Wang, Shunxin;
Zhang, Liangran

Publication type:

Article

Expanding the chemical functionality of DNA nanomaterials generated by rolling circle amplification.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9042, doi. 10.1093/nar/gkab720

By:

Baker, Ysobel R;
Yuan, Liyiwen;
Chen, Jinfeng;
Belle, Roman;
Carlisle, Robert;
El-Sagheer, Afaf H;
Brown, Tom

Publication type:

Article

Towards next generation antisense oligonucleotides: mesylphosphoramidate modification improves therapeutic index and duration of effect of gapmer antisense oligonucleotides.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9026, doi. 10.1093/nar/gkab718

By:

Anderson, Brooke A;
Freestone, Graeme C;
Low, Audrey;
De-Hoyos, Cheryl L;
III, William J Drury;
Østergaard, Michael E;
Migawa, Michael T;
Fazio, Michael;
Wan, W Brad;
Berdeja, Andres;
Scandalis, Eli;
Burel, Sebastien A;
Vickers, Timothy A;
Crooke, Stanley T;
Swayze, Eric E;
Liang, Xuehai;
Seth, Punit P

Publication type:

Article

Transposable element sequence fragments incorporated into coding and noncoding transcripts modulate the transcriptome of human pluripotent stem cells.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9132, doi. 10.1093/nar/gkab710

By:

Babarinde, Isaac A;
Ma, Gang;
Li, Yuhao;
Deng, Boping;
Luo, Zhiwei;
Liu, Hao;
Abdul, Mazid Md;
Ward, Carl;
Chen, Minchun;
Fu, Xiuling;
Shi, Liyang;
Duttlinger, Martha;
He, Jiangping;
Sun, Li;
Li, Wenjuan;
Zhuang, Qiang;
Tong, Guoqing;
Frampton, Jon;
Cazier, Jean-Baptiste;
Chen, Jiekai

Publication type:

Article

Context-sensitivity of isosteric substitutions of non-Watson–Crick basepairs in recurrent RNA 3D motifs.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9574, doi. 10.1093/nar/gkab703

By:

Khisamutdinov, Emil F;
Sweeney, Blake A;
Leontis, Neocles B

Publication type:

Article

Computational resources to define alleles and altered regulatory motifs at genomically edited candidate response elements.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9117, doi. 10.1093/nar/gkab700

By:

Ehmsen, Kirk T;
Knuesel, Matthew T;
Martinez, Delsy;
Asahina, Masako;
Aridomi, Haruna;
Yamamoto, Keith R

Publication type:

Article

Arabidopsis retains vertebrate-type telomerase accessory proteins via a plant-specific assembly.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9496, doi. 10.1093/nar/gkab699

By:

Song, Jiarui;
Castillo-González, Claudia;
Ma, Zeyang;
Shippen, Dorothy E

Publication type:

Article

Handcuffing intrinsically disordered regions in Mlh1–Pms1 disrupts mismatch repair.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9327, doi. 10.1093/nar/gkab694

By:

Furman, Christopher M;
Wang, Ting-Yi;
Zhao, Qiuye;
Yugandhar, Kumar;
Yu, Haiyuan;
Alani, Eric

Publication type:

Article

Structural and mechanistic insights into the Artemis endonuclease and strategies for its inhibition.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9310, doi. 10.1093/nar/gkab693

By:

Yosaatmadja, Yuliana;
Baddock, Hannah T;
Newman, Joseph A;
Bielinski, Marcin;
Gavard, Angeline E;
Mukhopadhyay, Shubhashish M M;
Dannerfjord, Adam A;
Schofield, Christopher J;
McHugh, Peter J;
Gileadi, Opher

Publication type:

Article

A phosphate binding pocket is a key determinant of exo- versus endo-nucleolytic activity in the SNM1 nuclease family.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9294, doi. 10.1093/nar/gkab692

By:

Baddock, Hannah T;
Newman, Joseph A;
Yosaatmadja, Yuliana;
Bielinski, Marcin;
Schofield, Christopher J;
Gileadi, Opher;
McHugh, Peter J

Publication type:

Article

Sequence-specific dynamics of DNA response elements and their flanking sites regulate the recognition by AP-1 transcription factors.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9280, doi. 10.1093/nar/gkab691

By:

Hörberg, Johanna;
Moreau, Kevin;
Tamás, Markus J;
Reymer, Anna

Publication type:

