A unique tRNA recognition mechanism of Caenorhabditis elegans mitochondrial EF-Tu2.

abstract：:The nucleolus is a unique structural component of interphase nuclei where the ribosomal genes, trans-cribed by RNA polymerase I (RNA pol I), are organized. In the present study, the repair of UV-induced photolesions was investigated in the ribosomal DNA (rDNA) in relation to RNA pol I transcription. We used hamster ce...

journal_title：Nucleic acids research

authors： Balajee AS,May A,Bohr VA

更新日期：1999-06-15 00:00:00

abstract：:With the improved secreted protein prediction approach and comprehensive data sources, including Swiss-Prot, TrEMBL, RefSeq, Ensembl and CBI-Gene, we have constructed secretomes of human, mouse and rat, with a total of 18 152 secreted proteins. All the entries are ranked according to the prediction confidence. They we...

journal_title：Nucleic acids research

authors： Chen Y,Zhang Y,Yin Y,Gao G,Li S,Jiang Y,Gu X,Luo J

更新日期：2005-01-01 00:00:00

abstract：:DNA methylation plays critical roles in transcriptional regulation and chromatin remodeling. Differentially methylated regions (DMRs) have important implications for development, aging and diseases. Therefore, genome-wide mapping of DMRs across various temporal and spatial methylomes is important in revealing the impa...

journal_title：Nucleic acids research

authors： Zhang Y,Liu H,Lv J,Xiao X,Zhu J,Liu X,Su J,Li X,Wu Q,Wang F,Cui Y

更新日期：2011-05-01 00:00:00

abstract：:To organize data resulting from the phenotypic characterization of a library of 30,000 T-DNA enhancer trap (ET) insertion lines of rice (Oryza sativa L cv. Nipponbare), we developed the Oryza Tag Line (OTL) database (http://urgi.versailles.inra.fr/OryzaTagLine/). OTL structure facilitates forward genetic search for sp...

journal_title：Nucleic acids research

authors： Larmande P,Gay C,Lorieux M,Périn C,Bouniol M,Droc G,Sallaud C,Perez P,Barnola I,Biderre-Petit C,Martin J,Morel JB,Johnson AA,Bourgis F,Ghesquière A,Ruiz M,Courtois B,Guiderdoni E

更新日期：2008-01-01 00:00:00

abstract：:Cell surface mannose 6-phosphate/insulin-like growth factor II receptors (M6P/IGF2R) bind and target exogenous insulin-like growth factor II (IGF2) to the prelysosomes where it is degraded. Loss of heterozygosity (LOH) for M6P/IGF2R is found in cancers, with mutational inactivation of the remaining allele. We exploite...

journal_title：Nucleic acids research

authors： Huang Z,Wen Y,Shandilya R,Marks JR,Berchuck A,Murphy SK

更新日期：2006-01-23 00:00:00

abstract：:Poly (ADP-ribose) polymerase 1 (PARP1) has emerged as an attractive target for cancer therapy due to its key role in DNA repair processes. Inhibition of PARP1 in BRCA-mutated cancers has been observed to be clinically beneficial. Recent genome-mapping experiments have identified a non-canonical G-quadruplex-forming se...

journal_title：Nucleic acids research

authors： Sengar A,Vandana JJ,Chambers VS,Di Antonio M,Winnerdy FR,Balasubramanian S,Phan AT

更新日期：2019-02-20 00:00:00

abstract：:The bHLH transcription factor MyoD, the prototypical master regulator of differentiation, directs a complex program of gene expression during skeletal myogenesis. The up-regulation of the cdk inhibitor p57kip2 plays a critical role in coordinating differentiation and growth arrest during muscle development, as well as...

journal_title：Nucleic acids research

authors： Busanello A,Battistelli C,Carbone M,Mostocotto C,Maione R

更新日期：2012-09-01 00:00:00

abstract：:Genotoxic stress induces alternative splicing of the oncogene MDM2 generating MDM2-ALT1, an isoform attributed with tumorigenic properties. However, the mechanisms underlying this event remain unclear. Here we explore MDM2 splicing regulation by utilizing a novel minigene that mimics endogenous MDM2 splicing in respon...

journal_title：Nucleic acids research

authors： Comiskey DF Jr,Jacob AG,Singh RK,Tapia-Santos AS,Chandler DS

更新日期：2015-04-30 00:00:00

abstract：:Polyadenylation is a co-transcriptional process that modifies mRNA 3'-ends in eukaryotes. In yeast, CF IA and CPF constitute the core 3'-end maturation complex. CF IA comprises Rna14p, Rna15p, Pcf11p and Clp1p. CF IA interacts with the C-terminal domain of RNA Pol II largest subunit via Pcf11p which links pre-mRNA 3'-...

journal_title：Nucleic acids research

authors： Haddad R,Maurice F,Viphakone N,Voisinet-Hakil F,Fribourg S,Minvielle-Sébastia L

