Works matching IS 03051048 AND DT 2018 AND VI 46 AND IP 15

Results: 47

Toward predictive R-loop computational biology: genome-scale prediction of R-loops reveals their association with complex promoter structures, G-quadruplexes and transcriptionally active enhancers.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7566, doi. 10.1093/nar/gky554

By:

Kuznetsov, Vladimir A;
Bondarenko, Vladyslav;
Wongsurawat, Thidathip;
Yenamandra, Surya P;
Jenjaroenpun, Piroon

Publication type:

Article

Allosterism and signal transfer in DNA.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7554, doi. 10.1093/nar/gky549

By:

Balaceanu, Alexandra;
Pérez, Alberto;
Dans, Pablo D;
Orozco, Modesto

Publication type:

Article

Fast automated reconstruction of genome-scale metabolic models for microbial species and communities.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7542, doi. 10.1093/nar/gky537

By:

Machado, Daniel;
Andrejev, Sergej;
Tramontano, Melanie;
Patil, Kiran Raosaheb

Publication type:

Article

Dynamics of supercoiled DNA with complex knots: large-scale rearrangements and persistent multi-strand interlocking.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7533, doi. 10.1093/nar/gky523

By:

Coronel, Lucia;
Suma, Antonio;
Micheletti, Cristian

Publication type:

Article

Real-time monitoring of DNA G-quadruplexes in living cells with a small-molecule fluorescent probe.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7522, doi. 10.1093/nar/gky665

By:

Zhang, Suge;
Sun, Hongxia;
Wang, Lixia;
Liu, Yan;
Chen, Hongbo;
Li, Qian;
Guan, Aijiao;
Liu, Meirong;
Tang, Yalin

Publication type:

Article

Synthetic switch-based baculovirus for transgene expression control and selective killing of hepatocellular carcinoma cells.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. e93, doi. 10.1093/nar/gky447

By:

Lin, Mei-Wei;
Tseng, Yen-Wen;
Shen, Chih-Che;
Hsu, Mu-Nung;
Hwu, Jih-Ru;
Chang, Chin-Wei;
Yeh, Chung-Ju;
Chou, Min-Yuan;
Wu, Jaw-Ching;
Hu, Yu-Chen

Publication type:

Article

Development of the variant calling algorithm, ADIScan, and its use to estimate discordant sequences between monozygotic twins.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. e92, doi. 10.1093/nar/gky445

By:

Cho, Yangrae;
Lee, Sunho;
Hong, Jong Hui;
Kim, Byong Joon;
Hong, Woon-Young;
Jung, Jongcheol;
Lee, Hyang Burm;
Sung, Joohon;
Kim, Han-Na;
Kim, Hyung-Lae

Publication type:

Article

peakC: a flexible, non-parametric peak calling package for 4C and Capture-C data.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. e91, doi. 10.1093/nar/gky443

By:

Geeven, Geert;
Teunissen, Hans;
de Laat, Wouter;
de Wit, Elzo

Publication type:

Article

Implementation of the CRISPR-Cas13a system in fission yeast and its repurposing for precise RNA editing.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. e90, doi. 10.1093/nar/gky433

By:

Jing, Xinyun;
Xie, Bingran;
Chen, Longxian;
Zhang, Niubing;
Jiang, Yiyi;
Qin, Hang;
Wang, Hongbing;
Hao, Pei;
Yang, Sheng;
Li, Xuan

Publication type:

Article

CancerDetector: ultrasensitive and non-invasive cancer detection at the resolution of individual reads using cell-free DNA methylation sequencing data.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. e89, doi. 10.1093/nar/gky423

By:

Li, Wenyuan;
Li, Qingjiao;
Kang, Shuli;
Same, Mary;
Zhou, Yonggang;
Sun, Carol;
Liu, Chun-Chi;
Matsuoka, Lea;
Sher, Linda;
Wong, Wing Hung

Publication type:

Article

Two are better than one: HPoxBS - hairpin oxidative bisulfite sequencing.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. e88, doi. 10.1093/nar/gky422

By:

Giehr, Pascal;
Kyriakopoulos, Charalampos;
Lepikhov, Konstantin;
Wallner, Stefan;
Wolf, Verena;
Walter, Jörn

Publication type:

Article

Toward predictive R-loop computational biology: genome-scale prediction of R-loops reveals their association with complex promoter structures, G-quadruplexes and transcriptionally active enhancers.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 8023, doi. 10.1093/nar/gky690

By:

Kuznetsov, Vladimir A;
Bondarenko, Vladyslav;
Wongsurawat, Thidathip;
Yenamandra, Surya P;
Jenjaroenpun, Piroon

Publication type:

Article

Structure of the bifunctional cryptochrome aCRY from Chlamydomonas reinhardtii.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 8010, doi. 10.1093/nar/gky621

By:

Franz, Sophie;
Ignatz, Elisabeth;
Wenzel, Sandra;
Zielosko, Hannah;
Putu, Eka Putra Gusti Ngurah;
Maestre-Reyna, Manuel;
Tsai, Ming-Daw;
Yamamoto, Junpei;
Mittag, Maria;
Essen, Lars-Oliver

Publication type:

Article

Incorporating uracil and 5-halouracils into short peptide nucleic acids for enhanced recognition of A–U pairs in dsRNAs.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7506, doi. 10.1093/nar/gky631

By:

Patil, Kiran M;
Toh, Desiree-Faye Kaixin;
Yuan, Zhen;
Meng, Zhenyu;
Shu, Zhiyu;
Zhang, Haiping;
Ong, Alan Ann Lerk;
Krishna, Manchugondanahalli S;
Lu, Lanyuan;
Lu, Yunpeng

Publication type:

Article

The temperature dependence of the helical twist of DNA.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7998, doi. 10.1093/nar/gky599

By:

Kriegel, Franziska;
Matek, Christian;
Dršata, Tomáš;
Kulenkampff, Klara;
Tschirpke, Sophie;
Zacharias, Martin;
Lankaš, Filip;
Lipfert, Jan

Publication type:

Article

Identification of receptors for UNCG and GNRA Z-turns and their occurrence in rRNA.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7989, doi. 10.1093/nar/gky578

By:

D'Ascenzo, Luigi;
Vicens, Quentin;
Auffinger, Pascal

Publication type:

Article

Snapshots of an evolved DNA polymerase pre- and post-incorporation of an unnatural nucleotide.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7977, doi. 10.1093/nar/gky552

By:

Singh, Isha;
Laos, Roberto;
Hoshika, Shuichi;
Benner, Steven A;
Georgiadis, Millie M

Publication type:

Article

Group I introns are widespread in archaea.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7970, doi. 10.1093/nar/gky414

By:

Nawrocki, Eric P;
Jones, Thomas A;
Eddy, Sean R

Publication type:

Article

Bidirectional regulation of adenosine-to-inosine (A-to-I) RNA editing by DEAH box helicase 9 (DHX9) in cancer.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7953, doi. 10.1093/nar/gky396

By:

Hong, HuiQi;
An, Omer;
Chan, Tim H M;
Ng, Vanessa H E;
Kwok, Hui Si;
Lin, Jaymie S;
Qi, Lihua;
Han, Jian;
Tay, Daryl J T;
Tang, Sze Jing

Publication type:

Article

Blocking of an intronic splicing silencer completely rescues IKBKAP exon 20 splicing in familial dysautonomia patient cells.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7938, doi. 10.1093/nar/gky395

By:

Bruun, Gitte H;
Bang, Jeanne M V;
Christensen, Lise L;
Brøner, Sabrina;
Petersen, Ulrika S S;
Guerra, Barbara;
Grønning, Alexander G B;
Doktor, Thomas K;
Andresen, Brage S

Publication type:

Article

Stability of local secondary structure determines selectivity of viral RNA chaperones.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7924, doi. 10.1093/nar/gky394

By:

Bravo, Jack P K;
Borodavka, Alexander;
Barth, Anders;
Calabrese, Antonio N;
Mojzes, Peter;
Cockburn, Joseph J B;
Lamb, Don C;
Tuma, Roman

Publication type:

Article

Novel diagnostic tool for prediction of variant spliceogenicity derived from a set of 395 combined in silico/in vitro studies: an international collaborative effort.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7913, doi. 10.1093/nar/gky372

By:

Leman, Raphaël;
Gaildrat, Pascaline;
Gac, Gérald L;
Ka, Chandran;
Fichou, Yann;
Audrezet, Marie-Pierre;
Caux-Moncoutier, Virginie;
Caputo, Sandrine M;
Boutry-Kryza, Nadia;
Léone, Mélanie

Publication type:

Article

The methyltransferase domain of the Sudan ebolavirus L protein specifically targets internal adenosines of RNA substrates, in addition to the cap structure.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7902, doi. 10.1093/nar/gky637

By:

Martin, Baptiste;
Coutard, Bruno;
Guez, Théo;
Paesen, Guido C;
Canard, Bruno;
Debart, Françoise;
Vasseur, Jean-Jacques;
Grimes, Jonathan M;
Decroly, Etienne

Publication type:

Article

Mechanisms of template handling and pseudoknot folding in human telomerase and their manipulation to expand the sequence repertoire of processive repeat synthesis.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7886, doi. 10.1093/nar/gky601