Article

Formation of artificial chromosomes in Caenorhabditis elegans and analyses of their segregation in mitosis, DNA sequence composition and holocentromere organization.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9174, doi. 10.1093/nar/gkab690

By:

Lin, Zhongyang;
Xie, Yichun;
Nong, Wenyan;
Ren, Xiaoliang;
Li, Runsheng;
Zhao, Zhongying;
Hui, Jerome Ho Lam;
Yuen, Karen Wing Yee

Publication type:

Article

Cooperative DNA binding mediated by KicGAS/ORF52 oligomerization allows inhibition of DNA-induced phase separation and activation of cGAS.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9389, doi. 10.1093/nar/gkab689

By:

Bhowmik, Debipreeta;
Du, Mingjian;
Tian, Yuan;
Ma, Siming;
Wu, Jianjun;
Chen, Zhijian;
Yin, Qian;
Zhu, Fanxiu

Publication type:

Article

tRNAscan-SE 2.0: improved detection and functional classification of transfer RNA genes.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9077, doi. 10.1093/nar/gkab688

By:

Chan, Patricia P;
Lin, Brian Y;
Mak, Allysia J;
Lowe, Todd M

Publication type:

Article

Antisense ribosomal siRNAs inhibit RNA polymerase I-directed transcription in C. elegans.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9194, doi. 10.1093/nar/gkab662

By:

Liao, Shimiao;
Chen, Xiangyang;
Xu, Ting;
Jin, Qile;
Xu, Zongxiu;
Xu, Demin;
Zhou, Xufei;
Zhu, Chengming;
Guang, Shouhong;
Feng, Xuezhu

Publication type:

Article

Genetic depletion of the RNA helicase DDX3 leads to impaired elongation of translating ribosomes triggering co-translational quality control of newly synthesized polypeptides.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9459, doi. 10.1093/nar/gkab667

By:

Padmanabhan, Prasad Kottayil;
Ferreira, Gabriel Reis;
Zghidi-Abouzid, Ouafa;
Oliveira, Camila;
Dumas, Carole;
Mariz, Filipe Colaço;
Papadopoulou, Barbara

Publication type:

Article

Structural basis of l-tryptophan-dependent inhibition of release factor 2 by the TnaC arrest peptide.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9539, doi. 10.1093/nar/gkab665

By:

Su, Ting;
Kudva, Renuka;
Becker, Thomas;
Buschauer, Robert;
Komar, Tobias;
Berninghausen, Otto;
von Heijne, Gunnar;
Cheng, Jingdong;
Beckmann, Roland

Publication type:

Article

Ribosome-binding and anti-microbial studies of the mycinamicins, 16-membered macrolide antibiotics from Micromonospora griseorubida.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9560, doi. 10.1093/nar/gkab684

By:

Breiner-Goldstein, Elinor;
Eyal, Zohar;
Matzov, Donna;
Halfon, Yehuda;
Cimicata, Giuseppe;
Baum, Moti;
Rokney, Assaf;
Ezernitchi, Analia V;
Lowell, Andrew N;
Schmidt, Jennifer J;
Rozenberg, Haim;
Zimmerman, Ella;
Bashan, Anat;
Valinsky, Lea;
Anzai, Yojiro;
Sherman, David H;
Yonath, Ada

Publication type:

Article

The lane-switch mechanism for nucleosome repositioning by DNA translocase.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9066, doi. 10.1093/nar/gkab664

By:

Nagae, Fritz;
Brandani, Giovanni B;
Takada, Shoji;
Terakawa, Tsuyoshi

Publication type:

Article

Protein cofactors and substrate influence Mg2+-dependent structural changes in the catalytic RNA of archaeal RNase P.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9444, doi. 10.1093/nar/gkab655

By:

Marathe, Ila A;
Lai, Stella M;
Zahurancik, Walter J;
Poirier, Michael G;
Wysocki, Vicki H;
Gopalan, Venkat

Publication type:

Article

A cascade of transcriptional repression determines sexual commitment and development in Plasmodium falciparum.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9264, doi. 10.1093/nar/gkab683

By:

Shang, Xiaomin;
Shen, Shijun;
Tang, Jianxia;
He, Xiaoqin;
Zhao, Yuemeng;
Wang, Changhong;
He, Xiaohui;
Guo, Gangqiang;
Liu, Meng;
Wang, Liping;
Zhu, Qianshu;
Yang, Guang;
Jiang, Cizhong;
Zhang, Meihua;
Yu, Xinyu;
Han, Jiping;
Culleton, Richard;
Jiang, Lubin;
Cao, Jun;
Gu, Liang

Publication type:

Article

Autosomal sex-associated co-methylated regions predict biological sex from DNA methylation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9097, doi. 10.1093/nar/gkab682

By:

Gatev, Evan;
Inkster, Amy M;
Negri, Gian Luca;
Konwar, Chaini;
Lussier, Alexandre A;
Skakkebaek, Anne;
Sokolowski, Marla B;
Gravholt, Claus H;
Dunn, Erin C;
Kobor, Michael S;
Aristizabal, Maria J

Publication type:

Article

The beginning and the end: flanking nucleotides induce a parallel G-quadruplex topology.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9548, doi. 10.1093/nar/gkab681

By:

Chen, Jielin;
Cheng, Mingpan;
Salgado, Gilmar F;
Stadlbauer, Petr;
Zhang, Xiaobo;
Amrane, Samir;
Guédin, Aurore;
He, Fangni;
Šponer, Jiří;
Ju, Huangxian;
Mergny, Jean-Louis;
Zhou, Jun

Publication type:

Article

Activation of bivalent factor DLX5 cooperates with master regulator TP63 to promote squamous cell carcinoma.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9246, doi. 10.1093/nar/gkab679

By:

Huang, Yongsheng;
Yang, Qian;
Zheng, Yueyuan;
Lin, Lehang;
Xu, Xin;
Xu, Xiu-E;
Silva, Tiago C;
Hazawa, Masaharu;
Peng, Li;
Cao, Haotian;
Ding, Yanbing;
Lu, Daning;
Berman, Benjamin P;
Xu, Li-Yan;
Li, En-Min;
Yin, Dong

Publication type:

Article

A phage-encoded nucleoid associated protein compacts both host and phage DNA and derepresses H-NS silencing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9229, doi. 10.1093/nar/gkab678

By:

Son, Bokyung;
Patterson-West, Jennifer;
Arroyo-Mendoza, Melissa;
Ramachandran, Revathy;
Iben, James R;
Zhu, Jingen;
Rao, Venigalla;
Dimitriadis, Emilios K;
Hinton, Deborah M

Publication type:

Article

Development of a base editor for protein evolution via in situ mutation in vivo.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9594, doi. 10.1093/nar/gkab673

By:

Hao, Wenliang;
Cui, Wenjing;
Cheng, Zhongyi;
Han, Laichuang;
Suo, Feiya;
Liu, Zhongmei;
Zhou, Li;
Zhou, Zhemin

Publication type:

Article

Expression of the ISPpu9 transposase of Pseudomonas putida KT2440 is regulated by two small RNAs and the secondary structure of the mRNA 5′-untranslated region.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9211, doi. 10.1093/nar/gkab672

By:

Gómez-García, Guillermo;
Ruiz-Enamorado, Angel;
Yuste, Luis;
Rojo, Fernando;
Moreno, Renata

Publication type:

Article

Cyclic mismatch binding ligands interact with disease-associated CGG trinucleotide repeats in RNA and suppress their translation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9479, doi. 10.1093/nar/gkab669

By:

Konieczny, Patryk;
Mukherjee, Sanjukta;
Stepniak-Konieczna, Ewa;
Taylor, Katarzyna;
Niewiadomska, Daria;
Piasecka, Agnieszka;
Walczak, Agnieszka;
Baud, Anna;
Dohno, Chikara;
Nakatani, Kazuhiko;
Sobczak, Krzysztof

Publication type:

Article

A simple model explains the cell cycle-dependent assembly of centromeric nucleosomes in holocentric species.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9053, doi. 10.1093/nar/gkab648

By:

Câmara, Amanda Souza;
Schubert, Veit;
Mascher, Martin;
Houben, Andreas

Publication type:

Article

SDE2 is an essential gene required for ribosome biogenesis and the regulation of alternative splicing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9424, doi. 10.1093/nar/gkab647

By:

Floro, Jess;
Dai, Anqi;
Metzger, Abigail;
Mora-Martin, Alexandra;
Ganem, Neil J;
Cifuentes, Daniel;
Wu, Ching-Shyi;
Dalal, Jasbir;
Lyons, Shawn M;
Labadorf, Adam;
Flynn, Rachel L

