Identification of iron responsive genes by screening cDNA libraries from suppression subtractive hybridization with antisense probes from three iron conditions.

abstract：:By transporting one DNA double helix (T-segment) through a double-strand break in another (G-segment), topoisomerase II reduces fractions of DNA catenanes, knots and supercoils to below equilibrium values. How DNA segments are selected to simplify the equilibrium DNA topology is enigmatic, and the biological relevance...

journal_title：Nucleic acids research

authors： Martínez-García B,Fernández X,Díaz-Ingelmo O,Rodríguez-Campos A,Manichanh C,Roca J

更新日期：2014-02-01 00:00:00

abstract：:5' mediated cytoplasmic RNA decay is a conserved cellular process in eukaryotes. While the functions of the structured core domains in this pathway are well-studied, the role of abundant intrinsically disordered regions (IDRs) is lacking. Here we reconstitute the Dcp1:Dcp2 complex containing a portion of the disordere...

journal_title：Nucleic acids research

authors： Paquette DR,Tibble RW,Daifuku TS,Gross JD

更新日期：2018-07-06 00:00:00

abstract：:Aryldiazonium salts are shown to be useful as phototriggered structural probes for RNA mapping as well as for footprinting of RNA/protein interaction. In particular the yeast tRNA(Asp)/aspartyl-tRNA synthetase complex is shown to involve the variable loop face and the concave side of the L-shaped nucleic acid bound to...

journal_title：Nucleic acids research

authors： Garcia A,Giegé R,Behr JP

更新日期：1990-01-11 00:00:00

abstract：:Inspection of the structure of the C-terminal domain of ribosomal protein L7/L12 (1) reveals a helix-turn-helix motif similar to the one found in many DNA-binding regulatory proteins (2-5). The 19 alpha-carbon atoms of the L7/L12 alpha-helices superimpose on the DNA binding helices of CAP and cro with root-mean-square...

journal_title：Nucleic acids research

authors： Rice PA,Steitz TA

更新日期：1989-05-25 00:00:00

abstract：:The hydroxyl radical is a powerful oxidant that generates DNA lesions including the stereoisomeric R and S 5',8-cyclo-2'-deoxyadenosine (cdA) and 5',8-cyclo-2'-deoxyguanosine (cdG) pairs that have been detected in cellular DNA. Unlike some other oxidatively generated DNA lesions, cdG and cdA are repaired by the human ...

journal_title：Nucleic acids research

authors： Kropachev K,Ding S,Terzidis MA,Masi A,Liu Z,Cai Y,Kolbanovskiy M,Chatgilialoglu C,Broyde S,Geacintov NE,Shafirovich V

更新日期：2014-04-01 00:00:00

abstract：:DNA nick can be used as a design motif in programming the shape and reconfigurable deformation of synthetic DNA nanostructures, but its mechanical properties have rarely been systematically characterized at the level of base sequences. Here, we investigated sequence-dependent mechanical properties of DNA nicks through...

journal_title：Nucleic acids research

authors： Lee JY,Kim YJ,Lee C,Lee JG,Yagyu H,Tabata O,Kim DN

更新日期：2019-01-10 00:00:00

abstract：:Despite the development of new high-throughput sequencing techniques, microarrays are still attractive tools to study small genome organisms, thanks to sample multiplexing and high-feature densities. However, the oligonucleotide design remains a delicate step for most users. A vast array of software is available to de...

journal_title：Nucleic acids research

authors： Jourdren L,Duclos A,Brion C,Portnoy T,Mathis H,Margeot A,Le Crom S

更新日期：2010-06-01 00:00:00

abstract：:The DECIPHER database (https://decipher.sanger.ac.uk/) is an accessible online repository of genetic variation with associated phenotypes that facilitates the identification and interpretation of pathogenic genetic variation in patients with rare disorders. Contributing to DECIPHER is an international consortium of >2...

journal_title：Nucleic acids research

authors： Bragin E,Chatzimichali EA,Wright CF,Hurles ME,Firth HV,Bevan AP,Swaminathan GJ

更新日期：2014-01-01 00:00:00

abstract：:The number of known alternative human isoforms has been increasing steadily with the amount of available transcription data. To date, over 100 000 isoforms have been detected in EST libraries, and at least 75% of human genes have at least one alternative isoform. In this paper, we propose that most alternative splicin...

journal_title：Nucleic acids research

authors： Melamud E,Moult J

更新日期：2009-08-01 00:00:00

abstract：:As opposed to the vast majority of prokaryotic repressors, the immunity repressor of temperate Escherichia coli phage P2 (C) recognizes non-palindromic direct repeats of DNA rather than inverted repeats. We have determined the crystal structure of P2 C at 1.8 Å. This constitutes the first structure solved from the fam...

