Abstract：
:Various antitumor drugs stabilize DNA topoisomerase II-DNA transient covalent complexes. The complexes distribution along pBR322 DNA was shown previously to depend upon the nature of the drug (Tewey et al. (1984) Science 226, 466-468). The position in pBR322 of DNA cleavage by calf DNA topoisomerase II for 115 such sites stabilized by an ellipticine derivative and the relative frequency of cleavage at most of these sites were determined. The nucleotide sequence surrounding the 25 strongest sites was analyzed and the following ellipticine specific consensus sequence was deduced: 5'-ANCNT(A/G)T.NN(G/C)N(A/G)-3' where cleavage occurs at the indicated mark. A thymine is always present at the 3' end of at least one strand of the strong cleavage sites, and the dinucleotide AT or GT at the 3' end of the break plays a major role in the complex stabilisation. The predictive value of cleavage of the consensus was tested for two regions of SV40 DNA and cleavage was indeed detected at the majority of the sites matching the consensus. Some complexes stabilized by ellipticine are resistant to salt dissociation and this property seems to be correlated with the presence of symmetrical sequences in the cleavage site with a center of symmetry staggered relatively to the center of symmetry of cleavage.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Fossé P,René B,Le Bret M,Paoletti C,Saucier JMdoi
10.1093/nar/19.11.2861keywords:
subject
Has Abstractpub_date
1991-06-11 00:00:00pages
2861-8issue
11eissn
0305-1048issn
1362-4962journal_volume
19pub_type
杂志文章abstract：:The structure of eukaryotic chromatin has been investigated by isolating and analyzing the "accessible" DNA fraction of rat liver chromatin. This DNA fraction has been isolated by titrating the chromatin with the protese-resistant D isomer of polylysine to bind the "accessible" DNA sites. After removal of chromosomal ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/2.5.667
更新日期：1975-05-01 00:00:00
abstract：:The cartilage matrix is composed of characteristic components including type II collagen, aggrecan and link protein. In this paper, we report two DNA elements that regulate the link protein gene. Using transient transfection assays with link protein gene constructs in chondrocytes, chloramphenicol acetyl transferase (...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/23.12.2305
更新日期：1995-06-25 00:00:00
abstract：:MicroRNAs are small (approximately 22 nt) RNAs that regulate gene expression and play important roles in both normal and disease physiology. The use of microarrays for global characterization of microRNA expression is becoming increasingly popular and has the potential to be a widely used and valuable research tool. H...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn932
更新日期：2009-02-01 00:00:00
abstract：:Heteroduplexes between the viral DNA of phiX174 and DNA from the replicative form (RF) of phage G4 were examined by electron microscopy. The single Eco RI site of G4-RF was utilized as a physical marker by preparing the heteroduplexes from the denatured, linear DNA obtained by restricting G4-RF with Eco RI endonucleas...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/6.5.1979
更新日期：1979-01-01 00:00:00
abstract：:Many RNP proteins contain one or more copies of the RNA recognition motif (RRM) and are thought to be involved in cellular RNA metabolism. We have previously characterized in Xenopus a nervous system specific gene, nrp1, that is more similar to the hnRNP A/B proteins than to other known proteins (K. Richter, P. J. Goo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.4.999
更新日期：1993-02-25 00:00:00
abstract：:Mitochondrial DNA is a sensitive target of chemical carcinogens (Backer and Weinstein (1980) Science 209, 297-299), suggesting that mutations of the mitochondrial genome occur in tumor cells. We examined this point by comparing mitochondrial DNA sequences in four rat tumors with those of normal rat liver. Some novel m...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/11.6.1635
更新日期：1983-03-25 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
pub_type： 杂志文章
doi：10.1093/nar/gkx177
更新日期：2017-06-20 00:00:00
abstract：:LRPPRC is a protein that has attracted interest both for its role in post-transcriptional regulation of mitochondrial gene expression and more recently because numerous mutated variants have been characterized as causing severe infantile mitochondrial neurodegeneration. LRPPRC belongs to the pentatricopeptide repeat (...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw575