By:

Deshpande, Aishwarya P;
Collins, Kathleen

Publication type:

Article

Time-lapse imaging of molecular evolution by high-throughput sequencing.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7480, doi. 10.1093/nar/gky583

By:

Nguyen Quang, Nam;
Bouvier, Clément;
Henriques, Adrien;
Lelandais, Benoit;
Ducongé, Frédéric

Publication type:

Article

Escherichia coli ItaT is a type II toxin that inhibits translation by acetylating isoleucyl-tRNAIle.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7873, doi. 10.1093/nar/gky560

By:

Wilcox, Brendan;
Osterman, Ilya;
Serebryakova, Marina;
Lukyanov, Dmitry;
Komarova, Ekaterina;
Gollan, Bridget;
Morozova, Natalia;
Wolf, Yuri I;
Makarova, Kira S;
Helaine, Sophie

Publication type:

Article

A conserved loop–wedge motif moderates reaction site search and recognition by FEN1.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7858, doi. 10.1093/nar/gky506

By:

Thompson, Mark J;
Gotham, Victoria J B;
Ciani, Barbara;
Grasby, Jane A

Publication type:

Article

Inherited disorders of cobalamin metabolism disrupt nucleocytoplasmic transport of mRNA through impaired methylation/phosphorylation of ELAVL1/HuR.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7844, doi. 10.1093/nar/gky634

By:

Battaglia-Hsu, Shyue-Fang;
Ghemrawi, Rose;
Coelho, David;
Dreumont, Natacha;
Mosca, Pauline;
Hergalant, Sébastien;
Gauchotte, Guillaume;
Sequeira, Jeffrey M;
Ndiongue, Mariam;
Houlgatte, Rémi

Publication type:

Article

Conditional accumulation of toxic tRNAs to cause amino acid misincorporation.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7831, doi. 10.1093/nar/gky623

By:

Zimmerman, Stephanie M;
Kon, Yoshiko;
Hauke, Alayna C;
Ruiz, Bianca Y;
Fields, Stanley;
Phizicky, Eric M

Publication type:

Article

The ribosomal stalk protein is crucial for the action of the conserved ATPase ABCE1.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7820, doi. 10.1093/nar/gky619

By:

Imai, Hirotatsu;
Abe, Takaya;
Miyoshi, Tomohiro;
Nishikawa, Shuh-ichi;
Ito, Kosuke;
Uchiumi, Toshio

Publication type:

Article

Single molecule tracking reveals that the bacterial SMC complex moves slowly relative to the diffusion of the chromosome.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7805, doi. 10.1093/nar/gky581

By:

Schibany, Sonja;
Kleine Borgmann, Luise A K;
Rösch, Thomas C;
Knust, Tobias;
Ulbrich, Maximilian H;
Graumann, Peter L

Publication type:

Article

Performance evaluation of pathogenicity-computation methods for missense variants.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7793, doi. 10.1093/nar/gky678

By:

Li, Jinchen;
Zhao, Tingting;
Zhang, Yi;
Zhang, Kun;
Shi, Leisheng;
Chen, Yun;
Wang, Xingxing;
Sun, Zhongsheng

Publication type:

Article

A coding and non-coding transcriptomic perspective on the genomics of human metabolic disease.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7772, doi. 10.1093/nar/gky570

By:

Timmons, James A;
Atherton, Philip J;
Larsson, Ola;
Sood, Sanjana;
Blokhin, Ilya O;
Brogan, Robert J;
Volmar, Claude-Henry;
Josse, Andrea R;
Slentz, Cris;
Wahlestedt, Claes

Publication type:

Article

Trypanosoma brucei UMSBP2 is a single-stranded telomeric DNA binding protein essential for chromosome end protection.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7757, doi. 10.1093/nar/gky597

By:

Klebanov-Akopyan, Olga;
Mishra, Amartya;
Glousker, Galina;
Tzfati, Yehuda;
Shlomai, Joseph

Publication type:

Article

The transcription-coupled DNA repair-initiating protein CSB promotes XRCC1 recruitment to oxidative DNA damage.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7747, doi. 10.1093/nar/gky579

By:

Menoni, Hervé;
Wienholz, Franziska;
Theil, Arjan F;
Janssens, Roel C;
Lans, Hannes;
Campalans, Anna;
Radicella, J Pablo;
Marteijn, Jurgen A;
Vermeulen, Wim

Publication type:

Article

Preparation and characterization of manganese, cobalt and zinc DNA nanoflowers with tuneable morphology, DNA content and size.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7495, doi. 10.1093/nar/gky630

By:

Baker, Ysobel R;
Chen, Jinfeng;
Brown, Jason;
El-Sagheer, Afaf H;
Wiseman, Philip;
Johnson, Errin;
Goddard, Paul;
Brown, Tom

Publication type:

Article

Nucleoporin 54 contributes to homologous recombination repair and post-replicative DNA integrity.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7731, doi. 10.1093/nar/gky569

By:

Rodriguez-Berriguete, Gonzalo;
Granata, Giovanna;
Puliyadi, Rathi;
Tiwana, Gaganpreet;
Prevo, Remko;
Wilson, Rhodri S;
Yu, Sheng;
Buffa, Francesca;
Humphrey, Timothy C;
McKenna, W Gillies

Publication type:

Article

Histone H1 acetylation at lysine 85 regulates chromatin condensation and genome stability upon DNA damage.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7716, doi. 10.1093/nar/gky568

By:

Li, Yinglu;
Li, Zhiming;
Dong, Liping;
Tang, Ming;
Zhang, Ping;
Zhang, Chaohua;
Cao, Ziyang;
Zhu, Qian;
Chen, Yongcan;
Wang, Hui

Publication type:

Article

Chromosomal over-replication in Escherichia coli recG cells is triggered by replication fork fusion and amplified if replichore symmetry is disturbed.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7701, doi. 10.1093/nar/gky566

By:

Midgley-Smith, Sarah L;
Dimude, Juachi U;
Taylor, Toni;
Forrester, Nicole M;
Upton, Amy L;
Lloyd, Robert G;
Rudolph, Christian J

Publication type:

Article

The RNA helicase DDX17 controls the transcriptional activity of REST and the expression of proneural microRNAs in neuronal differentiation.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7686, doi. 10.1093/nar/gky545

By:

Lambert, Marie-Pierre;
Terrone, Sophie;
Giraud, Guillaume;
Benoit-Pilven, Clara;
Cluet, David;
Combaret, Valérie;
Mortreux, Franck;
Auboeuf, Didier;
Bourgeois, Cyril F

Publication type:

Article

Histone H2A variants confer specific properties to nucleosomes and impact on chromatin accessibility.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7675, doi. 10.1093/nar/gky540

By:

Osakabe, Akihisa;
Lorković, Zdravko J;
Kobayashi, Wataru;
Tachiwana, Hiroaki;
Yelagandula, Ramesh;
Kurumizaka, Hitoshi;
Berger, Frédéric

Publication type:

Article

EVI1 carboxy-terminal phosphorylation is ATM-mediated and sustains transcriptional modulation and self-renewal via enhanced CtBP1 association.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7662, doi. 10.1093/nar/gky536

By:

Paredes, Roberto;
Schneider, Marion;
Stevens, Adam;
White, Daniel J;
Williamson, Andrew J K;
Muter, Joanne;
Pearson, Stella;
Kelly, James R;
Connors, Kathleen;
Wiseman, Daniel H

Publication type:

Article

Post-transcriptional regulation of Pabpn1 by the RNA binding protein HuR.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7643, doi. 10.1093/nar/gky535

By:

Phillips, Brittany L;
Banerjee, Ayan;
Sanchez, Brenda J;
Di Marco, Sergio;
Gallouzi, Imed-Eddine;
Pavlath, Grace K;
Corbett, Anita H

Publication type:

Article

Effects of histone H2B ubiquitylation on the nucleosome structure and dynamics.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7631, doi. 10.1093/nar/gky526

By:

Krajewski, Wladyslaw A;
Li, Jiabin;
Dou, Yali

Publication type:

Article

Casein kinase 2 mediated phosphorylation of Spt6 modulates histone dynamics and regulates spurious transcription.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7612, doi. 10.1093/nar/gky515

By:

Gouot, Emmanuelle;
Bhat, Wajid;
Rufiange, Anne;
Fournier, Eric;
Paquet, Eric;
Nourani, Amine

Publication type:

Article

Integrating Rio1 activities discloses its nutrient-activated network in Saccharomyces cerevisiae.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7586, doi. 10.1093/nar/gky618

By:

Iacovella, Maria G;
Bremang, Michael;
Basha, Omer;
Giacò, Luciano;
Carotenuto, Walter;
Golfieri, Cristina;
Szakal, Barnabas;
Dal Maschio, Marianna;
Infantino, Valentina;
Beznoussenko, Galina V

Publication type:

Article

Mechanistic insights into the regulation of transcription and transcription-coupled DNA repair by Cockayne syndrome protein B.

Published in:

Nucleic Acids Research, 2018, v. 46, n. 15, p. 7471, doi. 10.1093/nar/gky660

By:

Boetefuer, Erica L;
Lake, Robert J;
Fan, Hua-Ying

Publication type:

Article