journal_title：Nucleic acids research

authors： Massad T,Skaar K,Nilsson H,Damberg P,Henriksson-Peltola P,Haggård-Ljungquist E,Högbom M,Stenmark P

更新日期：2010-11-01 00:00:00

abstract：:Nucleotide excision repair (NER) mechanism is the major pathway responsible for the removal of a large variety of bulky lesions from the genome. Two different NER subpathways have been identified, i.e. the transcription-coupled and the global genome repair pathways. For DNA-damage induced by ultraviolet light both tra...

journal_title：Nucleic acids research

authors： van Oosterwijk MF,Filon R,Kalle WH,Mullenders LH,van Zeeland AA

更新日期：1996-12-01 00:00:00

abstract：:Equilibrative nucleoside transporters (ENTs) are a recently characterized and poorly understood group of membrane proteins that are important in the uptake of endogenous nucleosides required for nucleic acid and nucleoside triphosphate synthesis. Despite their central importance in cellular metabolism and nucleoside a...

journal_title：Nucleic acids research

authors： Sankar N,Machado J,Abdulla P,Hilliker AJ,Coe IR

更新日期：2002-10-15 00:00:00

abstract：:The cis-requirements for the first editing site in the atp9 mRNA from pea mitochondria were investigated in an in vitro RNA editing system. Template RNAs deleted 5' of -20 are edited correctly, but with decreased efficiency. Deletions between -20 and the edited nucleotide abolish editing activity. Substitution of the ...

journal_title：Nucleic acids research

authors： Takenaka M,Neuwirt J,Brennicke A

更新日期：2004-08-04 00:00:00

abstract：:A filter binding assay was developed that allows measurement of specific binding of trp repressor to operator DNA. The most important feature of this procedure is the concentration and type of salt present in the binding buffer. Using this assay the dissociation constant of the repressor-operator complex was determine...

journal_title：Nucleic acids research

authors： Klig LS,Crawford IP,Yanofsky C

更新日期：1987-07-10 00:00:00

abstract：:A set of programs was developed for searching nucleic acid and protein sequence data bases for sequences similar to a given sequence. The programs, written in FORTRAN 77, were optimized for vector processing on a Hitachi S810-20 supercomputer. A search of a 500-residue protein sequence against the entire PIR data base...

journal_title：Nucleic acids research

authors： Gotoh O,Tagashira Y

更新日期：1986-01-10 00:00:00

abstract：:Onconase, a cytotoxic ribonuclease from Rana pipiens, possesses pyroglutamate (Pyr) at the N-terminus and has a substrate preference for uridine-guanine (UG). To identify residues responsible for onconase's cytotoxicity, we cloned the rpr gene from genomic DNA and expressed it in Escherichia coli BL21(DE3). The recomb...

journal_title：Nucleic acids research

authors： Liao YD,Wang SC,Leu YJ,Wang CF,Chang ST,Hong YT,Pan YR,Chen C

更新日期：2003-09-15 00:00:00

abstract：:The repeating nucleotide sequence of 68 base pairs in the mtDNA from an ethidium-induced cytoplasmic petite mutant of yeast has been determined. For sequence analysis specifically primed and terminated RNA copies, obtained by in vitro transcription of the separated strands, were use. The sequence consists of 66 consec...

journal_title：Nucleic acids research

authors： Van Kreijl CF,Bos JL

更新日期：1977-07-01 00:00:00

abstract：:Nucleoside 3'-phosphoramidite and chlorophosphite reagents have been found to react with the lactam function of guanine. This reaction caused unsatisfactory results when oligodeoxyribonucleotides containing a large number of guanine bases were prepared in an automated solid phase synthesizer. The guanine modification ...

journal_title：Nucleic acids research

authors： Pon RT,Damha MJ,Ogilvie KK

更新日期：1985-09-25 00:00:00

abstract：:Active DNA demethylation is crucial for epigenetic control, but the underlying enzymatic mechanisms are incompletely understood. REPRESSOR OF SILENCING 1 (ROS1) is a 5-methylcytosine (5-meC) DNA glycosylase/lyase that initiates DNA demethylation in plants through a base excision repair process. The enzyme binds DNA no...

journal_title：Nucleic acids research

authors： Parrilla-Doblas JT,Ponferrada-Marín MI,Roldán-Arjona T,Ariza RR

更新日期：2013-10-01 00:00:00

abstract：:Several fungal species, representatives of all broad groups like basidiomycetes, ascomycetes and phycomycetes, were examined for the nature of repeated DNA sequences by DNA:DNA reassociation studies using hydroxyapatite chromatography. All of the fungal species tested contained 10-20% repeated DNA sequences. There are...

