Differential effects of hnRNP D/AUF1 isoforms on HIV-1 gene expression.

abstract：:Heterotrimeric eukaryotic/archaeal translation initiation factor 2 (e/aIF2) binds initiator methionyl-tRNA and plays a key role in the selection of the start codon on messenger RNA. tRNA binding was extensively studied in the archaeal system. The γ subunit is able to bind tRNA, but the α subunit is required to reach h...

journal_title：Nucleic acids research

authors： Naveau M,Lazennec-Schurdevin C,Panvert M,Dubiez E,Mechulam Y,Schmitt E

更新日期：2013-01-01 00:00:00

abstract：:Translation Initiator of Short 5' UTR (TISU) is a unique regulatory element of both transcription and translation initiation. It is present in a sizable number of genes with basic cellular functions and a very short untranslated region (5' UTR). Here, we investigated translation initiation from short 5' UTR mRNAs with...

journal_title：Nucleic acids research

authors： Elfakess R,Sinvani H,Haimov O,Svitkin Y,Sonenberg N,Dikstein R

更新日期：2011-09-01 00:00:00

abstract：:A new method for specific reamplification of DDRT-PCR products is presented. After transient ligation of the primary DDRT-PCR fragments into a T-vector, the cDNAs of interest were reamplified by hemi-nested PCR and thermally asymmetric cycles. In contrast to the originally described protocol, this method of reamplific...

journal_title：Nucleic acids research

authors： Bonnet S,Prévot G,Bourgouin C

更新日期：1998-02-15 00:00:00

abstract：:The genome of Kirsten murine sarcoma virus was formed by recombination between Kirsten murine leukaemia virus sequences, and rat sequences derived from a retrovirus-like '30S' (VL30) genetic element encompassing the Kras oncogene. Using cloned DNAs we have determined the nucleotide sequences of the long terminal repea...

journal_title：Nucleic acids research

authors： Norton JD,Connor J,Avery RJ

更新日期：1984-09-11 00:00:00

abstract：:In Trypanosoma brucei the genes are organised into long polycistronic transcription units and only three promoters for protein-encoding genes and a single terminator have been characterised. These promoters recruit a polI-like RNA polymerase for the transcription units encoding the two major stage-specific antigens of...

journal_title：Nucleic acids research

authors： Berberof M,Vanhamme L,Alexandre S,Lips S,Tebabi P,Pays E

更新日期：2000-01-15 00:00:00

abstract：:Fast viral adaptation and the implication of this rapid evolution in the emergence of several new infectious diseases have turned this issue into a major challenge for various research domains. Indeed, viruses are involved in the development of a wide range of pathologies and understanding how viruses and host cells i...

journal_title：Nucleic acids research

authors： Palmeira L,Penel S,Lotteau V,Rabourdin-Combe C,Gautier C

更新日期：2011-01-01 00:00:00

abstract：:The sequence requirements for transcriptional stimulation of the adenovirus major late promoter (MLP) by the products of the early transcription unit Ela and by the replication of viral DNA were analyzed by in vitro transcription. Sequences upstream of +33 are involved in the moderate Ela-responsiveness of the MLP, wh...

journal_title：Nucleic acids research

authors： Jansen-Durr P,Boeuf H,Kédinger C

更新日期：1988-05-11 00:00:00

abstract：:We describe an algorithm for gene identification in DNA sequences derived from shotgun sequencing of microbial communities. Accurate ab initio gene prediction in a short nucleotide sequence of anonymous origin is hampered by uncertainty in model parameters. While several machine learning approaches could be proposed t...

journal_title：Nucleic acids research

authors： Zhu W,Lomsadze A,Borodovsky M

更新日期：2010-07-01 00:00:00

abstract：:Infrared spectroscopy was used to identify hydration-sensitive structural differences between single- stranded phosphorothioate (PS) and phosphodiester (PO) oligodeoxyribonucleotides. Spectra were recorded in the mid-infrared region, 500-1800 cm-1, at relative humidities between 0 and 98%; the PS and PO spectra are su...

journal_title：Nucleic acids research

authors： White AP,Reeves KK,Snyder E,Farrell J,Powell JW,Mohan V,Griffey RH

更新日期：1996-08-15 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：:Successful development of biological databases requires accommodation of the burgeoning amounts of data from high-throughput genomics pipelines. As the volume of curated data in Animal QTLdb (https://www.animalgenome.org/QTLdb) increases exponentially, the resulting challenges must be met with rapid infrastructure dev...

