Monitoring denaturation behaviour and comparative stability of DNA triple helices using oligonucleotide-gold nanoparticle conjugates.

abstract：:Three-dimensional protein structures provide invaluable information for understanding and regulating biological functions of proteins. The GalaxyWEB server predicts protein structure from sequence by template-based modeling and refines loop or terminus regions by ab initio modeling. This web server is based on the met...

journal_title：Nucleic acids research

authors： Ko J,Park H,Heo L,Seok C

更新日期：2012-07-01 00:00:00

abstract：:The Génolevures online database (http://cbi.labri.fr/Genolevures/ and http://genolevures.org/) provides exploratory tools and curated data sets relative to nine complete and seven partial genome sequences determined and manually annotated by the Génolevures Consortium, to facilitate comparative genomic studies of Hemi...

journal_title：Nucleic acids research

authors： Sherman DJ,Martin T,Nikolski M,Cayla C,Souciet JL,Durrens P,Génolevures Consortium.

更新日期：2009-01-01 00:00:00

abstract：:We have exploited properties of photosensitizers to study an aspect of the packing of chromatin in the cell nucleus. The fluorescent photosensitizers mesotetra(3-hydroxyphenyl) porphyrin and Photofrin II were both localized in the nuclear membrane and other membrane structures, but could not be found inside the nuclei...

journal_title：Nucleic acids research

authors： Kvam E,Stokke T,Moan J,Steen HB

更新日期：1992-12-25 00:00:00

abstract：:Pyrrole-imidazole polyamides targeted to the androgen response element were cytotoxic in multiple cell lines, independent of intact androgen receptor signaling. Polyamide treatment induced accumulation of S-phase cells and of PCNA replication/repair foci. Activation of a cell cycle checkpoint response was evidenced by...

journal_title：Nucleic acids research

authors： Martínez TF,Phillips JW,Karanja KK,Polaczek P,Wang CM,Li BC,Campbell JL,Dervan PB

更新日期：2014-10-01 00:00:00

abstract：:An improved contact hybridization technique for the analysis of labelled RNA species is presented. The method combines high sensitivity of detection with the high resolution of polyacrylamide gel electrophoresis and should be especially useful for the characterization of transient RNA precursor molecules. Its applicat...

journal_title：Nucleic acids research

authors： Burckhardt J,Telford J,Birnstiel ML

更新日期：1979-07-11 00:00:00

abstract：:The TransTerm database of termination codon contexts has been extended to include sense codon usage, and initiation codon contexts. The database was constructed from 23,721 coding sequences from 93 organisms. The database contains: a) the sequence around the termination codon (-10, +10); b) the sequence around the ini...

journal_title：Nucleic acids research

authors： Brown CM,Stockwell PA,Dalphin ME,Tate WP

更新日期：1994-09-01 00:00:00

abstract：:Bleomycin B(2)(BLM) in the presence of iron [Fe(II)] and O(2)catalyzes single-stranded (ss) and double-stranded (ds) cleavage of DNA. Electrospray ionization ion trap mass spectrometry was used to monitor these cleavage processes. Two duplex oligonucleotides containing an ethylene oxide tether between both strands wer...

journal_title：Nucleic acids research

authors： Harsch A,Marzilli LA,Bunt RC,Stubbe J,Vouros P

更新日期：2000-05-01 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：:The Gene Expression Database (GXD) is a community resource of gene expression information for the laboratory mouse. By combining the different types of expression data, GXD aims to provide increasingly complete information about the expression profiles of genes in different mouse strains and mutants, thus enabling val...

journal_title：Nucleic acids research

authors： Ringwald M,Eppig JT,Begley DA,Corradi JP,McCright IJ,Hayamizu TF,Hill DP,Kadin JA,Richardson JE

更新日期：2001-01-01 00:00:00

abstract：:Genotoxic stress induces alternative splicing of the oncogene MDM2 generating MDM2-ALT1, an isoform attributed with tumorigenic properties. However, the mechanisms underlying this event remain unclear. Here we explore MDM2 splicing regulation by utilizing a novel minigene that mimics endogenous MDM2 splicing in respon...

journal_title：Nucleic acids research

authors： Comiskey DF Jr,Jacob AG,Singh RK,Tapia-Santos AS,Chandler DS

更新日期：2015-04-30 00:00:00

abstract：:ProtoNet is an automatic hierarchical classification of the protein sequence space. In 2004, the ProtoNet (version 4.0) presents the analysis of over one million proteins merged from SwissProt and TrEMBL databases. In addition to rich visualization and analysis tools to navigate the clustering hierarchy, we incorporat...

