Transcriptional regulation of the apoAI gene by hepatic nuclear factor 4 in yeast.

abstract：:We describe a rapid fluorescence indicator displacement assay (R-FID) to evaluate the affinity and the selectivity of compounds binding to different DNA structures. We validated the assay using a library of 30 well-known nucleic acid binders containing a variety chemical scaffolds. We used a combination of principal c...

journal_title：Nucleic acids research

authors： Del Villar-Guerra R,Gray RD,Trent JO,Chaires JB

更新日期：2018-04-20 00:00:00

abstract：:A feature of Haemophilus influenzae genomes is the presence of several loci containing tracts of six or more identical tetranucleotide repeat units. These repeat tracts are unstable and mediate high frequency, reversible alterations in the expression of surface antigens. This process, termed phase variation (PV), enab...

journal_title：Nucleic acids research

authors： Bayliss CD,Sweetman WA,Moxon ER

更新日期：2005-01-14 00:00:00

abstract：:We have carried out an extended set of standard and enhanced-sampling MD simulations (for a cumulative simulation time of 620 μs) with the aim to study folding landscapes of the rGGGUUAGGG and rGGGAGGG parallel G-hairpins (PH) with propeller loop. We identify folding and unfolding pathways of the PH, which is bridged ...

journal_title：Nucleic acids research

authors： Havrila M,Stadlbauer P,Kührová P,Banáš P,Mergny JL,Otyepka M,Šponer J

更新日期：2018-09-28 00:00:00

abstract：:Conflicts between replication and transcription challenge chromosome duplication. Escherichia coli replisome movement along transcribed DNA is promoted by Rep and UvrD accessory helicases with Δrep ΔuvrD cells being inviable under rapid growth conditions. We have discovered that mutations in a tRNA gene, aspT, in an a...

journal_title：Nucleic acids research

authors： Myka KK,Hawkins M,Syeda AH,Gupta MK,Meharg C,Dillingham MS,Savery NJ,Lloyd RG,McGlynn P

更新日期：2017-03-17 00:00:00

abstract：:Gene promoters are enriched in guanine clusters that potentially fold into quadruplex structures. Such quadruplexes were implicated in the regulation of gene expression, plausibly by interacting with transcription factors. We showed previously that homodimers of the myogenic transcription factor MyoD bound in vitro mo...

journal_title：Nucleic acids research

authors： Shklover J,Weisman-Shomer P,Yafe A,Fry M

更新日期：2010-04-01 00:00:00

abstract：:Ribosome-inactivating proteins (RIPs) inhibit protein synthesis by enzymatically depurinating a specific adenine residue at the sarcin-ricin loop of the 28S rRNA, which thereby prevents the binding of elongation factors to the GTPase activation centre of the ribosome. Here, we present the 2.2 A crystal structure of tr...

journal_title：Nucleic acids research

authors： Too PH,Ma MK,Mak AN,Wong YT,Tung CK,Zhu G,Au SW,Wong KB,Shaw PC

更新日期：2009-02-01 00:00:00

abstract：:Despite the great potential of RNAi, ectopic expression of shRNA or siRNAs holds the inherent risk of competition for critical RNAi components, thus altering the regulatory functions of some cellular microRNAs. In addition, specific siRNA sequences can potentially hinder incorporation of other siRNAs when used in a co...

journal_title：Nucleic acids research

authors： Castanotto D,Sakurai K,Lingeman R,Li H,Shively L,Aagaard L,Soifer H,Gatignol A,Riggs A,Rossi JJ

更新日期：2007-01-01 00:00:00

abstract：:Efficient transcription from the human immunodeficiency virus (HIV) promoter depends on binding of the viral regulatory protein Tat to a cis-acting RNA regulatory element, TAR. Tat binds at a trinucleotide bulge located near the apex of the TAR stem-loop structure. An essential feature of Tat-TAR interaction is that t...

journal_title：Nucleic acids research

authors： Aboul-ela F,Karn J,Varani G

更新日期：1996-10-15 00:00:00

abstract：:2'-Deoxyoligonucleotides with 5-fluorocytosine residues incorporated at specific positions of the nucleotide sequence are tools of great potential in the study of the catalytic mechanism by which DNA cytosine methyltransferases methylate the 5-position of DNA cytosine residues in specific sequence contexts. Chemical s...

journal_title：Nucleic acids research

authors： Schmidt S,Pein CD,Fritz HJ,Cech D

更新日期：1992-05-25 00:00:00

abstract：:Egr-1 is a murine zinc finger encoding cDNA whose expression is modulated by a variety of ligand-receptor interactions and is often coregulated with c-fos (1). This study reports the isolation of a mouse Egr-1 genomic clone, its intron-exon structure, and 935 bp of 5' flanking sequence. The gene spans about 3.8 kb and...

