The 5' terminal oligopyrimidine tract confers translational control on TOP mRNAs in a cell type- and sequence context-dependent manner.

abstract：:We describe a new, broadly applicable methodology for screening in parallel interactions of RNA-binding proteins (RBPs) with large numbers of microRNA (miRNA) precursors and for determining their affinities in native form in the presence of cellular factors. The assays aim at identifying pre-miRNAs that are potentiall...

journal_title：Nucleic acids research

authors： Towbin H,Wenter P,Guennewig B,Imig J,Zagalak JA,Gerber AP,Hall J

更新日期：2013-02-01 00:00:00

abstract：:Eukaryotic gene expression is regulated by enhancer-promoter interactions but the molecular mechanisms that govern specificity have remained elusive. Genome-wide studies utilizing STARR-seq identified two enhancer classes in Drosophila that interact with different core promoters: housekeeping enhancers (hkCP) and deve...

journal_title：Nucleic acids research

authors： Cubeñas-Potts C,Rowley MJ,Lyu X,Li G,Lei EP,Corces VG

更新日期：2017-02-28 00:00:00

abstract：:Replication protein A (RPA) plays a critical role in all eukaryotic DNA processing involving single-stranded DNA (ssDNA). Contrary to the notion that RPA provides solely inert protection to transiently formed ssDNA, the RPA-ssDNA complex acts as a dynamic DNA processing unit. Here, we studied the diffusion of RPA alon...

journal_title：Nucleic acids research

authors： Mishra G,Bigman LS,Levy Y

更新日期：2020-02-28 00:00:00

abstract：:We have used fluorescein-11-dUTP in a nick-translation format to produce fluoresceinated human nucleic acid probes. After in situ hybridization of fluoresceinated DNAs to human metaphase chromosomes, the detection sensitivity was found to be 50-100 kb. The feasibility and the increase in detection sensitivity of micro...

journal_title：Nucleic acids research

authors： Wiegant J,Ried T,Nederlof PM,van der Ploeg M,Tanke HJ,Raap AK

更新日期：1991-06-25 00:00:00

abstract：:The Orthologous Matrix (OMA) is a leading resource to relate genes across many species from all of life. In this update paper, we review the recent algorithmic improvements in the OMA pipeline, describe increases in species coverage (particularly in plants and early-branching eukaryotes) and introduce several new feat...

journal_title：Nucleic acids research

authors： Altenhoff AM,Glover NM,Train CM,Kaleb K,Warwick Vesztrocy A,Dylus D,de Farias TM,Zile K,Stevenson C,Long J,Redestig H,Gonnet GH,Dessimoz C

更新日期：2018-01-04 00:00:00

abstract：:Rapidly evolving pathogens cause a diverse array of diseases and epidemics that threaten crop yield, food security as well as human, animal and ecosystem health. To combat infection greater comparative knowledge is required on the pathogenic process in multiple species. The Pathogen-Host Interactions database (PHI-bas...

journal_title：Nucleic acids research

authors： Urban M,Pant R,Raghunath A,Irvine AG,Pedro H,Hammond-Kosack KE

更新日期：2015-01-01 00:00:00

abstract：:The Cox protein from bacteriophage P2 forms oligomeric filaments and it has been proposed that DNA can be wound up around these filaments, similar to how histones condense DNA. We here use fluorescence microscopy to study single DNA-Cox complexes in nanofluidic channels and compare how the Cox homologs from phages P2 ...

journal_title：Nucleic acids research

authors： Frykholm K,Berntsson RP,Claesson M,de Battice L,Odegrip R,Stenmark P,Westerlund F

更新日期：2016-09-06 00:00:00

abstract：:The NusA protein is a universally conserved bacterial transcription elongation factor that binds RNA polymerase (RNAP). When functioning independently, NusA enhances intrinsic termination. Paradoxically, NusA stimulates the function of the N and Q antiterminator proteins of bacteriophage λ. The mechanistic basis for N...

journal_title：Nucleic acids research

authors： Wells CD,Deighan P,Brigham M,Hochschild A

更新日期：2016-06-20 00:00:00

abstract：:Folding of group II introns is characterized by a first slow compaction of domain 1 (D1) followed by the rapid docking of other domains to this scaffold. D1 compaction initiates in a small subregion encompassing the κ and ζ elements. These two tertiary elements are also the major interaction sites with domain 5 to for...

journal_title：Nucleic acids research

authors： Donghi D,Pechlaner M,Finazzo C,Knobloch B,Sigel RK

更新日期：2013-02-01 00:00:00

abstract：:Pig Genomic Information System (PigGIS) is a web-based depository of pig (Sus scrofa) genomic learning mainly engineered for biomedical research to locate pig genes from their human homologs and position single nucleotide polymorphisms (SNPs) in different pig populations. It utilizes a variety of sequence data, includ...

