Identification of discrete classes of small nucleolar RNA featuring different ends and RNA binding protein dependency.

abstract：:Transcriptional regulation of the delta-aminolevulinic acid synthetase gene of Rhizobium meliloti was investigated under conditions of normal vegetative growth and during symbiosis with the legume host alfalfa. S1 nuclease mapping and DNA sequence analysis indicated that transcription originates from two sites separat...

journal_title：Nucleic acids research

authors： Leong SA,Williams PH,Ditta GS

更新日期：1985-08-26 00:00:00

abstract：:Diastereomeric dithymidine methanephosphonamidates (TnpmT) were synthesized by reaction of 3'-amino-3'-deoxythymidine with 3'- O -acetylthymidin-5-yl-methanephosphonochloridate. Separated dinucleotide TnpmT(fast) and TnpmT(slow) diastereomers were used as building blocks to prepare chimeric dodecathy-midylates, posses...

journal_title：Nucleic acids research

authors： Nawrot B,Boczkowska M,Wójcik M,Sochacki M,Kazmierski S,Stec WJ

更新日期：1998-06-01 00:00:00

abstract：:Transcription of 5S RNA gene in Xenopus oocytes requires a 38 kDa transcription factor TFIIIA, which interacts with the 50 bp internal control region of the gene. We looked for TFIIIA-like polypeptides in the extracts of adult Xenopus tissues on the basis of their antigenic cross-reactivity to anti-TFIIIA antibody. Se...

journal_title：Nucleic acids research

authors： Yasui W,Ryoji M

更新日期：1989-07-25 00:00:00

abstract：:Inducible promoters are a central regulatory component in synthetic biology, metabolic engineering, and protein production for laboratory and commercial uses. Many of these applications utilize two or more exogenous promoters, imposing a currently unquantifiable metabolic burden on the living system. Here, we engineer...

journal_title：Nucleic acids research

authors： Davey JA,Wilson CJ

更新日期：2020-09-25 00:00:00

abstract：:Long terminal repeat (LTR)-retrotransposons comprise a significant portion of the rice genome. Their complete characterization is thus necessary if the sequenced genome is to be annotated correctly. In addition, because LTR-retrotransposons can influence the expression of neighboring genes, the complete identification...

journal_title：Nucleic acids research

authors： Chaparro C,Guyot R,Zuccolo A,Piégu B,Panaud O

更新日期：2007-01-01 00:00:00

abstract：:IslandViewer (http://pathogenomics.sfu.ca/islandviewer) is a web-accessible application for the computational prediction and analysis of genomic islands (GIs) in bacterial and archaeal genomes. GIs are clusters of genes of probable horizontal origin and are of high interest because they disproportionately encode virul...

journal_title：Nucleic acids research

authors： Dhillon BK,Chiu TA,Laird MR,Langille MG,Brinkman FS

更新日期：2013-07-01 00:00:00

abstract：:Genome organization into transcriptionally active domains denotes one of the first levels of gene expression regulation. Although the chromatin domain concept is generally accepted, only little is known on how domain organization impacts the regulation of differential gene expression. Insulators might hold answers to ...

journal_title：Nucleic acids research

authors： Furlan-Magaril M,Rebollar E,Guerrero G,Fernández A,Moltó E,González-Buendía E,Cantero M,Montoliu L,Recillas-Targa F

更新日期：2011-01-01 00:00:00

abstract：:Heptadecaoligodeoxyribonucleotides containing one or more of the bases, 6H,8H-3,4-dihydropyrimido[4,5-c][1,2]oxazin-7-one (P), 2-amino-6-methoxyaminopurine (K), and hypoxanthine (I) and combinations of P with K and I have been synthesised on a DNA synthesiser. The stability of duplexes containing these basemodified ol...

journal_title：Nucleic acids research

authors： Lin PK,Brown DM

更新日期：1992-10-11 00:00:00

abstract：:Pyrimidine adducts in cellular DNA arise from modification of the pyrimidine 5,6-double bond by oxidation, reduction or hydration. The biological outcome includes increased mutation rate and potential lethality. A major DNA N:-glycosylase responsible for the excision of modified pyrimidine bases is the base excision r...

journal_title：Nucleic acids research

authors： Yang H,Phan IT,Fitz-Gibbon S,Shivji MK,Wood RD,Clendenin WM,Hyman EC,Miller JH

更新日期：2001-02-01 00:00:00

abstract：:The VISTA portal for comparative genomics is designed to give biomedical scientists a unified set of tools to lead them from the raw DNA sequences through the alignment and annotation to the visualization of the results. The VISTA portal also hosts the alignments of a number of genomes computed by our group, allowing ...

