Gene for the diphtheria toxin-susceptible elongation factor 2 from Methanococcus vannielii.

abstract：:Adenosine deaminases that act on RNA (ADARs) convert adenosine to inosine within double-stranded regions of RNA, resulting in increased transcriptomic diversity, as well as protection of cellular double-stranded RNA (dsRNA) from silencing and improper immune activation. The presence of dsRNA-binding domains (dsRBDs) i...

journal_title：Nucleic acids research

authors： Rajendren S,Manning AC,Al-Awadi H,Yamada K,Takagi Y,Hundley HA

更新日期：2018-10-12 00:00:00

abstract：:Single genes are often subject to alternative splicing, which generates alternative mature mRNAs. This phenomenon is widespread in animals, and observed in over 90% of human genes. Recent data suggest it may also be common in Apicomplexa. These parasites have small genomes, and economy of DNA is evolutionarily favoure...

journal_title：Nucleic acids research

authors： Yeoh LM,Goodman CD,Hall NE,van Dooren GG,McFadden GI,Ralph SA

更新日期：2015-05-19 00:00:00

abstract：:Transposable elements (TEs) comprise a large proportion of long non-coding RNAs (lncRNAs). Here, we employed CRISPR to delete a short interspersed nuclear element (SINE) in Malat1, a cancer-associated lncRNA, to investigate its significance in cellular physiology. We show that Malat1 with a SINE deletion forms diffuse...

journal_title：Nucleic acids research

authors： Nguyen TM,Kabotyanski EB,Reineke LC,Shao J,Xiong F,Lee JH,Dubrulle J,Johnson H,Stossi F,Tsoi PS,Choi KJ,Ellis AG,Zhao N,Cao J,Adewunmi O,Ferreon JC,Ferreon ACM,Neilson JR,Mancini MA,Chen X,Kim J,Ma L,Li W,Ro

更新日期：2020-03-18 00:00:00

abstract：:Message-specific translational regulation mechanisms shape the biogenesis of multimeric oxidative phosphorylation (OXPHOS) enzyme in mitochondria from the yeast Saccharomyces cerevisiae. These mechanisms, driven mainly by the action of mRNA-specific translational activators, help to coordinate synthesis of OXPHOS cata...

journal_title：Nucleic acids research

authors： Mays JN,Camacho-Villasana Y,Garcia-Villegas R,Perez-Martinez X,Barrientos A,Fontanesi F

更新日期：2019-06-20 00:00:00

abstract：:Stabilization of stalled replication forks prevents excessive fork reversal or degradation, which can undermine genome integrity. The WRN protein is unique among the other human RecQ family members to possess exonuclease activity. However, the biological role of the WRN exonuclease is poorly defined. Recently, the WRN...

journal_title：Nucleic acids research

authors： Aiello FA,Palma A,Malacaria E,Zheng L,Campbell JL,Shen B,Franchitto A,Pichierri P

更新日期：2019-07-26 00:00:00

abstract：:The class II genes of the major histocompatibility complex (MHC) encode a family of cell surface glycoproteins that present processed antigen to the T cell receptor. Class II genes are regulated coordinately, responding to both immunologic and developmental signals. Conserved sequence elements 5' to class II genes hav...

journal_title：Nucleic acids research

authors： Hasegawa SL,Sloan JH,Reith W,Mach B,Boss JM

更新日期：1991-03-25 00:00:00

abstract：:The gene-external part of the human 7S L promoter was analyzed by transcription in vitro and in vivo. Compared to the wild type promoter (-178), a -66 5'deletion mutant revealed full activity in vitro but was inefficiently transcribed in vivo. Further deletion to -37 reduced template activity to 50% in vitro and to ba...

journal_title：Nucleic acids research

authors： Bredow S,Sürig D,Müller J,Kleinert H,Benecke BJ

更新日期：1990-12-11 00:00:00

abstract：:Using circular dichroism spectroscopy, UV absorption spectroscopy and polyacrylamide gel electrophoresis, we studied conformational properties of guanine-rich DNA strands of the fragile X chromosome repeats d(GGC)n, d(GCG)n and d(CGG)n, with n = 2, 4, 8 and 16. These strands are generally considered in the literature ...

journal_title：Nucleic acids research

authors： Fojtík P,Kejnovská I,Vorlícková M

更新日期：2004-01-12 00:00:00

abstract：:A straightforward enzymatic protocol for converting regular DNA into pseudo-complementary DNA could improve the performance of oligonucleotide microarrays by generating readily hybridizable structure-free targets. Here we screened several highly destabilizing analogs of G and C for one that could be used with 2-aminoa...

journal_title：Nucleic acids research

authors： Lahoud G,Timoshchuk V,Lebedev A,Arar K,Hou YM,Gamper H

更新日期：2008-12-01 00:00:00

abstract：:Proteins that catalyse homologous recombination have been identified in all living organisms and are essential for the repair of damaged DNA as well as for the generation of genetic diversity. In bacteria homologous recombination is performed by the RecA protein, whereas in the eukarya a related protein called Rad51 i...