更新日期：2012-02-01 00:00:00

abstract：:The σ subunit of bacterial RNA polymerase (RNAP) has been implicated in all steps of transcription initiation, including promoter recognition and opening, priming of RNA synthesis, abortive initiation and promoter escape. The post-promoter-recognition σ functions were proposed to depend on its conserved region σ3.2 th...

journal_title：Nucleic acids research

authors： Pupov D,Kuzin I,Bass I,Kulbachinskiy A

更新日期：2014-04-01 00:00:00

abstract：:Here we report proof-of-principle for a microsphere-based genotyping assay that detects single nucleotide polymorphisms (SNPs) directly from human genomic DNA samples. This assay is based on a structure-specific cleavage reaction that achieves single base discrimination with a 5'-nuclease which recognizes a tripartite...

journal_title：Nucleic acids research

authors： Rao KV,Stevens PW,Hall JG,Lyamichev V,Neri BP,Kelso DM

更新日期：2003-06-01 00:00:00

abstract：:DNA sequences, that control expression of the spliced leader (SL) RNA gene in the parasitic protozoan Leishmania amazonensis, were mapped by block substitution mutagenesis. In the absence of a functional in vitro system for transcription, no promoter elements have yet been identified in this organism. We therefore dev...

journal_title：Nucleic acids research

authors： Agami R,Aly R,Halman S,Shapira M

更新日期：1994-06-11 00:00:00

abstract：:ANISEED (www.aniseed.cnrs.fr) is the main model organism database for tunicates, the sister-group of vertebrates. This release gives access to annotated genomes, gene expression patterns, and anatomical descriptions for nine ascidian species. It provides increased integration with external molecular and taxonomy datab...

journal_title：Nucleic acids research

authors： Brozovic M,Dantec C,Dardaillon J,Dauga D,Faure E,Gineste M,Louis A,Naville M,Nitta KR,Piette J,Reeves W,Scornavacca C,Simion P,Vincentelli R,Bellec M,Aicha SB,Fagotto M,Guéroult-Bellone M,Haeussler M,Jacox E,Lowe

更新日期：2018-01-04 00:00:00

abstract：:Conformations of 8-bromo-2'-[unk]-triisopropylbenzenesulfonyladenosine ([unk]) and its 3'-[unk]-isomer ([unk]) in solution have been determined by the use of intramolecular nuclear Overhauser effects in (1)H NMR spectroscopy. Compound [unk] has been proved to have a conformation in which the adenosine and benzene ring...

journal_title：Nucleic acids research

authors： Ueyama M,Tori K,Ikehara M,Kaneko M

更新日期：1974-06-01 00:00:00

abstract：:Alpha-1-microglobulin and bikunin are two plasma glycoproteins encoded by an alpha-1-microglobulin/bikunin precursor (AMBP) gene. The strict liver-specific expression of the AMBP gene is controlled by a potent enhancer made of six clustered boxes numbered 1-6 that have been reported to be proven or potential binding s...

journal_title：Nucleic acids research

authors： Rouet P,Raguenez G,Tronche F,Mfou'ou V,Salier JP

更新日期：1995-02-11 00:00:00

abstract：:Pairing of a given E3 ubiquitin ligase with different E2s allows synthesis of ubiquitin conjugates of different topologies. While this phenomenon contributes to functional diversity, it remains largely unknown how a single E3 ubiquitin ligase recognizes multiple E2s, and whether identical structural requirements deter...

journal_title：Nucleic acids research

authors： Lok GT,Sy SM,Dong SS,Ching YP,Tsao SW,Thomson TM,Huen MS

更新日期：2012-01-01 00:00:00

abstract：:We examined the 3'-flanking regions required for accurate 3'-end formation of wheat histone H3 mRNA using gene expression in transformed sunflower cells. The introduction of mutations into the conserved sequence AATGGAAATG in the 3'-flanking region of plant histone genes, located 22 bp upstream from the polyadenylatio...

journal_title：Nucleic acids research

authors： Ohtsubo N,Iwabuchi M

更新日期：1994-03-25 00:00:00

abstract：:Population-scale sequencing is increasingly uncovering large numbers of rare single-nucleotide variants (SNVs) in coding regions of the genome. The rarity of these variants makes it challenging to evaluate their deleteriousness with conventional phenotype-genotype associations. Protein structures provide a way of addr...

journal_title：Nucleic acids research

authors： Kumar S,Clarke D,Gerstein M

更新日期：2016-12-01 00:00:00

abstract：:A system for the tetracycline-inducible regulation of gene expression in mycobacteria has been developed. We have sub-cloned the tetRO region from the Corynebacterium glutamicum TetZ locus into a mycobacterial shuttle plasmid, making expression of genes cloned downstream of tetRO responsive to tetracycline. Using the ...

journal_title：Nucleic acids research

authors： Blokpoel MC,Murphy HN,O'Toole R,Wiles S,Runn ES,Stewart GR,Young DB,Robertson BD

