Magnetic tweezers measurements of the nanomechanical stability of DNA against denaturation at various conditions of pH and ionic strength.

abstract：:The NCBI has introduced two new web resources-LocusLink and RefSeq-that facilitate retrieval of gene-based information and provide reference sequence standards. These resources are designed to provide a non-redundant view of current knowledge about human genes, transcripts and proteins. Additional information about th...

journal_title：Nucleic acids research

authors： Maglott DR,Katz KS,Sicotte H,Pruitt KD

更新日期：2000-01-01 00:00:00

abstract：:In plant organelles, RNA editing alters specific cytidine residues to uridine in transcripts. All of the site-specificity factors of RNA editing identified so far are pentatricopeptide repeat (PPR) proteins. A defect in a specific PPR protein often impairs RNA editing at multiple sites, at which the cis-acting element...

journal_title：Nucleic acids research

authors： Okuda K,Shikanai T

更新日期：2012-06-01 00:00:00

abstract：:The promoter for the major coat protein gene of bacteriophage fd contains a unique sequence. TATAAT, in the non-transcribed region corresponding to the Pribnow box. A R-Hha I cleavage site which destroys functions is located five pairs upstream from the TATAAT sequence (fifteen base pairs upstream from the RNA initiat...

journal_title：Nucleic acids research

authors： Okamoto T,Sugimoto K,Sugisaki H,Takanami M

更新日期：1977-07-01 00:00:00

abstract：:Chicken-erythrocyte inner histone tetramer has been complexed with several natural and synthetic DNA duplexes by salt-gradient dialysis at various protein/DNA ratios. The resulting complexes, in low-ionic-strength buffer, have been examined by electron microscopy, circular dichroism, and thermal denaturation. Electron...

journal_title：Nucleic acids research

authors： Bryan PN,Wright EB,Hsie MH,Olins AL,Olins DE

更新日期：1978-10-01 00:00:00

abstract：:VapD-like virulence-associated proteins have been found in many organisms, but little is known about this protein family including the 3D structure of these proteins. Recently, a relationship between the Cas2 family of ribonucleases associated with the CRISPR system of microbial immunity and VapD was suggested. Here, ...

journal_title：Nucleic acids research

authors： Kwon AR,Kim JH,Park SJ,Lee KY,Min YH,Im H,Lee I,Lee KY,Lee BJ

更新日期：2012-05-01 00:00:00

abstract：:Biophysical properties of DNA such as its longitudinal and torsional persistence length govern many processes and phenomena in biology, DNA nanotechnology and biotechnology. It has, for example, long been known that the circularization efficiency of short DNA fragments shows a periodic pattern where fragments with int...

journal_title：Nucleic acids research

authors： Joffroy B,Uca YO,Prešern D,Doye JPK,Schmidt TL

更新日期：2018-01-25 00:00:00

abstract：:Computational analysis of biosynthetic gene clusters (BGCs) has revolutionized natural product discovery by enabling the rapid investigation of secondary metabolic potential within microbial genome sequences. Grouping homologous BGCs into Gene Cluster Families (GCFs) facilitates mapping their architectural and taxonom...

journal_title：Nucleic acids research

authors： Kautsar SA,Blin K,Shaw S,Weber T,Medema MH

更新日期：2021-01-08 00:00:00

abstract：:Understanding the evolutionary and genomic mechanisms responsible for turning the soil-derived saprophytic mycobacteria into lethal intracellular pathogens is a critical step towards the development of strategies for the control of mycobacterial diseases. In this context, Mycobacterium indicus pranii (MIP) is of speci...

journal_title：Nucleic acids research

authors： Saini V,Raghuvanshi S,Khurana JP,Ahmed N,Hasnain SE,Tyagi AK,Tyagi AK

更新日期：2012-11-01 00:00:00

abstract：:Fibroblast growth factor receptor 3 (FGFR3) plays an important role in cartilage development. Although upregulation of FGFR3 expression in response to bone morphogenetic protein-2 (BMP-2) has been reported, the molecular mechanisms remain unknown. In this study, we used in vivo approaches to characterize BMP-2-induced...

journal_title：Nucleic acids research

authors： Sun F,Chen Q,Yang S,Pan Q,Ma J,Wan Y,Chang CH,Hong A

更新日期：2009-07-01 00:00:00

abstract：:Polyadenylation of nascent transcripts is one of the key mRNA processing events in eukaryotic cells. A large number of human and mouse genes have alternative polyadenylation sites, or poly(A) sites, leading to mRNA variants with different protein products and/or 3'-untranslated regions (3'-UTRs). PolyA_DB 2 contains p...

