Serial analysis of mutation spectra (SAMS): a new approach for the determination of mutation spectra of site-specific DNA damage and their sequence dependence.

abstract：:Influenza A virus (IAV) genomes are composed of eight single-stranded RNA segments that are coated by viral nucleoprotein (NP) molecules. Classically, the interaction between NP and viral RNA (vRNA) is depicted as a uniform pattern of 'beads on a string'. Using high-throughput sequencing of RNA isolated by crosslinkin...

journal_title：Nucleic acids research

authors： Lee N,Le Sage V,Nanni AV,Snyder DJ,Cooper VS,Lakdawala SS

更新日期：2017-09-06 00:00:00

abstract：:U4 RNA from chicken, rat and man was examined for nucleotide sequence and secondary structure. Three molecular species, U4A, U4B and U4C were detected in the three animal species. U4A is 146 nucleotide long and U4B RNA only lacks the 3' terminal G. four nucleotides are missing at the 3'-end of U4C RNA which, in additi...

journal_title：Nucleic acids research

authors： Krol A,Branlant C,Lazar E,Gallinaro H,Jacob M

更新日期：1981-06-25 00:00:00

abstract：:Hexokinase 2 is an essential factor for signalling repression through the Saccharomyces cerevisiae high-glucose sensing pathway. The main regulatory mechanism that controls the HXK2 gene expression in yeast is mediated by the Rgt1 and Med8 transcription factors, which repress HXK2 expression in low-glucose containing ...

journal_title：Nucleic acids research

authors： Palomino A,Herrero P,Moreno F

更新日期：2006-03-09 00:00:00

abstract：:Previous studies have established a critical role of both TFIIB and RNA polymerase II (RNAPII) in start site selection in the yeast Saccharomyces cerevisiae. However, it remains unclear how the TFIIB-RNAPII interaction impacts on this process since such an interaction can potentially influence both preinitiation compl...

journal_title：Nucleic acids research

authors： Zhang DY,Carson DJ,Ma J

更新日期：2002-07-15 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

authors： Osipovich AB,White-Grindley EK,Hicks GG,Roshon MJ,Shaffer C,Moore JH,Ruley HE

更新日期：2004-05-20 00:00:00

abstract：:Aberrant CpG methylation changes occurring during tumour progression include the loss (hypomethylation) and gain (hypermethylation) of methyl groups. Techniques currently available for examining such changes either require selection of a region, then examination of methylation changes, or utilise methylation-sensitive...

journal_title：Nucleic acids research

authors： Brock GJ,Huang TH,Chen CM,Johnson KJ

更新日期：2001-12-15 00:00:00

abstract：:We have recently isolated a functional promoter encoding the human polypeptide-binding protein (BiP) gene from Burkitt's lymphoma cells by polymerase chain reaction (The EMBL Data Library accession number X59969, 1991). This promoter DNA segment (termed BiP670) was fused to the bacterial chloramphenicol acetyltransfer...

journal_title：Nucleic acids research

authors： Chao CC,Lin-Chao S

更新日期：1992-12-25 00:00:00

abstract：:A type II restriction endonuclease, named CviJI, was isolated from a eukaryotic Chlorella-like green alga infected with the dsDNA containing virus IL-3A. CviJI is the first restriction endonuclease to recognize the sequence PuGCPy; CviJI cleaves DNA between the G and C. Methylation of the cytosine in PuGCPy sequences ...

journal_title：Nucleic acids research

authors： Xia YN,Burbank DE,Uher L,Rabussay D,Van Etten JL

更新日期：1987-08-11 00:00:00

abstract：:DNA damage tolerance (DDT) is responsible for genomic stability and cell viability by bypassing the replication block. In Saccharomyces cerevisiae DDT employs two parallel branch pathways to bypass the DNA lesion, namely translesion DNA synthesis (TLS) and error-free lesion bypass, which are mediated by sequential mod...

journal_title：Nucleic acids research

authors： Xu X,Lin A,Zhou C,Blackwell SR,Zhang Y,Wang Z,Feng Q,Guan R,Hanna MD,Chen Z,Xiao W

更新日期：2016-06-20 00:00:00

abstract：:Previous studies have implicated the DE-1 (-111/-106) and alpha A-CRYBP1 (-66/-57) sites for activity of the mouse alpha A-crystallin promoter in transiently transfected lens cells. Here we have used the bacterial chloramphenicol acetyltransferase (CAT) reporter gene to test the functional importance of the putative D...

