Works matching IS 03051048 AND DT 2019 AND VI 47 AND IP 7

Results: 46

WHISTLE: a high-accuracy map of the human N6-methyladenosine (m6A) epitranscriptome predicted using a machine learning approach.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. e41, doi. 10.1093/nar/gkz074

By:

Chen, Kunqi;
Wei, Zhen;
Zhang, Qing;
Wu, Xiangyu;
Rong, Rong;
Lu, Zhiliang;
Su, Jionglong;
de Magalhães, João Pedro;
Rigden, Daniel J;
Meng, Jia

Publication type:

Article

Validation of the nearest-neighbor model for Watson–Crick self-complementary DNA duplexes in molecular crowding condition.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3284, doi. 10.1093/nar/gkz071

By:

Ghosh, Saptarshi;
Takahashi, Shuntaro;
Endoh, Tamaki;
Tateishi-Karimata, Hisae;
Hazra, Soumitra;
Sugimoto, Naoki

Publication type:

Article

Tyrosine kinase c-Abl couples RNA polymerase II transcription to DNA double-strand breaks.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3467, doi. 10.1093/nar/gkz024

By:

Burger, Kaspar;
Schlackow, Margarita;
Gullerova, Monika

Publication type:

Article

Structural basis of ubiquitin recognition by the winged-helix domain of Cockayne syndrome group B protein.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3784, doi. 10.1093/nar/gkz081

By:

Takahashi, Tomio S;
Sato, Yusuke;
Yamagata, Atsushi;
Goto-Ito, Sakurako;
Saijo, Masafumi;
Fukai, Shuya

Publication type:

Article

Thermodynamic characterization and nearest neighbor parameters for RNA duplexes under molecular crowding conditions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3658, doi. 10.1093/nar/gkz019

By:

Adams, Miranda S;
Znosko, Brent M

Publication type:

Article

Submolecular dissection reveals strong and specific binding of polyamide–pyridostatin conjugates to human telomere interface.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3295, doi. 10.1093/nar/gkz135

By:

Mandal, Shankar;
Kawamoto, Yusuke;
Yue, Zhizhou;
Hashiya, Kaori;
Cui, Yunxi;
Bando, Toshikazu;
Pandey, Shankar;
Hoque, Mohammed Enamul;
Hossain, Mohammad Akter;
Sugiyama, Hiroshi;
Mao, Hanbin

Publication type:

Article

Structural variation and fusion detection using targeted sequencing data from circulating cell free DNA.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. e38, doi. 10.1093/nar/gkz067

By:

Gawroński, Alexander R;
Lin, Yen-Yi;
McConeghy, Brian;
LeBihan, Stephane;
Asghari, Hossein;
Koçkan, Can;
Orabi, Baraa;
Adra, Nabil;
Pili, Roberto;
Collins, Colin C;
Sahinalp, S Cenk;
Hach, Faraz

Publication type:

Article

Structural organization of a Type III-A CRISPR effector subcomplex determined by X-ray crystallography and cryo-EM.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3765, doi. 10.1093/nar/gkz079

By:

Dorsey, Bryan W;
Huang, Lei;
Mondragón, Alfonso

Publication type:

Article

TRF2 positively regulates SULF2 expression increasing VEGF-A release and activity in tumor microenvironment.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3365, doi. 10.1093/nar/gkz041

By:

Zizza, Pasquale;
Dinami, Roberto;
Porru, Manuela;
Cingolani, Chiara;
Salvati, Erica;
Rizzo, Angela;
D'Angelo, Carmen;
Petti, Eleonora;
Amoreo, Carla Azzurra;
Mottolese, Marcella;
Sperduti, Isabella;
Chambery, Angela;
Russo, Rosita;
Ostano, Paola;
Chiorino, Giovanna;
Blandino, Giovanni;
Sacconi, Andrea;
Cherfils-Vicini, Julien;
Leonetti, Carlo;
Gilson, Eric

Publication type:

Article

Structural basis for DNA recognition by FOXC2.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3752, doi. 10.1093/nar/gkz077

By:

Chen, Xiaojuan;
Wei, Hudie;
Li, Jun;
Liang, Xujun;
Dai, Shuyan;
Jiang, Longying;
Guo, Ming;
Qu, Lingzhi;
Chen, Zhuchu;
Chen, Lin;
Chen, Yongheng

Publication type:

Article

Splicing events in the control of genome integrity: role of SLU7 and truncated SRSF3 proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3450, doi. 10.1093/nar/gkz014

By:

Jiménez, Maddalen;
Urtasun, Raquel;
Elizalde, María;
Azkona, María;
Latasa, M Ujue;
Uriarte, Iker;
Arechederra, María;
Alignani, Diego;
Bárcena-Varela, Marina;
Álvarez-Sola, Gloria;
Colyn, Leticia;
Santamaría, Eva;
Sangro, Bruno;
Rodriguez-Ortigosa, Carlos;
Fernández-Barrena, Maite G;
Ávila, Matías A;
Berasain, Carmen