journal_title：Nucleic acids research

authors： Lee JY,Yeh I,Park JY,Tian B

更新日期：2007-01-01 00:00:00

abstract：:Three peaks of methyltransferase activity specific for MNNG alkylated DNA have been identified from extracts of chemically adapted M. luteus. They are designated as TI to TIII in order to their elution from a Sephadex G-75 column. The first one of these peaks has been purified to homogeneity. TI, is an inducible, unus...

journal_title：Nucleic acids research

authors： Riazuddin S,Athar A,Sohail A

更新日期：1987-11-25 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：:A novel expression system was established that allows expression and propagation of the human hepatitis B virus (HBV) genome in cultured animal cells. An overlength HBV genome encoding the viral pregenomic RNA was put under transcriptional control of the human metallothionein IIA promoter thereby replacing the endogen...

journal_title：Nucleic acids research

authors： Junker M,Galle P,Schaller H

更新日期：1987-12-23 00:00:00

abstract：:The current pandemic situation caused by the Betacoronavirus SARS-CoV-2 (SCoV2) highlights the need for coordinated research to combat COVID-19. A particularly important aspect is the development of medication. In addition to viral proteins, structured RNA elements represent a potent alternative as drug targets. The s...

journal_title：Nucleic acids research

authors： Wacker A,Weigand JE,Akabayov SR,Altincekic N,Bains JK,Banijamali E,Binas O,Castillo-Martinez J,Cetiner E,Ceylan B,Chiu LY,Davila-Calderon J,Dhamotharan K,Duchardt-Ferner E,Ferner J,Frydman L,Fürtig B,Gallego J,Grün JT

更新日期：2020-12-16 00:00:00

abstract：:One of the major issues in expression profiling analysis still is to outline proper thresholds to determine differential expression, while avoiding false positives. The problem being that the variance is inversely proportional to the log of signal intensities. Aiming to solve this issue, we describe a model, expressio...

journal_title：Nucleic acids research

authors： Chuchana P,Marchand D,Nugoli M,Rodriguez C,Molinari N,Garcia-Sanz JA

更新日期：2007-01-01 00:00:00

abstract：:This work describes the organization, at the nucleotide sequence level, of genes flanking the junctions of the large single copy regions and the inverted repeats of Spinacia oleracea (spinach) and Nicotiana debneyi chloroplast DNAs. In both genomes, trnH1, the gene for tRNA-His(GUG) is located at the extremity of the ...

journal_title：Nucleic acids research

authors： Zurawski G,Bottomley W,Whitfeld PR

更新日期：1984-08-24 00:00:00

abstract：:Molecular models of six anthracycline antibiotics and their complexes with 32 distinct DNA octamer sequences were created and analyzed using HINT (Hydropathic INTeractions) to describe binding. The averaged binding scores were then used to calculate the free energies of binding for comparison with experimentally deter...

journal_title：Nucleic acids research

authors： Cashman DJ,Scarsdale JN,Kellogg GE

更新日期：2003-08-01 00:00:00

abstract：:Adenosine deaminases that act on RNA (ADARs) convert adenosine to inosine within double-stranded regions of RNA, resulting in increased transcriptomic diversity, as well as protection of cellular double-stranded RNA (dsRNA) from silencing and improper immune activation. The presence of dsRNA-binding domains (dsRBDs) i...

journal_title：Nucleic acids research

authors： Rajendren S,Manning AC,Al-Awadi H,Yamada K,Takagi Y,Hundley HA

更新日期：2018-10-12 00:00:00

abstract：:The double helix is known to form as a result of hybridization of complementary nucleic acid strands in aqueous solution. In the helix the negatively charged phosphate groups of each nucleic acid strand are distributed helically on the outside of the duplex and are available for interaction with cationic groups. Catio...

journal_title：Nucleic acids research

authors： Lemeshko SV,Powdrill T,Belosludtsev YY,Hogan M

更新日期：2001-07-15 00:00:00

abstract：:Adaptation of eucaryotic cDNA to heterologous expression was studied by mutating the translation initiation (TI) region upstream (mTI) and downstream (MTI) of the start codon. In the mTI subregion the 8 bases flanking the invariant Shine-Dalgarno motif GG-AG were mutagenized exhaustively, while the MTI subregion was s...