journal_title：Nucleic acids research

authors： Tsai-Morris CH,Cao XM,Sukhatme VP

更新日期：1988-09-26 00:00:00

abstract：:A simple and efficient gene replacement method, based on the recombination and repair activities of the cell, was developed. The method permits the targeted construction of markerless deletions, insertions and point mutations in the Escherichia coli chromosome. A suicide plasmid, carrying the mutant allele and the rec...

journal_title：Nucleic acids research

authors： Pósfai G,Kolisnychenko V,Bereczki Z,Blattner FR

更新日期：1999-11-15 00:00:00

abstract：:Three-dimensional structures have been solved for several naturally occurring RNA triple helices, although all are limited to six or fewer consecutive base triples, hindering accurate estimation of global and local structural parameters. We present an X-ray crystal structure of a right-handed, U•A-U-rich RNA triple he...

journal_title：Nucleic acids research

authors： Ruszkowska A,Ruszkowski M,Hulewicz JP,Dauter Z,Brown JA

更新日期：2020-04-06 00:00:00

abstract：:MicroRNAs are small (approximately 22 nt) RNAs that regulate gene expression and play important roles in both normal and disease physiology. The use of microarrays for global characterization of microRNA expression is becoming increasingly popular and has the potential to be a widely used and valuable research tool. H...

journal_title：Nucleic acids research

authors： Sarkar D,Parkin R,Wyman S,Bendoraite A,Sather C,Delrow J,Godwin AK,Drescher C,Huber W,Gentleman R,Tewari M

更新日期：2009-02-01 00:00:00

abstract：:Understanding the molecular mechanisms that influence transposable element target site preferences is a fundamental challenge in functional and evolutionary genomics. Large-scale transposon insertion projects provide excellent material to study target site preferences in the absence of confounding effects of post-inse...

journal_title：Nucleic acids research

authors： Linheiro RS,Bergman CM

更新日期：2008-11-01 00:00:00

abstract：:Predicting molecular interactions is a major goal in rational drug design. Pharmacophore, which is the spatial arrangement of features that is essential for a molecule to interact with a specific target receptor, is an important model for achieving this goal. We present a freely available web server, named PharmaGist,...

journal_title：Nucleic acids research

authors： Schneidman-Duhovny D,Dror O,Inbar Y,Nussinov R,Wolfson HJ

更新日期：2008-07-01 00:00:00

abstract：:Hg-UMP-containing transcripts made from chick erythroid chromatins with E. coli RNA polymerase hybridize to chick globin cDNA. Contamination with endogenous globin RNA has been largely removed by purification on SH-agarose columns at 55 degrees C. Some endogenous globin mRNA sequences remain, probably as hybrids with ...

journal_title：Nucleic acids research

authors： Konkel DA,Ingram VM

更新日期：1978-04-01 00:00:00

abstract：:Protein-protein and protein-DNA/RNA interactions play a fundamental role in a variety of biological processes. Determining the complex structures of these interactions is valuable, in which molecular docking has played an important role. To automatically make use of the binding information from the PDB in docking, her...

journal_title：Nucleic acids research

authors： Yan Y,Zhang D,Zhou P,Li B,Huang SY

更新日期：2017-07-03 00:00:00

abstract：:The 'Atlas of Genetics and Cytogenetics in Oncology and Haematology' (http://www.infobiogen.fr/services/chromcancer) contains concise and updated cards on genes involved in cancer, cytogenetics and clinical entities in oncology, and cancer-prone diseases, a portal towards genetics/cancer, and teaching materials in gen...

journal_title：Nucleic acids research

authors： Huret JL,Dessen P,Bernheim A

更新日期：2003-01-01 00:00:00

abstract：:Monocrotaline is a pyrrolizidine alkaloid known to cause toxicity in humans and animals. Its mechanism of biological action is still unclear although DNA crosslinking has been suggested to a play a role in its activity. In this study we found that an active metabolite of monocrotaline, dehydromonocrotaline (DHM), alky...

journal_title：Nucleic acids research

authors： Pereira TN,Webb RI,Reilly PE,Seawright AA,Prakash AS

更新日期：1998-12-01 00:00:00

abstract：:Reverse transcription of HIV-1 RNA is primed by a tRNA3(Lys) molecule bound at the primer binding site (PBS). Complex intermolecular interactions were proposed between tRNA3(Lys) and the RNA of the HIV-1 Mal isolate. Recently, an alternative interaction was proposed between the TPsiC stem of tRNA3(Lys) and a primer ac...

