Abstract:
:The web software SIC provides a tool to search for short inverted segments (length 3-5000 bp) in a DNA sequence. The sequence is assumed to follow a Markov model. A statistic which is sensitive to inversion is presented. Searching inverted segments is done by a scanning approach after the user specifies the size of the scanning window and the order of the Markov chain. A list of the highest score segments is given with an assessment of the randomness of the result. SIC can be accessed via the URL: http://stat.genopole.cnrs.fr/SIC/.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Robelin D,Richard H,Prum Bdoi
10.1093/nar/gkg596keywords:
subject
Has Abstractpub_date
2003-07-01 00:00:00pages
3669-71issue
13eissn
0305-1048issn
1362-4962journal_volume
31pub_type
杂志文章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 adja...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.16.8077
更新日期:1988-08-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg049
更新日期:2003-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw506
更新日期:2016-09-19 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/30.1.301
更新日期:2002-01-01 00:00:00
abstract::Here we report that the poor binding of methylphosphonate oligodeoxynucleosides (MP-ODNs) to their nucleic acid targets can be improved by additional inversion of the anomeric configuration (from beta to alpha) in the sugar moieties to give a new class of analogs, MP alpha-oligonucleosides. MP alpha-dT12and MP 5' alph...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.20.4551
更新日期:1998-10-15 00:00:00
abstract::A gene bank of Staphylococcus aureus strain Cowan I was established using an E. coli HB101/pBR327 host-vector system. Recombinants expressing staphylococcal protein A (SPA) were detected using an IgG-binding assay. A 3.2 Kb DNA fragment directing the synthesis of SPA in E. coli was identified. SPA produced by E. coli ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.10.3065
更新日期:1983-05-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.5.914
更新日期:1996-03-01 00:00:00
abstract::Chromatin immunoprecipitation (ChIP) has ushered in a new era of scientific discovery by allowing new insights into DNA-protein interactions. ChIP is used to quantify enriched genomic regions using qPCR, and more recently is combined with next generation sequencing (ChIP-seq) to obtain a genome wide profile of protein...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky813
更新日期:2019-01-08 00:00:00
abstract::The reactions between purified anti-poly A. poly U and-poly I. poly C. antibodies (IgG and IgM), and synthetic and natural polynucleotides were visualized at the molecular level. This was achieved by the use of fine tungsten bidirectional shadowing of molecules adsorbed onto thin carbon films, combined with dark field...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/8.8.1805
更新日期:1980-04-25 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv501
更新日期:2015-07-13 00:00:00
abstract::Thermophilic viruses represent a novel source of genetic material and enzymes with great potential for use in biotechnology. We have isolated a number of thermophilic viruses from geothermal areas in Iceland, and by combining high throughput genome sequencing and state of the art bioinformatics we have identified a nu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg914
更新日期:2003-12-15 00:00:00
abstract::Homologous recombination (HR) is important in repairing errors of replication and other forms of DNA damage. In mammalian cells, potential templates include the homologous chromosome, and after DNA replication, the sister chromatid. Previous work has shown that the mammalian recombination machinery is organized to sup...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh280
更新日期:2004-02-20 00:00:00
abstract::In this article, we introduce the Gypsy Database (GyDB) of mobile genetic elements, an in-progress database devoted to the non-redundant analysis and evolutionary-based classification of mobile genetic elements. In this first version, we contemplate eukaryotic Ty3/Gypsy and Retroviridae long terminal repeats (LTR) ret...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm697
更新日期:2008-01-01 00:00:00
abstract::Multiplexed high-throughput pyrosequencing is currently limited in complexity (number of samples sequenced in parallel), and in capacity (number of sequences obtained per sample). Physical-space segregation of the sequencing platform into a fixed number of channels allows limited multiplexing, but obscures available s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm760
更新日期:2007-01-01 00:00:00
abstract::The gene, rpb1, encoding the largest subunit of RNA polymerase II has been cloned from Schizosaccharomyces pombe using the corresponding gene, RPB1, of Saccharomyces cerevisiae as a cross-hybridization probe. We have determined the complete sequence of this gene, and parts of PCR-amplified rpb1 cDNA. The predicted cod...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.3.461
