Synthesis and coding properties of dinucleoside diphosphates containing alky pyrimidines which are formed by the action of carcinogens on nucleic acids.

abstract：:The sequencing of the full transcriptome (RNA-seq) has become the preferred choice for the measurement of genome-wide gene expression. Despite its widespread use, challenges remain in RNA-seq data analysis. One often-overlooked aspect is normalization. Despite the fact that a variety of factors or 'batch effects' can ...

journal_title：Nucleic acids research

authors： Peixoto L,Risso D,Poplawski SG,Wimmer ME,Speed TP,Wood MA,Abel T

更新日期：2015-09-18 00:00:00

abstract：:The CDC16 gene is involved in the process of chromosome segregation in mitosis and a cdc16ts mutant accumulates the predominant microtubule-associated protein at the nonpermissive temperature. We find that the CDC16 gene open reading frame (ORF) is capable of encoding a protein whose calculated molecular weight and pI...

journal_title：Nucleic acids research

authors： Icho T,Wickner RB

更新日期：1987-10-26 00:00:00

abstract：:Vitamin C breaks DNA only in the presence of oxygen. Superoxide dismutase has no effect on the reaction but catalase suppresses it. Superoxide also gives rise to breaks in DNA suppressible by both superoxide dismutase and catalase. The hydroxyl radical seems to be the agent responsible for strand cleavage itself. ...

journal_title：Nucleic acids research

authors： Morgan AR,Cone RL,Elgert TM

更新日期：1976-05-01 00:00:00

abstract：:Rad54 protein is a key member of the RAD52 epistasis group required for homologous recombination in eukaryotes. Rad54 is a duplex DNA translocase that remodels both DNA and protein-DNA complexes, and functions at multiple steps in the recombination process. Here we use biochemical criteria to demonstrate the existence...

journal_title：Nucleic acids research

authors： Haseltine CA,Kowalczykowski SC

更新日期：2009-05-01 00:00:00

abstract：:Mutations in immunoglobulin µ-binding protein 2 (Ighmbp2) cause distal spinal muscular atrophy type 1 (DSMA1), an autosomal recessive disease that is clinically characterized by distal limb weakness and respiratory distress. However, despite extensive studies, the mechanism of disease-causing mutations remains elusive...

journal_title：Nucleic acids research

authors： Lim SC,Bowler MW,Lai TF,Song H

更新日期：2012-11-01 00:00:00

abstract：:The strand displacement activity of DNA polymerase δ is strongly stimulated by its interaction with proliferating cell nuclear antigen (PCNA). However, inactivation of the 3'-5' exonuclease activity is sufficient to allow the polymerase to carry out strand displacement even in the absence of PCNA. We have examined in ...

journal_title：Nucleic acids research

authors： Koc KN,Stodola JL,Burgers PM,Galletto R

更新日期：2015-04-30 00:00:00

abstract：:The carbon catabolite repressor protein 4 (Ccr4)-Negative on TATA (Not) complex controls gene expression at two levels. In the nucleus, it regulates the basal transcription machinery, nuclear receptor-mediated transcription and histone modifications. In the cytoplasm, the complex is required for messenger RNA (mRNA) t...

journal_title：Nucleic acids research

authors： Sandler H,Kreth J,Timmers HT,Stoecklin G

更新日期：2011-05-01 00:00:00

abstract：:A complete physical map of the spinach mitochondrial genome has been established. The entire sequence content of 327 kilobase pairs (kb) is postulated to occur as a single circular molecule. Two directly repeated elements of approximately 6 kb, located on this "master chromosome", are proposed to participate in an int...

journal_title：Nucleic acids research

authors： Stern DB,Palmer JD

更新日期：1986-07-25 00:00:00

abstract：:The investigation of RNA structure, dynamics and biological function often requires the site-specific incorporation of non-natural moieties. Here we describe the functionalization of RNA transcripts by aldehyde-hydrazine chemistry using a simple initiator nucleotide that carries an acetal-protected aldehyde function. ...

journal_title：Nucleic acids research

authors： Pfander S,Fiammengo R,Kirin SI,Metzler-Nolte N,Jäschke A

更新日期：2007-01-01 00:00:00

abstract：:The transcription regulator, tvMyb1, is the first Myb family protein identified in Trichomonas vaginalis. Using an electrophoretic mobility shift assay, we defined the amino-acid sequence from Lys(35) to Ser(141) (tvMyb1(35-141)) as the minimal DNA-binding domain, encompassing two Myb-like DNA-binding motifs (designat...