journal_title：Nucleic acids research

authors： Bücheler US,Werner D,Schirmer RH

更新日期：1992-06-25 00:00:00

abstract：:Two new crescent-shaped unsymmetrical cyanine dyes have been synthesised and their interactions with DNA have been investigated by different spectroscopic methods. These dyes are analogues to a minor groove binding unsymmetrical cyanine dye, BEBO, recently reported by us. In this dye, the structure of the known interc...

journal_title：Nucleic acids research

authors： Karlsson HJ,Eriksson M,Perzon E,Akerman B,Lincoln P,Westman G

更新日期：2003-11-01 00:00:00

abstract：:DNA supercoiling is an important regulator of gene activity. The transmission of transcription-generated supercoiling wave along a DNA helix provides a way for a gene being transcribed to communicate with and regulate its neighboring genes. Currently, the dynamic behavior of supercoiling transmission remains unclear o...

journal_title：Nucleic acids research

authors： Xia Y,Zheng KW,He YD,Liu HH,Wen CJ,Hao YH,Tan Z

更新日期：2018-08-21 00:00:00

abstract：:Molecular replacement (MR) is the method of choice for X-ray crystallography structure determination when structural homologues are available in the Protein Data Bank (PDB). Although the success rate of MR decreases sharply when the sequence similarity between template and target proteins drops below 35% identical res...

journal_title：Nucleic acids research

authors： Claude JB,Suhre K,Notredame C,Claverie JM,Abergel C

更新日期：2004-07-01 00:00:00

abstract：:The P0 scaffold protein of the ribosomal stalk is mainly incorporated into pre-ribosomes in the cytoplasm where it replaces the assembly factor Mrt4. In analyzing the role of the P0 carboxyl terminal domain (CTD) during ribosomal stalk assembly, we found that its complete removal yields a protein that is functionally ...

journal_title：Nucleic acids research

authors： Francisco-Velilla R,Remacha M,Ballesta JP

更新日期：2013-10-01 00:00:00

abstract：:Many DNA modification and repair enzymes require access to DNA bases and therefore flip nucleotides. Restriction endonucleases (REases) hydrolyze the phosphodiester backbone within or in the vicinity of the target recognition site and do not require base extrusion for the sequence readout and catalysis. Therefore, the...

journal_title：Nucleic acids research

authors： Tamulaitis G,Zaremba M,Szczepanowski RH,Bochtler M,Siksnys V

更新日期：2007-01-01 00:00:00

abstract：:Increasing experimental evidence shows a prominent role of histone modifications in the coordinated control of gene expression in the human malaria parasite Plasmodium falciparum. The search for the histone-mark-reading machinery that translates histone modifications into biological processes, such as formation of het...

journal_title：Nucleic acids research

authors： Pérez-Toledo K,Rojas-Meza AP,Mancio-Silva L,Hernández-Cuevas NA,Delgadillo DM,Vargas M,Martínez-Calvillo S,Scherf A,Hernandez-Rivas R

更新日期：2009-05-01 00:00:00

abstract：:DNA primase has been partially purified from wheat germ. This enzyme, like DNA primases characterized from many procaryotic and eucaryotic sources, catalyses the synthesis of primers involved in DNA replication. However, the wheat enzyme differs from animal DNA primase in that it is found partially associated with a D...

journal_title：Nucleic acids research

authors： Laquel P,Castroviejo M,Litvak S

更新日期：1990-08-25 00:00:00

abstract：:Genomic DNA methylation profiles exhibit substantial variation within the human population, with important functional implications for gene regulation. So far little is known about the characteristics and determinants of DNA methylation variation among healthy individuals. We performed bioinformatic analysis of high-r...

journal_title：Nucleic acids research

authors： Bock C,Walter J,Paulsen M,Lengauer T

更新日期：2008-06-01 00:00:00

abstract：:Reversible methylation of the N6 or N1 position of adenine in RNA has recently been shown to play significant roles in regulating the functions of RNA. RNA can also be alkylated upon exposure to endogenous and exogenous alkylating agents. Here we examined how regio-specific methylation at the hydrogen bonding edge of ...

journal_title：Nucleic acids research

authors： You C,Dai X,Wang Y

更新日期：2017-09-06 00:00:00

abstract：:The Functional Single Nucleotide Polymorphism (F-SNP) database integrates information obtained from 16 bioinformatics tools and databases about the functional effects of SNPs. These effects are predicted and indicated at the splicing, transcriptional, translational and post-translational level. As such, the database h...

journal_title：Nucleic acids research

authors： Lee PH,Shatkay H

更新日期：2008-01-01 00:00:00