journal_title：Nucleic acids research

authors： McIlwraith MJ,Hall DR,Stasiak AZ,Stasiak A,Wigley DB,West SC

更新日期：2001-11-15 00:00:00

abstract：:The alcohol dehydrogenase (Adh) gene of D. melanogaster is transcribed from two different promoters during fly development: the distal (adult) and the proximal (embryonic-larval). Certain aspects of Adh gene regulation are represented in Drosophila continuous cell lines. We have used Drosophila tissue culture cells in...

journal_title：Nucleic acids research

authors： Benyajati C,Ayer S,McKeon J,Ewel A,Huang J

更新日期：1987-10-12 00:00:00

abstract：:Double-stranded (ds) oligodeoxynucleotides (29mers) containing an O6-ethylguanine (O6-EtGua) flanked 5' and 3' by different bases (5'..TGT..3'; 5'..CGG..3', 5'..GGT..3'; 5'..GGG..3'; 5'..GGA..3') were synthesized to investigate the binding and repair characteristics of recombinant human O6-alkylguanine-DNA alkyltransf...

journal_title：Nucleic acids research

authors： Bender K,Federwisch M,Loggen U,Nehls P,Rajewsky MF

更新日期：1996-06-01 00:00:00

abstract：:Among four types of bacterial restriction enzymes that cleave a foreign DNA depending on its methylation status, type I enzymes composed of three subunits are interesting because of their unique DNA cleavage and translocation mechanisms performed by the restriction subunit (HsdR). The elucidated N-terminal fragment st...

journal_title：Nucleic acids research

authors： Uyen NT,Park SY,Choi JW,Lee HJ,Nishi K,Kim JS

更新日期：2009-11-01 00:00:00

abstract：:A soluble enzyme system that specifically initiates lambda dv plasmid DNA replication at a bacteriophage lambda replication origin [Wold et al. (1982) Proc. Natl. Acad. Sci. USA 79, 6176-6180] is also capable of replicating the single-stranded circular chromosomes of phages M13 and phi X174 to a duplex form. This chai...

journal_title：Nucleic acids research

authors： LeBowitz JH,McMacken R

更新日期：1984-04-11 00:00:00

abstract：:Reversible methylation of the N6 or N1 position of adenine in RNA has recently been shown to play significant roles in regulating the functions of RNA. RNA can also be alkylated upon exposure to endogenous and exogenous alkylating agents. Here we examined how regio-specific methylation at the hydrogen bonding edge of ...

journal_title：Nucleic acids research

authors： You C,Dai X,Wang Y

更新日期：2017-09-06 00:00:00

abstract：:In synthetic circuits, CRISPR-Cas systems have been used effectively for endpoint changes from an initial state to a final state, such as in logic gates. Here, we use deactivated Cas9 (dCas9) and deactivated Cas12a (dCas12a) to construct dynamic RNA ring oscillators that cycle continuously between states over time in ...

journal_title：Nucleic acids research

authors： Kuo J,Yuan R,Sánchez C,Paulsson J,Silver PA

更新日期：2020-08-20 00:00:00

abstract：:A new E. coli strain has been constructed that contains the dinD1::LacZ+ fusion and is deficient in methylation-dependent restriction systems (McrA-, McrBC-, Mrr-). This strain has been used to clone restriction endonuclease genes directly into E. coli. When E. coli cells are not fully protected by the cognate methyla...

journal_title：Nucleic acids research

authors： Fomenkov A,Xiao JP,Dila D,Raleigh E,Xu SY

更新日期：1994-06-25 00:00:00

abstract：:The RosettaDesign server identifies low energy amino acid sequences for target protein structures (http://rosettadesign.med.unc.edu). The client provides the backbone coordinates of the target structure and specifies which residues to design. The server returns to the client the sequences, coordinates and energies of ...

journal_title：Nucleic acids research

authors： Liu Y,Kuhlman B

更新日期：2006-07-01 00:00:00

abstract：:Pre-mRNA splicing is catalyzed by the spliceosome, a multi-megadalton ribonucleoprotein machine. Previous work from our laboratory revealed the splicing factor SRSF1 as a regulator of the SUMO pathway, leading us to explore a connection between this pathway and the splicing machinery. We show here that addition of a r...

journal_title：Nucleic acids research

authors： Pozzi B,Bragado L,Will CL,Mammi P,Risso G,Urlaub H,Lührmann R,Srebrow A

更新日期：2017-06-20 00:00:00

abstract：:Although many tools have been developed to analyze small RNA sequencing (sRNA-Seq) data, it remains challenging to accurately analyze the small RNA population, mainly due to multiple sequence ID assignment caused by short read length. Additional issues in small RNA analysis include low consistency of microRNA (miRNA) ...