journal_title：Nucleic acids research

authors： Dutta SK

更新日期：1974-11-01 00:00:00

abstract：:Alternative splicing is widespread in mammalian gene expression, and variant splice patterns are often specific to different stages of development, particular tissues or a disease state. There is a need to systematically collect data on alternatively spliced exons, introns and splice isoforms, and to annotate this dat...

journal_title：Nucleic acids research

authors： Thanaraj TA,Stamm S,Clark F,Riethoven JJ,Le Texier V,Muilu J

更新日期：2004-01-01 00:00:00

abstract：:From a library of nucleic acid molecules, which are randomized in parts of their sequence, unique sequence variants can be selected for specific properties. The planning of such an in vitro selection experiment requires some consideration regarding how much DNA template or RNA transcript should be used initially. The ...

journal_title：Nucleic acids research

authors： Tabler M,Benos P,Dörr M

更新日期：1996-09-01 00:00:00

abstract：:Complementary DNA clones encoding the human kidney epidermal growth factor (EGF) precursor have been isolated and sequenced. They predict the sequence of a 1,207 amino acid protein which contains EGF flanked by polypeptide segments of 970 and 184 residues at its NH2- and COOH-termini, respectively. The structural orga...

journal_title：Nucleic acids research

authors： Bell GI,Fong NM,Stempien MM,Wormsted MA,Caput D,Ku LL,Urdea MS,Rall LB,Sanchez-Pescador R

更新日期：1986-11-11 00:00:00

abstract：:Ovarian poly (A) + RNA from Xenopus laevis and Xenopus borealis was used to construct two cDNA libraries which were screened for histone sequences. cDNA clones to H4 mRNA were obtained from both species and an H3 cDNA clone from Xenopus laevis. The complete DNA sequences of these clones have been determined and are pr...

journal_title：Nucleic acids research

authors： Turner PC,Woodland HR

更新日期：1982-06-25 00:00:00

abstract：:APOBEC3G (A3G), a host protein that inhibits HIV-1 reverse transcription and replication in the absence of Vif, displays cytidine deaminase and single-stranded (ss) nucleic acid binding activities. HIV-1 nucleocapsid protein (NC) also binds nucleic acids and has a unique property, nucleic acid chaperone activity, whic...

journal_title：Nucleic acids research

authors： Iwatani Y,Chan DS,Wang F,Stewart-Maynard K,Sugiura W,Gronenborn AM,Rouzina I,Williams MC,Musier-Forsyth K,Levin JG

更新日期：2007-01-01 00:00:00

abstract：:The development of biosensors based on DNA hybridization requires a more precise knowledge of the thermodynamics of the hybridization at a solid interface. In particular, the selectivity of hybridization can be affected by a lot of parameters such as the single-strand (ss)DNA density, the pH, the ionic strength or the...

journal_title：Nucleic acids research

authors： Meunier-Prest R,Raveau S,Finot E,Legay G,Cherkaoui-Malki M,Latruffe N

更新日期：2003-12-01 00:00:00

abstract：:A sequence of 89 nucleotides from rabbit beta-globin mRNA has been determined and is shown to code for residues 107 to 137 of the beta-globin protein. In addition, a sequence heterogeneity has been identified within this 89 nucleotide long sequence which corresponds to a known polymorphic variant of rabbit beta-globin...

journal_title：Nucleic acids research

authors： Proudfoot NJ

更新日期：1976-07-01 00:00:00

abstract：:We updated the plant transcription factor (TF) database to version 2.0 (PlantTFDB 2.0, http://planttfdb.cbi.pku.edu.cn) which contains 53,319 putative TFs predicted from 49 species. We made detailed annotation including general information, domain feature, gene ontology, expression pattern and ortholog groups, as well...

journal_title：Nucleic acids research

authors： Zhang H,Jin J,Tang L,Zhao Y,Gu X,Gao G,Luo J

更新日期：2011-01-01 00:00:00

abstract：:In order to study the intragenic profiles of active transcription, we determined the relative levels of active RNA polymerase II present at the 3'- and 5'-ends of 261 yeast genes by run-on. The results obtained indicate that the 3'/5' run-on ratio varies among the genes studied by over 12 log(2) units. This ratio seem...

journal_title：Nucleic acids research

authors： Rodríguez-Gil A,García-Martínez J,Pelechano V,Muñoz-Centeno Mde L,Geli V,Pérez-Ortín JE,Chávez S

更新日期：2010-08-01 00:00:00

abstract：:The excision of specific DNA sequences from integrated transgenes in insects permits the dissection in situ of structural elements that may be important in controlling gene expression. Furthermore, manipulation of potential control elements in the context of a single integration site mitigates against insertion site i...

journal_title：Nucleic acids research

authors： Jasinskiene N,Coates CJ,Ashikyan A,James AA

更新日期：2003-11-15 00:00:00