journal_title：Nucleic acids research

authors： Brudno M,Poliakov A,Minovitsky S,Ratnere I,Dubchak I

更新日期：2007-07-01 00:00:00

abstract：:Mismatch Repair (MMR) is closely linked to DNA replication; however, other than the role of the replicative sliding clamp (PCNA) in various MMR functions, the linkage between DNA replication and MMR has been difficult to investigate. Here we use an in vitro DNA replication system based on simian virus 40, to investiga...

journal_title：Nucleic acids research

authors： Masih PJ,Kunnev D,Melendy T

更新日期：2008-01-01 00:00:00

abstract：:The chicken erythroid proteins binding to the histone H5 5' promoter and 3' erythroid-specific enhancer regions were identified. In DNase I footprinting and gel mobility shift experiments with immature adult erythrocyte nuclear extracts, we have demonstrated the binding of proteins to the GC-box, a high affinity Sp1 b...

journal_title：Nucleic acids research

authors： Sun JM,Penner CG,Davie JR

更新日期：1992-12-11 00:00:00

abstract：:Overexpression of the flap endonuclease FEN1 has been observed in a variety of cancer types and is a marker for poor prognosis. To better understand the cellular consequences of FEN1 overexpression we utilized a model of its Saccharomyces cerevisiae homolog, RAD27. In this system, we discovered that flap endonuclease ...

journal_title：Nucleic acids research

authors： Becker JR,Gallo D,Leung W,Croissant T,Thu YM,Nguyen HD,Starr TK,Brown GW,Bielinsky AK

更新日期：2018-06-20 00:00:00

abstract：:We report the use of MonoQ FPLC (Fast Protein Liquid Chromatography) for the rapid purification of a novel Type II restriction endonuclease PmaCI, from Pseudomonas maltophila, which recognises the sequence 5'-CAC decreases GTG-3'. The resulting enzyme is free of other nucleases to a level suitable for its characterisa...

journal_title：Nucleic acids research

authors： Walker JN,Dean PD,Saunders JR

更新日期：1986-02-11 00:00:00

abstract：:We have isolated the poly(A) polymerase (PAP) encoding gene pla1 [for poly(A) polymerase] from the fission yeast Schizosaccharomyces pombe. Protein sequence alignments with other poly(A) polymerases reveal that pla1 is more closely related to Saccharomyces cerevisiae PAP than to bovine PAP. The two yeast poly(A) polym...

journal_title：Nucleic acids research

authors： Ohnacker M,Minvielle-Sebastia L,Keller W

更新日期：1996-07-01 00:00:00

abstract：:The yeast retrotransposon Ty encodes proteins that assemble into virus-like particles (Ty-VLPs) which can be readily purified. We have recently shown that expression of the pl protein encoded by the TYA gene of Ty is sufficient for particle formation. In this paper we show that when a heterologous coding sequence, hum...

journal_title：Nucleic acids research

authors： Malim MH,Adams SE,Gull K,Kingsman AJ,Kingsman SM

更新日期：1987-09-25 00:00:00

abstract：:Proper cytokine gene expression is essential in development, homeostasis and immune responses. Studies on the transcriptional control of cytokine genes have mostly focused on highly researched transcription factors (TFs) and cytokines, resulting in an incomplete portrait of cytokine gene regulation. Here, we used enha...

journal_title：Nucleic acids research

authors： Santoso CS,Li Z,Lal S,Yuan S,Gan KA,Agosto LM,Liu X,Pro SC,Sewell JA,Henderson A,Atianand MK,Fuxman Bass JI

更新日期：2020-12-02 00:00:00

abstract：:In mammalian cells, DNA double-strand breaks (DSBs) are repaired by three pathways, nonhomologous end-joining (NHEJ), gene conversion (GC) and single-strand annealing (SSA). These pathways are distinct with regard to repair efficiency and mutagenic potential and must be tightly controlled to preserve viability and gen...

journal_title：Nucleic acids research

authors： Mansour WY,Schumacher S,Rosskopf R,Rhein T,Schmidt-Petersen F,Gatzemeier F,Haag F,Borgmann K,Willers H,Dahm-Daphi J

更新日期：2008-07-01 00:00:00

abstract：:For over 10 years, Binding MOAD (Mother of All Databases; http://www.BindingMOAD.org) has been one of the largest resources for high-quality protein-ligand complexes and associated binding affinity data. Binding MOAD has grown at the rate of 1994 complexes per year, on average. Currently, it contains 23,269 complexes ...

journal_title：Nucleic acids research

authors： Ahmed A,Smith RD,Clark JJ,Dunbar JB Jr,Carlson HA

更新日期：2015-01-01 00:00:00

abstract：:Several mono-, di-, tetra-, penta- and nonaribozymes were developed. These multitarget-ribozymes were targeted to cleave HIV-1 env RNA at up to nine different conserved sites. Each multitarget-ribozyme consisted of a chain of up to nine hammerhead motifs, each flanked by a different targeting sequence. The multitarget...

