Direct and site-specific quantification of RNA 2'-O-methylation by PCR with an engineered DNA polymerase.

abstract：:The current methods for quantifying genome-wide 5-methylcytosine (5mC) oxides are still scarce, mostly restricted with two limitations: assay sensitivity is seriously compromised with cost, assay time and sample input; epigenetic information is irreproducible during polymerase chain reaction (PCR) amplification withou...

journal_title：Nucleic acids research

authors： Chen D,Wang Y,Mo M,Zhang J,Zhang Y,Xu Y,Liu SY,Chen J,Ma Y,Zhang L,Dai Z,Cai C,Zou X

更新日期：2019-11-04 00:00:00

abstract：:The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is Europe's primary resource for nucleotide sequence information. With the growing volume and diversity of public sequencing data comes the need for increased sophistication in data organisation, presentation and search services so as to maximise its disc...

journal_title：Nucleic acids research

authors： Silvester N,Alako B,Amid C,Cerdeño-Tárraga A,Cleland I,Gibson R,Goodgame N,Ten Hoopen P,Kay S,Leinonen R,Li W,Liu X,Lopez R,Pakseresht N,Pallreddy S,Plaister S,Radhakrishnan R,Rossello M,Senf A,Smirnov D,Toribio A

更新日期：2015-01-01 00:00:00

abstract：:During erythropoiesis in the chick, the nucleosome repeat length increases from 190 base pairs to 212 base pairs. This increase is correlated with a dramatic increase in the concentration of the red cell specific histone H5 (from 0.2 molecules per nucleosome to 1 molecule per nucleosome) and with no change in the conc...

journal_title：Nucleic acids research

authors： Weintraub H

更新日期：1978-04-01 00:00:00

abstract：:Mitochondrial DNA maintenance and segregation are dependent on the actin cytoskeleton in budding yeast. We found two cytoskeletal proteins among six proteins tightly associated with rat liver mitochondrial DNA: non-muscle myosin heavy chain IIA and β-actin. In human cells, transient gene silencing of MYH9 (encoding no...

journal_title：Nucleic acids research

authors： Reyes A,He J,Mao CC,Bailey LJ,Di Re M,Sembongi H,Kazak L,Dzionek K,Holmes JB,Cluett TJ,Harbour ME,Fearnley IM,Crouch RJ,Conti MA,Adelstein RS,Walker JE,Holt IJ

更新日期：2011-07-01 00:00:00

abstract：:Zar1 was one of the earliest mammalian maternal-effect genes to be identified. Embryos derived from Zar1-null female mice are blocked before zygotic genome activation; however, the underlying mechanism remains unclear. By knocking out Zar1 and its homolog Zar2 in mice, we revealed a novel function of these genes in oo...

journal_title：Nucleic acids research

authors： Rong Y,Ji SY,Zhu YZ,Wu YW,Shen L,Fan HY

更新日期：2019-12-02 00:00:00

abstract：:The Raf-1 proto-oncogene product is a highly regulated serine/threonine kinase that functions in signal transduction downstream from growth factor receptors and upstream from nuclear proto-oncogene products. Using a transient cotransfection assay we have found that activated Raf-1 activates expression from the HIV-LTR...

journal_title：Nucleic acids research

authors： Bruder JT,Heidecker G,Tan TH,Weske JC,Derse D,Rapp UR

更新日期：1993-11-11 00:00:00

abstract：:A fundamental problem with applying Consensus, Weight-Matrix or hidden Markov models as search tools for biosequences is that there is no way to know, from the model, if the modeled sequences display any dependencies between positional identities. In some instances, these dependencies are crucial in correctly acceptin...

journal_title：Nucleic acids research

authors： Ray WC

更新日期：2005-07-01 00:00:00

abstract：:Evidence will be presented to show that the allyl group is suitable for the protection of a 3'-terminal phosphodiester function. The latter will be demonstrated by the synthesis, via a phosphotriester approach, of two cyclic tetraribonucleotides [r(AAAA) and r(UAMe2UAMe2)], two cyclic hexadeoxyribonucleotides [d(CGCGC...

journal_title：Nucleic acids research

authors： de Vroom E,Broxterman HJ,Sliedregt LA,van der Marel GA,van Boom JH

更新日期：1988-05-25 00:00:00

abstract：:The non-essential MGS1 gene of Saccharomyces cerevisiae is highly conserved in eukaryotes and encodes an enzyme containing both DNA-dependent ATPase and DNA annealing activities. MGS1 appears to function in post-replicational repair processes that contribute to genome stability. In this study, we identified MGS1 as a ...

journal_title：Nucleic acids research

authors： Kim JH,Kang YH,Kang HJ,Kim DH,Ryu GH,Kang MJ,Seo YS

更新日期：2005-10-26 00:00:00

abstract：:Loss-of-function in melanocortin 1 receptor (MC1R), a GS protein-coupled receptor that regulates signal transduction through cAMP and protein kinase A (PKA) in melanocytes, is a major inherited melanoma risk factor. Herein, we report a novel cAMP-mediated response for sensing and responding to UV-induced DNA damage re...

