Protein binding sites on Escherichia coli 16S ribosomal RNA; RNA regions that are protected by proteins S7, S9 and S19, and by proteins S8, S15 and S17.

abstract：:Electrophoretic mobility shift assays (EMSA) were used to define the regions of the INO1 promoter that interact with factors present in extracts prepared from the yeast, Saccharomyces cerevisae. These experiments identified three different types of protein:DNA complexes that assemble with the INO1 promoter. Formation ...

journal_title：Nucleic acids research

authors： Lopes JM,Henry SA

更新日期：1991-07-25 00:00:00

abstract：:CeR-2 RNA is one of the newly identified Caenorhabditis elegans noncoding RNAs (ncRNAs). The characterization of CeR-2 by RNomic studies has failed to classify it into any known ncRNA family. In this study, we examined the spatiotemporal expression patterns of CeR-2 to gain insight into its function. CeR-2 is expresse...

journal_title：Nucleic acids research

authors： Hokii Y,Sasano Y,Sato M,Sakamoto H,Sakata K,Shingai R,Taneda A,Oka S,Himeno H,Muto A,Fujiwara T,Ushida C

更新日期：2010-09-01 00:00:00

abstract：:A repeated non-coding DNA sequence d(TTAGGG)n is present in the telomeric ends of all human chromosomes. These repeats can adopt multiple inter and intramolecular non-B-DNA conformations that may play an important role in biological processes. Two intramolecular structures of the telomeric oligonucleotide dAGGG(TTAGGG...

journal_title：Nucleic acids research

authors： He Y,Neumann RD,Panyutin IG

更新日期：2004-10-08 00:00:00

abstract：:With discovery of diverse roles for RNA, its centrality in cellular functions has become increasingly apparent. A number of algorithms have been developed to predict RNA secondary structure. Their performance has been benchmarked by comparing structure predictions to reference secondary structures. Generally, algorith...

journal_title：Nucleic acids research

authors： Xu Z,Almudevar A,Mathews DH

更新日期：2012-02-01 00:00:00

abstract：:G-quadruplex (G4) DNA structures can form physical barriers within the genome that must be unwound to ensure cellular genomic integrity. Here, we report unanticipated roles for the Escherichia coli Rep helicase and RecA recombinase in tolerating toxicity induced by G4-stabilizing ligands in vivo. We demonstrate that R...

journal_title：Nucleic acids research

authors： Paul T,Voter AF,Cueny RR,Gavrilov M,Ha T,Keck JL,Myong S

更新日期：2020-07-09 00:00:00

abstract：:The proportion of cytosines methylated in the DNA of nucleosome oligomers and of core particles appears indistinguishable from that of total nuclear DNA from CHO cells. However the DNA in nucleoprotein which is initially released from nuclei by treatment with very low levels of micrococcal nuclease and the first 10% o...

journal_title：Nucleic acids research

authors： Adams RL,McKay EL,Douglas JT,Burdon RH

更新日期：1977-09-01 00:00:00

abstract：:Modification of cytosine plays an important role in epigenetic regulation of gene expression and genome stability. Cytosine is converted to 5-methylcytosine (5mC) by DNA methyltransferase; in turn, 5mC may be oxidized to 5-hydroxymethylcytosine (5hmC) by ten-eleven translocation enzyme. The structural flexibility of D...

journal_title：Nucleic acids research

authors： Furukawa A,Walinda E,Arita K,Sugase K

更新日期：2021-01-25 00:00:00

abstract：:We provide a novel web service, called rQuant.web, allowing convenient access to tools for quantitative analysis of RNA sequencing data. The underlying quantitation technique rQuant is based on quadratic programming and estimates different biases induced by library preparation, sequencing and read mapping. It can tack...

journal_title：Nucleic acids research

authors： Bohnert R,Rätsch G

更新日期：2010-07-01 00:00:00

abstract：:RNA editing of miRNAs, especially in the seed region, adds another layer to miRNA mediated gene regulation which can modify its targets, altering cellular signaling involved in important processes such as differentiation. In this study, we have explored the role of miRNA editing in CD4(+) T cell differentiation. CD4(+...