journal_title：Nucleic acids research

authors： Sax CM,Ilagan JG,Piatigorsky J

更新日期：1993-06-11 00:00:00

abstract：:Conserved in a variety of evolutionarily divergent plant species, LOB DOMAIN (LBD) genes define a large, plant-specific family of largely unknown function. LBD genes have been implicated in a variety of developmental processes in plants, although to date, relatively few members have been assigned functions. LBD protei...

journal_title：Nucleic acids research

authors： Husbands A,Bell EM,Shuai B,Smith HM,Springer PS

更新日期：2007-01-01 00:00:00

abstract：:The "ovalbumin Y" gene, one of three which constitute the ovalbumin gene family in chicken has been completely sequenced. The exact location of exons can be derived from the comparison with the ovalbumin gene sequence and from the map previously established by electron microscopy analysis. During evolution of the Y ge...

journal_title：Nucleic acids research

authors： Heilig R,Muraskowsky R,Kloepfer C,Mandel JL

更新日期：1982-07-24 00:00:00

abstract：:The bacteriophage ø29 DNA packaging motor that assembles on the precursor capsid (prohead) contains an essential 174-nt structural RNA (pRNA) that forms multimers. To determine the structural features of the CE- and D-loops believed to be involved in multimerization of pRNA, 35- and 19-nt RNA molecules containing the ...

journal_title：Nucleic acids research

authors： Kitamura A,Jardine PJ,Anderson DL,Grimes S,Matsuo H

更新日期：2008-02-01 00:00:00

abstract：:In eukaryotic cells, the shortening and removal of the poly(A) tail of cytoplasmic mRNA by deadenylase enzymes is a critical step in post-transcriptional gene regulation. The ribonuclease activity of deadenylase enzymes is attributed to either a DEDD (Asp-Glu-Asp-Asp) or an endonuclease-exonuclease-phosphatase domain....

journal_title：Nucleic acids research

authors： Maryati M,Kaur I,Jadhav GP,Olotu-Umoren L,Oveh B,Hashmi L,Fischer PM,Winkler GS

更新日期：2014-03-01 00:00:00

abstract：:The human beta-actin promoter, including its 5' flanking region and 5' untranslated region, is ubiquitously active in mammalian cells in culture. In this report we investigated the transcriptional activity of, and the protein-DNA interactions that occur within, the proximal region of the human beta-actin promoter. Eff...

journal_title：Nucleic acids research

authors： Danilition SL,Frederickson RM,Taylor CY,Miyamoto NG

更新日期：1991-12-25 00:00:00

abstract：:The isolation and characterization of deletion mutants of the bacteriocinogenic plasmid Clo DF13 is described. To construct these deletion mutants, DNA of Clo DF13::Tn901 and Clo DF13-rep3::Tn901 plasmids was digested with restriction endonucleases, ligated with T4 ligase and introduced by transformation into Escheric...

journal_title：Nucleic acids research

authors： Stuitje AR,Veltkamp E,van den Elzen PJ,Nijkamp HJ

更新日期：1978-06-01 00:00:00

abstract：:During DNA replication replicative polymerases move in discrete mechanical steps along the DNA template. To address how the chemical cycle is coupled to mechanical motion of the enzyme, here we use optical tweezers to study the translocation mechanism of individual bacteriophage Phi29 DNA polymerases during processive...

journal_title：Nucleic acids research

authors： Morin JA,Cao FJ,Lázaro JM,Arias-Gonzalez JR,Valpuesta JM,Carrascosa JL,Salas M,Ibarra B

更新日期：2015-04-20 00:00:00

abstract：:Antimicrobial peptides (AMPs) are gaining importance as anti-infective agents. Here we describe the updated Collection of Antimicrobial Peptide (CAMP) database, available online at http://www.camp.bicnirrh.res.in/. The 3D structures of peptides are known to influence antimicrobial activity. Although there exists datab...

journal_title：Nucleic acids research

authors： Waghu FH,Gopi L,Barai RS,Ramteke P,Nizami B,Idicula-Thomas S

更新日期：2014-01-01 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：:Targeted delivery of antisense oligonucleotides (ASO) to hepatocytes via the asialoglycoprotein receptor (ASGR) has improved the potency of ASO drugs ∼30-fold in the clinic (1). In order to fully characterize the effect of GalNAc valency, oligonucleotide length, flexibility and chemical composition on ASGR binding, we...

journal_title：Nucleic acids research

authors： Schmidt K,Prakash TP,Donner AJ,Kinberger GA,Gaus HJ,Low A,Østergaard ME,Bell M,Swayze EE,Seth PP

更新日期：2017-03-17 00:00:00

abstract：:The secondary structure of an adenovirus associated low molecular weight RNA (VAI-RNA) has been studied by partial digestion with T1-RNase and S1-endonuclease followed by T1-fingerprint analysis. The empirical secondary structure has been compared with two computer generated models based on minimal free energy of the ...