journal_title：Nucleic acids research

authors： Hu ZL,Park CA,Reecy JM

更新日期：2019-01-08 00:00:00

abstract：:The transcriptional silencing of one of the female X-chromosomes is a finely regulated process that requires accumulation in cis of the long non-coding RNA X-inactive-specific transcript (Xist) followed by a series of epigenetic modifications. Little is known about the molecular machinery regulating initiation and mai...

journal_title：Nucleic acids research

authors： Agostini F,Cirillo D,Bolognesi B,Tartaglia GG

更新日期：2013-01-07 00:00:00

abstract：:Genomes mutate and evolve in ways simple (substitution or deletion of bases) and complex (e.g. chromosome shattering). We do not fully understand what types of complex mutation occur, and we cannot routinely characterize arbitrarily-complex mutations in a high-throughput, genome-wide manner. Long-read DNA sequencing m...

journal_title：Nucleic acids research

authors： Frith MC,Khan S

更新日期：2018-02-28 00:00:00

abstract：:The detailed conformational features and dynamics of the naturally occurring deoxyribotrinucleoside diphosphates d-TpTpT and d-TpTpC have been investigated at 20 degrees C and 80 degrees C in aqueous solution by nuclear magnetic resonance spectroscopy. The observed NMR parameters indicate that the conformational prope...

journal_title：Nucleic acids research

authors： Cheng DM,Dhingra MM,Sarma RH

更新日期：1978-11-01 00:00:00

abstract：:To determine whether methylation changes in specific DNA sequences of the albumin and AFP genes are implicated in the modulation of transcriptional activity during rat liver development and neoplasia we have analysed the methylation pattern of C-C-G-G sequences within these genes in DNA isolated from fetal and adult h...

journal_title：Nucleic acids research

authors： Vedel M,Gomez-Garcia M,Sala M,Sala-Trepat JM

更新日期：1983-07-11 00:00:00

abstract：:The repAC operon of plasmid RSF1010 consists of the genes for proteins E, F, RepA (DNA helicase), and RepC (origin-binding initiator protein) and is transcriptionally initiated by a promoter called P4. We have studied the expression of the repAC operon in vivo by using fusions to the lacZ reporter gene. The results sh...

journal_title：Nucleic acids research

authors： Maeser S,Scholz P,Otto S,Scherzinger E

更新日期：1990-11-11 00:00:00

abstract：:Epigenetic regulation of gene expression is tightly controlled by the dynamic modification of histones by chemical groups, the diversity of which has largely expanded over the past decade with the discovery of lysine acylations, catalyzed from acyl-coenzymes A. We investigated the dynamics of lysine acetylation and cr...

journal_title：Nucleic acids research

authors： Crespo M,Damont A,Blanco M,Lastrucci E,Kennani SE,Ialy-Radio C,Khattabi LE,Terrier S,Louwagie M,Kieffer-Jaquinod S,Hesse AM,Bruley C,Chantalat S,Govin J,Fenaille F,Battail C,Cocquet J,Pflieger D

更新日期：2020-05-07 00:00:00

abstract：:5' strand resection at DNA double strand breaks (DSBs) is critical for homologous recombination (HR) and genomic stability. Here we develop a novel method to quantitatively measure single-stranded DNA intermediates in human cells and find that the 5' strand at endonuclease-generated break sites is resected up to 3.5 k...

journal_title：Nucleic acids research

authors： Zhou Y,Caron P,Legube G,Paull TT

更新日期：2014-02-01 00:00:00

abstract：:PvuRts1I is a prototype for a larger family of restriction endonucleases that cleave DNA containing 5-hydroxymethylcytosine (5hmC) or 5-glucosylhydroxymethylcytosine (5ghmC), but not 5-methylcytosine (5mC) or cytosine. Here, we report a crystal structure of the enzyme at 2.35 Å resolution. Although the protein has bee...

journal_title：Nucleic acids research

authors： Kazrani AA,Kowalska M,Czapinska H,Bochtler M

更新日期：2014-05-01 00:00:00

abstract：:The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). Access to promoter sequences is provided by pointers to positions in the corresponding genomes. Promoter evidence comes from conventional TSS mappi...

journal_title：Nucleic acids research

authors： Schmid CD,Perier R,Praz V,Bucher P

更新日期：2006-01-01 00:00:00

abstract：:Insertion of DNA containing PR, the early rightward promoter of bacteriophage lambda, is lethal to M13-derived vectors when the promoter directs transcription (using the '+' strand as template) toward the M13 origin of replication (ori). Lethality can be relieved by mutation of PR, repression of the promoter by the la...