更新日期：2016-08-19 00:00:00
abstract：:To enhance our knowledge regarding biological pathway regulation, we took an integrated approach, using the biomedical literature, ontologies, network analyses and experimental investigation to infer novel genes that could modulate biological pathways. We first constructed a novel gene network via a pairwise compariso...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku678
更新日期：2014-10-01 00:00:00
abstract：:Multi-modal interactions are frequently observed in intrinsically disordered regions (IDRs) of proteins upon binding to their partners. In many cases, post-translational modifications in IDRs are accompanied by coupled folding and binding. From both molecular simulations and biochemical experiments with mutational stu...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx1297
更新日期：2018-03-16 00:00:00
abstract：:The rat alpha- and bovine alpha s1-casein genes have been isolated and their 5' sequences determined. The rat alpha-, beta-, gamma- and bovine alpha s1-casein genes contain similar 5' exon arrangements in which the 5' noncoding, signal peptide and casein kinase phosphorylation sequences are each encoded by separate ex...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.4.1883
更新日期：1986-02-25 00:00:00
abstract：:The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is a repository for the submission, maintenance and presentation of nucleotide sequence data and related sample and experimental information. In this article we report on ENA in 2015 regarding general activity, notable published data sets and major achiev...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv1311
更新日期：2016-01-04 00:00:00
abstract：:Prokaryotic genomic DNA is generally negatively supercoiled in vivo. Many regulatory processes, including the initiation of transcription, are known to depend on the superhelical state of the DNA substrate. The stresses induced within DNA by negative superhelicity can destabilize the DNA duplex at specific sites. Vari...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkj007
更新日期：2006-01-01 00:00:00
abstract：:Little is known about the regulation of the DNA damage-mediated gene expression in archaea. Here we report that the addition of actinomycin D to Sulfolobus solfataricus cultures triggers the expression of the radA paralogue sso0777. Furthermore, a specific retarded band is observed when electrophoretic mobility shift ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm782
更新日期：2007-01-01 00:00:00
abstract：:The yeast two-hybrid system is frequently used to identify protein-protein interactions. Confirming the specificity of candidate clones requires separation and isolation of yeast plasmids, propagation in bacteria and testing combinations of DNA-binding and activation domain hybrids in yeast. In order to simplify this ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.9.2252
更新日期：1998-05-01 00:00:00
abstract：:We previously reported that O4-alkyl dTTPs could replace, for short times, dTTP in polymer synthesis [Singer et al., PNAS 83, 26-32, 1986]. The reasons for such early termination of synthesis could be either proofreading or the eventual formation of weakly paired primer termini. Utilizing the known 3'----5' exonucleol...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.16.6735
更新日期：1986-08-26 00:00:00
abstract：:The TWIST1 bHLH transcription factor controls embryonic development and cancer processes. Although molecular and genetic analyses have provided a wealth of data on the role of bHLH transcription factors, very little is known on the molecular mechanisms underlying their binding affinity to the E-box sequence of the pro...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw334
更新日期：2016-06-20 00:00:00
abstract：:Phosphorylation of the cellular single-stranded DNA-binding protein, replication protein A (RPA), occurs during normal mitotic cell cycle progression and also in response to genotoxic stress. In budding yeast, these reactions require the ATM homolog Mec1, a central regulator of the DNA replication and DNA damage check...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.23.4808
更新日期：2001-12-01 00:00:00
abstract：:We report the consensus sequence of members of a new dispersed middle-repetitive DNA family, MT, which is present in mouse and rat genomes. This family is shown to be as abundant as the described rodent B1 and B2 families. Hybridization experiments with radioactive single-stranded cDNAs from different tissues indicate...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.16.6403
更新日期：1986-08-26 00:00:00