journal_title：Nucleic acids research

authors： Negi V,Paul D,Das S,Bajpai P,Singh S,Mukhopadhyay A,Agrawal A,Ghosh B

更新日期：2015-09-18 00:00:00

abstract：:A limited number of Methicillin-resistant Staphylococcus aureus (MRSA) clones are responsible for MRSA infections worldwide, and those of different lineages carry unique Type I restriction-modification (RM) variants. We have identified the specific DNA sequence targets for the dominant MRSA lineages CC1, CC5, CC8 and ...

journal_title：Nucleic acids research

authors： Roberts GA,Houston PJ,White JH,Chen K,Stephanou AS,Cooper LP,Dryden DT,Lindsay JA

更新日期：2013-08-01 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：:Direct visualization of DNA and proteins allows researchers to investigate DNA-protein interactions with great detail. Much progress has been made in this area as a result of increasingly sensitive single-molecule fluorescence techniques. At the same time, methods that control the conformation of DNA molecules have be...

journal_title：Nucleic acids research

authors： van Mameren J,Peterman EJ,Wuite GJ

更新日期：2008-08-01 00:00:00

abstract：:The structural gene and the regulatory DNA sequence of the yeast Hansenula polymorpha methanol oxidase have been isolated. According to the nucleotide sequence data obtained, the structural gene encodes a 664 amino acids long protein, contains no intervening sequences, and the 5'- and 3'-non-coding region contains sev...

journal_title：Nucleic acids research

authors： Ledeboer AM,Edens L,Maat J,Visser C,Bos JW,Verrips CT,Janowicz Z,Eckart M,Roggenkamp R,Hollenberg CP

更新日期：1985-05-10 00:00:00

abstract：:Analysis of 41 histone homologous clones from an isogenic gene library of Drosophila melanogaster showed that non-histone fragments interrupt the histone repetitive clusters at several sites. Long (L) and short (S) forms of the repeating units are distinguished by the insertion of 240 bp into the spacer between H1 and...

journal_title：Nucleic acids research

authors： Matsuo Y,Yamazaki T

更新日期：1989-01-11 00:00:00

abstract：:Mutations in the RecQ DNA helicase gene BLM give rise to Bloom's syndrome, which is a rare autosomal recessive disorder characterized by genetic instability and cancer predisposition. BLM helicase is highly active in binding and unwinding G-quadruplexes (G4s), which are physiological targets for BLM, as revealed by ge...

journal_title：Nucleic acids research

authors： Wu WQ,Hou XM,Li M,Dou SX,Xi XG

更新日期：2015-05-19 00:00:00

abstract：:A 170bp long BamHI-Sau3A DNA fragment from the actIII-actI intergenic region of the actinorhodin (Act) biosynthetic gene cluster of Streptomyces coelicolor A3(2) contains two promoters directing transcription in a divergent manner. One of them, the actIII promoter, is responsible for the transcription of the actIII ge...

journal_title：Nucleic acids research

authors： Parro V,Hopwood DA,Malpartida F,Mellado RP

更新日期：1991-05-25 00:00:00

abstract：:The highly charged DNA chain may be either in an extended conformation, the coil, or condensed into a highly dense and ordered structure, the toroid. The transition, also called collapse of the chain, can be triggered in different ways, for example by changing the ionic conditions of the solution. We observe individua...

journal_title：Nucleic acids research

authors： Sung B,Leforestier A,Livolant F

更新日期：2016-02-18 00:00:00

abstract：:We present a study of how substituent groups of naturally occurring and modified nucleotide bases affect the degree of hydration of right-handed B-DNA and left-handed Z-DNA. A comparison of poly(dG-dC) and poly(dG-dm5C) titrations with the lipotropic salts of the Hofmeister series infers that the methyl stabilization ...

journal_title：Nucleic acids research

authors： Kagawa TF,Howell ML,Tseng K,Ho PS

更新日期：1993-12-25 00:00:00

abstract：:VL30 genetic elements constitute a murine multicopy gene family that is retrovirus-like, despite the lack of sequence homology with any known retrovirus. Over one hundred copies of VL30 units are dispersed throughout the mouse genome. We report here that the mouse genome also contains 'solo' VL30 long terminal repeats...

journal_title：Nucleic acids research

authors： Rotman G,Itin A,Keshet E

更新日期：1984-03-12 00:00:00

abstract：:The PriA protein was identified in Escherichia coli as a factor involved in the replication of extrachromosomal elements such as bacteriophage phiX174 and plasmid pBR322. Recent data show that PriA plays an important role in chromosomal replication, by promoting reassembly of the replication machinery during reinitiat...

