Works matching IS 03051048 AND DT 2021 AND VI 49 AND IP 20

Results: 48

Diverse functional elements in RNA predicted transcriptome-wide by orthogonal RNA structure probing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11868, doi. 10.1093/nar/gkab885

By:

Chan, Dalen;
Chao Feng;
England, Whitney E.;
Wyman, Dana;
Flynn, Ryan A.;
Xiuye Wang;
Yongsheng Shi;
Mortazavi, Ali;
Spitale, Robert C.

Publication type:

Article

Timely termination of repair DNA synthesis by ATAD5 is important in oxidative DNA damage-induced single-strand break repair.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11746, doi. 10.1093/nar/gkab999

By:

Park, Su Hyung;
Kim, Youyoung;
Ra, Jae Sun;
Wie, Min woo;
Kang, Mi-Sun;
Kang, Sukhyun;
Myung, Kyungjae;
Lee, Kyoo-young

Publication type:

Article

RNA chaperone activates Salmonella virulence program during infection.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11614, doi. 10.1093/nar/gkab992

By:

Choi, Jeongjoon;
Salvail, Hubert;
Groisman, Eduardo A

Publication type:

Article

MicroDNA levels are dependent on MMEJ, repressed by c-NHEJ pathway, and stimulated by DNA damage.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11787, doi. 10.1093/nar/gkab984

By:

Paulsen, Teressa;
Malapati, Pumoli;
Shibata, Yoshiyuki;
Wilson, Briana;
Eki, Rebeka;
Benamar, Mouadh;
Abbas, Tarek;
Dutta, Anindya

Publication type:

Article

post-transcriptional regulon controlled by TtpA, the single tristetraprolin family member expressed in Dictyostelium discoideum.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11920, doi. 10.1093/nar/gkab983

By:

Bai, Wenli;
Wells, Melissa L;
Lai, Wi S;
Hicks, Stephanie N;
Burkholder, Adam B;
Perera, Lalith;
Kimmel, Alan R;
Blackshear, Perry J

Publication type:

Article

Nanomechanics of negatively supercoiled diaminopurine-substituted DNA.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11778, doi. 10.1093/nar/gkab982

By:

Salerno, Domenico;
Marrano, Claudia Adriana;
Cassina, Valeria;
Cristofalo, Matteo;
Shao, Qing;
Finzi, Laura;
Mantegazza, Francesco;
Dunlap, David

Publication type:

Article

Phospho-Ku70 induced by DNA damage interacts with RNA Pol II and promotes the formation of phospho-53BP1 foci to ensure optimal cNHEJ.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11728, doi. 10.1093/nar/gkab980

By:

Schellenbauer, Amelie;
Guilly, Marie-Noelle;
Grall, Romain;
Le Bars, Romain;
Paget, Vincent;
Kortulewski, Thierry;
Sutcu, Haser;
Mathé, Cécile;
Hullo, Marie;
Biard, Denis;
Leteurtre, François;
Barroca, Vilma;
Corre, Youenn;
Irbah, Lamya;
Rass, Emilie;
Theze, Benoit;
Bertrand, Pascale;
Demmers, Jeroen A A;
Guirouilh-Barbat, Josée;
Lopez, Bernard S

Publication type:

Article

RBM6 splicing factor promotes homologous recombination repair of double-strand breaks and modulates sensitivity to chemotherapeutic drugs.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11708, doi. 10.1093/nar/gkab976

By:

Machour, Feras E;
Abu-Zhayia, Enas R;
Awwad, Samah W;
Bidany-Mizrahi, Tirza;
Meinke, Stefan;
Bishara, Laila A;
Heyd, Florian;
Aqeilan, Rami I;
Ayoub, Nabieh

Publication type:

Article

Investigating molecular mechanisms of 2A-stimulated ribosomal pausing and frameshifting in Theilovirus.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11938, doi. 10.1093/nar/gkab969

By:

Hill, Chris H;
Cook, Georgia M;
Napthine, Sawsan;
Kibe, Anuja;
Brown, Katherine;
Caliskan, Neva;
Firth, Andrew E;
Graham, Stephen C;
Brierley, Ian

Publication type:

Article

Residues at the interface between zinc binding and winged helix domains of human RECQ1 play a significant role in DNA strand annealing activity.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11834, doi. 10.1093/nar/gkab968

By:

Mukhopadhyay, Swagata;
Das, Tulika;
Bose, Madhuparna;
Jain, Chetan Kumar;
Chakraborty, Mayukh;
Mukherjee, Sunandan;
Shikha, Kumari;
Das, Amit K;
Ganguly, Agneyo

Publication type:

Article

DNA sequence and methylation prescribe the inside-out conformational dynamics and bending energetics of DNA minicircles.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11459, doi. 10.1093/nar/gkab967

By:

Yoo, Jejoong;
Park, Sangwoo;
Maffeo, Christopher;
Ha, Taekjip;
Aksimentiev, Aleksei

Publication type:

Article

Homologous recombination-mediated irreversible genome damage underlies telomere-induced senescence.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11690, doi. 10.1093/nar/gkab965

By:

Ghadaouia, Sabrina;
Olivier, Marc-Alexandre;
Martinez, Aurélie;
Kientega, Tibila;
Qin, Jian;
Lambert-Lanteigne, Patrick;
Cardin, Guillaume B;
Autexier, Chantal;
Malaquin, Nicolas;
Rodier, Francis

Publication type:

Article

ID3 promotes homologous recombination via non-transcriptional and transcriptional mechanisms and its loss confers sensitivity to PARP inhibition.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11666, doi. 10.1093/nar/gkab964

By:

Bakr, Ali;
Hey, Joschka;
Sigismondo, Gianluca;
Liu, Chun-Shan;
Sadik, Ahmed;
Goyal, Ashish;
Cross, Alice;
Iyer, Ramya Lakshmana;
Müller, Patrick;
Trauernicht, Max;
Breuer, Kersten;
Lutsik, Pavlo;
Opitz, Christiane A;
Krijgsveld, Jeroen;
Weichenhan, Dieter;
Plass, Christoph;
Popanda, Odilia;
Schmezer, Peter

Publication type:

Article

integrative NMR-SAXS approach for structural determination of large RNAs defines the substrate-free state of a trans-cleaving Neurospora Varkud Satellite ribozyme.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11959, doi. 10.1093/nar/gkab963

By:

Dagenais, Pierre;
Desjardins, Geneviève;
Legault, Pascale

Publication type:

Article

Inferring primase-DNA specific recognition using a data driven approach.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11447, doi. 10.1093/nar/gkab956

By:

Soffer, Adam;
Eisdorfer, Sarah A;
Ifrach, Morya;
Ilic, Stefan;
Afek, Ariel;
Schussheim, Hallel;
Vilenchik, Dan;
Akabayov, Barak

Publication type:

Article

Structural dynamics and determinants of 2-aminoadenine specificity in DNA polymerase DpoZ of vibriophage ϕVC8.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11974, doi. 10.1093/nar/gkab955

By:

Czernecki, Dariusz;
Hu, Haidai;
Romoli, Filippo;
Delarue, Marc

Publication type:

Article

Targeting 3′ and 5′ untranslated regions with antisense oligonucleotides to stabilize frataxin mRNA and increase protein expression.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11560, doi. 10.1093/nar/gkab954

By:

Li, Yanjie;
Li, Jixue;
Wang, Jun;
Lynch, David R;
Shen, Xiulong;
Corey, David R;
Parekh, Darshan;
Bhat, Balkrishen;
Woo, Caroline;
Cherry, Jonathan J;
Napierala, Jill S;
Napierala, Marek

Publication type:

Article

Constraints on error rate revealed by computational study of G•U tautomerization in translation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11823, doi. 10.1093/nar/gkab947

By:

Kazantsev, Andriy;
Ignatova, Zoya

Publication type:

Article

Negative DNA supercoiling makes protein-mediated looping deterministic and ergodic within the bacterial doubling time.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11550, doi. 10.1093/nar/gkab946

By:

Yan, Yan;
Xu, Wenxuan;
Kumar, Sandip;
Zhang, Alexander;
Leng, Fenfei;
Dunlap, David;
Finzi, Laura

Publication type:

Article

CST does not evict elongating telomerase but prevents initiation by ssDNA binding.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11653, doi. 10.1093/nar/gkab942

By:

Zaug, Arthur J;
Lim, Ci Ji;
Olson, Conner L;
Carilli, Maria T;
Goodrich, Karen J;
Wuttke, Deborah S;
Cech, Thomas R

Publication type:

Article

Broadening the reach and investigating the potential of prime editors through fully viral gene-deleted adenoviral vector delivery.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11986, doi. 10.1093/nar/gkab938

By:

Wang, Qian;
Liu, Jin;
Janssen, Josephine M;
Tasca, Francesca;
Mei, Hailiang;
Gonçalves, Manuel A F V

Publication type:

Article

balancing act in transcription regulation by response regulators: titration of transcription factor activity by decoy DNA binding sites.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11537, doi. 10.1093/nar/gkab935

By:

Gao, Rong;
Helfant, Libby J;
Wu, Ti;
Li, Zeyue;
Brokaw, Samantha E;
Stock, Ann M

Publication type:

Article

human pseudouridine synthase PUS7 recognizes RNA with an extended multi-domain binding surface.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11810, doi. 10.1093/nar/gkab934

By:

Guegueniat, Julia;
Halabelian, Levon;
Zeng, Hong;
Dong, Aiping;
Li, Yanjun;
Wu, Hong;
Arrowsmith, Cheryl H;
Kothe, Ute

Publication type:

Article

Recurrent mutations promote widespread structural and functional divergence of MULE-derived genes in plants.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11765, doi. 10.1093/nar/gkab932

By:

Young Chae, Geun;
Hong, Woo-Jong;
Jeong Jang, Min;
Jung, Ki-Hong;
Kim, Seungill

Publication type:

Article

Nrd1p identifies aberrant and natural exosomal target messages during the nuclear mRNA surveillance in Saccharomyces cerevisiae.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11512, doi. 10.1093/nar/gkab930

By:

Singh, Pragyan;
Chaudhuri, Anusha;
Banerjea, Mayukh;
Marathe, Neeraja;
Das, Biswadip

Publication type:

Article

Determination of the two-component systems regulatory network reveals core and accessory regulations across Pseudomonas aeruginosa lineages.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11476, doi. 10.1093/nar/gkab928

By:

Trouillon, Julian;
Imbert, Lionel;
Villard, Anne-Marie;
Vernet, Thierry;
Attrée, Ina;
Elsen, Sylvie

Publication type:

Article

THUMPD3–TRMT112 is a m2G methyltransferase working on a broad range of tRNA substrates.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11900, doi. 10.1093/nar/gkab927

By:

Yang, Wen-Qing;
Xiong, Qing-Ping;
Ge, Jian-Yang;
Li, Hao;
Zhu, Wen-Yu;
Nie, Yan;
Lin, Xiuying;
Lv, Daizhu;
Li, Jing;
Lin, Huan;
Liu, Ru-Juan

Publication type:

Article

Transliteration of synthetic genetic enzymes.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11438, doi. 10.1093/nar/gkab923

By:

Wang, Yajun;
Liu, Xiaolin;
Shehabat, Mouhamad;
Chim, Nicholas;
Chaput, John C

Publication type:

Article

Revealing structural peculiarities of homopurine GA repetition stuck by i-motif clip.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11425, doi. 10.1093/nar/gkab915

By:

Novotný, Aleš;
Novotný, Jan;
Kejnovská, Iva;
Vorlíčková, Michaela;
Fiala, Radovan;
Marek, Radek

Publication type:

Article

Large-scale movement of eIF3 domains during translation initiation modulate start codon selection.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11491, doi. 10.1093/nar/gkab908

By:

Llácer, Jose L;
Hussain, Tanweer;
Dong, Jinsheng;
Villamayor, Laura;
Gordiyenko, Yuliya;
Hinnebusch, Alan G

Publication type:

Article

FAN1's protection against CGG repeat expansion requires its nuclease activity and is FANCD2-independent.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11643, doi. 10.1093/nar/gkab899

By:

Zhao, Xiaonan;
Lu, Huiyan;
Usdin, Karen

Publication type:

Article

Formation and persistence of polyglutamine aggregates in mistranslating cells.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11883, doi. 10.1093/nar/gkab898

By:

Lant, Jeremy T;
Kiri, Rashmi;
Duennwald, Martin L;
O'Donoghue, Patrick

Publication type:

Article

Cooperative methylation of human tRNA3Lys at positions A58 and U54 drives the early and late steps of HIV-1 replication.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11855, doi. 10.1093/nar/gkab879

By:

Fukuda, Hiroyuki;
Chujo, Takeshi;
Wei, Fan-Yan;
Shi, Sheng-Lan;
Hirayama, Mayumi;
Kaitsuka, Taku;
Yamamoto, Takahiro;
Oshiumi, Hiroyuki;
Tomizawa, Kazuhito

Publication type:

Article

Oxidation alters the architecture of the phenylalanyl-tRNA synthetase editing domain to confer hyperaccuracy.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11800, doi. 10.1093/nar/gkab856

By:

Srinivas, Pooja;
Steiner, Rebecca E;
Pavelich, Ian J;
Guerrero-Ferreira, Ricardo;
Juneja, Puneet;
Ibba, Michael;
Dunham, Christine M

Publication type:

Article

Retraction of 'CK1δ modulates the transcriptional activity of ERα via AIB1 in an estrogen-dependent manner and regulates ERα–AIB1 interactions'.

