Abstract:
:Computer programs, implemented on an Univac II00/80 computer system, for the identification and characterization of protein coding genes and for the analysis of nucleic acid sequences, are described.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Pierno G,Barni N,Candurro M,Cipollaro M,Franzè A,Juliano L,Macchiato MF,Mastrocinque G,Moscatelli C,Scarlato Vdoi
10.1093/nar/12.1part1.281subject
Has Abstract,Author List Incompletepub_date
1984-01-11 00:00:00pages
281-5issue
1 Pt 1eissn
0305-1048issn
1362-4962journal_volume
12pub_type
杂志文章abstract::The interpretation of data-driven experiments in genomics often involves a search for biological categories that are enriched for the responder genes identified by the experiments. However, knowledge bases such as the Gene Ontology (GO) contain hundreds or thousands of categories with very high overlap between categor...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq045
更新日期:2010-06-01 00:00:00
abstract::The crystal structure of the DNA dodecamer duplex CATGGGCCCATG lies on a structural continuum along the transition between A- and B-DNA. The dodecamer possesses the normal vector plot and inclination values typical of B-DNA, but has the crystal packing, helical twist, groove width, sugar pucker, slide and x-displaceme...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkf515
更新日期:2002-09-15 00:00:00
abstract::The Structural Classification of Proteins (SCOP) database is a comprehensive ordering of all proteins of known structure, according to their evolutionary and structural relationships. Protein domains in SCOP are hierarchically classified into families, superfamilies, folds and classes. The continual accumulation of se...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh039
更新日期:2004-01-01 00:00:00
abstract::We have examined the expression and structure of several genes belonging to two classes of vegetative specific genes of the simple eukaryote, Dictyostelium discoideum. In amebae grown on bacteria, deactivation of all vegetative specific genes occurred at the onset of development and very little mRNA exists by 8 to 10 ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.23.9679
更新日期:1989-12-11 00:00:00
abstract::Using total internal reflection fluorescence microscopy, we directly visualize in real-time, the 1D Brownian motion and transcription elongation of T7 RNA polymerase along aligned DNA molecules bound to substrates by molecular combing. We fluorescently label T7 RNA polymerase with antibodies and use flow to convect th...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm332
更新日期:2007-01-01 00:00:00
abstract::Telomere G-quadruplex is emerging as a promising anti-cancer target due to its inhibition to telomerase, an enzyme expressed in more than 85% tumors. Telomerase-mediated telomere extension and some other reactions require a free 3' telomere end in single-stranded form. G-quadruplex formation near the 3' end of telomer...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr164
更新日期:2011-08-01 00:00:00
abstract::Intragenomic and intergenomic comparisons of upstream nucleotide sequences of archaeal genes were performed with the goal of predicting transcription regulatory sites (operators) and identifying likely regulons. Learning sets for the detection of regulatory sites were constructed using the available experimental data ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.3.695
更新日期:2000-02-01 00:00:00
abstract::T4 polynucleotide kinase (Pnk) is a bifunctional 5'-kinase/3'-phosphatase that aids in the repair of broken termini in RNA by converting 3'-PO4/5'-OH ends into 3'-OH/5'-PO4 ends, which are then sealed by RNA ligase. Here we have employed site-directed mutagenesis (introducing 31 mutations at 16 positions) to locate ca...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/30.4.1073
更新日期:2002-02-15 00:00:00
abstract::We describe an improved model of DNA replication in Xenopus egg extracts, in which a circular plasmid immobilized on paramagnetic beads is used as a template. DNA synthesis occurred on either circular or linear plasmids coupled to the beads, but only DNA synthesis on the circular plasmid was inhibited by geminin and a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl512
更新日期:2006-07-26 00:00:00
abstract::Initially identified as a factor involved in tyrosine kinase receptor signaling, Grb10-interacting GYF protein 2 (GIGYF2) has later been shown to interact with the 5' cap-binding protein 4EHP as part of a translation repression complex, and to mediate post-transcriptional repression of tethered reporter mRNAs. A curre...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky198
更新日期:2018-06-20 00:00:00
abstract::Methods for increasing the transient level of expression of transfected DNA in cultured Drosophila cells have been examined. Here we show that cells exposed to the steroid hormone 20-hydroxyecdysone for 48h prior to transfection show an 4 to 5 fold increase in the levels of expression of transfected DNA. By analysis, ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.22.9255
更新日期:1987-11-25 00:00:00
abstract::The PSI/TM-Coffee web server performs multiple sequence alignment (MSA) of proteins by combining homology extension with a consistency based alignment approach. Homology extension is performed with Position Specific Iterative (PSI) BLAST searches against a choice of redundant and non-redundant databases. The main nove...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw300
更新日期:2016-07-08 00:00:00
abstract::The DNA sequences at and around the junctions between viral and cellular DNA in the polyoma virus transformed mouse cell line, TS-A-3T3, have been determined. No common sequence specificity or structural features at the joins have been observed. The sequence indicates that the 94K truncated large T antigen found in TS...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.15.4515
更新日期:1982-08-11 00:00:00
abstract::Primers4clades is an easy-to-use web server that implements a fully automatic PCR primer design pipeline for cross-species amplification of novel sequences from metagenomic DNA, or from uncharacterized organisms, belonging to user-specified phylogenetic clades or taxa. The server takes a set of non-aligned protein cod...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp377
更新日期:2009-07-01 00:00:00