journal_title：Nucleic acids research

authors： Wu X,Kim TK,Baxter D,Scherler K,Gordon A,Fong O,Etheridge A,Galas DJ,Wang K

更新日期：2017-12-01 00:00:00

abstract：:Ribonuclease III of Escherichia coli is prominently involved in the endoribonucleolytic processing of cell and viral-encoded RNAs. Towards the goal of defining the RNA sequence and structural elements that establish specific catalytic cleavage of RNase III processing signals, this report demonstrates that a 60 nucleot...

journal_title：Nucleic acids research

authors： Chelladurai BS,Li H,Nicholson AW

更新日期：1991-04-25 00:00:00

abstract：:A 200 bp sequence including a stretch of 54 base pairs of alternating guanosine and adenosine nucleotide residues [(dG-dA)27.(dT-dC)27] was cloned in the simian virus 40 (SV40) genome between the KpnI and HpaII sites. This sequence was discovered earlier as part of a region limiting the amplification of sequences adja...

journal_title：Nucleic acids research

authors： Rao BS,Manor H,Martin RG

更新日期：1988-08-25 00:00:00

abstract：:The CRISPR system has become a powerful biological tool with a wide range of applications. However, improving targeting specificity and accurately predicting potential off-targets remains a significant goal. Here, we introduce a web-based CR: ISPR/Cas9 O: ff-target P: rediction and I: dentification T: ool (CROP-IT) th...

journal_title：Nucleic acids research

authors： Singh R,Kuscu C,Quinlan A,Qi Y,Adli M

更新日期：2015-10-15 00:00:00

abstract：:RNA editing by adensosine deaminases is a widespread mechanism to alter genetic information in metazoa. In addition to modifications in non-coding regions, editing contributes to diversification of protein function, in analogy to alternative splicing. However, although splicing programs respond to external signals, fa...

journal_title：Nucleic acids research

authors： Balik A,Penn AC,Nemoda Z,Greger IH

更新日期：2013-01-01 00:00:00

abstract：:Extrachromosomal circular DNA (eccDNA) is both a driver of eukaryotic genome instability and a product of programmed genome rearrangements, but its extent had not been surveyed in Oxytricha, a ciliate with elaborate DNA elimination and translocation during development. Here, we captured rearrangement-specific circular...

journal_title：Nucleic acids research

authors： Yerlici VT,Lu MW,Hoge CR,Miller RV,Neme R,Khurana JS,Bracht JR,Landweber LF

更新日期：2019-10-10 00:00:00

abstract：:Alu insertions have contributed to >11% of the human genome and ∼30-35 Alu subfamilies remain actively mobile, yet the characterization of polymorphic Alu insertions from short-read data remains a challenge. We build on existing computational methods to combine Alu detection and de novo assembly of WGS data as a means...

journal_title：Nucleic acids research

authors： Wildschutte JH,Baron A,Diroff NM,Kidd JM

更新日期：2015-12-02 00:00:00

abstract：:The tumor suppressor gene, p53, is rarely mutated in neuroblastomas (NB) at the time of diagnosis, but its dysfunction could result from a nonfunctional conformation or cytoplasmic sequestration of the wild-type p53 protein. However, p53 mutation, when it occurs, is found in NB tumors with drug resistance acquired ove...

journal_title：Nucleic acids research

authors： Goldschneider D,Horvilleur E,Plassa LF,Guillaud-Bataille M,Million K,Wittmer-Dupret E,Danglot G,de Thé H,Bénard J,May E,Douc-Rasy S

更新日期：2006-01-01 00:00:00

abstract：:Numerous potential ligand-binding sites are available today, along with hundreds of thousands of known binding sites observed in the PDB. Exhaustive similarity search for such vastly numerous binding site pairs is useful to predict protein functions and to enable rapid screening of target proteins for drug design. Exi...

journal_title：Nucleic acids research

authors： Ito J,Tabei Y,Shimizu K,Tsuda K,Tomii K

更新日期：2012-01-01 00:00:00

abstract：:The DNA repair enzyme human uracil DNA glycosylase (UNG) scans short stretches of genomic DNA and captures rare uracil bases as they transiently emerge from the DNA duplex via spontaneous base pair breathing motions. The process of DNA scanning requires that the enzyme transiently loosen its grip on DNA to allow stoch...

journal_title：Nucleic acids research

authors： Friedman JI,Majumdar A,Stivers JT

更新日期：2009-06-01 00:00:00

abstract：:Telomeres comprise the protective caps of natural chromosome ends and function in the suppression of DNA damage signaling and cellular senescence. Therefore, techniques used to determine telomere length are important in a number of studies, ranging from those investigating telomeric structure to effects on human disea...

journal_title：Nucleic acids research

authors： Göhring J,Fulcher N,Jacak J,Riha K

更新日期：2014-02-01 00:00:00