journal_title：Nucleic acids research

authors： Chen CJ,Banerjea AC,Harmison GG,Haglund K,Schubert M

更新日期：1992-09-11 00:00:00

abstract：:Members of the Tc1/mariner superfamily of transposable elements isolated from vertebrates are transpositionally inactive due to the accumulation of mutations in their transposase genes. A novel open reading frame-trapping method was used to isolate uninterrupted transposase coding regions from the genome of the frog s...

journal_title：Nucleic acids research

authors： Miskey C,Izsvák Z,Plasterk RH,Ivics Z

更新日期：2003-12-01 00:00:00

abstract：:RNArchitecture is a database that provides a comprehensive description of relationships between known families of structured non-coding RNAs, with a focus on structural similarities. The classification is hierarchical and similar to the system used in the SCOP and CATH databases of protein structures. Its central leve...

journal_title：Nucleic acids research

authors： Boccaletto P,Magnus M,Almeida C,Zyla A,Astha A,Pluta R,Baginski B,Jankowska E,Dunin-Horkawicz S,Wirecki TK,Boniecki MJ,Stefaniak F,Bujnicki JM

更新日期：2018-01-04 00:00:00

abstract：:Escherichia coli MutY is an adenine and a weak guanine DNA glycosylase involved in reducing mutagenic effects of 7,8-dihydro-8-oxo-guanine (8-oxoG). The C-terminal domain of MutY is required for 8-oxoG recognition and is critical for mutation avoidance of oxidative damage. To determine which residues of this domain ar...

journal_title：Nucleic acids research

authors： Li L,Lu AL

更新日期：2003-06-15 00:00:00

abstract：:The nucleotide sequence of a Pseudomonas trans-zeatin producing gene (ptz) from the pCK1 plasmid of Pseudomonas syringae pv. savastanoi strain 1006 has been determined. This gene confers upon E. coli the ability to synthesize and secrete several cytokinins including trans-zeatin, iso-pentenyladenine and their respecti...

journal_title：Nucleic acids research

authors： Powell GK,Morris RO

更新日期：1986-03-25 00:00:00

abstract：:Nucleotide excision repair (NER) mechanism is the major pathway responsible for the removal of a large variety of bulky lesions from the genome. Two different NER subpathways have been identified, i.e. the transcription-coupled and the global genome repair pathways. For DNA-damage induced by ultraviolet light both tra...

journal_title：Nucleic acids research

authors： van Oosterwijk MF,Filon R,Kalle WH,Mullenders LH,van Zeeland AA

更新日期：1996-12-01 00:00:00

abstract：:Transcript of the rbpA1 gene in Anabaena variabilis accumulates significantly at low growth temperatures below 28 degreesC. This accumulation was maximal at 16 degreesC. Accumulation of the rbpA1 transcript was completely abolished by rifampicin, but not by chloramphenicol. Photosynthesis was not required for this col...

journal_title：Nucleic acids research

authors： Sato N,Nakamura A

更新日期：1998-05-01 00:00:00

abstract：:Despite much information as to the structure and function of the general transcription factors, little is known about the regulation of their expression. Transcription of the Saccharomyces cerevisiae SUA7 (TFIIB) gene results in the formation of two discrete transcripts. It was originally reported that the two transcr...

journal_title：Nucleic acids research

authors： Hoopes BC,Bowers GD,DiVisconte MJ

更新日期：2000-11-15 00:00:00

abstract：:Although the involvement of Ser/Arg-rich (SR) proteins in RNA metabolism is well documented, their role in vertebrate development remains elusive. We, therefore, elected to take advantage of the zebrafish model organism to study the SR genes' functions using the splicing morpholino (sMO) microinjection and the program...

journal_title：Nucleic acids research

authors： Joris M,Schloesser M,Baurain D,Hanikenne M,Muller M,Motte P

更新日期：2017-09-19 00:00:00

abstract：:The presence of the C.C mispair in a defined duplex oligodeoxynucleotide enhanced its capacity to serve as a substrate for highly purified human DNA methyltransferase. Analysis of tritiated reaction products showed that the C.C mispair acted as a "methylation acceptor" in that it was itself rapidly methylated. The m5C...

journal_title：Nucleic acids research

authors： Smith SS,Hardy TA,Baker DJ

更新日期：1987-09-11 00:00:00

abstract：:Perturbation and time-course data sets, in combination with computational approaches, can be used to infer transcriptional regulatory networks which ultimately govern the developmental pathways and responses of cells. Here, we individually knocked down the four transcription factors PU.1, IRF8, MYB and SP1 in the huma...

journal_title：Nucleic acids research

authors： Vitezic M,Lassmann T,Forrest AR,Suzuki M,Tomaru Y,Kawai J,Carninci P,Suzuki H,Hayashizaki Y,Daub CO

更新日期：2010-12-01 00:00:00