abstract：:Gene trap vectors developed for genome-wide mutagenesis can be used to study factors governing the expression of exons inserted throughout the genome. For example, entrapment vectors consisting of a partial 3'-terminal exon [i.e. a neomycin resistance gene (Neo), a poly(A) site, but no 3' splice site] were typically e...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkh604
更新日期：2004-05-20 00:00:00
abstract：:NetMHC-3.0 is trained on a large number of quantitative peptide data using both affinity data from the Immune Epitope Database and Analysis Resource (IEDB) and elution data from SYFPEITHI. The method generates high-accuracy predictions of major histocompatibility complex (MHC): peptide binding. The predictions are bas...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn202
更新日期：2008-07-01 00:00:00
abstract：:WorfDB (Worm ORFeome DataBase; http://worfdb.dfci.harvard.edu) was created to integrate and disseminate the data from the cloning of complete set of approximately 19 000 predicted protein-encoding Open Reading Frames (ORFs) of Caenorhabditis elegans (also referred to as the 'worm ORFeome'). WorfDB serves as a central ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkg092
更新日期：2003-01-01 00:00:00
abstract：:We introduce M-Coffee, a meta-method for assembling multiple sequence alignments (MSA) by combining the output of several individual methods into one single MSA. M-Coffee is an extension of T-Coffee and uses consistency to estimate a consensus alignment. We show that the procedure is robust to variations in the choice...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl091
更新日期：2006-03-23 00:00:00
abstract：:We have sequenced the 480 base pair (bp) repeating unit of the 5S RNA genes of the Dipteran fly Calliphora erythrocephala and compared this sequence to the three known 5S RNA gene sequences from the Dipteran Genus Drosophila (1,2). A striking series of five perfectly conserved homologies identically positioned within ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.21.8193
更新日期：1984-11-12 00:00:00
abstract：:Detection of cell-free DNA in liquid biopsies offers great potential for use in non-invasive prenatal testing and as a cancer biomarker. Fetal and tumor DNA fractions however can be extremely low in these samples and ultra-sensitive methods are required for their detection. Here, we report an extremely simple and fast...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw224
更新日期：2016-06-20 00:00:00
abstract：:A growing number of whole genome sequencing projects, in combination with development of phylogenetic methods for reconstructing gene evolution, have provided us with a window into genomes that existed millions, and even billions, of years ago. Ancestral Genomes (http://ancestralgenomes.org) is a resource for comprehe...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky1009
更新日期：2019-01-08 00:00:00
abstract：:We present the complete sequence of an mRNA which is induced by estrogen in the human breast cancer cell line MCF-7 [pS2 mRNA, Masiakowski et al., Nucleic Acids Res. 10, 7895-7903 (1982)]. Primer extension and cloning of double-stranded cDNA (ds-cDNA) into a vector designed to make full-length cDNA were used to determ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.6.2861
更新日期：1984-03-26 00:00:00
abstract：:5' strand resection at DNA double strand breaks (DSBs) is critical for homologous recombination (HR) and genomic stability. Here we develop a novel method to quantitatively measure single-stranded DNA intermediates in human cells and find that the 5' strand at endonuclease-generated break sites is resected up to 3.5 k...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt1309
更新日期：2014-02-01 00:00:00
abstract：:As protein-protein interactions are crucial in most biological processes, it is valuable to understand how and where protein pairs interact. We developed a web server HOMCOS (Homology Modeling of Complex Structure, http://biunit.naist.jp/homcos) to predict interacting protein pairs and interacting sites by homology mo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn218
更新日期：2008-07-01 00:00:00
abstract：:Melting of DNA in a segment bounded at both ends by regions of greater stability during electrophoresis in denaturing gradient gels show complex properties, not accommodated with standard melting theory. Compact bands of some DNA molecules become anomalously broadened at the retardation level in a denaturing gradient,...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/23.14.2775
更新日期：1995-07-25 00:00:00
