Transcriptional and post-transcriptional regulation of storage protein gene expression in sulfur-deficient pea seeds.

abstract：:Nucleoside 3'-phosphoramidite and chlorophosphite reagents have been found to react with the lactam function of guanine. This reaction caused unsatisfactory results when oligodeoxyribonucleotides containing a large number of guanine bases were prepared in an automated solid phase synthesizer. The guanine modification ...

journal_title：Nucleic acids research

authors： Pon RT,Damha MJ,Ogilvie KK

更新日期：1985-09-25 00:00:00

abstract：:RNA levels in a cell are regulated by the relative rates of RNA synthesis and decay. We recently developed a new approach for measuring both RNA synthesis and decay in a single experimental setting by biosynthetic labeling of newly transcribed RNA. Here, we show that this provides measurements of RNA half-lives from m...

journal_title：Nucleic acids research

authors： Friedel CC,Dölken L,Ruzsics Z,Koszinowski UH,Zimmer R

更新日期：2009-09-01 00:00:00

abstract：:Hybridization intensities of 30 distinct short duplex DNAs measured on spotted microarrays, were directly compared with thermodynamic stabilities measured in solution. DNA sequences were designed to promote formation of perfect match, or hybrid duplexes containing tandem mismatches. Thermodynamic parameters DeltaH deg...

journal_title：Nucleic acids research

authors： Fish DJ,Horne MT,Brewood GP,Goodarzi JP,Alemayehu S,Bhandiwad A,Searles RP,Benight AS

更新日期：2007-01-01 00:00:00

abstract：:A requirement for specific RNA folding is that the free-energy landscape discriminate against non-native folds. While tertiary interactions are critical for stabilizing the native fold, they are relatively non-specific, suggesting additional mechanisms contribute to tertiary folding specificity. In this study, we use ...

journal_title：Nucleic acids research

authors： Mustoe AM,Al-Hashimi HM,Brooks CL 3rd

更新日期：2016-01-08 00:00:00

abstract：:Fundamental aspects of the biochemistry of Type III restriction endonucleases remain unresolved despite being characterized by numerous research groups in the past decades. One such feature is the subunit stoichiometry of these hetero-oligomeric enzyme complexes, which has important implications for the reaction mecha...

journal_title：Nucleic acids research

authors： Butterer A,Pernstich C,Smith RM,Sobott F,Szczelkun MD,Tóth J

更新日期：2014-04-01 00:00:00

abstract：:The eel long interspersed element (LINE) UnaL2 and its partner short interspersed element (SINE) share a conserved 3' tail that is critical for their retrotransposition. The predicted secondary structure of the conserved 3' tail of UnaL2 RNA contains a stem region with a putative internal loop. Deletion of the putativ...

journal_title：Nucleic acids research

authors： Nomura Y,Kajikawa M,Baba S,Nakazato S,Imai T,Sakamoto T,Okada N,Kawai G

更新日期：2006-01-01 00:00:00

abstract：:PubChem (http://pubchem.ncbi.nlm.nih.gov) is a public repository for biological activity data of small molecules and RNAi reagents. The mission of PubChem is to deliver free and easy access to all deposited data, and to provide intuitive data analysis tools. The PubChem BioAssay database currently contains 500,000 des...

journal_title：Nucleic acids research

authors： Wang Y,Xiao J,Suzek TO,Zhang J,Wang J,Zhou Z,Han L,Karapetyan K,Dracheva S,Shoemaker BA,Bolton E,Gindulyte A,Bryant SH

更新日期：2012-01-01 00:00:00

abstract：:A highly polymorphic locus associated with the variable tandem repetition of a 35 bp consensus sequence was mapped to chromosome 10, band q26. Examination of leukocyte DNA from a cancer patient revealed the twenty-fold amplification of one allelic fragment of this locus, while the other allelic fragment demonstrated a...

journal_title：Nucleic acids research

authors： Colb M,Yang-Feng T,Francke U,Mermer B,Parkinson DR,Krontiris TG

更新日期：1986-10-24 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：:DNA restriction fragments located 5' to the human c-myc gene display anomalous electrophoretic mobility on polyacrylamide gels. Computer modeling of the c-myc flanking DNA suggests that the slow-moving DNA fragments spanning nucleotides -1690 to -1054 (relative to c-myc promoter P1) and -718 to -452 form large left ha...

journal_title：Nucleic acids research

authors： Kumar S,Leffak M

更新日期：1989-04-11 00:00:00

abstract：:Targeted delivery of antisense oligonucleotides (ASO) to hepatocytes via the asialoglycoprotein receptor (ASGR) has improved the potency of ASO drugs ∼30-fold in the clinic (1). In order to fully characterize the effect of GalNAc valency, oligonucleotide length, flexibility and chemical composition on ASGR binding, we...

