Works matching IS 03051048 AND DT 2022 AND VI 50 AND IP 8

Results: 45

Correction to 'Epitranscriptomic regulation of HIV-1 full-length RNA packaging'.

Published in:: 2022
Publication type:: Correction Notice

Fragment screening and structural analyses highlight the ATP-assisted ligand binding for inhibitor discovery against type 1 methionyl-tRNA synthetase.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4755, doi. 10.1093/nar/gkac285

By:

Yi, Jia;
Cai, Zhengjun;
Qiu, Haipeng;
Lu, Feihu;
Luo, Zhiteng;
Chen, Bingyi;
Gu, Qiong;
Xu, Jun;
Zhou, Huihao

Publication type:

Article

Correction to 'Factorbook: an updated catalog of transcription factor motifs and candidate regulatory motif sites'.

Published in:: 2022
Publication type:: Correction Notice

rationalized definition of general tumor suppressor microRNAs excludes miR-34a.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4703, doi. 10.1093/nar/gkac277

By:

Mockly, Sophie;
Houbron, Élisabeth;
Seitz, Hervé

Publication type:

Article

Coexpression reveals conserved gene programs that co-vary with cell type across kingdoms.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4302, doi. 10.1093/nar/gkac276

By:

Crow, Megan;
Suresh, Hamsini;
Lee, John;
Gillis, Jesse

Publication type:

Article

Riboswitch-inspired toehold riboregulators for gene regulation in Escherichia coli.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4784, doi. 10.1093/nar/gkac275

By:

Wang, Tianhe;
Simmel, Friedrich C

Publication type:

Article

Gene-SCOUT: identifying genes with similar continuous trait fingerprints from phenome-wide association analyses.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4289, doi. 10.1093/nar/gkac274

By:

Middleton, Lawrence;
Harper, Andrew R;
Nag, Abhishek;
Wang, Quanli;
Reznichenko, Anna;
Vitsios, Dimitrios;
Petrovski, Slavé

Publication type:

Article

tRNA discriminator base defines the mutual orthogonality of two distinct pyrrolysyl-tRNA synthetase/tRNAPyl pairs in the same organism.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4601, doi. 10.1093/nar/gkac271

By:

Zhang, Haolin;
Gong, Xuemei;
Zhao, Qianqian;
Mukai, Takahito;
Vargas-Rodriguez, Oscar;
Zhang, Huiming;
Zhang, Yuxing;
Wassel, Paul;
Amikura, Kazuaki;
Maupin-Furlow, Julie;
Ren, Yan;
Xu, Xun;
Wolf, Yuri I;
Makarova, Kira S;
Koonin, Eugene V;
Shen, Yue;
Söll, Dieter;
Fu, Xian

Publication type:

Article

Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4515, doi. 10.1093/nar/gkac264

By:

Soudet, Julien;
Beyrouthy, Nissrine;
Pastucha, Anna Marta;
Maffioletti, Andrea;
Menéndez, Dario;
Bakir, Zahra;
Stutz, Françoise

Publication type:

Article

Nuclear and cytoplasmic poly(A) binding proteins (PABPs) favor distinct transcripts and isoforms.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4685, doi. 10.1093/nar/gkac263

By:

Nicholson-Shaw, Angela L;
Kofman, Eric R;
Yeo, Gene W;
Pasquinelli, Amy E

Publication type:

Article

Dynamic and facilitated binding of topoisomerase accelerates topological relaxation.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4659, doi. 10.1093/nar/gkac260

By:

Michieletto, Davide;
Fosado, Yair A G;
Melas, Elias;
Baiesi, Marco;
Tubiana, Luca;
Orlandini, Enzo

Publication type:

Article

Histone H3.3 phosphorylation promotes heterochromatin formation by inhibiting H3K9/K36 histone demethylase.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4500, doi. 10.1093/nar/gkac259

By:

Udugama, Maheshi;
Vinod, Benjamin;
Chan, F Lyn;
Hii, Linda;
Garvie, Andrew;
Collas, Philippe;
Kalitsis, Paul;
Steer, David;
Das, Partha P;
Tripathi, Pratibha;
Mann, Jeffrey R;
Voon, Hsiao P J;
Wong, Lee H

Publication type:

Article

TH1 cell lineage-determining transcription factor T-bet suppresses TH2 gene expression by redistributing GATA3 away from TH2 genes.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4557, doi. 10.1093/nar/gkac258

By:

Hertweck, Arnulf;
Vila de Mucha, Maria;
Barber, Paul R;
Dagil, Robert;
Porter, Hayley;
Ramos, Andres;
Lord, Graham M;
Jenner, Richard G

Publication type:

Article

Rational guide RNA engineering for small-molecule control of CRISPR/Cas9 and gene editing.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4769, doi. 10.1093/nar/gkac255

By:

Liu, Xingyu;
Xiong, Wei;
Qi, Qianqian;
Zhang, Yutong;
Ji, Huimin;
Cui, Shuangyu;
An, Jing;
Sun, Xiaoming;
Yin, Hao;
Tian, Tian;
Zhou, Xiang

Publication type:

Article

SETDB1 fuels the lung cancer phenotype by modulating epigenome, 3D genome organization and chromatin mechanical properties.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4389, doi. 10.1093/nar/gkac234

By:

Zakharova, Vlada V;
Magnitov, Mikhail D;
Del Maestro, Laurence;
Ulianov, Sergey V;
Glentis, Alexandros;
Uyanik, Burhan;
Williart, Alice;
Karpukhina, Anna;
Demidov, Oleg;
Joliot, Veronique;
Vassetzky, Yegor S;
Mège, René-Marc;
Piel, Matthieu;
Razin, Sergey V;
Ait-Si-Ali, Slimane

Publication type:

Article

Phosphorylated MED1 links transcription recycling and cancer growth.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4450, doi. 10.1093/nar/gkac246

By:

Chen, Zhong;
Ye, Zhenqing;
Soccio, Raymond E;
Nakadai, Tomoyoshi;
Hankey, William;
Zhao, Yue;
Huang, Furong;
Yuan, Fuwen;
Wang, Hongyan;
Cui, Zhifen;
Sunkel, Benjamin;
Wu, Dayong;
Dzeng, Richard K;
Thomas-Ahner, Jennifer M;
Huang, Tim H M;
Clinton, Steven K;
Huang, Jiaoti;
Lazar, Mitchell A;
Jin, Victor X;
Roeder, Robert G

Publication type:

Article

m6A and YTHDF proteins contribute to the localization of select neuronal mRNAs.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4464, doi. 10.1093/nar/gkac251

By:

Flamand, Mathieu N;
Meyer, Kate D

Publication type:

Article

Microarray screening reveals two non-conventional SUMO-binding modules linked to DNA repair by non-homologous end-joining.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4732, doi. 10.1093/nar/gkac237

By:

Cabello-Lobato, Maria Jose;
Jenner, Matthew;
Cisneros-Aguirre, Metztli;
Brüninghoff, Kira;
Sandy, Zac;
da Costa, Isabelle C;
Jowitt, Thomas A;
Loch, Christian M;
Jackson, Stephen P;
Wu, Qian;
Mootz, Henning D;
Stark, Jeremy M;
Cliff, Matthew J;
Schmidt, Christine K

Publication type:

Article

Visualization of ligand-induced c-MYC duplex–quadruplex transition and direct exploration of the altered c-MYC DNA-protein interactions in cells.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4246, doi. 10.1093/nar/gkac245

By:

Yuan, Jia-Hao;
Tu, Jia-Li;
Liu, Guo-Cai;
Chen, Xiu-Cai;
Huang, Zhi-Shu;
Chen, Shuo-Bin;
Tan, Jia-Heng

Publication type:

Article

Vibrio cholerae master regulator for the activation of biofilm biogenesis genes, VpsR, senses both cyclic di-GMP and phosphate.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4484, doi. 10.1093/nar/gkac253

By:

Hsieh, Meng-Lun;
Kiel, Niklas;
Jenkins, Lisa M Miller;
Ng, Wai-Leung;
Knipling, Leslie;
Waters, Christopher M;
Hinton, Deborah M

Publication type:

Article

TedSim: temporal dynamics simulation of single-cell RNA sequencing data and cell division history.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4272, doi. 10.1093/nar/gkac235

By:

Pan, Xinhai;
Li, Hechen;
Zhang, Xiuwei

Publication type:

Article

Holliday junction resolution by At-HIGLE: an SLX1 lineage endonuclease from Arabidopsis thaliana with a novel in-built regulatory mechanism.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4630, doi. 10.1093/nar/gkac239

By:

Verma, Prabha;
Kumari, Poonam;
Negi, Shreya;
Yadav, Gitanjali;
Gaur, Vineet

Publication type:

Article

Cnot8 eliminates naïve regulation networks and is essential for naïve-to-formative pluripotency transition.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4414, doi. 10.1093/nar/gkac236

By:

Quan, Yujun;
Wang, Meijiao;
Xu, Chengpeng;
Wang, Xiaoxiao;
Wu, Yu;
Qin, Dandan;
Lin, Yuxuan;
Lu, Xukun;
Lu, Falong;
Li, Lei

Publication type:

Article

Psoralen mapping reveals a bacterial genome supercoiling landscape dominated by transcription.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4436, doi. 10.1093/nar/gkac244

By:

Visser, Bryan J;
Sharma, Sonum;
Chen, Po J;
McMullin, Anna B;
Bates, Maia L;
Bates, David

Publication type:

Article

atlas of posttranslational modifications on RNA binding proteins.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4329, doi. 10.1093/nar/gkac243

By:

England, Whitney E;
Wang, Jingtian;
Chen, Siwei;
Baldi, Pierre;
Flynn, Ryan A;
Spitale, Robert C

Publication type:

Article

Mismatch discrimination and sequence bias during end-joining by DNA ligases.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4647, doi. 10.1093/nar/gkac241

By:

Bilotti, Katharina;
Potapov, Vladimir;
Pryor, John M;
Duckworth, Alexander T;
Keck, James L;
Lohman, Gregory J S

Publication type:

Article

Shaping the genome via lengthwise compaction, phase separation, and lamina adhesion.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4258, doi. 10.1093/nar/gkac231

By:

Brahmachari, Sumitabha;
Contessoto, Vinícius G;
Di Pierro, Michele;
Onuchic, José N

Publication type:

Article

Programmable cleavage of linear double-stranded DNA by combined action of Argonaute CbAgo from Clostridium butyricum and nuclease deficient RecBC helicase from E. coli.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4616, doi. 10.1093/nar/gkac229

By:

Vaiskunaite, Rita;
Vainauskas, Jogirdas;
Morris, Janna J L;
Potapov, Vladimir;
Bitinaite, Jurate

Publication type:

Article

Mechanistic insights into tRNA cleavage by a contact-dependent growth inhibitor protein and translation factors.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4713, doi. 10.1093/nar/gkac228

By:

Wang, Jing;
Yashiro, Yuka;
Sakaguchi, Yuriko;
Suzuki, Tsutomu;
Tomita, Kozo

Publication type:

Article

Two pathways drive meiotic chromosome axis assembly in Saccharomyces cerevisiae.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4545, doi. 10.1093/nar/gkac227

By:

Heldrich, Jonna;
Milano, Carolyn R;
Markowitz, Tovah E;
Ur, Sarah N;
Vale-Silva, Luis A;
Corbett, Kevin D;
Hochwagen, Andreas

Publication type:

Article

Guanine quadruplexes in the RNA genome of the tick-borne encephalitis virus: their role as a new antiviral target and in virus biology.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4574, doi. 10.1093/nar/gkac225

By:

Holoubek, Jiří;
Bednářová, Klára;
Haviernik, Jan;
Huvarová, Ivana;
Dvořáková, Zuzana;
Černý, Jiří;
Outlá, Martina;
Salát, Jiří;
Konkol'ová, Eva;
Boura, Evzen;
Růžek, Daniel;
Vorlíčková, Michaela;
Eyer, Luděk;
Renčiuk, Daniel

Publication type:

Article

Chemical biology and medicinal chemistry of RNA methyltransferases.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4216, doi. 10.1093/nar/gkac224

By:

Fischer, Tim R;
Meidner, Laurenz;
Schwickert, Marvin;
Weber, Marlies;
Zimmermann, Robert A;
Kersten, Christian;
Schirmeister, Tanja;
Helm, Mark

Publication type:

Article

Functional specialization of monocot DCL3 and DCL5 proteins through the evolution of the PAZ domain.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4669, doi. 10.1093/nar/gkac223

By:

Chen, Shirui;
Liu, Wei;
Naganuma, Masahiro;
Tomari, Yukihide;
Iwakawa, Hiro-oki

Publication type:

Article

dimerization interface of initiator RctB governs chaperone and enhancer dependence of Vibrio cholerae chromosome 2 replication.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4529, doi. 10.1093/nar/gkac210

By:

Kothapalli, Roopa;
Ghirlando, Rodolfo;
Khan, Zaki Ali;
Chatterjee, Soniya;
Kedei, Noemi;
Chattoraj, Dhruba K

