In vitro chromatin assembly promoted by the Xenopus laevis S-150 cell-free extract is enhanced by treatment with RNase A.

abstract：:chipD is a web server that facilitates design of DNA oligonucleotide probes for high-density tiling arrays, which can be used in a number of genomic applications such as ChIP-chip or gene-expression profiling. The server implements a probe selection algorithm that takes as an input, in addition to the target sequences...

journal_title：Nucleic acids research

authors： Dufour YS,Wesenberg GE,Tritt AJ,Glasner JD,Perna NT,Mitchell JC,Donohue TJ

更新日期：2010-07-01 00:00:00

abstract：:The development of genetic switches and their integrated forms (genetic circuits) with desired specifications/functions is key for success in synthetic biology. Due to the difficulty in rational design, genetic switches and circuits with desirable specifications are mostly obtained by directed evolution. Based on a vi...

journal_title：Nucleic acids research

authors： Tashiro Y,Fukutomi H,Terakubo K,Saito K,Umeno D

更新日期：2011-02-01 00:00:00

abstract：:ZFP57 is necessary for maintaining repressive epigenetic modifications at Imprinting control regions (ICRs). In mouse embryonic stem cells (ESCs), ZFP57 binds ICRs (ICRBS) and many other loci (non-ICRBS). To address the role of ZFP57 on all its target sites, we performed high-throughput and multi-locus analyses of inb...

journal_title：Nucleic acids research

authors： Riso V,Cammisa M,Kukreja H,Anvar Z,Verde G,Sparago A,Acurzio B,Lad S,Lonardo E,Sankar A,Helin K,Feil R,Fico A,Angelini C,Grimaldi G,Riccio A

更新日期：2016-09-30 00:00:00

abstract：:We have determined the nucleotide sequences of long terminal repeat (LTR) regions of Syrian hamster intracisternal A particle (IAP) genes. The size of the LTRs was 350 base-pairs (bp) and 376 bp in two clones, H10 and H18, respectively. Two LTRs at both ends of the IAP gene were linked to directly repeating 6 bp hamst...

journal_title：Nucleic acids research

authors： Ono M,Ohishi H

更新日期：1983-10-25 00:00:00

abstract：:A complete nucleotide sequence of human aldolase B mRNA was determined with a recombinant cDNA (pHABL120-3). The cDNA insert was composed of 1,652 bases excluding poly(A) tail and the sequence was consistent with the previous results reported by others. However, S1 nuclease mapping and subsequent genomic analysis allo...

journal_title：Nucleic acids research

authors： Sakakibara M,Mukai T,Yatsuki H,Hori K

更新日期：1985-07-25 00:00:00

abstract：:A fiber optic biosensor was used for the fluorimetric detection of T/AT triple-helical DNA formation. The surfaces of two sets of fused silica optical fibers were functionalized with hexaethylene oxide linkers from which decaadenylic acid oligonucleotides were grown in the 3'to 5'and 5'to 3'direction, respectively, us...

journal_title：Nucleic acids research

authors： Uddin AH,Piunno PA,Hudson RH,Damha MJ,Krull UJ

更新日期：1997-10-15 00:00:00

abstract：:Reversion of T type cytoplasmic male sterility (cmsT) to fertility is correlated with sequence changes in a 1.5 kb AvaI fragment. This 1.5 kb AvaI fragment is composed of 5' flanking sequences of ATPase subunit 6, one complete open reading frame (ORF 13) and part of the another (ORF 25). The sequence of the 1.5 kb Ava...

journal_title：Nucleic acids research

authors： Qin J,Fauron CM,Brettell RI,Milhous M,Abbott AG

更新日期：1987-08-11 00:00:00

abstract：:Antibodies to the deoxyribotrinucleotides dpApTpA and dpApApT were prepared by injecting the bovine serum albumin conjugates of the respective haptens in rabbits. The specificities of the antibodies were determined by estimating the inhibition of the binding of the tritiated haptens to the immunoglobulins by various n...

journal_title：Nucleic acids research

authors： Khan SA,Jacob TM

更新日期：1977-09-01 00:00:00

abstract：:Approximately 30% of human tumors characterized to date express DNA polymerase beta (pol beta) variant proteins. Two of the polymerase beta cancer-associated variants are sequence-specific mutators, and one of them binds to DNA but has no polymerase activity. The Leu22Pro (L22P) DNA polymerase beta variant was identif...

journal_title：Nucleic acids research

authors： Dalal S,Chikova A,Jaeger J,Sweasy JB

更新日期：2008-02-01 00:00:00

abstract：:The Zebrafish Information Network (ZFIN) (https://zfin.org/) is the database for the model organism, zebrafish (Danio rerio). ZFIN expertly curates, organizes, and provides a wide array of zebrafish genetic and genomic data, including genes, alleles, transgenic lines, gene expression, gene function, mutant phenotypes,...