journal_title：Nucleic acids research

authors： Kaplan N,Sasson O,Inbar U,Friedlich M,Fromer M,Fleischer H,Portugaly E,Linial N,Linial M

更新日期：2005-01-01 00:00:00

abstract：:G-quadruplex (G4) DNA structures can form physical barriers within the genome that must be unwound to ensure cellular genomic integrity. Here, we report unanticipated roles for the Escherichia coli Rep helicase and RecA recombinase in tolerating toxicity induced by G4-stabilizing ligands in vivo. We demonstrate that R...

journal_title：Nucleic acids research

authors： Paul T,Voter AF,Cueny RR,Gavrilov M,Ha T,Keck JL,Myong S

更新日期：2020-07-09 00:00:00

abstract：:Potential promoters in the genome of Escherichia coli were searched by pattern recognition software PlatProm and classified on the basis of positions relative to gene borders. Beside the expected promoters located in front of the coding sequences we found a considerable amount of intragenic promoter-like signals with ...

journal_title：Nucleic acids research

authors： Shavkunov KS,Masulis IS,Tutukina MN,Deev AA,Ozoline ON

更新日期：2009-08-01 00:00:00

abstract：:Nuclear DNA from liver cells of the kangaroo rat species Dipodomysordii was fractionated and characterized with the aid of buoyant density gradients in neutral and alkaline CsCl and in Ag(+)-Cs(2)SO(4). More than one-half of the DNA was present in three density satellites, a greater proportion than in any other specie...

journal_title：Nucleic acids research

authors： Hatch FT,Mazrimas JA

更新日期：1974-04-01 00:00:00

abstract：:The dissection of RNA editing mechanisms in PHYSARUM: mitochondria has been hindered by the absence of a soluble in vitro system. Based on our studies in isolated mitochondria, insertion of non-encoded nucleotides into PHYSARUM: mitochondrial RNAs is closely linked to transcription. Here we have fractionated mitochond...

journal_title：Nucleic acids research

authors： Cheng YW,Gott JM

更新日期：2000-10-01 00:00:00

abstract：:We analysed the basic mechanisms of signal transmission in DNA and the origins of the allostery exhibited by systems such as the ternary complex BAMHI-DNA-GRDBD. We found that perturbation information generated by a primary protein binding event travels as a wave to distant regions of DNA following a hopping mechanism...

journal_title：Nucleic acids research

authors： Balaceanu A,Pérez A,Dans PD,Orozco M

更新日期：2018-09-06 00:00:00

abstract：:TropGeneDB (http://tropgenedb.cirad.fr) was created to store genetic, molecular and phenotypic data on tropical crop species. The most common data stored in TropGeneDB are molecular markers, quantitative trait loci, genetic and physical maps, genetic diversity, phenotypic diversity studies and information on genetic r...

journal_title：Nucleic acids research

authors： Hamelin C,Sempere G,Jouffe V,Ruiz M

更新日期：2013-01-01 00:00:00

abstract：:Short repetitive DNA sequences are believed to be one of the primordial genetic elements that served as a source of complex large DNA found in the genome of modern organisms. However, the mechanism of its expansion (increase in repeat number) during the course of evolution is unclear. We demonstrate that the DNA polym...

journal_title：Nucleic acids research

authors： Ogata N,Morino H

更新日期：2000-10-15 00:00:00

abstract：:We present a simple and highly accurate computational method for operon prediction, based on intergenic distances and functional relationships between the protein products of contiguous genes, as defined by STRING database (Jensen,L.J., Kuhn,M., Stark,M., Chaffron,S., Creevey,C., Muller,J., Doerks,T., Julien,P., Roth,...

journal_title：Nucleic acids research

authors： Taboada B,Verde C,Merino E

更新日期：2010-07-01 00:00:00

abstract：:The transcription factor CHOP/GADD153 gene is induced by cellular stress and is involved in mediating apoptosis. We report the identification of a conserved region in the promoter of the CHOP gene responsible for its inducibility by endoplasmic reticulum (ER) stress. Deletion mutants of the human CHOP promoter identif...

journal_title：Nucleic acids research

authors： Ubeda M,Habener JF

更新日期：2000-12-15 00:00:00

abstract：:Melanotransferrin (MTf) is a tumor associated antigen found in abundance on the surface of melanoma cells. It is a transferrin-like protein found in low amount in most adult tissues and whose gene is reminiscent of house-keeping genes. With the goal of understanding the regulatory mechanisms which might explain the en...

