Dissimilar mispair-recognition spectra of Arabidopsis DNA-mismatch-repair proteins MSH2*MSH6 (MutSalpha) and MSH2*MSH7 (MutSgamma).

abstract：:Measuring minimal residual disease in cancer has applications for prognosis, monitoring treatment and detection of recurrence. Simple sequence-based methods to detect nucleotide substitution variants have error rates (about 10-3) that limit sensitive detection. We developed and characterized the performance of MASQ (m...

journal_title：Nucleic acids research

authors： Moffitt AB,Spector MS,Andrews P,Kendall J,Alexander J,Stepansky A,Ma B,Kolitz J,Chiorazzi N,Allen SL,Krasnitz A,Wigler M,Levy D,Wang Z

更新日期：2020-04-17 00:00:00

abstract：:DNA assembly allows individual DNA constructs or libraries to be assembled quickly and reliably. Most methods are either: (i) Modular, easily scalable and suitable for combinatorial assembly, but leave undesirable 'scar' sequences; or (ii) bespoke (non-modular), scarless but less suitable for construction of combinato...

journal_title：Nucleic acids research

authors： Taylor GM,Mordaka PM,Heap JT

更新日期：2019-02-20 00:00:00

abstract：:Bacteriophage Mu has one of the best studied, most efficient and largest transposition machineries of the prokaryotic world. To harness this attractive integration machinery for use in mammalian cells, we cloned the coding sequences of the phage factors MuA and MuB in a eukaryotic expression cassette and fused them to...

journal_title：Nucleic acids research

authors： Schagen FH,Rademaker HJ,Cramer SJ,van Ormondt H,van der Eb AJ,van de Putte P,Hoeben RC

更新日期：2000-12-01 00:00:00

abstract：:The majority of genome-wide association study (GWAS) risk variants reside in non-coding DNA sequences. Understanding how these sequence modifications lead to transcriptional alterations and cell-to-cell variability can help unraveling genotype-phenotype relationships. Here, we describe a computational method, dubbed C...

journal_title：Nucleic acids research

authors： Li S,Alvarez RV,Sharan R,Landsman D,Ovcharenko I

更新日期：2017-03-17 00:00:00

abstract：:The Class 3 aldehyde dehydrogenase gene (ALDH-3) is differentially expressed. Expression is either constitutive or xenobiotic inducible via an aromatic hydrocarbon (Ah) receptor-mediated pathway, depending upon the tissue. A series of studies were performed to examine the regulation of rat ALDH-3 basal expression. DNa...

journal_title：Nucleic acids research

authors： Xie YQ,Takimoto K,Pitot HC,Miskimins WK,Lindahl R

更新日期：1996-11-01 00:00:00

abstract：:The pathogen-host interactions database (PHI-base) is available at www.phi-base.org PHI-base contains expertly curated molecular and biological information on genes proven to affect the outcome of pathogen-host interactions reported in peer reviewed research articles. In addition, literature that indicates specific ge...

journal_title：Nucleic acids research

authors： Urban M,Cuzick A,Rutherford K,Irvine A,Pedro H,Pant R,Sadanadan V,Khamari L,Billal S,Mohanty S,Hammond-Kosack KE

更新日期：2017-01-04 00:00:00

abstract：:The Bovine Genome Database (BGD) (http://bovinegenome.org) has been the key community bovine genomics database for more than a decade. To accommodate the increasing amount and complexity of bovine genomics data, BGD continues to advance its practices in data acquisition, curation, integration and efficient data retrie...

journal_title：Nucleic acids research

authors： Shamimuzzaman M,Le Tourneau JJ,Unni DR,Diesh CM,Triant DA,Walsh AT,Tayal A,Conant GC,Hagen DE,Elsik CG

更新日期：2020-01-08 00:00:00

abstract：:Human tissue-specific genes were reported to be longer than housekeeping genes (both in coding and intronic parts). The competing neutralist and adaptationist models were proposed to explain this observation. Here I show that in human genome the longest are genes with the intermediate expression pattern. From the stan...

journal_title：Nucleic acids research

authors： Vinogradov AE

更新日期：2006-01-01 00:00:00

abstract：:Protein p56 (56 amino acids) from the Bacillus subtilis phage 29 inactivates the host uracil-DNA glycosylase (UDG), an enzyme involved in the base excision repair pathway. At present, p56 is the only known example of a UDG inhibitor encoded by a non-uracil containing viral DNA. Using analytical ultracentrifugation met...

journal_title：Nucleic acids research

authors： Serrano-Heras G,Ruiz-Masó JA,del Solar G,Espinosa M,Bravo A,Salas M

更新日期：2007-01-01 00:00:00

abstract：:Cell-free extracts employed as chromatin assembly systems contain a myriad of proteins, polyanions and nucleic acids. The roles of ATP, MgCl2 and other cofactors in the catalysis of nucleosome formation by the Xenopus laevis oocyte S-150 have yet to be established unequivocally. In this study we examine the influence ...