journal_title：Nucleic acids research

authors： Ruan J,Guo Y,Li H,Hu Y,Song F,Huang X,Kristiensen K,Bolund L,Wang J

更新日期：2007-01-01 00:00:00

abstract：:Radioactive iodine has been used to probe the relative reactivities of nucleosomal H4 tyrosine residues under various conditions of subphysiological ionic strength. We observe that tyrosine 72 of H4, which is not reactive over the range 20-150 mM NaCl, becomes the predominant site of iodination within H4 when nucleoso...

journal_title：Nucleic acids research

authors： Burch JB,Martinson HG

更新日期：1981-09-11 00:00:00

abstract：:Recent data showed that p53 stimulates the expression of genes encoding not only pro- but also antioxidant enzymes. It was suggested that antioxidant genes could be induced under physiologic levels of stress while the prooxidant ones respond to higher level of stress. Results presented in this article illustrate an ad...

journal_title：Nucleic acids research

authors： Meiller A,Alvarez S,Drané P,Lallemand C,Blanchard B,Tovey M,May E

更新日期：2007-01-01 00:00:00

abstract：:Two DNA polymerases have been purified from the 105,000 x g supernatant of ungerminated wheat. The purification stages included: high speed centrifugation, salt fractionation, DEAE-cellulose chromatography, Sephadex G-150 filtration and phosphocellulose chromatography. Several properties of the two enzyme (called A an...

journal_title：Nucleic acids research

authors： Castroviejo M,Tarragó-Litvak L,Litvak S

更新日期：1975-11-01 00:00:00

abstract：:Genomes undergo changes in organization as a result of gene duplications, chromosomal rearrangements and local mutations, among other mechanisms. In contrast to prokaryotes, in which genes of a common function are often organized in operons and reside contiguously along the genome, most eukaryotes show much weaker clu...

journal_title：Nucleic acids research

authors： Thévenin A,Ein-Dor L,Ozery-Flato M,Shamir R

更新日期：2014-09-01 00:00:00

abstract：:Anti-microRNA (miRNA) oligonucleotides (AMOs) with 2'-O-Methyl (2'OMe) residues are commonly used to study miRNA function and can achieve high potency, with low cytotoxicity. Not withstanding this, we demonstrate the sequence-dependent capacity of 2'OMe AMOs to inhibit Toll-like receptor (TLR) 7 and 8 sensing of immun...

journal_title：Nucleic acids research

authors： Sarvestani ST,Stunden HJ,Behlke MA,Forster SC,McCoy CE,Tate MD,Ferrand J,Lennox KA,Latz E,Williams BR,Gantier MP

更新日期：2015-01-01 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：:A new method is reported for the synthesis of oligodeoxyribonucleotides containing 2-aminopurine residues at selected sites. This method involves protection of the 2-aminopurine ribonucleoside, reduction to the deoxyribonucleoside and standard preparation of the 5'-0- (4,4'-dimethoxytrityl)-3'-O-(2-cyanoethyl)-N,N- di...

journal_title：Nucleic acids research

authors： Fujimoto J,Nuesca Z,Mazurek M,Sowers LC

更新日期：1996-02-15 00:00:00

abstract：:The complete DNA sequence of pO157, the large virulence plasmid of EHEC strain O157:H7 EDL 933, is presented. The 92 kb F-like plasmid is composed of segments of putative virulence genes in a framework of replication and maintenance regions, with seven insertion sequence elements, located mostly at the boundaries of t...

journal_title：Nucleic acids research

authors： Burland V,Shao Y,Perna NT,Plunkett G,Sofia HJ,Blattner FR

更新日期：1998-09-15 00:00:00

abstract：:The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of known protein structures. The classification is on hierarchical levels: the first two levels, family and superfamily, describe near and distant evolutionary relationships; the third, fold...

journal_title：Nucleic acids research

authors： Lo Conte L,Ailey B,Hubbard TJ,Brenner SE,Murzin AG,Chothia C

更新日期：2000-01-01 00:00:00

abstract：:alpha2-Macroglobulin covalently linked to poly(L)-lysine can be used as a vehicle for receptor-mediated gene transfer. This modified alpha2-macroglobulin maintains its ability to bind to the alpha2-macroglobulin receptor, and was shown to introduce a luciferase reporter gene plasmid into HepG2 human hepatoma cells in ...

journal_title：Nucleic acids research

authors： Schneider H,Huse K,Birkenmeier G,Otto A,Scholz GH

更新日期：1996-10-01 00:00:00

abstract：:The SRPDB (signal recognition particle database) provides annotated SRP RNA sequences from Eucaryotes and Archaea, phylogenetically ordered and aligned with their bacterial equivalents. We also make available representative RNA secondary structure diagrams, where each base pair is proven by comparative sequence analys...