journal_title：Nucleic acids research

authors： Monstein HJ,Philipson L

更新日期：1981-09-11 00:00:00

abstract：:Deletion of Hop2 in mice eliminates homologous chromosome synapsis and disrupts double-strand break (DSB) repair through homologous recombination. HOP2 in vitro shows two distinctive activities: when it is incorporated into a HOP2-MND1 complex it stimulates DMC1 and RAD51 recombination activities and the purified HOP2...

journal_title：Nucleic acids research

authors： Pezza RJ,Voloshin ON,Volodin AA,Boateng KA,Bellani MA,Mazin AV,Camerini-Otero RD

更新日期：2014-02-01 00:00:00

abstract：:A highly polymorphic locus associated with the variable tandem repetition of a 35 bp consensus sequence was mapped to chromosome 10, band q26. Examination of leukocyte DNA from a cancer patient revealed the twenty-fold amplification of one allelic fragment of this locus, while the other allelic fragment demonstrated a...

journal_title：Nucleic acids research

authors： Colb M,Yang-Feng T,Francke U,Mermer B,Parkinson DR,Krontiris TG

更新日期：1986-10-24 00:00:00

abstract：:The transcriptional shift from repression to activation of target genes is crucial for the fidelity of Notch responses through incompletely understood mechanisms that likely involve chromatin-based control. To activate silenced genes, repressive chromatin marks are removed and active marks must be acquired. Histone H3...

journal_title：Nucleic acids research

authors： Oswald F,Rodriguez P,Giaimo BD,Antonello ZA,Mira L,Mittler G,Thiel VN,Collins KJ,Tabaja N,Cizelsky W,Rothe M,Kühl SJ,Kühl M,Ferrante F,Hein K,Kovall RA,Dominguez M,Borggrefe T

更新日期：2016-06-02 00:00:00

abstract：:Proteins that catalyse homologous recombination have been identified in all living organisms and are essential for the repair of damaged DNA as well as for the generation of genetic diversity. In bacteria homologous recombination is performed by the RecA protein, whereas in the eukarya a related protein called Rad51 i...

journal_title：Nucleic acids research

authors： McIlwraith MJ,Hall DR,Stasiak AZ,Stasiak A,Wigley DB,West SC

更新日期：2001-11-15 00:00:00

abstract：:Ribosomal RNA (rRNA) in intact ribosomes is cleaved into discrete products on incubation of reticulocyte lysates or L-cell extracts with ppp(A2'p)3A. Cleavage of rRNA may, therefore, provide a useful assay for 2-5A (ppp)A2'p)nA; n = 2 to 4) or for the presence of a 2-5A-dependent nuclease. The results with reticulocyt...

journal_title：Nucleic acids research

authors： Wreschner DH,James TC,Silverman RH,Kerr IM

更新日期：1981-04-10 00:00:00

abstract：:The available reagents for the attachment of functional moieties to plasmid DNA are limiting. Most reagents bind plasmid DNA in a non-sequence- specific manner, with undefined stoichiometry, and affect DNA charge and delivery properties or involve chemical modifications that abolish gene expression. The design and abi...

journal_title：Nucleic acids research

authors： Hertoghs KM,Ellis JH,Catchpole IR

更新日期：2003-10-15 00:00:00

abstract：:An efficient chemical procedure for the immobilization of carboxylate containing conjugate groups onto controlled pore glass (CPG) is described. The derivatized supports were used in the automated synthesis of an oligodeoxynucleotide (20-mer ODN) containing a 3' phosphodiester linked hexanol, aminohexyl, acridine, or ...

journal_title：Nucleic acids research

authors： Gamper HB,Reed MW,Cox T,Virosco JS,Adams AD,Gall AA,Scholler JK,Meyer RB Jr

更新日期：1993-01-11 00:00:00

abstract：:Array based DNA pooling techniques facilitate genome-wide scale genotyping of large samples. We describe a structured analysis method for pooled data using internal replication information in large scale genotyping sets. The method takes advantage of information from single nucleotide polymorphisms (SNPs) typed in par...

journal_title：Nucleic acids research

authors： Macgregor S,Visscher PM,Montgomery G

更新日期：2006-04-20 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

authors： Yu J,Xiang X,Huang J,Liang X,Pan X,Dong Z,Petersen TS,Qu K,Yang L,Zhao X,Li S,Zheng T,Xu Z,Liu C,Han P,Xu F,Yang H,Liu X,Zhang X,Bolund L,Luo Y,Lin L

更新日期：2020-03-18 00:00:00