journal_title：Nucleic acids research

authors： Sekiguchi JM,Kmiec EB

更新日期：1992-02-25 00:00:00

abstract：:A physical mapping strategy has been developed to verify and accelerate the assembly and gap closure phase of a microbial genome shotgun-sequencing project. The protocol was worked out during the ongoing Pseudomonas putida KT2440 genome project. A macro-restriction map was constructed by linking probe hybridisation of...

journal_title：Nucleic acids research

authors： Weinel C,Tümmler B,Hilbert H,Nelson KE,Kiewitz C

更新日期：2001-11-15 00:00:00

abstract：:The long interspersed repeated DNA family of rats (LINE or L1Rn family) contains about 40,000 6.7-kilobase (kb) long members (1). LINE members may be currently mobile since their presence or absence causes allelic variation at three single copy loci (2, 3): insulin 1, Moloney leukemia virus integration 2 (Mlvi-2) (4),...

journal_title：Nucleic acids research

authors： Furano AV,Somerville CC,Tsichlis PN,D'Ambrosio E

更新日期：1986-05-12 00:00:00

abstract：:The modified nucleoside, 7-(4,5-cis-dihydroxy-1-cyclopenten-3-yl-aminomethyl)-7-deazaguanosine, designated as Q, and its derivative, Q*, were found in tRNA's from various organisms, including several mammalian tissues, other animals such as starfish, lingula and hagfish, and wheat germ. Q isolated from rat liver tRNA ...

journal_title：Nucleic acids research

authors： Kasai H,Kuchino Y,Nihei K,Nishimura S

更新日期：1975-10-01 00:00:00

abstract：:Recent data showed that p53 stimulates the expression of genes encoding not only pro- but also antioxidant enzymes. It was suggested that antioxidant genes could be induced under physiologic levels of stress while the prooxidant ones respond to higher level of stress. Results presented in this article illustrate an ad...

journal_title：Nucleic acids research

authors： Meiller A,Alvarez S,Drané P,Lallemand C,Blanchard B,Tovey M,May E

更新日期：2007-01-01 00:00:00

abstract：:At either end of the nopaline Ti-plasmid T-region resides a copy of a 25 bp repeated element. The normal T-DNA endpoint is 1 bp internal of the right copy, with the transcription initiation site of the nopaline synthase (nos) gene being approximately 300 bp away in the same direction. Here we describe results which de...

journal_title：Nucleic acids research

authors： Shaw CH,Watson MD,Carter GH,Shaw CH

更新日期：1984-08-10 00:00:00

abstract：:Recent studies show that the region of DNA brought into close proximity to the fetal gamma-globin genes in deletional forms of hereditary persistence of fetal hemoglobin (HPFH) is selectively hypomethylated (and presumably active) in normal erythroid tissue. This region is normally located approximately 100 kilobases ...

journal_title：Nucleic acids research

authors： Poncz M,Sutton M,Delgrosso K,Schwartz E,Surrey S

更新日期：1987-07-10 00:00:00

abstract：:A refined map for the linear arrangement of histones along DNA in nucleosomal core particles has been determined by DNA-protein crosslinking. On one strand of 145-bp core DNA, histones are aligned in the following order: (5') H2B25,35-H455,65-H375,85,95/H488-H2B105,11 5-H2A118-H3135,145/H2A145 (3') (the subscripts giv...

journal_title：Nucleic acids research

authors： Bavykin SG,Usachenko SI,Lishanskaya AI,Shick VV,Belyavsky AV,Undritsov IM,Strokov AA,Zalenskaya IA,Mirzabekov AD

更新日期：1985-05-24 00:00:00

abstract：:JSNP is a repository of Japanese Single Nucleotide Polymorphism (SNP) data, begun in 2000 and developed through the Prime Minister's Millennium Project. The aim of this undertaking is to identify and collate up to 150 000 SNPs from the Japanese population, located in genes or in adjacent regions that might influence t...

journal_title：Nucleic acids research

authors： Hirakawa M,Tanaka T,Hashimoto Y,Kuroda M,Takagi T,Nakamura Y

更新日期：2002-01-01 00:00:00

abstract：:Despite systematic approaches to mapping networks of genetic interactions in Saccharomyces cerevisiae, exploration of genetic interactions on a genome-wide scale has been limited. The S. cerevisiae haploid genome has 110 regions that are longer than 10 kb but harbor only non-essential genes. Here, we attempted to dele...

journal_title：Nucleic acids research

authors： Kaboli S,Yamakawa T,Sunada K,Takagaki T,Sasano Y,Sugiyama M,Kaneko Y,Harashima S