abstract::Toxin-antitoxin systems are widespread in bacteria and archaea. They perform diverse functional roles, including the generation of persistence, maintenance of genetic loci and resistance to bacteriophages through abortive infection. Toxin-antitoxin systems have been divided into three types, depending on the nature of...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks231
更新日期:2012-07-01 00:00:00
abstract::The anticancer drug cisplatin reacts with DNA leading to the formation of interstrand and intrastrand cross-links that are the critical cytotoxic lesions. In contrast to cells bearing mutations in other components of the nucleotide excision repair apparatus (XPB, XPD, XPG and CSB), cells defective for the ERCC1-XPF st...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkf479
更新日期:2002-09-01 00:00:00
abstract::Systems biologists aim to decipher the structure and dynamics of signaling and regulatory networks underpinning cellular responses; synthetic biologists can use this insight to alter existing networks or engineer de novo ones. Both tasks will benefit from an understanding of which structural and dynamic features of ne...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv595
更新日期:2015-10-30 00:00:00
abstract::Bulk replicative DNA synthesis in eukaryotes is highly accurate and efficient, primarily because of two DNA polymerases (Pols): Pols δ and ε. The high fidelity of these enzymes is due to their intrinsic base selectivity and proofreading exonuclease activity which, when coupled with post-replication mismatch repair, he...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq1034
更新日期:2011-03-01 00:00:00
abstract::Precursor tRNAAsp molecules, containing a 26-base 5' leader, were treated with diethylpyrocarbonate, 50% hydrazine or anhydrous hydrazine/3M NaCl and then subjected to processing by RNase P RNAs from Escherichia coli or Bacillus subtilis. Fully processed tRNAs and material not successfully cleaved by the catalytic RNA...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.4.885
更新日期:1991-02-25 00:00:00
abstract::On the tandemly linked ribosomal genes of Xenopus laevis, the RNA polymerase transcribes past the 3' end of the 40S coding region and terminates at T3 just upstream of the gene promoter. The close proximity of T3 to the gene promoter, and the functional interdependence of these two elements, has led to the suggestion ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.1.373
更新日期:1989-01-11 00:00:00
abstract::SNiPlay is a web-based tool for detection, management and analysis of genetic variants including both single nucleotide polymorphisms (SNPs) and InDels. Version 3 now extends functionalities in order to easily manage and exploit SNPs derived from next generation sequencing technologies, such as GBS (genotyping by sequ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv351
更新日期:2015-07-01 00:00:00
abstract::The genomic distribution of the abundant eukaryotic d(GA x TC)(n) DNA microsatellite suggests that it could contribute to DNA recombination. Here, it is shown that this type of microsatellite DNA sequence enhances DNA recombination in SV40 minichromosomes, the rate of homologous DNA recombination increasing by as much...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.23.4617
更新日期:2000-12-01 00:00:00
abstract::Influenza A viruses are hosted by numerous avian and mammalian species, which have shaped their evolution into distinct lineages worldwide. The viral genome consists of eight RNA segments that are frequently exchanged between different viruses via a process known as genetic reassortment. A complete genotype nomenclatu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm365
更新日期:2007-07-01 00:00:00
abstract::Allele-specific protospacer adjacent motif (asPAM)-positioning SNPs and CRISPRs are valuable resources for gene therapy of dominant disorders. However, one technical hurdle is to identify the haplotype comprising the disease-causing allele and the distal asPAM SNPs. Here, we describe a novel CRISPR-based method (CRISP...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz1233
更新日期:2020-03-18 00:00:00
abstract::The nematode Caenorhabditis elegans contains a small family of vitellogenin genes which is expressed abundantly, but only in the intestine of the adult hermaphrodite worm. In order to identify possible regulatory elements, we have sequenced the DNA surrounding the 5' ends of five of the six genes. Contained within reg...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.14.5283
更新日期:1985-07-25 00:00:00
abstract::Human cytomegalovirus (HCMV) terminase is composed of subunits pUL56 (130 kDa) and pUL89 ( approximately 75 kDa), encoded by the UL56 and UL89 genes. In a recent investigation, we demonstrated that the main ATPase activity is associated with the large terminase subunit pUL56. The protein has two putative ATP-binding s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg229
更新日期:2003-03-01 00:00:00
abstract::The hexametric T7 helicase (gp4) adopts a spiral lock-washer form and encircles a coil-like DNA (tracking) strand with two nucleotides bound to each subunit. However, the chemo-mechanical coupling mechanism in unwinding has yet to be elucidated. Here, we utilized nanotensioner-enhanced Förster resonance energy transfe...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa057
更新日期:2020-04-06 00:00:00
abstract::We present the PATHOgenic YEAst Search for Transcriptional Regulators And Consensus Tracking (PathoYeastract - http://pathoyeastract.org) database, a tool for the analysis and prediction of transcription regulatory associations at the gene and genomic levels in the pathogenic yeasts Candida albicans and C. glabrata Up...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw817
更新日期:2017-01-04 00:00:00
abstract::RNA can directly bind to purine-rich DNA via Hoogsteen base pairing, forming a DNA:RNA triple helical structure that anchors the RNA to specific sequences and allows guiding of transcription regulators to distinct genomic loci. To unravel the prevalence of DNA:RNA triplexes in living cells, we have established a fast ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky1305
更新日期:2019-03-18 00:00:00
abstract::Characterization of the epigenetic status of individual cells remains a challenge. Current sequencing approaches have limited coverage, and it is difficult to assign an epigenetic status to the transcription state of individual gene alleles in the same cell. To address these limitations, a targeted microscopy-based ep...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkab009
更新日期:2021-01-28 00:00:00