journal_title：Nucleic acids research

authors： Jarrett SG,Wolf Horrell EM,D'Orazio JA

更新日期：2016-12-15 00:00:00

abstract：:Mitochondrial-DNA diseases have no effective treatments. Allotopic expression-synthesis of a wild-type version of the mutated protein in the nuclear-cytosolic compartment and its importation into mitochondria-has been proposed as a gene-therapy approach. Allotopic expression has been successfully demonstrated in yeast...

journal_title：Nucleic acids research

authors： Perales-Clemente E,Fernández-Silva P,Acín-Pérez R,Pérez-Martos A,Enríquez JA

更新日期：2011-01-01 00:00:00

abstract：:The active form of Escherichia coli DNA polymerase V responsible for damage-induced mutagenesis is a multiprotein complex (UmuD'(2)C-RecA-ATP), called pol V Mut. Optimal activity of pol V Mut in vitro is observed on an SSB-coated single-stranded circular DNA template in the presence of the β/γ complex and a transactiv...

journal_title：Nucleic acids research

authors： Vaisman A,Kuban W,McDonald JP,Karata K,Yang W,Goodman MF,Woodgate R

更新日期：2012-07-01 00:00:00

abstract：:Pathbase is a database that stores images of the abnormal histology associated with spontaneous and induced mutations of both embryonic and adult mice including those produced by transgenesis, targeted mutagenesis and chemical mutagenesis. Images of normal mouse histology and strain-dependent background lesions are al...

journal_title：Nucleic acids research

authors： Schofield PN,Bard JB,Booth C,Boniver J,Covelli V,Delvenne P,Ellender M,Engstrom W,Goessner W,Gruenberger M,Hoefler H,Hopewell J,Mancuso M,Mothersill C,Potten CS,Quintanilla-Fend L,Rozell B,Sariola H,Sundberg JP,Ward

更新日期：2004-01-01 00:00:00

abstract：:Deproteinated 16S RNA was iodinated at pH 5.0 in an aqueous solution containing TlCl3 plus KI for 1-5 hours at 42 degrees C. Under these conditions 33 moles of iodine are incorporated per mole of RNA. As judged by sucrose gradient sedimentation, the iodinated RNA does not exhibit any large alteration in conformation a...

journal_title：Nucleic acids research

authors： Schendel PL,Craven GR

更新日期：1976-11-01 00:00:00

abstract：:A new method is reported for the synthesis of oligodeoxyribonucleotides containing 2-aminopurine residues at selected sites. This method involves protection of the 2-aminopurine ribonucleoside, reduction to the deoxyribonucleoside and standard preparation of the 5'-0- (4,4'-dimethoxytrityl)-3'-O-(2-cyanoethyl)-N,N- di...

journal_title：Nucleic acids research

authors： Fujimoto J,Nuesca Z,Mazurek M,Sowers LC

更新日期：1996-02-15 00:00:00

abstract：:Double stranded cDNA of cucumber pale fruit viroid ( CPFV ) has been cloned by the method of Okayama and Berg (Mol.Cell.Biol.2,161-170 (1982] and the complete nucleotide sequence was established. The covalently closed circular molecules of single-stranded CPFV RNA consists of 303 nucleotides. The nucleotide sequence o...

journal_title：Nucleic acids research

authors： Sano T,Uyeda I,Shikata E,Ohno T,Okada Y

更新日期：1984-04-25 00:00:00

abstract：:T1DBase (http://www.t1dbase.org) is web platform, which supports the type 1 diabetes (T1D) community. It integrates genetic, genomic and expression data relevant to T1D research across mouse, rat and human and presents this to the user as a set of web pages and tools. This update describes the incorporation of new dat...

journal_title：Nucleic acids research

authors： Burren OS,Adlem EC,Achuthan P,Christensen M,Coulson RM,Todd JA

更新日期：2011-01-01 00:00:00

abstract：:The field bean, Vicia faba L. var. minor, possesses two sub-families of 11 S legumin genes named A and B. We isolated from a genomic library a B-type gene (LeB4) and determined its primary DNA sequence. Gene LeB4 codes for a 484 amino acid residue prepropolypeptide, encompassing a signal peptide of 22 amino acid resid...

journal_title：Nucleic acids research

authors： Bäumlein H,Wobus U,Pustell J,Kafatos FC

更新日期：1986-03-25 00:00:00

abstract：:Recent advances in DNA-sequencing technology have made it possible to obtain large datasets of small RNA sequences. Here we demonstrate that not all non-perfectly matched small RNA sequences are simple technological sequencing errors, but many hold valuable biological information. Analysis of three small RNA datasets ...

journal_title：Nucleic acids research

authors： Ebhardt HA,Tsang HH,Dai DC,Liu Y,Bostan B,Fahlman RP

更新日期：2009-05-01 00:00:00

abstract：:Oligoribonucleotides with 2'-5' linkages have been synthesized on solid support. UV melting and CD experiments indicate complementary strands associate to give complexes with melting temperatures 30 to 40 degrees C lower than for duplexes formed by 3'-5' oligoribonucleotides with the same sequence. UV melting and imin...