journal_title：Nucleic acids research

authors： Lou YC,Wei SY,Rajasekaran M,Chou CC,Hsu HM,Tai JH,Chen C

更新日期：2009-04-01 00:00:00

abstract：:Brome mosaic virus (BMV) is a tripartite genome, positive-sense RNA virus of plants. Previously it was demonstrated that local hybridization between BMV RNAs (RNA-RNA heteroduplex formation) efficiently promotes non-homologous RNA recombination. In addition, studies on the role of the BMV polymerase in RNA recombinati...

journal_title：Nucleic acids research

authors： Figlerowicz M

更新日期：2000-04-15 00:00:00

abstract：:We previously proposed that the first enzyme for histidine biosynthesis in Salmonellatyphimurium plays a role in regulating expression of the histidine operon and that in order to play this role the enzyme must form a complex with histidyl-tRNA. Among the many observations that led to these conclusions were 1) that re...

journal_title：Nucleic acids research

authors： Smith O,Meyers MM,Vogel T,Deeley RD,Goldberger R

更新日期：1974-07-01 00:00:00

abstract：:Bcg I and Bcg I-like restriction endonucleases cleave double stranded DNA specifically on both sides of their asymmetric recognition sequences which are interrupted by several ambiguous base pairs. Their heterosubunit structure, bifunctionality and stimulation by AdoMet make them different from other classified restri...

journal_title：Nucleic acids research

authors： Vitkute J,Maneliene Z,Petrusyte M,Janulaitis A

更新日期：1997-11-15 00:00:00

abstract：:OligoArrayDb is a comprehensive database containing pangenomic oligonucleotide microarray probe sets designed for most of the sequenced genomes that are not covered by commercial catalog arrays. The availability of probe sequences, associated with custom microarray fabrication services offered by many companies and co...

journal_title：Nucleic acids research

authors： Rouillard JM,Gulari E

更新日期：2009-01-01 00:00:00

abstract：:We have sequenced the genome of Shigella flexneri serotype 2a, the most prevalent species and serotype that causes bacillary dysentery or shigellosis in man. The whole genome is composed of a 4 607 203 bp chromosome and a 221 618 bp virulence plasmid, designated pCP301. While the plasmid shows minor divergence from th...

journal_title：Nucleic acids research

authors： Jin Q,Yuan Z,Xu J,Wang Y,Shen Y,Lu W,Wang J,Liu H,Yang J,Yang F,Zhang X,Zhang J,Yang G,Wu H,Qu D,Dong J,Sun L,Xue Y,Zhao A,Gao Y,Zhu J,Kan B,Ding K,Chen S,Cheng H,Yao Z,He B,Chen R,Ma D,Qiang B,

更新日期：2002-10-15 00:00:00

abstract：:We have used photo-crosslinking to investigate the structure and dynamics of four-way junction hairpin ribozyme constructs. Four phenylazide photo-crosslinkers were coupled to 2'-NH2-modified U+2 in the substrate and irradiated at different Mg2+ concentrations and temperatures. Consistent with the role of divalent met...

journal_title：Nucleic acids research

authors： Borda EJ,Sigurdsson ST

更新日期：2005-02-18 00:00:00

abstract：:RNA thermometers control the translation of several heat shock and virulence genes by their temperature-sensitive structural transitions. Changes in the structure and dynamics of MiniROSE RNA, which regulates translation in the temperature range of 20-45°C, were studied by site specifically replacing seven adenine res...

journal_title：Nucleic acids research

authors： Narayan S,Kombrabail MH,Das S,Singh H,Chary KV,Rao BJ,Krishnamoorthy G

更新日期：2015-01-01 00:00:00

abstract：:Single-molecule force spectroscopy provides insight into how proteins bind to and move along DNA. Such studies often embed a single-stranded (ss) DNA region within a longer double-stranded (ds) DNA molecule. Yet, producing these substrates remains laborious and inefficient, particularly when using the traditional thre...

journal_title：Nucleic acids research

authors： Okoniewski SR,Uyetake L,Perkins TT

更新日期：2017-10-13 00:00:00

abstract：:Transcriptional co-activator LEDGF/p75 is the major cellular interactor of HIV-1 integrase (IN), critical to efficient viral replication. In this work, a series of INs from the Betaretrovirus, Gammaretrovirus, Deltaretrovirus, Spumavirus and Lentivirus retroviral genera were tested for interaction with the host factor...

journal_title：Nucleic acids research

authors： Cherepanov P

更新日期：2007-01-01 00:00:00

abstract：:A new method for specific reamplification of DDRT-PCR products is presented. After transient ligation of the primary DDRT-PCR fragments into a T-vector, the cDNAs of interest were reamplified by hemi-nested PCR and thermally asymmetric cycles. In contrast to the originally described protocol, this method of reamplific...