journal_title：Nucleic acids research

authors： Schmidt K,Prakash TP,Donner AJ,Kinberger GA,Gaus HJ,Low A,Østergaard ME,Bell M,Swayze EE,Seth PP

更新日期：2017-03-17 00:00:00

abstract：:The Gene Expression Atlas (http://www.ebi.ac.uk/gxa) is an added-value database providing information about gene expression in different cell types, organism parts, developmental stages, disease states, sample treatments and other biological/experimental conditions. The content of this database derives from curation, ...

journal_title：Nucleic acids research

authors： Kapushesky M,Emam I,Holloway E,Kurnosov P,Zorin A,Malone J,Rustici G,Williams E,Parkinson H,Brazma A

更新日期：2010-01-01 00:00:00

abstract：:The Zebrafish Information Network (ZFIN) (https://zfin.org/) is the database for the model organism, zebrafish (Danio rerio). ZFIN expertly curates, organizes, and provides a wide array of zebrafish genetic and genomic data, including genes, alleles, transgenic lines, gene expression, gene function, mutant phenotypes,...

journal_title：Nucleic acids research

authors： Howe DG,Ramachandran S,Bradford YM,Fashena D,Toro S,Eagle A,Frazer K,Kalita P,Mani P,Martin R,Moxon ST,Paddock H,Pich C,Ruzicka L,Schaper K,Shao X,Singer A,Van Slyke CE,Westerfield M

更新日期：2021-01-08 00:00:00

abstract：:The GWIPS-viz browser (http://gwips.ucc.ie/) is an on-line genome browser which is tailored for exploring ribosome profiling (Ribo-seq) data. Since its publication in 2014, GWIPS-viz provides Ribo-seq data for an additional 14 genomes bringing the current total to 23. The integration of new Ribo-seq data has been auto...

journal_title：Nucleic acids research

authors： Michel AM,Kiniry SJ,O'Connor PBF,Mullan JP,Baranov PV

更新日期：2018-01-04 00:00:00

abstract：:Most small nucleolar RNAs (snoRNAs) guide rRNA nucleotide modifications, some participate in pre-rRNA cleavages, and a few have both functions. These activities involve direct base-pairing of the snoRNA with pre-rRNA using different domains. It is not known if the modification and processing functions occur independen...

journal_title：Nucleic acids research

authors： Liang XH,Liu Q,Liu Q,King TH,Fournier MJ

更新日期：2010-06-01 00:00:00

abstract：:The chemical reactivity of matched T and C bases to osmium tetroxide and hydroxylamine near mismatched and unmatched bases in a heteroduplex between two strands of DNA with multiple differences was examined. Data was available for matched bases one or two positions away from 24 mismatches. Reactive bases were found ne...

journal_title：Nucleic acids research

authors： Cotton RG,Campbell RD

更新日期：1989-06-12 00:00:00

abstract：:The nucleotide sequence of a 981 bp's HincII-PvuII DNA fragment containing the 3' end of the malEFG operon in E. coli was determined. This sequence displayed a putative Rho-independent transcription termination site localized 87 bp's after the stop codon of malG. When cloned into plasmid pKG1800, the HincII-PvuII frag...

journal_title：Nucleic acids research

authors： Francoz E,Dassa E

更新日期：1988-05-11 00:00:00

abstract：:During the last years, the demand for custom-made cDNA chips/arrays as well as whole genome chips is increasing rapidly. The efficient selection of gene-specific primers/oligomers is of the utmost importance for the successful production of such chips. We developed GenomePRIDE, a highly flexible and scalable software ...

journal_title：Nucleic acids research

authors： Haas SA,Hild M,Wright AP,Hain T,Talibi D,Vingron M

更新日期：2003-10-01 00:00:00

abstract：:The principal early promoter of human papillomaviruses (HPVs), designated P97 in the case of HPV-16, contains four characteristically aligned cis-responsive elements, namely one binding site for Sp1, two for the viral E2 proteins, and the TATA box. The Sp1 binding site is needed to mediate activation of P97 by the rem...

journal_title：Nucleic acids research

authors： Tan SH,Gloss B,Bernard HU

更新日期：1992-01-25 00:00:00

abstract：:More than one-third of the RAG1 protein can be truncated from the N-terminus with only subtle effects on the products of V(D)J recombination in vitro or in a mouse. What, then, is the function of the N-terminal domain? We believe it to be regulatory. We determined, several years ago, that an included RING motif could ...