journal_title：Nucleic acids research

authors： Polard P,Marsin S,McGovern S,Velten M,Wigley DB,Ehrlich SD,Bruand C

更新日期：2002-04-01 00:00:00

abstract：:An improved method was developed for microdissection and cloning of metaphase as well as pachytene chromosomes. The protocol incorporates efficient ligation of chromosomal DNA with linker adaptors, abolishment of microcloning steps and the reduction of micromanipulation. The threshold for amplifying genomic DNA templa...

journal_title：Nucleic acids research

authors： Ponelies N,Stein N,Weber G

更新日期：1997-09-01 00:00:00

abstract：:Immunotoxoin-mediated cell targeting (IMCT) is a technique for conditionally ablating specific cell types based on the cytotoxic activity of a recombinant immunotoxin anti-Tac (Fv)-PE40. To examine the feasibility of this technique for the negative selection in mouse embryonic stem (ES) cells, we investigated the resp...

journal_title：Nucleic acids research

authors： Kobayashi K,Ohye T,Pastan I,Nagatsu T

更新日期：1996-09-15 00:00:00

abstract：:FIMM database (http://sdmc.krdl.org.sg:8080/fimm) contains data relevant to functional molecular immunology, focusing on cellular immunology. It contains fully referenced data on protein antigens, major histocompatibility complex (MHC) molecules, MHC-associated peptides and relevant disease associations. FIMM has a se...

journal_title：Nucleic acids research

authors： Schönbach C,Koh JL,Flower DR,Wong L,Brusic V

更新日期：2002-01-01 00:00:00

abstract：:A new method which predicts internal exon sequences in human DNA has been developed. The method is based on a splice site prediction algorithm that uses the linear discriminant function to combine information about significant triplet frequencies of various functional parts of splice site regions and preferences of ol...

journal_title：Nucleic acids research

authors： Solovyev VV,Salamov AA,Lawrence CB

更新日期：1994-12-11 00:00:00

abstract：:The lytic-lysogenic decision in bacteriophage 186 is governed by the 186 CI repressor protein in a unique way. The 186 CI is proposed to form a wheel-like oligomer that can mediate either wrapped or looped nucleoprotein complexes to provide the cooperative and competitive interactions needed for regulation. Although c...

journal_title：Nucleic acids research

authors： Wang H,Dodd IB,Dunlap DD,Shearwin KE,Finzi L

更新日期：2013-06-01 00:00:00

abstract：:Many cellular proteins are methylated on lysine residues and this has been most intensively studied for histone proteins. Lysine methylations on non-histone proteins are also frequent, but in most cases the functional significance of the methylation event, as well as the identity of the responsible lysine (K) specific...

journal_title：Nucleic acids research

authors： Jakobsson ME,Malecki J,Nilges BS,Moen A,Leidel SA,Falnes PØ

更新日期：2017-08-21 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：:The design of a family shuffling strategy (CLERY: Combinatorial Libraries Enhanced by Recombination in Yeast) associating PCR-based and in vivo recombination and expression in yeast is described. This strategy was tested using human cytochrome P450 CYP1A1 and CYP1A2 as templates, which share 74% nucleotide sequence id...

journal_title：Nucleic acids research

authors： Abécassis V,Pompon D,Truan G

更新日期：2000-10-15 00:00:00

abstract：:The GeneNet system is designed for collection and analysis of the data on gene and metabolic networks, signal transduction pathways and kinetic characteristics of elementary processes. In the past 2 years, the GeneNet structure was considerably improved: (i) the current version of the database is now implemented using...

journal_title：Nucleic acids research

authors： Ananko EA,Podkolodny NL,Stepanenko IL,Podkolodnaya OA,Rasskazov DA,Miginsky DS,Likhoshvai VA,Ratushny AV,Podkolodnaya NN,Kolchanov NA

更新日期：2005-01-01 00:00:00

abstract：:A phage-display library of random peptides is a combinatorial experimental technique that can be harnessed for studying antibody-antigen interactions. In this technique, a phage peptide library is scanned against an antibody molecule to obtain a set of peptides that are bound by the antibody with high affinity. This s...

journal_title：Nucleic acids research

authors： Mayrose I,Shlomi T,Rubinstein ND,Gershoni JM,Ruppin E,Sharan R,Pupko T

更新日期：2007-01-01 00:00:00