Clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 with improved proof-reading enhances homology-directed repair.

abstract：:In the present study, the relationship between short interfering RNA (siRNA) sequence and RNA interference (RNAi) effect was extensively analyzed using 62 targets of four exogenous and two endogenous genes and three mammalian and Drosophila cells. We present the rules that may govern siRNA sequence preference and in a...

journal_title：Nucleic acids research

authors： Ui-Tei K,Naito Y,Takahashi F,Haraguchi T,Ohki-Hamazaki H,Juni A,Ueda R,Saigo K

更新日期：2004-02-09 00:00:00

abstract：:Single cell RNA-seq experiments provide valuable insight into cellular heterogeneity but suffer from low coverage, 3' bias and technical noise. These unique properties of single cell RNA-seq data make study of alternative splicing difficult, and thus most single cell studies have restricted analysis of transcriptome v...

journal_title：Nucleic acids research

authors： Welch JD,Hu Y,Prins JF

更新日期：2016-05-05 00:00:00

abstract：:Digestion of isolated Friend erythroleukemic cell nuclei with DNase I under conditions which selectively destroy the DNA of transcriptionally "active" genes releases into the supernatant fraction proteins of the non-histone "High Mobility Group" (HMGs). Two of these, HMG-14 and HMG-17(identified by solubility in trich...

journal_title：Nucleic acids research

authors： Reeves R,Candido EP

更新日期：1980-05-10 00:00:00

abstract：:Arylsulfatase, produced by Chlamydomonas reinhardtii during sulfur-limited growth, is secreted into the periplasmic space and is readily assayed using a chromogenic substrate. To assess the usefulness of the gene encoding arylsulfatase (ars) as a reporter gene in C. reinhardtii, we have fused the promoter region of th...

journal_title：Nucleic acids research

authors： Davies JP,Weeks DP,Grossman AR

更新日期：1992-06-25 00:00:00

abstract：:Synthesis of HIV GagPol involves a proportion of ribosomes translating a U6A shift site at the distal end of the gag gene performing a programmed -1 ribosomal frameshift event to enter the overlapping pol gene. In vitro studies here show that at the same shift motif HIV reverse transcriptase generates -1 and +1 indels...

journal_title：Nucleic acids research

authors： Penno C,Kumari R,Baranov PV,van Sinderen D,Atkins JF

更新日期：2017-09-29 00:00:00

abstract：:Smarcal1 is a SWI/SNF-family protein with an ATPase domain involved in DNA-annealing activities and a binding site for the RPA single-strand-DNA-binding protein. Although the role played by Smarcal1 in the maintenance of replication forks has been established, it remains unknown whether Smarcal1 contributes to genomic...

journal_title：Nucleic acids research

authors： Keka IS,Mohiuddin,Maede Y,Rahman MM,Sakuma T,Honma M,Yamamoto T,Takeda S,Sasanuma H

更新日期：2015-07-27 00:00:00

abstract：:IHF and HU are two heterodimeric nucleoid-associated proteins (NAP) that belong to the same protein family but interact differently with the DNA. IHF is a sequence-specific DNA-binding protein that bends the DNA by over 160°. HU is the most conserved NAP, which binds non-specifically to duplex DNA with a particular pr...

journal_title：Nucleic acids research

authors： Prieto AI,Kahramanoglou C,Ali RM,Fraser GM,Seshasayee AS,Luscombe NM

更新日期：2012-04-01 00:00:00

abstract：:DNA and RNA guanine-quadruplexes (G4s) are stabilized by several cations, in particular by potassium and sodium ions. Generally, potassium stabilizes guanine-quartet assemblies to a larger extent than sodium; in this article we report about a higher-order G4 structure more stable in sodium than in potassium. Repeats o...

journal_title：Nucleic acids research

authors： Saintomé C,Amrane S,Mergny JL,Alberti P

更新日期：2016-04-07 00:00:00

abstract：:Chromatin distribution is not uniform along the human genome. In most genes there is a promoter-associated nucleosome free region (NFR) followed by an array of nucleosomes towards the gene body in which the first (+1) nucleosome is strongly positioned. The function of this characteristic chromatin distribution in tran...

journal_title：Nucleic acids research

authors： Jimeno-González S,Ceballos-Chávez M,Reyes JC

更新日期：2015-03-31 00:00:00

abstract：:We present FIGfams, a new collection of over 100,000 protein families that are the product of manual curation and close strain comparison. Using the Subsystem approach the manual curation is carried out, ensuring a previously unattained degree of throughput and consistency. FIGfams are based on over 950,000 manually a...