journal_title：Nucleic acids research

authors： Kierzek R,He L,Turner DH

更新日期：1992-04-11 00:00:00

abstract：:Cloned DNA from the EcoRI J fragment of EBV has been used as template for in vitro transcription experiments using cell-free extracts prepared from HeLa or KB cells. Two EBV specific RNAs each about 175 bases in length were synthesised and nuclease 51 mapping experiments determined that these in vitro products corresp...

journal_title：Nucleic acids research

authors： Jat P,Arrand JR

更新日期：1982-06-11 00:00:00

abstract：:Recombinant plasmids which contain EcoRI fragments of tobacco chloroplast DNA carrying tRNA genes were constructed. Plasmids pTC211 and pTC293 contain the base sequences for tRNAAsn in their 1.4 and 1.1 Md EcoRI fragments, respectively. These two tRNA sequences are identical and are; 5'-TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGC...

journal_title：Nucleic acids research

authors： Kato A,Shimada H,Kusuda M,Sugiura M

更新日期：1981-11-11 00:00:00

abstract：:DNA polymerase delta (Pol δ) is responsible for the elongation and maturation of Okazaki fragments in eukaryotic cells. Proliferating cell nuclear antigen (PCNA) recruits Pol δ to the DNA and serves as a processivity factor. Here, we show that PCNA also stimulates the catalytic rate of Saccharomyces cerevisiae Pol δ b...

journal_title：Nucleic acids research

authors： Mondol T,Stodola JL,Galletto R,Burgers PM

更新日期：2019-02-28 00:00:00

abstract：:Formation of a transcriptionally competent open complex is a highly regulated multistep process involving at least two intermediates. The rate of formation and stability of the intermediate complexes often determine promoter strength. However, the detailed mechanism of formation of the open complex and the high resolu...

journal_title：Nucleic acids research

authors： Studitsky V,Brodolin K,Liu Y,Mirzabekov A

更新日期：2001-02-01 00:00:00

abstract：:The delivery of site-specific post-translational modifications to histones generates an epigenetic regulatory network that directs fundamental DNA-mediated processes and governs key stages in development. Methylation of histone H4 lysine-20 has been implicated in DNA repair, transcriptional silencing, genomic stabilit...

journal_title：Nucleic acids research

authors： Southall SM,Cronin NB,Wilson JR

更新日期：2014-01-01 00:00:00

abstract：:The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is Europe's primary nucleotide-sequence repository. The ENA consists of three main databases: the Sequence Read Archive (SRA), the Trace Archive and EMBL-Bank. The objective of ENA is to support and promote the use of nucleotide sequencing as an experimen...

journal_title：Nucleic acids research

authors： Leinonen R,Akhtar R,Birney E,Bower L,Cerdeno-Tárraga A,Cheng Y,Cleland I,Faruque N,Goodgame N,Gibson R,Hoad G,Jang M,Pakseresht N,Plaister S,Radhakrishnan R,Reddy K,Sobhany S,Ten Hoopen P,Vaughan R,Zalunin V,Cochr

更新日期：2011-01-01 00:00:00

abstract：:A novel resource centre for TP53 mutations and mutants has been developed (http://p53.fr). TP53 gene dysfunction can be found in the majority of human cancer types. The potential use of TP53 mutation as a biomarker for clinical studies or exposome analysis has led to the publication of thousands of reports describing ...

journal_title：Nucleic acids research

authors： Leroy B,Fournier JL,Ishioka C,Monti P,Inga A,Fronza G,Soussi T

更新日期：2013-01-01 00:00:00

abstract：:H/ACA small nucleolar RNAs (snoRNAs) guide pseudouridylation as part of a small nucleolar ribonucleoprotein complex (snoRNP). Disruption of H/ACA snoRNA levels in stem cells impairs pluripotency, yet it remains unclear how H/ACA snoRNAs contribute to differentiation. To determine if H/ACA snoRNA levels are dynamic dur...

journal_title：Nucleic acids research

authors： McCann KL,Kavari SL,Burkholder AB,Phillips BT,Hall TMT

更新日期：2020-09-04 00:00:00

abstract：:Resonances of the water exchangeable iminoprotons of the acceptor and D stem of yeast tRNAPhe have been assigned by means of Nuclear Overhauser Effects (NOE's). Assignments were made for spectra recorded from tRNA dialysed against a buffer with 110 mM sodium and 5 mM magnesium ions and against a buffer with 430 mM sod...

journal_title：Nucleic acids research

authors： Heerschap A,Haasnoot CA,Hilbers CW

更新日期：1982-11-11 00:00:00

abstract：:Oligonucleotide-directed mutagenesis was used to introduce an A to C transversion at position 523 in the 16S ribosomal RNA gene of Escherichia coli rrnB operon cloned in plasmid pKK3535. E. coli cells transformed with the mutated plasmid were resistant to streptomycin. The mutated ribosomes isolated from these cells w...

journal_title：Nucleic acids research

authors： Melançon P,Lemieux C,Brakier-Gingras L

更新日期：1988-10-25 00:00:00