更新日期：2005-02-01 00:00:00

abstract：:The RNA of a deleted strain (lacking Src gene) of an avian sarcoma virus (ASV) was examined by a newly developed immunoelectron microscopic procedure which uses anti-nucleotide antibodies as probes. After denaturation of the RNA and reaction with a high affinity, highly specific anti-7-methylguanosine-5'-phosphate (an...

journal_title：Nucleic acids research

authors： Castleman H,Meredith RD,Erlanger BF

更新日期：1980-10-10 00:00:00

abstract：:siRNAs confer sequence specific and robust silencing of mRNA. By virtue of these properties, siRNAs have become therapeutic candidates for disease intervention. However, their use as therapeutic agents can be hampered by unintended off-target effects by either or both strands of the siRNA duplex. We report here that u...

journal_title：Nucleic acids research

authors： Vaish N,Chen F,Seth S,Fosnaugh K,Liu Y,Adami R,Brown T,Chen Y,Harvie P,Johns R,Severson G,Granger B,Charmley P,Houston M,Templin MV,Polisky B

更新日期：2011-03-01 00:00:00

abstract：:Communication between distantly spaced genomic regions is one of the key features of gene regulation in eukaryotes. Chromatin per se can stimulate efficient enhancer-promoter communication (EPC); however, the role of chromatin structure and dynamics in this process remains poorly understood. Here we show that nucleoso...

journal_title：Nucleic acids research

authors： Nizovtseva EV,Clauvelin N,Todolli S,Polikanov YS,Kulaeva OI,Wengrzynek S,Olson WK,Studitsky VM

更新日期：2017-04-07 00:00:00

abstract：:The linking number of DNA in minichromosomes increases by 2 turns during SV40 assembly. Changes in temperature also influence the average linking number of the total intracellular forms of SV40 DNA. When the isolated minichromosomes assembled in vivo are incubated with topoisomerase I at 33 degrees C in vitro, the lin...

journal_title：Nucleic acids research

authors： Ambrose C,McLaughlin R,Bina M

更新日期：1987-05-11 00:00:00

abstract：:U6 RNA is a member of a class of small abundant stable nuclear RNAs that are essential for splicing. In all species examined so far, the U6 RNA is a RNA polymerase III transcript. The U6 gene of the fission yeast Schizosaccharomyces pombe is unusual in that it is interrupted by an intron whose structure is similar to ...

journal_title：Nucleic acids research

authors： Potashkin J,Frendewey D

更新日期：1989-10-11 00:00:00

abstract：:A synapomorphy is a phylogenetic character that provides evidence of shared descent. Ideally a synapomorphy is ubiquitous within the clade of related organisms and nonexistent outside the clade, implying that it arose after divergence from other extant species and before the last common ancestor of the clade. With the...

journal_title：Nucleic acids research

authors： Bern M,Goldberg D,Lyashenko E

更新日期：2006-01-01 00:00:00

abstract：:The MspI restriction-modification system, which recognizes the sequence 5'-CCGG-3', has been previously cloned and sequenced (1). We subcloned the methyltransferase gene (M.MspI) downstream of the ptac promoter in the multicopy vector pUC119 and overexpressed it in E. coli. Upon induction with IPTG, M.MspI constitutes...

journal_title：Nucleic acids research

authors： Dubey AK,Mollet B,Roberts RJ

更新日期：1992-04-11 00:00:00

abstract：:Gene set enrichment testing can enhance the biological interpretation of ChIP-seq data. Here, we develop a method, ChIP-Enrich, for this analysis which empirically adjusts for gene locus length (the length of the gene body and its surrounding non-coding sequence). Adjustment for gene locus length is necessary because ...

journal_title：Nucleic acids research

authors： Welch RP,Lee C,Imbriano PM,Patil S,Weymouth TE,Smith RA,Scott LJ,Sartor MA

更新日期：2014-07-01 00:00:00

abstract：:We present NetCore, a novel network propagation approach based on node coreness, for phenotype-genotype associations and module identification. NetCore addresses the node degree bias in PPI networks by using node coreness in the random walk with restart procedure, and achieves improved re-ranking of genes after propag...

journal_title：Nucleic acids research

authors： Barel G,Herwig R

更新日期：2020-09-25 00:00:00

abstract：:Targeted gene silencing by RNA interference allows the study of gene function in plants and animals. In cell culture and small animal models, genetic screens can be performed--even tissue-specifically in Drosophila--with genome-wide RNAi libraries. However, a major problem with the use of RNAi approaches is the unavoi...

journal_title：Nucleic acids research

authors： Schulz JG,David G,Hassan BA

更新日期：2009-07-01 00:00:00

abstract：:Giant chromatin-modifying complexes regulate gene transcription in eukaryotes by acting on chromatin substrates and 'setting' the histone code. The histone deacetylase (HDAC)-associated mammalian Sin3 corepressor complex regulates a wide variety of genes involved in all aspects of cellular physiology. The recruitment ...

journal_title：Nucleic acids research

authors： He Y,Imhoff R,Sahu A,Radhakrishnan I

更新日期：2009-04-01 00:00:00