journal_title：Nucleic acids research

authors： Meyer F,Overbeek R,Rodriguez A

更新日期：2009-11-01 00:00:00

abstract：:Every bulky lesion in DNA can potentially inhibit the Taq DNA polymerase and thereby decrease the amplification produced in the polymerase chain reaction. We investigated the feasibility of using this inhibition to quantify DNA lesions produced by the anticancer drug cisplatin. Products were detected by electrophoresi...

journal_title：Nucleic acids research

authors： Jennerwein MM,Eastman A

更新日期：1991-11-25 00:00:00

abstract：:We show that nucleic acid structures may be conveniently and inexpensively characterized by their UV thermal difference spectra. A thermal difference spectrum (TDS) is obtained for a nucleic acid by simply recording the ultraviolet absorbance spectra of the unfolded and folded states at temperatures above and below it...

journal_title：Nucleic acids research

authors： Mergny JL,Li J,Lacroix L,Amrane S,Chaires JB

更新日期：2005-09-12 00:00:00

abstract：:The accumulation of somatic mitochondrial DNA (mtDNA) mutations contributes to the pathogenesis of human disease. Currently, mitochondrial mutations are largely considered results of inaccurate processing of its heavily damaged genome. However, mainly from a lack of methods to monitor mtDNA mutations with sufficient s...

journal_title：Nucleic acids research

authors： Valente WJ,Ericson NG,Long AS,White PA,Marchetti F,Bielas JH

更新日期：2016-10-14 00:00:00

abstract：:Minichromosome maintenance (MCM) proteins facilitate replication by licensing origins and unwinding the DNA double strand. Interestingly, the number of MCM hexamers greatly exceeds the number of firing origins suggesting additional roles of MCMs. Here we show a hitherto unanticipated function of MCM2 in cilia formatio...

journal_title：Nucleic acids research

authors： Casar Tena T,Maerz LD,Szafranski K,Groth M,Blätte TJ,Donow C,Matysik S,Walther P,Jeggo PA,Burkhalter MD,Philipp M

更新日期：2019-01-10 00:00:00

abstract：:1,10-Phenanthroline-platinum(II)-ethylenediamine ( PEPt ) forms a crystalline complex with cytidine-3'-phosphate (3'-CMP) and its structure has been determined by X-ray crystallography. 3'-CMP molecules are hemiprotonated and form hydrogen-bonded pairs that stack above and below the phenanthroline-platinum(II) drug mo...

journal_title：Nucleic acids research

authors： Vijay-Kumar S,Sakore TD,Sobell HM

更新日期：1984-04-25 00:00:00

abstract：:The study of pathogenic mitochondrial DNA mutations has, in most cases, relied on the production of transmitochondrial cybrids. Although the procedure to produce such cybrids is well established, it is laborious and cumbersome. Moreover, the mechanical enucleation procedure is inefficient and different techniques have...

journal_title：Nucleic acids research

authors： Bayona-Bafaluy MP,Manfredi G,Moraes CT

更新日期：2003-08-15 00:00:00

abstract：:Because of their high nucleotide sequence homology, the specific detection of mRNA transcripts of individual members of a gene family presents certain problems. Here we apply and defend the single nucleotide primer extension (SNuPE) as a simple, specific, and highly quantitative assay for this purpose. The method dist...

journal_title：Nucleic acids research

authors： Lombardo AJ,Brown GB

更新日期：1996-12-01 00:00:00

abstract：:This study unveils Mycobacterium smegmatis DinB2 as the founder of a clade of Y-family DNA polymerase that is naturally adept at incorporating ribonucleotides by virtue of a leucine in lieu of a canonical aromatic steric gate. DinB2 efficiently scavenges limiting dNTP and rNTP substrates in the presence of manganese. ...

journal_title：Nucleic acids research

authors： Ordonez H,Uson ML,Shuman S

更新日期：2014-01-01 00:00:00

abstract：:The Cox protein from bacteriophage P2 forms oligomeric filaments and it has been proposed that DNA can be wound up around these filaments, similar to how histones condense DNA. We here use fluorescence microscopy to study single DNA-Cox complexes in nanofluidic channels and compare how the Cox homologs from phages P2 ...

journal_title：Nucleic acids research

authors： Frykholm K,Berntsson RP,Claesson M,de Battice L,Odegrip R,Stenmark P,Westerlund F

更新日期：2016-09-06 00:00:00

abstract：:Comparative genome hybridization (CGH) to DNA microarrays (array CGH) is a technique capable of detecting deletions and duplications in genomes at high resolution. However, array CGH studies of the human genome noting false negative and false positive results using large insert clones as probes have raised important c...

journal_title：Nucleic acids research

authors： Price TS,Regan R,Mott R,Hedman A,Honey B,Daniels RJ,Smith L,Greenfield A,Tiganescu A,Buckle V,Ventress N,Ayyub H,Salhan A,Pedraza-Diaz S,Broxholme J,Ragoussis J,Higgs DR,Flint J,Knight SJ

