Abstract：
:A 200 bp sequence including a stretch of 54 base pairs of alternating guanosine and adenosine nucleotide residues [(dG-dA)27.(dT-dC)27] was cloned in the simian virus 40 (SV40) genome between the KpnI and HpaII sites. This sequence was discovered earlier as part of a region limiting the amplification of sequences adjacent to an integrated polyoma virus in a transformed rat cell line. The newly constructed DNA was transfected into African Green monkey kidney CV1 cells and the variant virus was isolated by plaque-purification. The insertion was stably maintained and the variant virus grew more slowly than the wild type, had lower titers and gave smaller plaques. In mixed infection experiments, the variant was found to be stable, though the wild type replicated more rapidly. Pulse labeling experiments indicated that the unusual inserted sequence acts as a pause site for fork progression during DNA replication, as evidenced by the rate of incorporation of radioactively labeled nucleotides into various regions of the SV40 genome. Statistical fit of the experimental curves with theoretically generated curves suggested the pause of fork progression to be about one minute.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Rao BS,Manor H,Martin RGdoi
10.1093/nar/16.16.8077subject
Has Abstractpub_date
1988-08-25 00:00:00pages
8077-94issue
16eissn
0305-1048issn
1362-4962journal_volume
16pub_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：:Restriction endonucleases are highly specific in recognizing the particular DNA sequence they act on. However, their activity is affected by sequence context, enzyme concentration and buffer composition. Changes in these factors may lead to either ineffective cleavage at the cognate restriction site or relaxed specifi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt257
更新日期：2013-06-01 00:00:00
abstract：:Various in vivo mutagenesis methods have been developed to facilitate fast and efficient continuous evolution of proteins in cells. However, they either modify the DNA region that does not match the target gene, or suffer from low mutation rates. Here, we report a mutator, eMutaT7 (enhanced MutaT7), with very fast in ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkaa1231
更新日期：2021-01-06 00:00:00
abstract：:Functional genomic elements are marked by characteristic DNA and histone modification signatures. How combinatorial chromatin modification states are recognized by epigenetic reader proteins and how this is linked to their biological function is largely unknown. Here we provide a detailed molecular analysis of chromat...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw979
更新日期：2017-02-17 00:00:00
abstract：:The single nucleotide polymorphisms (SNPs) in conserved protein regions have been thought to be strong candidates that alter protein functions. Thus, we have developed SNP@Domain, a web resource, to identify SNPs within human protein domains. We annotated SNPs from dbSNP with protein structure-based as well as sequenc...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl323
更新日期：2006-07-01 00:00:00
abstract：:Cytokines are cell-to-cell signaling proteins that play a central role in immune development, pathogen responses, and diseases. Cytokines are highly regulated at the transcriptional level by combinations of transcription factors (TFs) that recruit cofactors and the transcriptional machinery. Here, we mined through thr...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky787
更新日期：2018-10-12 00:00:00
abstract：:Arylsulfatase, produced by Chlamydomonas reinhardtii during sulfur-limited growth, is secreted into the periplasmic space and is readily assayed using a chromogenic substrate. To assess the usefulness of the gene encoding arylsulfatase (ars) as a reporter gene in C. reinhardtii, we have fused the promoter region of th...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/20.12.2959
更新日期：1992-06-25 00:00:00
abstract：:A type II restriction endonuclease, DraI, isolated from Deinococcus radiophilus ATCC 27603 recognises the palindromic hexanucleotide sequence (formula; see text) and cleaves it, as indicated by the arrows, to produce blunt-ended fragments. The yield of enzyme is 100 to 1000 times that of the only other known type II r...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/11.16.5467
更新日期：1983-08-25 00:00:00
abstract：:It is a central issue to elucidate the new type of molecular recognition accompanied by a global structural change of a molecule upon binding to its targets. Here we investigate the driving force for the binding of R12 (a ribonucleic acid aptamer) and P16 (a partial peptide of a prion protein) during which P16 exhibit...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku382
更新日期：2014-06-01 00:00:00
abstract：:The secondary structures of the 5'-untranslated region (5'-UTR) of five different tymoviruses have been determined by structure probing, computer prediction and sequence comparison. Despite large sequence differences, there are remarkable similarities in the secondary structure. In all viruses two or four hairpins are...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.24.4910
更新日期：1996-12-15 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
pub_type： 杂志文章
doi：10.1093/nar/gkn347
更新日期：2008-07-01 00:00:00
abstract：:We have used photo-crosslinking to investigate the structure and dynamics of four-way junction hairpin ribozyme constructs. Four phenylazide photo-crosslinkers were coupled to 2'-NH2-modified U+2 in the substrate and irradiated at different Mg2+ concentrations and temperatures. Consistent with the role of divalent met...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki237
更新日期：2005-02-18 00:00:00
abstract：:DNA was purified from double minutes isolated from MTX-resistant EL4/8 mouse lymphoma cells, digested to completion with Bam H1 restriction endonuclease and cloned in lambda-1059. The properties of the library suggest that the DNA from which it was made was not detectably contaminated with non-dm chromosome material, ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.21.6597
更新日期：1982-11-11 00:00:00
abstract：:In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data available through NCBI's web site. NCBI resources include Entrez, the Entrez Programming Utiliti...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm1000
更新日期：2008-01-01 00:00:00