journal_title：Nucleic acids research

authors： Brown S,Ferm J,Woody S,Gussin G

更新日期：1990-10-25 00:00:00

abstract：:Bacteria occupy a diverse set of environmental niches with differing oxygen availability. Anaerobic environments such as mammalian digestive tracts and industrial reactors harbor an abundance of both obligate and facultative anaerobes, many of which play significant roles in human health and biomanufacturing. Studying...

journal_title：Nucleic acids research

authors： Wang XC,Wilson SC,Hammond MC

更新日期：2016-09-30 00:00:00

abstract：:Dlx homeobox genes are first expressed in embryonic retina at E11.5. The Dlx1/Dlx2 null retina has a reduced ganglion cell layer (GCL), with loss of late-born differentiated retinal ganglion cells (RGCs) due to increased apoptosis. TrkB signaling is proposed to regulate the dynamics of RGC apoptosis throughout develop...

journal_title：Nucleic acids research

authors： de Melo J,Zhou QP,Zhang Q,Zhang S,Fonseca M,Wigle JT,Eisenstat DD

更新日期：2008-02-01 00:00:00

abstract：:The role of the mRNA-binding protein human antigen R (HuR) in stabilization and translation of AU-rich elements (ARE) containing mRNAs is well established. However, the trafficking of HuR and bound mRNA cargo, which comprises a fundamental requirement for the aforementioned HuR functions is only poorly understood. By ...

journal_title：Nucleic acids research

authors： Doller A,Schulz S,Pfeilschifter J,Eberhardt W

更新日期：2013-10-01 00:00:00

abstract：:The human beta-actin promoter, including its 5' flanking region and 5' untranslated region, is ubiquitously active in mammalian cells in culture. In this report we investigated the transcriptional activity of, and the protein-DNA interactions that occur within, the proximal region of the human beta-actin promoter. Eff...

journal_title：Nucleic acids research

authors： Danilition SL,Frederickson RM,Taylor CY,Miyamoto NG

更新日期：1991-12-25 00:00:00

abstract：:A frequently used method of comparing large RNA molecules employs the two-dimensional display of oligonucleotides generated through the action of specific RNases (oligonucleotide mapping, fingerprinting). Using computer simulations and simple analytic expressions the number of large RNase T1-resistant oligonucleotides...

journal_title：Nucleic acids research

authors： Aaronson RP,Young JF,Palese P

更新日期：1982-01-11 00:00:00

abstract：:Gene expression circuitries, which enable cells to detect precise levels within a morphogen concentration gradient, have a pivotal impact on biological processes such as embryonic pattern formation, paracrine and autocrine signalling, and cellular migration. We present the rational synthesis of a synthetic genetic cir...

journal_title：Nucleic acids research

authors： Greber D,Fussenegger M

更新日期：2010-10-01 00:00:00

abstract：:The 34-nucleotide trans-activator (TA) located within the RNA-2 of Red clover necrotic mosaic virus folds into a simple hairpin. The eight-nucleotide TA loop base pairs with eight complementary nucleotides in the TA binding sequence (TABS) of the capsid protein subgenomic promoter on RNA-1 and trans-activates subgenom...

journal_title：Nucleic acids research

authors： Guenther RH,Sit TL,Gracz HS,Dolan MA,Townsend HL,Liu G,Newman WH,Agris PF,Lommel SA

更新日期：2004-05-20 00:00:00

abstract：:Melting of DNA in a segment bounded at both ends by regions of greater stability during electrophoresis in denaturing gradient gels show complex properties, not accommodated with standard melting theory. Compact bands of some DNA molecules become anomalously broadened at the retardation level in a denaturing gradient,...

journal_title：Nucleic acids research

authors： Abrams ES,Murdaugh SE,Lerman LS

更新日期：1995-07-25 00:00:00

abstract：:Type III restriction enzymes have been demonstrated to require two unmethylated asymmetric recognition sites oriented head-to-head to elicit double-strand break 25-27 bp downstream of one of the two sites. The proposed DNA cleavage mechanism involves ATP-dependent DNA translocation. The sequence context of the recogni...

journal_title：Nucleic acids research

authors： Raghavendra NK,Rao DN

更新日期：2004-10-22 00:00:00