journal_title：Nucleic acids research

authors： Bonnet S,Prévot G,Bourgouin C

更新日期：1998-02-15 00:00:00

abstract：:Non-coding genetic variants/mutations can play functional roles in the cell by disrupting regulatory interactions between transcription factors (TFs) and their genomic target sites. For most human TFs, a myriad of DNA-binding models are available and could be used to predict the effects of DNA mutations on TF binding....

journal_title：Nucleic acids research

authors： Martin V,Zhao J,Afek A,Mielko Z,Gordân R

更新日期：2019-07-02 00:00:00

abstract：:mRNA deadenylation is under the control of cis-acting regulatory elements, which include AU-rich elements (AREs) and microRNA (miRNA) targeting sites, within the 3' untranslated region (3' UTRs) of eukaryotic mRNAs. Deadenylases promote miRNA-induced mRNA decay through their interaction with miRNA-induced silencing co...

journal_title：Nucleic acids research

authors： Zhang X,Devany E,Murphy MR,Glazman G,Persaud M,Kleiman FE

更新日期：2015-12-15 00:00:00

abstract：:DNA methylation plays critical roles in transcriptional regulation and chromatin remodeling. Differentially methylated regions (DMRs) have important implications for development, aging and diseases. Therefore, genome-wide mapping of DMRs across various temporal and spatial methylomes is important in revealing the impa...

journal_title：Nucleic acids research

authors： Zhang Y,Liu H,Lv J,Xiao X,Zhu J,Liu X,Su J,Li X,Wu Q,Wang F,Cui Y

更新日期：2011-05-01 00:00:00

abstract：:High density oligonucleotide array technology is widely used in many areas of biomedical research for quantitative and highly parallel measurements of gene expression. Affymetrix GeneChip arrays are the most popular. In this technology each gene is typically represented by a set of 11-20 pairs of probes. In order to o...

journal_title：Nucleic acids research

authors： Irizarry RA,Bolstad BM,Collin F,Cope LM,Hobbs B,Speed TP

更新日期：2003-02-15 00:00:00

abstract：:Toscana virus is an emerging bunyavirus in Mediterranean Europe where it accounts for 80% of pediatric meningitis cases during the summer. The negative-strand ribonucleic acid (RNA) genome of the virus is wrapped around the virally encoded nucleoprotein N to form the ribonucleoprotein complex (RNP). We determined crys...

journal_title：Nucleic acids research

authors： Olal D,Dick A,Woods VL Jr,Liu T,Li S,Devignot S,Weber F,Saphire EO,Daumke O

更新日期：2014-05-01 00:00:00

abstract：:Differential display of mRNA is a simple, sensitive and powerful method to identify differentially expressed gene fragments. The main drawback of differential display is the lack of reproducibility and the inability to read and compare complex gels. This issue results from employing unoptimized primer combinations and...

journal_title：Nucleic acids research

authors： Malhotra K,Foltz L,Mahoney WC,Schueler PA

更新日期：1998-02-01 00:00:00

abstract：:We report, herein, a new class of RNAi trigger molecules based on the unconventional parallel hybridization of two oligonucleotide chains. We have prepared and studied several parallel stranded (ps) duplexes, in which the parallel orientation is achieved through incorporation of isoguanine and isocytosine to form reve...

journal_title：Nucleic acids research

authors： Habibian M,Yahyaee-Anzahaee M,Lucic M,Moroz E,Martín-Pintado N,Di Giovanni LD,Leroux JC,Hall J,González C,Damha MJ

更新日期：2018-02-28 00:00:00

abstract：:M13 RF IV DNA may be prepared in vitro to contain phosphorothioate-modified internucleotidic linkages in the (-)strand only. Certain restriction enzymes react with this modified DNA to hydrolyze the (+)strand exclusively when a phosphorothioate linkage occurs at the normal cleavage point in the (-)strand. The reaction...

journal_title：Nucleic acids research

authors： Taylor JW,Ott J,Eckstein F

更新日期：1985-12-20 00:00:00

abstract：:In Arabidopsis thaliana, endogenous trans-acting and exogenous siRNA pathways are initiated by the interaction of DRB4 with trigger dsRNA. Further, DCL4:DRB4 complex cleaves the dsRNA into 21 bp siRNA. Understanding molecular determinants and mechanistic details of dsRNA recognition by DRB4 is vital for inducing long-...

journal_title：Nucleic acids research

authors： Chiliveri SC,Aute R,Rai U,Deshmukh MV

更新日期：2017-08-21 00:00:00

abstract：:When B cells differentiate into plasma cells, there is a large increase in the cellular content of mRNA coding for immunoglobulin. This increase cannot be fully accounted for by the increase in rate of transcription of the genes. We have investigated the possibility that the half-life of mu heavy chain mRNA increases ...

journal_title：Nucleic acids research

authors： Cox A,Emtage JS

更新日期：1989-12-25 00:00:00