journal_title：Nucleic acids research

authors： Larsen N,Zwieb C

更新日期：1993-07-01 00:00:00

abstract：:The hypoxanthine-guanine phosphoribosyltransferase (HGPRT) enzyme of Trypanosoma brucei and related parasites provides a rational target for the treatment of African sleeping sickness and several other parasitic diseases. To characterize the T. brucei HGPRT enzyme in detail, the T. brucei hgprt was isolated within a 4...

journal_title：Nucleic acids research

authors： Allen TE,Ullman B

更新日期：1993-11-25 00:00:00

abstract：:The Aspergillus Genome Database (AspGD) is an online genomics resource for researchers studying the genetics and molecular biology of the Aspergilli. AspGD combines high-quality manual curation of the experimental scientific literature examining the genetics and molecular biology of Aspergilli, cutting-edge comparativ...

journal_title：Nucleic acids research

authors： Arnaud MB,Chibucos MC,Costanzo MC,Crabtree J,Inglis DO,Lotia A,Orvis J,Shah P,Skrzypek MS,Binkley G,Miyasato SR,Wortman JR,Sherlock G

更新日期：2010-01-01 00:00:00

abstract：:While antibiotic selection has been routinely used for the selection of genetically modified cells, administration of cytotoxic drugs often leads to deleterious effects not only to inert cells but also to transfected or transduced ones. In this study, we propose an Antigen-MEdiated Genetically modified cell Amplificat...

journal_title：Nucleic acids research

authors： Kawahara M,Ueda H,Morita S,Tsumoto K,Kumagai I,Nagamune T

更新日期：2003-04-01 00:00:00

abstract：:In plants, nuclear multisubunit RNA polymerases IV and V are RNA Polymerase II-related enzymes that synthesize non-coding RNAs for RNA-directed DNA methylation (RdDM) and transcriptional gene silencing. Here, we tested the importance of the C-terminal domain (CTD) of Pol IV's largest subunit given that the Pol II CTD ...

journal_title：Nucleic acids research

authors： Wendte JM,Haag JR,Pontes OM,Singh J,Metcalf S,Pikaard CS

更新日期：2019-09-26 00:00:00

abstract：:Positive control of the wild-type Klebsiella pneumoniae nifH promoter by the NifA protein requires that NifA is bound at the upstream activator sequence (UAS). By introducing base substitutions at -15 to -17 in the RNA polymerase recognition sequence of the nifH promoter, positive control by a form of NifA unable to b...

journal_title：Nucleic acids research

authors： Buck M,Cannon W

更新日期：1989-04-11 00:00:00

abstract：:With the high number of sequences and structures streaming in from genomic projects, there is a need for more powerful and sophisticated annotation tools. Most problematic of the annotation efforts is predicting gene and protein function. Over the past few years there has been considerable progress in automated protei...

journal_title：Nucleic acids research

authors： Friedberg I,Harder T,Godzik A

更新日期：2006-07-01 00:00:00

abstract：:Chromatin assembly factor 1 (CAF-1) is a histone H3-H4 chaperone that deposits newly synthesized histone (H3-H4)2 tetramers during replication-coupled nucleosome assembly. However, how CAF-1 functions in this process is not yet well understood. Here, we report the crystal structure of C terminus of Cac1 (Cac1C), a sub...

journal_title：Nucleic acids research

authors： Zhang K,Gao Y,Li J,Burgess R,Han J,Liang H,Zhang Z,Liu Y

更新日期：2016-06-20 00:00:00

abstract：:As the largest group of MYB family transcription factors, R2R3-MYB proteins play essential roles during plant growth and development. However, the structural basis underlying how R2R3-MYBs recognize the target DNA remains elusive. Here, we report the crystal structure of Arabidopsis WEREWOLF (WER), an R2R3-MYB protein...

journal_title：Nucleic acids research

authors： Wang B,Luo Q,Li Y,Yin L,Zhou N,Li X,Gan J,Dong A

更新日期：2020-01-10 00:00:00

abstract：:We present the PATHOgenic YEAst Search for Transcriptional Regulators And Consensus Tracking (PathoYeastract - http://pathoyeastract.org) database, a tool for the analysis and prediction of transcription regulatory associations at the gene and genomic levels in the pathogenic yeasts Candida albicans and C. glabrata Up...

journal_title：Nucleic acids research

authors： Monteiro PT,Pais P,Costa C,Manna S,Sá-Correia I,Teixeira MC

更新日期：2017-01-04 00:00:00