更新日期：2014-09-01 00:00:00

abstract：:From gene expression to nanotechnology, understanding and controlling DNA requires a detailed knowledge of its higher order structure and dynamics. Here we take advantage of the environment-sensitive photoisomerization of cyanine dyes to probe local and global changes in DNA structure. We report that a covalently atta...

journal_title：Nucleic acids research

authors： Morten MJ,Lopez SG,Steinmark IE,Rafferty A,Magennis SW

更新日期：2018-11-30 00:00:00

abstract：:Bacterial retrons consist of a reverse transcriptase (RT) and a contiguous non-coding RNA (ncRNA) gene. One third of annotated retrons carry additional open reading frames (ORFs), the contribution and significance of which in retron biology remains to be determined. In this study we developed a computational pipeline ...

journal_title：Nucleic acids research

authors： Mestre MR,González-Delgado A,Gutiérrez-Rus LI,Martínez-Abarca F,Toro N

更新日期：2020-12-16 00:00:00

abstract：:A sensitive gel retention assay has been utilized to detect proteins from uninfected Hela nuclei which interact with the adenovirus type 2 enhancer. This assay has been employed to monitor fractionation of nuclear extracts. Three enhancer binding factors were resolved by chromatography on DEAE-Sepharose and one of the...

journal_title：Nucleic acids research

authors： Barrett P,Clark L,Hay RT

更新日期：1987-03-25 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：:Mitotic chromosome structure is pivotal to cell division but difficult to observe in fine detail using conventional methods. DNA catenation has been implicated in both sister chromatid cohesion and chromosome condensation, but has never been observed directly. We have used a lab-on-a-chip microfluidic device and fluor...

journal_title：Nucleic acids research

authors： Bauer DL,Marie R,Rasmussen KH,Kristensen A,Mir KU

更新日期：2012-12-01 00:00:00

abstract：:Patients with Alzheimer's disease (AD) exhibit higher levels of 8-oxo-guanine (8-oxoG) DNA lesions in their brain, suggesting a reduced or defective 8-oxoG repair. To test this hypothesis, this study investigated 14 AD patients and 10 age-matched controls for mutations of the major 8-oxoG removal gene OGG1. Whereas no...

journal_title：Nucleic acids research

authors： Mao G,Pan X,Zhu BB,Zhang Y,Yuan F,Huang J,Lovell MA,Lee MP,Markesbery WR,Li GM,Gu L

更新日期：2007-01-01 00:00:00

abstract：:Extensive efforts have been directed at the discovery, investigation and clinical monitoring of targeted therapeutics. These efforts may be facilitated by the convenient access of the genetic, proteomic, interactive and other aspects of the therapeutic targets. Here, we describe an update of the Therapeutic target dat...

journal_title：Nucleic acids research

authors： Li YH,Yu CY,Li XX,Zhang P,Tang J,Yang Q,Fu T,Zhang X,Cui X,Tu G,Zhang Y,Li S,Yang F,Sun Q,Qin C,Zeng X,Chen Z,Chen YZ,Zhu F

更新日期：2018-01-04 00:00:00

abstract：:MicroRNAs are a class of small non-coding RNAs that serve as important regulators of gene expression at the posttranscriptional level. They are stable in body fluids and pose great potential to serve as biomarkers. Here, we present a highly specific, sensitive and cost-effective system to quantify miRNA expression bas...

journal_title：Nucleic acids research

authors： Androvic P,Valihrach L,Elling J,Sjoback R,Kubista M

更新日期：2017-09-06 00:00:00

abstract：:Ribonucleic acids are highly conserved essential parts of cellular life. RNA function is determined to a large extent by its hydrodynamic behaviour. The presented study proposes a strategy to predict the hydrodynamic behaviour of RNA single strands on the basis of the polymer size. By atom-level shell-modelling of hig...

journal_title：Nucleic acids research

authors： Werner A

更新日期：2011-02-01 00:00:00

abstract：:The task of gene identification frequently confronting researchers working with both novel and well studied genomes can be conveniently and reliably solved with the help of the GeneMark web software (http://opal.biology.gatech.edu/GeneMark/). The website provides interfaces to the GeneMark family of programs designed ...

journal_title：Nucleic acids research

authors： Besemer J,Borodovsky M

更新日期：2005-07-01 00:00:00

abstract：:Liquid-liquid phase separation plays an important role in a variety of cellular processes, including the formation of membrane-less organelles, the cytoskeleton, signalling complexes, and many other biological supramolecular assemblies. Studies on the molecular basis of phase separation in cells have focused on protei...

journal_title：Nucleic acids research

authors： Zhang Y,Yang M,Duncan S,Yang X,Abdelhamid MAS,Huang L,Zhang H,Benfey PN,Waller ZAE,Ding Y

更新日期：2019-12-16 00:00:00