journal_title：Nucleic acids research

authors： Maitra R,Sadofsky MJ

更新日期：2009-06-01 00:00:00

abstract：:We have used DNase I footprinting to examine the association kinetics of GA-, GT- and CT-containing oligonucleotides with the target sequence (GGA)5GG. (CCT)5CC. These reactions are slow yielding bimolecular association rate constants between 50 and 2000 M-1s-1. We find that GT-containing oligonucleotides bind much fa...

journal_title：Nucleic acids research

authors： Paes HM,Fox KR

更新日期：1997-08-15 00:00:00

abstract：:The U1A protein is a sequence-specific RNA binding protein found in the U1 snRNP particle where it binds to stem/loop II of U1 snRNA. U1A contains two 'RNP' or 'RRM' (RNA Recognition Motif) domains, which are common to many RNA-binding proteins. The N-terminal RRM has been shown to bind specifically to the U1 RNA stem...

journal_title：Nucleic acids research

authors： Hall KB,Stump WT

更新日期：1992-08-25 00:00:00

abstract：:DNA methylation plays a crucial role in the establishment of tissue-specific gene expression and the regulation of key biological processes. However, our present inability to predict the effect of genome sequence variation on DNA methylation precludes a comprehensive assessment of the consequences of non-coding variat...

journal_title：Nucleic acids research

authors： Zeng H,Gifford DK

更新日期：2017-06-20 00:00:00

abstract：:Eukaryotic RNases H from Saccharomyces cerevisiae , Schizosaccharomyces pombe and Crithidia fasciculata , unlike the related Escherichia coli RNase HI, contain a non-RNase H domain with a common motif. Previously we showed that S.cerevisiae RNase H1 binds to duplex RNAs (either RNA-DNA hybrids or double-stranded RNA) ...

journal_title：Nucleic acids research

authors： Cerritelli SM,Fedoroff OY,Reid BR,Crouch RJ

更新日期：1998-04-01 00:00:00

abstract：:The DNA unwinding element (DUE) is a sequence rich in adenine and thymine residues present within the origin region of both prokaryotic and eukaryotic replicons. Recently, it has been shown that this is the site where bacterial DnaA proteins, the chromosomal replication initiators, form a specific nucleoprotein filame...

journal_title：Nucleic acids research

authors： Wegrzyn K,Fuentes-Perez ME,Bury K,Rajewska M,Moreno-Herrero F,Konieczny I

更新日期：2014-07-01 00:00:00

abstract：:Starting from a synthetic E. coli promoter with the consensus sequences at -35 and -10 regions, a sequence CAT frequently occurred in the RNA start points of natural promoters was introduced in the downstream of the consensus sequences, and the sequences around the RNA start points as well as the relative positions of...

journal_title：Nucleic acids research

authors： Aoyama T,Takanami M

更新日期：1985-06-11 00:00:00

abstract：:In order to study the intragenic profiles of active transcription, we determined the relative levels of active RNA polymerase II present at the 3'- and 5'-ends of 261 yeast genes by run-on. The results obtained indicate that the 3'/5' run-on ratio varies among the genes studied by over 12 log(2) units. This ratio seem...

journal_title：Nucleic acids research

authors： Rodríguez-Gil A,García-Martínez J,Pelechano V,Muñoz-Centeno Mde L,Geli V,Pérez-Ortín JE,Chávez S

更新日期：2010-08-01 00:00:00

abstract：:PKR is a doubled-stranded RNA-dependent protein kinase which is implicated in the regulation of several cellular processes, including cell proliferation. PKR undergoes phosphorylation and activation in mouse embryonic 3T3-F442A cells in response to endogenous RNA(s). Activation of PKR is related to growth and differen...

journal_title：Nucleic acids research

authors： Petryshyn RA,Ferrenz AG,Li J

更新日期：1997-07-01 00:00:00

abstract：:Transcriptional interference between adjacent genes has been demonstrated in a variety of biological systems. To study this process in RNA polymerase II (pol II) transcribed genes we have analysed the effect of transcription on tandem HIV-1 promoters integrated into the genome of HeLa cells. We show that transcription...

journal_title：Nucleic acids research

authors： Greger IH,Demarchi F,Giacca M,Proudfoot NJ

更新日期：1998-03-01 00:00:00

abstract：:DNA tandem repeats (TRs) are ubiquitous genomic features which consist of two or more adjacent copies of an underlying pattern sequence. The copies may be identical or approximate. Variable number of tandem repeats or VNTRs are polymorphic TR loci in which the number of pattern copies is variable. In this paper we des...

journal_title：Nucleic acids research

authors： Gelfand Y,Hernandez Y,Loving J,Benson G

更新日期：2014-08-01 00:00:00