Publication type:

Article

Photo-activatable Ub-PCNA probes reveal new structural features of the Saccharomyces cerevisiae Polη/PCNA complex.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9374, doi. 10.1093/nar/gkab646

By:

Shen, Siqi;
Davidson, Gregory A;
Yang, Kun;
Zhuang, Zhihao

Publication type:

Article

CROssBAR: comprehensive resource of biomedical relations with knowledge graph representations.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. e96, doi. 10.1093/nar/gkab543

By:

Doğan, Tunca;
Atas, Heval;
Joshi, Vishal;
Atakan, Ahmet;
Rifaioglu, Ahmet Sureyya;
Nalbat, Esra;
Nightingale, Andrew;
Saidi, Rabie;
Volynkin, Vladimir;
Zellner, Hermann;
Cetin-Atalay, Rengul;
Martin, Maria;
Atalay, Volkan

Publication type:

Article

Harnessing self-labeling enzymes for selective and concurrent A-to-I and C-to-U RNA base editing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. e95, doi. 10.1093/nar/gkab541

By:

Stroppel, Anna S;
Latifi, Ngadhnjim;
Hanswillemenke, Alfred;
Tasakis, Rafail Nikolaos;
Papavasiliou, F Nina;
Stafforst, Thorsten

Publication type:

Article

RbAp46/48LIN-53 and HAT-1 are required for initial CENP-AHCP-3 deposition and de novo holocentromere formation on artificial chromosomes in Caenorhabditis elegans embryos.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9154, doi. 10.1093/nar/gkab217

By:

Lin, Zhongyang;
Yuen, Karen Wing Yee

Publication type:

Article

A transferrable and integrative type I-F Cascade for heterologous genome editing and transcription modulation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. e94, doi. 10.1093/nar/gkab521

By:

Xu, Zeling;
Li, Yanran;
Cao, Huiluo;
Si, Meiru;
Zhang, Guangming;
Woo, Patrick C Y;
Yan, Aixin

Publication type:

Article

Deep and accurate detection of m6A RNA modifications using miCLIP2 and m6Aboost machine learning.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. e92, doi. 10.1093/nar/gkab485

By:

Körtel, Nadine;
Rücklé, Cornelia;
Zhou, You;
Busch, Anke;
Hoch-Kraft, Peter;
Sutandy, F X Reymond;
Haase, Jacob;
Pradhan, Mihika;
Musheev, Michael;
Ostareck, Dirk;
Ostareck-Lederer, Antje;
Dieterich, Christoph;
Hüttelmaier, Stefan;
Niehrs, Christof;
Rausch, Oliver;
Dominissini, Dan;
König, Julian;
Zarnack, Kathi

Publication type:

Article

Cell type hierarchy reconstruction via reconciliation of multi-resolution cluster tree.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. e91, doi. 10.1093/nar/gkab481

By:

Peng, Minshi;
Wamsley, Brie;
Elkins, Andrew G;
Geschwind, Daniel H;
Wei, Yuting;
Roeder, Kathryn

Publication type:

Article

RNA-regulatory exosome complex confers cellular survival to promote erythropoiesis.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9007, doi. 10.1093/nar/gkab367

By:

Mehta, Charu;
Fraga de Andrade, Isabela;
Matson, Daniel R;
Dewey, Colin N;
Bresnick, Emery H

Publication type:

Article

Targeting the ALS/FTD-associated A-DNA kink with anthracene-based metal complex causes DNA backbone straightening and groove contraction.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. 9526, doi. 10.1093/nar/gkab227

By:

Jhan, Cyong-Ru;
Satange, Roshan;
Wang, Shun-Ching;
Zeng, Jing-Yi;
Horng, Yih-Chern;
Jin, Peng;
Neidle, Stephen;
Hou, Ming-Hon

Publication type:

Article

Determining subpopulation methylation profiles from bisulfite sequencing data of heterogeneous samples using DXM.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 16, p. e93, doi. 10.1093/nar/gkab516

By:

Fong, Jerry;
Gardner, Jacob R;
Andrews, Jared M;
Cashen, Amanda F;
Payton, Jacqueline E;
Weinberger, Kilian Q;
Edwards, John R

Publication type:

Article