journal_title：Nucleic acids research

authors： Howe DG,Ramachandran S,Bradford YM,Fashena D,Toro S,Eagle A,Frazer K,Kalita P,Mani P,Martin R,Moxon ST,Paddock H,Pich C,Ruzicka L,Schaper K,Shao X,Singer A,Van Slyke CE,Westerfield M

更新日期：2021-01-08 00:00:00

abstract：:The deoxyoligonucleotide 5' AATCGGGCATGGATT (15-mer) was synthesized containing 12 phosphoramidate linkages derived from 2 primary and 2 secondary amines. The oligonucleotides were purified by reverse phase HPLC and characterized by PAGE. The thermal stability of the duplexes derived from these compounds, when hybridi...

journal_title：Nucleic acids research

authors： Froehler B,Ng P,Matteucci M

更新日期：1988-06-10 00:00:00

abstract：:The thermodynamics of 13 hybridization reactions between 10 base DNA sequences of design 5'-ATGCXYATGC-3' with X, Y = A, C, G, T and their complementary PNA and DNA sequences were determined from isothermal titration calorimetry (ITC) measurements at ambient temperature. For the PNA/DNA hybridization reactions, the bi...

journal_title：Nucleic acids research

authors： Schwarz FP,Robinson S,Butler JM

更新日期：1999-12-15 00:00:00

abstract：:Histone H3K4 methylation is an epigenetic mark associated with actively transcribed genes. This modification is catalyzed by the mixed lineage leukaemia (MLL) family of histone methyltransferases including MLL1, MLL2, MLL3, MLL4, SET1A and SET1B. The catalytic activity of this family is dependent on interactions with ...

journal_title：Nucleic acids research

authors： Kaustov L,Lemak A,Wu H,Faini M,Fan L,Fang X,Zeng H,Duan S,Allali-Hassani A,Li F,Wei Y,Vedadi M,Aebersold R,Wang Y,Houliston S,Arrowsmith CH

更新日期：2019-09-26 00:00:00

abstract：:The endoribonuclease RNase E is a key enzyme in RNA metabolism for many bacterial species. In Escherichia coli, RNase E contributes to the majority of RNA turnover and processing events, and the enzyme has been extensively characterized as the central component of the RNA degradosome assembly. A similar RNA degradosom...

journal_title：Nucleic acids research

authors： Voss JE,Luisi BF,Hardwick SW

更新日期：2014-12-01 00:00:00

abstract：:We have examined the expression and structure of several genes belonging to two classes of vegetative specific genes of the simple eukaryote, Dictyostelium discoideum. In amebae grown on bacteria, deactivation of all vegetative specific genes occurred at the onset of development and very little mRNA exists by 8 to 10 ...

journal_title：Nucleic acids research

authors： Singleton CK,Manning SS,Ken R

更新日期：1989-12-11 00:00:00

abstract：:The Arabidopsis Information Resource (TAIR, http://arabidopsis.org) is the model organism database for the fully sequenced and intensively studied model plant Arabidopsis thaliana. Data in TAIR is derived in large part from manual curation of the Arabidopsis research literature and direct submissions from the research...

journal_title：Nucleic acids research

authors： Swarbreck D,Wilks C,Lamesch P,Berardini TZ,Garcia-Hernandez M,Foerster H,Li D,Meyer T,Muller R,Ploetz L,Radenbaugh A,Singh S,Swing V,Tissier C,Zhang P,Huala E

更新日期：2008-01-01 00:00:00

abstract：:A linear method for the search of eukaryotic nuclear tRNA genes in DNA databases is described. Based on a modified version of the general weight matrix procedure, our algorithm relies on the recognition of two intragenic control regions known as A and B boxes, a transcription termination signal, and on the evaluation ...

journal_title：Nucleic acids research

authors： Pavesi A,Conterio F,Bolchi A,Dieci G,Ottonello S

更新日期：1994-04-11 00:00:00

abstract：:We have used paired-end sequencing of yeast nucleosomal DNA to obtain accurate genomic maps of nucleosome positions and occupancies in control cells and cells treated with 3-aminotriazole (3AT), an inducer of the transcriptional activator Gcn4. In control cells, 3AT-inducible genes exhibit a series of distinct nucleos...

journal_title：Nucleic acids research

authors： Cole HA,Howard BH,Clark DJ

更新日期：2011-12-01 00:00:00

abstract：:Besides the nicking-closing (topoisomerase I) activity, an ATP-dependent DNA topoisomerase is present in rat liver nuclei. The enzyme, partially purified, is able to catenate in vitro closed DNA circles in a magnesium-dependent, ATP-dependent, histone H1-dependent reaction, and to decatenate in vitro kinetoplast DNA n...