Publication type:

Article

Set1-catalyzed H3K4 trimethylation antagonizes the HIR/Asf1/Rtt106 repressor complex to promote histone gene expression and chronological life span.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3434, doi. 10.1093/nar/gkz101

By:

Mei, Qianyun;
Xu, Chen;
Gogol, Madelaine;
Tang, Jie;
Chen, Wanping;
Yu, Xilan;
Workman, Jerry L;
Li, Shanshan

Publication type:

Article

Secretion of an Argonaute protein by a parasitic nematode and the evolution of its siRNA guides.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3594, doi. 10.1093/nar/gkz142

By:

Chow, Franklin Wang-Ngai;
Koutsovoulos, Georgios;
Ovando-Vázquez, Cesaré;
Neophytou, Kyriaki;
Bermúdez-Barrientos, Jose R;
Laetsch, Dominik R;
Robertson, Elaine;
Kumar, Sujai;
Claycomb, Julie M;
Blaxter, Mark;
Abreu-Goodger, Cei;
Buck, Amy H

Publication type:

Article

Safety evaluation of 2′-deoxy-2′-fluoro nucleotides in GalNAc-siRNA conjugates.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3306, doi. 10.1093/nar/gkz140

By:

Janas, Maja M;
Zlatev, Ivan;
Liu, Ju;
Jiang, Yongfeng;
Barros, Scott A;
Sutherland, Jessica E;
Davis, Wendell P;
Liu, Jingxuan;
Brown, Christopher R;
Liu, Xiumin;
Schlegel, Mark K;
Blair, Lauren;
Zhang, Xuemei;
Das, Biplab;
Tran, Chris;
Aluri, Krishna;
Li, Jing;
Agarwal, Saket;
Indrakanti, Ramesh;
Charisse, Klaus

Publication type:

Article

Role of Cdc23/Mcm10 in generating the ribonucleotide imprint at the mat1 locus in fission yeast.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3422, doi. 10.1093/nar/gkz092

By:

Singh, Balveer;
Bisht, Kamlesh K;
Upadhyay, Udita;
Kushwaha, Avinash Chandra;
Nanda, Jagpreet Singh;
Srivastava, Suchita;
Saini, Jai Kumar;
Klar, Amar J S;
Singh, Jagmohan

Publication type:

Article

Queuine links translational control in eukaryotes to a micronutrient from bacteria.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3711, doi. 10.1093/nar/gkz063

By:

Müller, Martin;
Legrand, Carine;
Tuorto, Francesca;
Kelly, Vincent P;
Atlasi, Yaser;
Lyko, Frank;
Ehrenhofer-Murray, Ann E

Publication type:

Article

The prokaryotic Argonaute proteins enhance homology sequence-directed recombination in bacteria.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3568, doi. 10.1093/nar/gkz040

By:

Fu, Lei;
Xie, Caiyun;
Jin, Zehua;
Tu, Zizhuo;
Han, Li;
Jin, Meilin;
Xiang, Yaozu;
Zhang, Anding

Publication type:

Article

Prediction and large-scale analysis of primary operons in plastids reveals unique genetic features in the evolution of chloroplasts.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3344, doi. 10.1093/nar/gkz151

By:

Shahar, Noam;
Weiner, Iddo;
Stotsky, Lior;
Tuller, Tamir;
Yacoby, Iftach

Publication type:

Article

The p53 mRNA: an integral part of the cellular stress response.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3257, doi. 10.1093/nar/gkz124

By:

Haronikova, Lucia;
Olivares-Illana, Vanesa;
Wang, Lixiao;
Karakostis, Konstantinos;
Chen, Sa;
Fåhraeus, Robin

Publication type:

Article

One-step enzymatic modification of RNA 3′ termini using polymerase θ.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3272, doi. 10.1093/nar/gkz029

By:

Thomas, Crystal;
Rusanov, Timur;
Hoang, Trung;
Augustin, Taurai;
Kent, Tatiana;
Gaspar, Imre;
Pomerantz, Richard T

Publication type:

Article

Multiple covalent fluorescence labeling of eukaryotic mRNA at the poly(A) tail enhances translation and can be performed in living cells.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. e42, doi. 10.1093/nar/gkz084

By:

Anhäuser, Lea;
Hüwel, Sabine;
Zobel, Thomas;
Rentmeister, Andrea

Publication type:

Article

A multi-axial RNA joint with a large range of motion promotes sampling of an active ribozyme conformation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3739, doi. 10.1093/nar/gkz098

By:

Girard, Nicolas;
Dagenais, Pierre;
Lacroix-Labonté, Julie;
Legault, Pascale

Publication type:

Article

Mitochondrial RNA granules are critically dependent on mtDNA replication factors Twinkle and mtSSB.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3680, doi. 10.1093/nar/gkz047

By:

Hensen, Fenna;
Potter, Alisa;
van Esveld, Selma L;
Tarrés-Solé, Aleix;
Chakraborty, Arka;
Solà, Maria;
Spelbrink, Johannes N

Publication type:

Article

Mechanistic characterization of the DEAD-box RNA helicase Ded1 from yeast as revealed by a novel technique using single-molecule magnetic tweezers.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3699, doi. 10.1093/nar/gkz057

By:

Raj, Saurabh;
Bagchi, Debjani;
Orero, Jessica Valle;
Banroques, Josette;
Tanner, N Kyle;
Croquette, Vincent

Publication type:

Article

Intrinsic and regulated properties of minimally edited trypanosome mRNAs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3640, doi. 10.1093/nar/gkz012

By:

Tylec, Brianna L;
Simpson, Rachel M;
Kirby, Laura E;
Chen, Runpu;
Sun, Yijun;
Koslowsky, Donna J;
Read, Laurie K

Publication type:

Article

Human H4 tail stimulates HIV-1 integration through binding to the carboxy-terminal domain of integrase.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3607, doi. 10.1093/nar/gkz091

By:

Mauro, Eric;
Lesbats, Paul;
Lapaillerie, Delphine;
Chaignepain, Stephane;
Maillot, Benoit;
Oladosu, Oyindamola;
Robert, Xavier;
Fiorini, Francesca;
Kieffer, Bruno;
Bouaziz, Serge;
Gouet, Patrice;
Ruff, Marc;
Parissi, Vincent

Publication type:

Article

A high-throughput screen identifies small molecule modulators of alternative splicing by targeting RNA G-quadruplexes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3667, doi. 10.1093/nar/gkz036

By:

Zhang, Jing;
Harvey, Samuel E;
Cheng, Chonghui

Publication type:

Article

Genome-wide analysis of genomic alterations induced by oxidative DNA damage in yeast.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3521, doi. 10.1093/nar/gkz027

By:

Zhang, Ke;
Zheng, Dao-Qiong;
Sui, Yang;
Qi, Lei;
Petes, Thomas D

Publication type:

Article

Genetic screens reveal mechanisms for the transcriptional regulation of tissue-specific genes in normal cells and tumors.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3407, doi. 10.1093/nar/gkz080

By:

Naciri, Ikrame;
Laisné, Marthe;
Ferry, Laure;
Bourmaud, Morgane;
Gupta, Nikhil;
Di Carlo, Selene;
Huna, Anda;
Martin, Nadine;
Peduto, Lucie;
Bernard, David;
Kirsh, Olivier;
Defossez, Pierre-Antoine

Publication type:

Article

A general computational approach to predicting synergistic transcriptional cores that determine cell subpopulation identities.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3333, doi. 10.1093/nar/gkz147

By:

Okawa, Satoshi;
del Sol, Antonio

Publication type:

Article

Fluorescently-labelled CPD and 6-4PP photolyases: new tools for live-cell DNA damage quantification and laser-assisted repair.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3536, doi. 10.1093/nar/gkz035

By:

Steurer, Barbara;
Turkyilmaz, Yasemin;
van Toorn, Marvin;
van Leeuwen, Wessel;
Escudero-Ferruz, Paula;
Marteijn, Jurgen A

Publication type:

Article

An estimate of the total number of true human miRNAs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3353, doi. 10.1093/nar/gkz097

By:

Alles, Julia;
Fehlmann, Tobias;
Fischer, Ulrike;
Backes, Christina;
Galata, Valentina;
Minet, Marie;
Hart, Martin;
Abu-Halima, Masood;
Grässer, Friedrich A;
Lenhof, Hans-Peter;
Keller, Andreas;
Meese, Eckart

Publication type:

Article

EnsembleCNV: an ensemble machine learning algorithm to identify and genotype copy number variation using SNP array data.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. e39, doi. 10.1093/nar/gkz068

By:

Zhang, Zhongyang;
Cheng, Haoxiang;
Hong, Xiumei;
Di Narzo, Antonio F;
Franzen, Oscar;
Peng, Shouneng;
Ruusalepp, Arno;
Kovacic, Jason C;
Bjorkegren, Johan L M;
Wang, Xiaobin;
Hao, Ke

Publication type:

Article

Engineering of a thermostable viral polymerase using metagenome-derived diversity for highly sensitive and specific RT-PCR.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3619, doi. 10.1093/nar/gkz104

By:

Heller, Ryan C;
Chung, Suhman;
Crissy, Katarzyna;
Dumas, Kyle;
Schuster, David;
Schoenfeld, Thomas W