journal_title：Nucleic acids research

authors： Duchange N,Ochoa A,Plowman GD,Rozé A,Amdjadi M,Zakin MM

更新日期：1992-06-11 00:00:00

abstract：:Impaired DNA damage repair, especially deficient transcription-coupled nucleotide excision repair, leads to segmental progeroid syndromes in human patients as well as in rodent models. Furthermore, DNA double-strand break signalling has been pinpointed as a key inducer of cellular senescence. Several recent findings s...

journal_title：Nucleic acids research

authors： Grillari J,Katinger H,Voglauer R

更新日期：2007-01-01 00:00:00

abstract：:A simple, reproducible affinity chromatography method has been adapted for separation of high molecular weight supercoiled circular molecules from mammalian cells. Electron microscopic analysis of EB viral DNA obtained by this method, from the non-producer Burkitt's lymphoma line Raji, revealed monomer-sized viral mol...

journal_title：Nucleic acids research

authors： Kinchington D,Griffin BE

更新日期：1987-12-23 00:00:00

abstract：:Transcription and mRNA export are linked processes. However, the molecular mechanisms of this coordination are not clear. Sus1 (hENY2) participates in this coordination as part of two protein complexes: SAGA, a transcriptional co-activator; TREX-2, which functions in mRNA biogenesis and export. Here, we investigate th...

journal_title：Nucleic acids research

authors： García-Oliver E,Pascual-García P,García-Molinero V,Lenstra TL,Holstege FC,Rodríguez-Navarro S

更新日期：2013-06-01 00:00:00

abstract：:Transcriptional repression and activation by nuclear receptors (NRs) are brought about by coregulator complexes. These complexes modify the chromatin environment of target genes and affect the activity of the basal transcription machinery. We have previously implicated the yeast ADA3 protein in transcriptional activat...

journal_title：Nucleic acids research

authors： Benecke A,Gaudon C,Garnier JM,vom Baur E,Chambon P,Losson R

更新日期：2002-06-01 00:00:00

abstract：:Kinetically monitored, reverse transcriptase-initiated PCR (kinetic RT-PCR, kRT-PCR) is a novel application of kinetic PCR for high throughput transcript quantitation in total cellular RNA. The assay offers the simplicity and flexibility of an enzyme assay with distinct advantages over DNA microarray hybridization and...

journal_title：Nucleic acids research

authors： Kang JJ,Watson RM,Fisher ME,Higuchi R,Gelfand DH,Holland MJ

更新日期：2000-01-15 00:00:00

abstract：:We report here the first successful generation of a chromosome-enriched library from flow sorted plant chromosomes. Chromosomes with a characteristic DNA content (a peak) were sorted from a synchronized cell culture (TaKB1, derived from Triticum aestivum). A HpaII library was constructed from the sorted chromosomes an...

journal_title：Nucleic acids research

authors： Wang ML,Leitch AR,Schwarzacher T,Heslop-Harrison JS,Moore G

更新日期：1992-04-25 00:00:00

abstract：:Classical simulations of protein flexibility remain computationally expensive, especially for large proteins. A few years ago, we developed a fast method for predicting protein structure fluctuations that uses a single protein model as the input. The method has been made available as the CABS-flex web server and appli...

journal_title：Nucleic acids research

authors： Kuriata A,Gierut AM,Oleniecki T,Ciemny MP,Kolinski A,Kurcinski M,Kmiecik S

更新日期：2018-07-02 00:00:00

abstract：:Natural transformation is a major mechanism of horizontal gene transfer in bacteria that depends on DNA recombination. RecA is central to the homologous recombination pathway, catalyzing DNA strand invasion and homology search. DprA was shown to be a key binding partner of RecA acting as a specific mediator for its lo...

journal_title：Nucleic acids research

authors： Lisboa J,Andreani J,Sanchez D,Boudes M,Collinet B,Liger D,van Tilbeurgh H,Guérois R,Quevillon-Cheruel S

更新日期：2014-06-01 00:00:00

abstract：:In most bacteria, two tRNAs decode the four arginine CGN codons. One tRNA harboring a wobble inosine (tRNA(Arg)ICG) reads the CGU, CGC and CGA codons, whereas a second tRNA harboring a wobble cytidine (tRNA(Arg)CCG) reads the remaining CGG codon. The reduced genomes of Mycoplasmas and other Mollicutes lack the gene en...

journal_title：Nucleic acids research

authors： Yokobori S,Kitamura A,Grosjean H,Bessho Y

更新日期：2013-07-01 00:00:00