journal_title：Nucleic acids research

authors： Duguet M,Lavenot C,Harper F,Mirambeau G,De Recondo AM

更新日期：1983-02-25 00:00:00

abstract：:Next generation sequencing is widely used to link genetic variants to diseases, and it has massively accelerated the diagnosis and characterization of rare genetic diseases. After initial bioinformatic data processing, the interactive analysis of genome, exome, and panel sequencing data typically starts from lists of ...

journal_title：Nucleic acids research

authors： Müller H,Jimenez-Heredia R,Krolo A,Hirschmugl T,Dmytrus J,Boztug K,Bock C

更新日期：2017-07-03 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：:The Schizosaccharomyces pombe genome is one of the smallest among the free-living eukaryotes. We further reduced the S. pombe gene number by large-scale gene deletion to identify a minimal gene set required for growth under laboratory conditions. The genome-reduced strain has four deletion regions: 168.4 kb in the lef...

journal_title：Nucleic acids research

authors： Sasaki M,Kumagai H,Takegawa K,Tohda H

更新日期：2013-05-01 00:00:00

abstract：:Expression of the matrix metalloproteinase (MMP) gene stromelysin-3 ( ST3 ) has been shown to be tightly associated with cell migration and apoptosis inmammals and amphibians. This contrasts with most other MMP genes. We demonstrate here that the Xenopus ST3 gene also has a structure distinct from other MMP genes, wit...

journal_title：Nucleic acids research

authors： Li J,Liang VC,Sedgwick T,Wong J,Shi YB

更新日期：1998-06-15 00:00:00

abstract：:SMILE (small heterodimer partner interacting leucine zipper protein) has been identified as a coregulator in ER signaling. In this study, we have examined the effects of SMILE on other NRs (nuclear receptors). SMILE inhibits GR, CAR and HNF4 alpha-mediated transactivation. Knockdown of SMILE gene expression increases ...

journal_title：Nucleic acids research

authors： Xie YB,Nedumaran B,Choi HS

更新日期：2009-07-01 00:00:00

abstract：:In neural stem cells (NSCs), the balance between stem cell maintenance and neuronal differentiation depends on cell-fate determinants such as TRIM32. Previously, we have shown that TRIM32 associates with the RNA-induced silencing complex and increases the activity of microRNAs such as Let-7a. However, the exact mechan...

journal_title：Nucleic acids research

authors： Nicklas S,Okawa S,Hillje AL,González-Cano L,Del Sol A,Schwamborn JC

更新日期：2015-03-11 00:00:00

abstract：:ETS-domain transcription factors play important roles in controlling gene expression in a variety of different contexts; however, these proteins bind to very similar sites and it is unclear how in vivo specificity is achieved. In silico analysis is unlikely to reveal specific targets for individual family members and ...

journal_title：Nucleic acids research

authors： Boros J,O'Donnell A,Donaldson IJ,Kasza A,Zeef L,Sharrocks AD

更新日期：2009-12-01 00:00:00

abstract：:Anisotropic motions of DNA fragments in the size range 6-118 base pairs are studied by the steady-state fluorescence polarization of different excitation transitions in the intercalated ethidium cation. Calculated effective tumbling and twisting times are found to be shorter than predicted for overall motions of rigid...

journal_title：Nucleic acids research

authors： Härd T,Kearns DR

更新日期：1986-05-12 00:00:00

abstract：:The National Center for Biotechnology Information (NCBI) provides a large suite of online resources for biological information and data, including the GenBank® nucleic acid sequence database and the PubMed® database of citations and abstracts published in life science journals. The Entrez system provides search and re...

journal_title：Nucleic acids research

authors： Sayers EW,Beck J,Bolton EE,Bourexis D,Brister JR,Canese K,Comeau DC,Funk K,Kim S,Klimke W,Marchler-Bauer A,Landrum M,Lathrop S,Lu Z,Madden TL,O'Leary N,Phan L,Rangwala SH,Schneider VA,Skripchenko Y,Wang J,Ye J,

更新日期：2021-01-08 00:00:00

abstract：:mRNA deadenylation is under the control of cis-acting regulatory elements, which include AU-rich elements (AREs) and microRNA (miRNA) targeting sites, within the 3' untranslated region (3' UTRs) of eukaryotic mRNAs. Deadenylases promote miRNA-induced mRNA decay through their interaction with miRNA-induced silencing co...

journal_title：Nucleic acids research

authors： Zhang X,Devany E,Murphy MR,Glazman G,Persaud M,Kleiman FE

更新日期：2015-12-15 00:00:00

abstract：:Recently, a few Na+-specific RNA-cleaving DNAzymes were reported, where nucleobases are likely to play critical roles in catalysis. The NaA43 and NaH1 DNAzymes share the same 16-nt Na+-binding motif, but differ in one or two nucleotides in a small catalytic loop. Nevertheless, they display an opposite pH-dependency, i...

journal_title：Nucleic acids research

authors： Ma L,Kartik S,Liu B,Liu J

更新日期：2019-09-05 00:00:00