Publication type:

Article

The E3-ligases SCFPpa and APC/CCdh1 co-operate to regulate CENP-ACID expression across the cell cycle.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3395, doi. 10.1093/nar/gkz060

By:

Moreno-Moreno, Olga;
Torras-Llort, Mònica;
Azorin, Fernando

Publication type:

Article

Dual expression of CCA-adding enzyme and RNase T in Escherichia coli generates a distinct cca growth phenotype with diverse applications.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3631, doi. 10.1093/nar/gkz133

By:

Wellner, Karolin;
Pöhler, Marie-Theres;
Betat, Heike;
Mörl, Mario

Publication type:

Article

Double autoinhibition mechanism of signal transduction ATPases with numerous domains (STAND) with a tetratricopeptide repeat sensor.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3795, doi. 10.1093/nar/gkz112

By:

Lisa, María-Natalia;
Cvirkaite-Krupovic, Virginija;
Richet, Evelyne;
André-Leroux, Gwenaëlle;
Alzari, Pedro M;
Haouz, Ahmed;
Danot, Olivier

Publication type:

Article

Delineation of pentatricopeptide repeat codes for target RNA prediction.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3728, doi. 10.1093/nar/gkz075

By:

Yan, Junjie;
Yao, Yinying;
Hong, Sixing;
Yang, Yan;
Shen, Cuicui;
Zhang, Qunxia;
Zhang, Delin;
Zou, Tingting;
Yin, Ping

Publication type:

Article

Deficiency of the Fanconi anemia E2 ubiqitin conjugase UBE2T only partially abrogates Alu-mediated recombination in a new model of homology dependent recombination.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3503, doi. 10.1093/nar/gkz026

By:

Lewis, Todd W;
Barthelemy, Joanna R;
Virts, Elizabeth L;
Kennedy, Felicia M;
Gadgil, Rujuta Y;
Wiek, Constanze;
Linka, Rene M;
Zhang, Feng;
Andreassen, Paul R;
Hanenberg, Helmut;
Leffak, Michael

Publication type:

Article

CRISPR-assisted multi-dimensional regulation for fine-tuning gene expression in Bacillus subtilis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. e40, doi. 10.1093/nar/gkz072

By:

Lu, Zhenghui;
Yang, Shihui;
Yuan, Xin;
Shi, Yunyun;
Ouyang, Li;
Jiang, Sijing;
Yi, Li;
Zhang, Guimin

Publication type:

Article

circ-Sirt1 controls NF-κB activation via sequence-specific interaction and enhancement of SIRT1 expression by binding to miR-132/212 in vascular smooth muscle cells.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3580, doi. 10.1093/nar/gkz141

By:

Kong, Peng;
Yu, Yuan;
Wang, Lu;
Dou, Yong-Qing;
Zhang, Xu-Hui;
Cui, Yan;
Wang, Hai-Yue;
Yong, Yu-Tao;
Liu, Ya-Bin;
Hu, Hai-Juan;
Cui, Wei;
Sun, Shao-Guang;
Li, Bing-Hui;
Zhang, Fan;
Han, Mei

Publication type:

Article

ChIAPoP: a new tool for ChIA-PET data analysis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. e37, doi. 10.1093/nar/gkz062

By:

Huang, Weichun;
Medvedovic, Mario;
Zhang, Jingwen;
Niu, Liang

Publication type:

Article

Characterization of a metazoan ADA acetyltransferase complex.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3383, doi. 10.1093/nar/gkz042

By:

Soffers, Jelly H M;
Li, Xuanying;
Saraf, Anita;
Seidel, Christopher W;
Florens, Laurence;
Washburn, Michael P;
Abmayr, Susan M;
Workman, Jerry L

Publication type:

Article

Automated, customizable and efficient identification of 3D base pair modules with BayesPairing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3321, doi. 10.1093/nar/gkz102

By:

Sarrazin-Gendron, Roman;
Reinharz, Vladimir;
Oliver, Carlos G;
Moitessier, Nicolas;
Waldispühl, Jérôme

Publication type:

Article

The ATP-bound conformation of the Mre11–Rad50 complex is essential for Tel1/ATM activation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3550, doi. 10.1093/nar/gkz038

By:

Cassani, Corinne;
Vertemara, Jacopo;
Bassani, Matteo;
Marsella, Antonio;
Tisi, Renata;
Zampella, Giuseppe;
Longhese, Maria Pia

Publication type:

Article

ATM pathway activation limits R-loop-associated genomic instability in Werner syndrome cells.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 7, p. 3485, doi. 10.1093/nar/gkz025

By:

Marabitti, Veronica;
Lillo, Giorgia;
Malacaria, Eva;
Palermo, Valentina;
Sanchez, Massimo;
Pichierri, Pietro;
Franchitto, Annapaola

Publication type:

Article