更新日期:1991-02-11 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv486
更新日期:2015-07-01 00:00:00
abstract::Non-selenocysteine-containing phospholipid hydroperoxide glutathione peroxidase (NPGPx or GPx7) is an oxidative stress sensor that modulates the antioxidative activity of its target proteins through intermolecular disulfide bond formation. Given NPGPx's role in protecting cells from oxidative damage, identification of...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv1010
更新日期:2015-10-30 00:00:00
abstract::The 3' splice site of the second intron (I2) of the human apolipoprotein-AII gene, (GT)16GGGCAG, is unique in that, although fully functional, a stretch of alternating guanine and thymine residues replaces the polypyrimidine tract usually associated with 3' splice junctions. The transient expression of successive 5' d...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.9.3787
更新日期:1987-05-11 00:00:00
abstract::We report, herein, a new class of RNAi trigger molecules based on the unconventional parallel hybridization of two oligonucleotide chains. We have prepared and studied several parallel stranded (ps) duplexes, in which the parallel orientation is achieved through incorporation of isoguanine and isocytosine to form reve...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky024
更新日期:2018-02-28 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw036
更新日期:2016-04-20 00:00:00
abstract::The mRNA export complex TREX (TREX) is known to contain Aly, UAP56, Tex1 and the THO complex, among which UAP56 is required for TREX assembly. Here, we systematically investigated the role of each human TREX component in TREX assembly and its association with the mRNA. We found that Tex1 is essentially a subunit of th...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1188
更新日期:2013-01-01 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.12.3241
更新日期:1992-06-25 00:00:00
abstract::VL30 genetic elements constitute a murine multicopy gene family that is retrovirus-like, despite the lack of sequence homology with any known retrovirus. Over one hundred copies of VL30 units are dispersed throughout the mouse genome. We report here that the mouse genome also contains 'solo' VL30 long terminal repeats...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.5.2273
更新日期:1984-03-12 00:00:00
abstract::The effect of different levels of mercury substitution on the rate and extent of hybridisation of globin mRNA with a complementary DNA (cDNA) copy has been investigated. It was found that mercuration significantly reduces both the rate of hybridisation and the extent of the reaction, but that these effects are abolish...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/7.8.2357
更新日期:1979-12-20 00:00:00
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journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.4.932
更新日期:1998-02-15 00:00:00
abstract::The CATH database of protein domain structures (http://www.biochem.ucl.ac.uk/bsm/cath_new) currently contains 34 287 domain structures classified into 1383 superfamilies and 3285 sequence families. Each structural family is expanded with domain sequence relatives recruited from GenBank using a variety of efficient seq...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg062
更新日期:2003-01-01 00:00:00
abstract::Cellular RNAs that do not function as messenger RNAs (mRNAs), transfer RNAs (tRNAs) or ribosomal RNAs (rRNAs) comprise a diverse class of molecules that are commonly referred to as non-protein-coding RNAs (ncRNAs). These molecules have been known for quite a while, but their importance was not fully appreciated until ...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkj469
更新日期:2006-01-25 00:00:00
abstract::E. coli can be transformed to extremely high efficiencies by subjecting a mixture of cells and DNA to brief but intense electrical fields of exponential decay waveform (electroporation). We have obtained 10(9) to 10(10) transformants/micrograms with strains LE392 and DH5 alpha, and plasmids pUC18 and pBR329. The proce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.13.6127
更新日期:1988-07-11 00:00:00
abstract::Ethionamide is an antituberculous drug for the treatment of multidrug-resistant Mycobacterium tuberculosis. This antibiotic requires activation by the monooxygenase EthA to exert its activity. Production of EthA is controlled by the transcriptional repressor EthR, a member of the TetR family. The sensitivity of M. tub...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr1113
更新日期:2012-04-01 00:00:00
abstract::PIWI-interacting RNAs (piRNAs) engage PIWI proteins to silence transposons and promote germ cell development in animals. In diverse species, piRNA biogenesis occurs near the mitochondrial surface, and involves mitochondrial membrane-anchored factors. In mice, two cytoplasmic PIWI proteins, MIWI and MILI, receive proce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky1281
更新日期:2019-03-18 00:00:00