更新日期：2005-06-16 00:00:00

abstract：:Bleomycin B(2)(BLM) in the presence of iron [Fe(II)] and O(2)catalyzes single-stranded (ss) and double-stranded (ds) cleavage of DNA. Electrospray ionization ion trap mass spectrometry was used to monitor these cleavage processes. Two duplex oligonucleotides containing an ethylene oxide tether between both strands wer...

journal_title：Nucleic acids research

authors： Harsch A,Marzilli LA,Bunt RC,Stubbe J,Vouros P

更新日期：2000-05-01 00:00:00

abstract：:Infection of Escherichia coli by a bacteriophage T4 regA, gene 44 double mutant leads to about a 7-fold increase in the amount of RNA ligase obtained after infection by wild-type phage. Using cells infected by the double mutant, RNA ligase was purified to homogeneity with a 20% yield. Unlike previous preparations of t...

journal_title：Nucleic acids research

authors： Higgins NP,Geballe AP,Snopek TJ,Sugino A,Cozzarelli NR

更新日期：1977-09-01 00:00:00

abstract：:We demonstrate a single DNA molecule optical mapping assay able to resolve a specific Escherichia coli strain from other strains. The assay is based on competitive binding of the fluorescent dye YOYO-1 and the AT-specific antibiotic netropsin. The optical map is visualized by stretching the DNA molecules in nanofluidi...

journal_title：Nucleic acids research

authors： Nilsson AN,Emilsson G,Nyberg LK,Noble C,Stadler LS,Fritzsche J,Moore ER,Tegenfeldt JO,Ambjörnsson T,Westerlund F

更新日期：2014-09-01 00:00:00

abstract：:A novel method combining elements of suppression subtractive hybridization with high throughput differential screening permits the efficient and rapid cloning of rarely transcribed differentially expressed genes. The experimental strategy virtually excludes the possibility of isolating false positive clones. The poten...

journal_title：Nucleic acids research

authors： von Stein OD,Thies WG,Hofmann M

更新日期：1997-07-01 00:00:00

abstract：:Hammerhead ribozymes were transcribed from a dsDNA template containing four random nucleotides between stems II and III, which replace the naturally occurring GAA nucleotides. In vitro selection was used to select hammerhead ribozymes capable of in cis cleavage using denaturing polyacrylamide gels for the isolation of...

journal_title：Nucleic acids research

authors： Thomson JB,Sigurdsson ST,Zeuch A,Eckstein F

更新日期：1996-11-15 00:00:00

abstract：:Much effort has long been devoted to unraveling the coordinated cellular response to genotoxic insults. In view of the difficulty of obtaining human biological samples of homogeneous origin, I have established a set of stable human clones where one DNA repair gene has been stably silenced by means of RNA interference....

journal_title：Nucleic acids research

authors： Biard DS

更新日期：2007-01-01 00:00:00

abstract：:The emergence of massively parallel sequencing technology has revolutionized microbial profiling, allowing the unprecedented comparison of microbial diversity across time and space in a wide range of host-associated and environmental ecosystems. Although the high-throughput nature of such methods enables the detection...

journal_title：Nucleic acids research

authors： Amir A,Zeisel A,Zuk O,Elgart M,Stern S,Shamir O,Turnbaugh PJ,Soen Y,Shental N

更新日期：2013-12-01 00:00:00

abstract：:Proper DNA double-strand break (DSB) repair is essential for maintaining genome integrity. Microhomology-mediated end joining (MMEJ) is an error-prone repair mechanism, which introduces mutations at break sites and contributes to chromosomal translocations and telomere fusions, thus driving carcinogenesis. Mitotic kin...

journal_title：Nucleic acids research

authors： Wang H,Qiu Z,Liu B,Wu Y,Ren J,Liu Y,Zhao Y,Wang Y,Hao S,Li Z,Peng B,Xu X

更新日期：2018-11-16 00:00:00

abstract：:Xenopus laevis 5S rRNA isolated from 7S particles or transcribed in vitro is found to adopt two alternative conformations. These two conformers contain different structural elements within the major TF III A binding domain, which, when isolated as RNA fragments, still interact with the transcription factor. Chemical m...

journal_title：Nucleic acids research

authors： Pieler T,Guddat U,Oei SL,Erdmann VA

更新日期：1986-08-11 00:00:00

abstract：:Augmented biological activity in vitro has been demonstrated in oligonucleotides (oligos) modified to provide nuclease resistance, to enhance cellular uptake or to increase target affinity. How chemical modification affects the duration of effect of an oligo with potent activity has not been investigated directly. We ...

journal_title：Nucleic acids research

authors： Tam RC,Li Y,Noonberg S,Hwang DG,Lui G,Hunt CA,Garovoy MR

更新日期：1994-03-25 00:00:00