Published in:: Nucleic Acids Research, 2021, v. 49, n. 20, p. 12006, doi. 10.1093/nar/gkab845
Publication type:: Article

ΩqPCR measures telomere length from single-cells in base pair units.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. e120, doi. 10.1093/nar/gkab753

By:

Xiong, Fusheng;
Frasch, Wayne D

Publication type:

Article

Unveiling mRNP composition by fluorescence correlation and cross-correlation spectroscopy using cell lysates.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. e119, doi. 10.1093/nar/gkab751

By:

Mateu-Regué, Àngels;
Christiansen, Jan;
Bagger, Frederik Otzen;
Hellriegel, Christian;
Nielsen, Finn Cilius

Publication type:

Article

ENDO-Pore: high-throughput linked-end mapping of single DNA cleavage events using nanopore sequencing.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. e118, doi. 10.1093/nar/gkab727

By:

Torres Montaguth, Oscar E;
Cross, Stephen J;
Ingram, Kincaid W A;
Lee, Laura;
Diffin, Fiona M;
Szczelkun, Mark D

Publication type:

Article

SWALO: scaffolding with assembly likelihood optimization.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. e117, doi. 10.1093/nar/gkab717

By:

Rahman, Atif;
Pachter, Lior

Publication type:

Article

m6A-express: uncovering complex and condition-specific m6A regulation of gene expression.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. e116, doi. 10.1093/nar/gkab714

By:

Zhang, Teng;
Zhang, Shao-Wu;
Zhang, Song-Yao;
Gao, Shou-Jiang;
Chen, Yidong;
Huang, Yufei

Publication type:

Article

TERA-Seq: true end-to-end sequencing of native RNA molecules for transcriptome characterization.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. e115, doi. 10.1093/nar/gkab713

By:

Ibrahim, Fadia;
Oppelt, Jan;
Maragkakis, Manolis;
Mourelatos, Zissimos

Publication type:

Article

High-affinity five/six-letter DNA aptamers with superior specificity enabling the detection of dengue NS1 protein variants beyond the serotype identification.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11407, doi. 10.1093/nar/gkab515

By:

Matsunaga, Ken-ichiro;
Kimoto, Michiko;
Lim, Vanessa Weixun;
Tan, Hui Pen;
Wong, Yu Qian;
Sun, William;
Vasoo, Shawn;
Leo, Yee Sin;
Hirao, Ichiro

Publication type:

Article

Human MettL3-MettL14 RNA adenine methyltransferase complex is active on double-stranded DNA containing lesions.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11629, doi. 10.1093/nar/gkab460

By:

Yu, Dan;
Horton, John R;
Yang, Jie;
Hajian, Taraneh;
Vedadi, Masoud;
Sagum, Cari A;
Bedford, Mark T;
Blumenthal, Robert M;
Zhang, Xing;
Cheng, Xiaodong

Publication type:

Article

Correction to 'The effect of hairpin loop on the structure and gene expression activity of the long-loop G-quadruplex'.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 12004, doi. 10.1093/nar/gkab1140

By:

Ravichandran, Subramaniyam;
Razzaq, Maria;
Parveen, Nazia;
Ghosh, Ambarnil;
Kim, Kyeong Kyu

Publication type:

Article

Editorial Expression of Concern on 'Activation of APE1/Ref-1 is dependent on reactive oxygen species generated after purinergic receptor stimulation by ATP'.

Published in:: Nucleic Acids Research, 2021, v. 49, n. 20, p. 12005, doi. 10.1093/nar/gkab1109
Publication type:: Article

Correction to 'Genomic impact of stress-induced transposable element mobility in Arabidopsis'.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 12002, doi. 10.1093/nar/gkab1078

By:

Roquis, David;
Robertson, Marta;
Yu, Liang;
Thieme, Michael;
Julkowska, Magdalena;
Bucher, Etienne

Publication type:

Article

lupus autoantigen La/Ssb is an Xist-binding protein involved in Xist folding and cloud formation.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11596, doi. 10.1093/nar/gkab1003

By:

Ha, Norbert;
Ding, Nan;
Hong, Ru;
Liu, Rubing;
Roca, Xavier;
Luo, Yingyuan;
Duan, Xiaowei;
Wang, Xiao;
Ni, Peiling;
Wu, Haiyang;
Zhang, Li-Feng;
Chen, Lingyi

Publication type:

Article

Enhancer architecture-dependent multilayered transcriptional regulation orchestrates RA signaling-induced early lineage differentiation of ESCs.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 20, p. 11575, doi. 10.1093/nar/gkab1001

By:

Su, Guangsong;
Wang, Wenbin;
Zhao, Xueyuan;
Chen, Jun;
Zheng, Jian;
Liu, Man;
Bi, Jinfang;
Guo, Dianhao;
Chen, Bohan;
Zhao, Zhongfang;
Shi, Jiandang;
Zhang, Lei;
Lu, Wange

Publication type:

Article