abstract：:Primer Design Assistant (PDA) is a web interface primer design service combined with thermodynamic theory to evaluate the fitness of primers. It runs in a Linux-Apache-MySQL-PHP structure on a PC equipped with dual CPU (Intel Pentium III 1.4 GHz) and 512 Mb of RAM. A succinct user interface of PDA is accomplished by b...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkg560
更新日期：2003-07-01 00:00:00
abstract：:The synthetic DNA fragment (formula, see text) (corresponding to nucleotides 4299-4314 of the phi X DNA sequence) was cloned into either the AmpR gene or the KmR gene of plasmid pACYC 177. The DNA sequence of the KmR gene around the insertion site was determined by nucleotide sequence analysis of the pACYC 177 FnudII ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.14.3335
更新日期：1981-07-24 00:00:00
abstract：:Cre recombinase catalyzes the cleavage and religation of DNA at loxP sites. The enzyme is a homotetramer in its functional state, and the symmetry of the protein complex enforces a pseudo-palindromic symmetry upon the loxP sequence. The Cre-lox system is a powerful tool for many researchers. However, broader applicati...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv901
更新日期：2015-10-15 00:00:00
abstract：:Lens epithelium-derived growth factor/p75 (LEDGF/p75) is a transcriptional coactivator involved in stress response, autoimmune disease, cancer and HIV replication. A fusion between the nuclear pore protein NUP98 and LEDGF/p75 has been found in human acute and chronic myeloid leukemia and association of LEDGF/p75 with ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq410
更新日期：2010-10-01 00:00:00
abstract：:Heterotrimeric eukaryotic/archaeal translation initiation factor 2 (e/aIF2) binds initiator methionyl-tRNA and plays a key role in the selection of the start codon on messenger RNA. tRNA binding was extensively studied in the archaeal system. The γ subunit is able to bind tRNA, but the α subunit is required to reach h...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks1180
更新日期：2013-01-01 00:00:00
abstract：:We have examined the behaviour of the beta-interferon promoter in mouse F9 embryonal carcinoma cells. In undifferentiated cells, the beta-interferon promoter is not responsive to dsRNA or to Sendai virus. In cells stimulated to differentiate into parietal endoderm by treatment with retinoic acid, the beta-interferon p...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/22.21.4489
更新日期：1994-10-25 00:00:00
abstract：:Unlike short interfering RNAs (siRNAs), which are commonly designed to repress a single messenger RNA (mRNA) target through perfect base pairing, microRNAs (miRNAs) are endogenous small RNAs that have evolved to concurrently repress multiple mRNA targets through imperfect complementarity. MicroRNA target recognition i...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku171
更新日期：2014-05-01 00:00:00
abstract：:Non-coding genetic variants/mutations can play functional roles in the cell by disrupting regulatory interactions between transcription factors (TFs) and their genomic target sites. For most human TFs, a myriad of DNA-binding models are available and could be used to predict the effects of DNA mutations on TF binding....
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz363
更新日期：2019-07-02 00:00:00
abstract：:VIDA is a new virus database that organizes open reading frames (ORFs) from partial and complete genomic sequences from animal viruses. Currently VIDA includes all sequences from GenBank for Herpesviridae, Coronaviridae and Arteriviridae. The ORFs are organized into homologous protein families, which are identified on...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.1.133
更新日期：2001-01-01 00:00:00
abstract：:An important model system for studying the process leading to productive transcription is provided by the superfamily of nuclear receptors, which are for the most part ligand-controlled transcription factors. Over the past years several 'orphan' nuclear receptors have been isolated for which no ligand has yet been ide...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.16.3424
更新日期：2001-08-15 00:00:00
abstract：:Adaptation of eucaryotic cDNA to heterologous expression was studied by mutating the translation initiation (TI) region upstream (mTI) and downstream (MTI) of the start codon. In the mTI subregion the 8 bases flanking the invariant Shine-Dalgarno motif GG-AG were mutagenized exhaustively, while the MTI subregion was s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/20.12.3127
更新日期：1992-06-25 00:00:00
abstract：:The 16S ribosomal RNA mutation database (16SMDB) provides a list of mutated positions in 16S ribosomal RNA from Escherichia coli and the identity of each alteration. Information provided for each mutation includes: (i) a brief description of the phenotype(s) associated with each mutation; (ii) whether a mutant phenoty...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.1.166
更新日期：1996-01-01 00:00:00
abstract：:A formaldehyde denaturation map of the replicative form of phiX174 DNA is obtained. The RFI DNA was converted into a linear state by restriction endonuclease pst I which introduces into this DNA a single double-stranded break. The map has four clear-cut peaks. Their positions excellently correlate with the peak positi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.7.2493
更新日期：1978-07-01 00:00:00
abstract：:Recurrent chromosome aberrations are an important resource when associating human pathologies to specific genes. However, for technical reasons a large number of chromosome breakpoints are defined only at the level of cytobands and many of the genes involved remain unidentified. We developed a web-based information sy...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki061
更新日期：2005-01-01 00:00:00
abstract：:Differential scanning microcalorimetry (DSC), UV absorption and circular dichroism (CD) have been used to study structure and stability of linear (lin), open circular (oc), supercoiled (cd) and relaxed circular duplex (rd) DNA and calf thymus (CT) DNA. Investigations were made in low salt buffer and in the presence of...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.24.11737
更新日期：1988-12-23 00:00:00
abstract：:To facilitate transcript mapping and to investigate alterations in genomic structure and gene expression in a defined genomic target, we developed a novel microarray-based method to detect transcriptional activity of the human chromosome 4q22-24 region. Loss of heterozygosity of human 4q22-24 is frequently observed in...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnh025
更新日期：2004-02-11 00:00:00