journal_title：Nucleic acids research

authors： Goldschmidt V,Ehresmann C,Ehresmann B,Marquet R

更新日期：2003-02-01 00:00:00

abstract：:After ionising radiation double-strand breaks (dsb) are lethal if not repaired or misrepaired. Cell killing is greatly enhanced by hyperthermia and it is questioned here whether heat not only affects dsb repair capacity but also fidelity in a chromosomal context. dsb repair experiments were designed so as to mainly sc...

journal_title：Nucleic acids research

authors： El-Awady RA,Dikomey E,Dahm-Daphi J

更新日期：2001-05-01 00:00:00

abstract：:A long-range physical map of the centromeric region of human chromosome 7 has been constructed in order to define the region containing sequences with potential involvement in centromere function. The map is centered around alpha satellite DNA, a family of tandemly repeated DNA forming arrays of hundreds to thousands ...

journal_title：Nucleic acids research

authors： Wevrick R,Willard HF

更新日期：1991-05-11 00:00:00

abstract：:In the poly(A)+RNA isolated from the ciliate Paramecium primaurelia is found a discrete and abundant mRNA species of high molecular weight (corresponding to about 9,000 nucleotides). This mRNA species has size and abundance characteristics that identify it tentatively as the message coding for the variant cell-surface...

journal_title：Nucleic acids research

authors： Sommerville J

更新日期：1983-11-11 00:00:00

abstract：:Sequence-specific interactions between aminoacyl-tRNA synthetases and their cognate tRNAs ensure both accurate RNA recognition and the efficient catalysis of aminoacylation. The effects of tRNA(Trp)variants on the aminoacylation reaction catalyzed by wild-type Escherichia coli tryptophanyl-tRNA synthe-tase (TrpRS) hav...

journal_title：Nucleic acids research

authors： Ibba M,Sever S,Praetorius-Ibba M,Söll D

更新日期：1999-09-15 00:00:00

abstract：:Reliable prediction of orthology is central to comparative genomics. Approaches based on phylogenetic analyses closely resemble the original definition of orthology and paralogy and are known to be highly accurate. However, the large computational cost associated to these analyses is a limiting factor that often preve...

journal_title：Nucleic acids research

authors： Pryszcz LP,Huerta-Cepas J,Gabaldón T

更新日期：2011-03-01 00:00:00

abstract：:Clones carrying sequences expressed at altered abundance levels in dunce mutants were isolated by differentially screening a genomic library with cDNA probes representing the RNA population from dunce+ flies and the RNA population from dunce mutant flies. These mutants have an elevated cAMP content, so some isolates p...

journal_title：Nucleic acids research

authors： Yun YD,Davis RL

更新日期：1989-10-25 00:00:00

abstract：:The DNA data bank of Japan (DDBJ, http://www.ddbj.nig.ac.jp) maintains a primary nucleotide sequence database and provides analytical resources for biological information to researchers. This database content is exchanged with the US National Center for Biotechnology Information (NCBI) and the European Bioinformatics ...

journal_title：Nucleic acids research

authors： Ogasawara O,Mashima J,Kodama Y,Kaminuma E,Nakamura Y,Okubo K,Takagi T

更新日期：2013-01-01 00:00:00

abstract：:We have sequenced the external transcribed spacer (ETS) of a ribosomal transcription unit from Xenopus laevis, together with sections of the preceding non-transcribed spacer. Our analysis was carried out on the same cloned transcription unit as that from which the internal transcribed spacers (ITS) were previously seq...

journal_title：Nucleic acids research

authors： Maden BE,Moss M,Salim M

更新日期：1982-04-10 00:00:00

abstract：:The tumor suppressor gene, p53, is rarely mutated in neuroblastomas (NB) at the time of diagnosis, but its dysfunction could result from a nonfunctional conformation or cytoplasmic sequestration of the wild-type p53 protein. However, p53 mutation, when it occurs, is found in NB tumors with drug resistance acquired ove...

journal_title：Nucleic acids research

authors： Goldschneider D,Horvilleur E,Plassa LF,Guillaud-Bataille M,Million K,Wittmer-Dupret E,Danglot G,de Thé H,Bénard J,May E,Douc-Rasy S

更新日期：2006-01-01 00:00:00

abstract：:Most E2F-binding sites repress transcription through the recruitment of Retinoblastoma (RB) family members until the end of the G1 cell-cycle phase. Although the MYB promoter contains an E2F-binding site, its transcription is activated shortly after the exit from quiescence, before RB family members inactivation, by u...

journal_title：Nucleic acids research

authors： Álvaro-Blanco J,Urso K,Chiodo Y,Martín-Cortázar C,Kourani O,Arco PG,Rodríguez-Martínez M,Calonge E,Alcamí J,Redondo JM,Iglesias T,Campanero MR

更新日期：2017-09-29 00:00:00