Publication type:

Article

Modulation of RNA stability regulates gene expression in two opposite ways: through buffering of RNA levels upon global perturbations and by supporting adapted differential expression.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4372, doi. 10.1093/nar/gkac208

By:

Faucillion, Marie-Line;
Johansson, Anna-Mia;
Larsson, Jan

Publication type:

Article

Multivalent DNA and nucleosome acidic patch interactions specify VRK1 mitotic localization and activity.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4355, doi. 10.1093/nar/gkac198

By:

Budziszewski, Gabrielle R;
Zhao, Yani;
Spangler, Cathy J;
Kedziora, Katarzyna M;
Williams, Michael R;
Azzam, Dalal N;
Skrajna, Aleksandra;
Koyama, Yuka;
Cesmat, Andrew P;
Simmons, Holly C;
Arteaga, Eyla C;
Strauss, Joshua D;
Kireev, Dmitri;
McGinty, Robert K

Publication type:

Article

CRISPR-Cas systems are widespread accessory elements across bacterial and archaeal plasmids.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4315, doi. 10.1093/nar/gkab859

By:

Pinilla-Redondo, Rafael;
Russel, Jakob;
Mayo-Muñoz, David;
Shah, Shiraz A;
Garrett, Roger A;
Nesme, Joseph;
Madsen, Jonas S;
Fineran, Peter C;
Sørensen, Søren J

Publication type:

Article

Benchmarking of a Bayesian single cell RNAseq differential gene expression test for dose–response study designs.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. e48, doi. 10.1093/nar/gkac019

By:

Nault, Rance;
Saha, Satabdi;
Bhattacharya, Sudin;
Dodson, Jack;
Sinha, Samiran;
Maiti, Tapabrata;
Zacharewski, Tim

Publication type:

Article

Type III CRISPR-based RNA editing for programmable control of SARS-CoV-2 and human coronaviruses.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. e47, doi. 10.1093/nar/gkac016

By:

Lin, Ping;
Shen, Guanwang;
Guo, Kai;
Qin, Shugang;
Pu, Qinqin;
Wang, Zhihan;
Gao, Pan;
Xia, Zhenwei;
Khan, Nadeem;
Jiang, Jianxin;
Xia, Qingyou;
Wu, Min

Publication type:

Article

Cas6-based RNA tracking platform functioning in a fluorescence-activation mode.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. e46, doi. 10.1093/nar/gkac014

By:

Gao, Feng;
Zheng, Ke;
Li, You-Bo;
Jiang, Feng;
Han, Chun-Yu

Publication type:

Article

AggMapNet: enhanced and explainable low-sample omics deep learning with feature-aggregated multi-channel networks.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. e45, doi. 10.1093/nar/gkac010

By:

Shen, Wan Xiang;
Liu, Yu;
Chen, Yan;
Zeng, Xian;
Tan, Ying;
Jiang, Yu Yang;
Chen, Yu Zong

Publication type:

Article

Regulatory elements can be essential for maintaining broad chromatin organization and cell viability.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4340, doi. 10.1093/nar/gkac197

By:

Liu, Ying;
Ding, Bo;
Zheng, Lina;
Xu, Ping;
Liu, Zhiheng;
Chen, Zhao;
Wu, Peiyao;
Zhao, Ying;
Pan, Qian;
Guo, Yu;
Wang, Wei;
Wei, Wensheng

Publication type:

Article

Rational design of self-assembled RNA nanostructures for HIV-1 virus assembly blockade.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. e44, doi. 10.1093/nar/gkab1282

By:

Qu, Na;
Ying, Yachen;
Qin, Jinshan;
Chen, Antony K

Publication type:

Article

scMAGIC: accurately annotating single cells using two rounds of reference-based classification.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. e43, doi. 10.1093/nar/gkab1275

By:

Zhang, Yu;
Zhang, Feng;
Wang, Zekun;
Wu, Siyi;
Tian, Weidong

Publication type:

Article

RNA marker modifications reveal the necessity for rigorous preparation protocols to avoid artifacts in epitranscriptomic analysis.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 8, p. 4201, doi. 10.1093/nar/gkab1150

By:

Richter, Florian;
Plehn, Johanna E;
Bessler, Larissa;
Hertler, Jasmin;
Jörg, Marko;
Cirzi, Cansu;
Tuorto, Francesca;
Friedland, Kristina;
Helm, Mark

Publication type:

Article