Transcription regulation in vitro by an E. coli promoter containing a DNA cruciform in the '-35' region.

abstract：:We present the complete sequence of an mRNA which is induced by estrogen in the human breast cancer cell line MCF-7 [pS2 mRNA, Masiakowski et al., Nucleic Acids Res. 10, 7895-7903 (1982)]. Primer extension and cloning of double-stranded cDNA (ds-cDNA) into a vector designed to make full-length cDNA were used to determ...

journal_title：Nucleic acids research

authors： Jakowlew SB,Breathnach R,Jeltsch JM,Masiakowski P,Chambon P

更新日期：1984-03-26 00:00:00

abstract：:A microchip method has been developed for massive and parallel thermodynamic analyses of DNA duplexes. Fluorescently labeled oligonucleotides were hybridized with oligonucleotides immobilized in the 100 x 100 x 20 mum gel pads of the microchips. The equilibrium melting curves for all microchip duplexes were measured i...

journal_title：Nucleic acids research

authors： Fotin AV,Drobyshev AL,Proudnikov DY,Perov AN,Mirzabekov AD

更新日期：1998-03-15 00:00:00

abstract：:Significant differences are observed between the CD spectra of eu- and heterochromatin prepared by fractionating mechanically sheared rat liver chromatin on linear sucrose density gradients. Heterochromatin has a broad positive CD at 270--280 nm, a cross-over point at 256 nmn, and a negative shoulder at 248 nm. Euchro...

journal_title：Nucleic acids research

authors： Moyer GH,Kay E,Austin GE

更新日期：1979-04-01 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：: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：:Recent effective use of TAL Effectors (TALEs) has provided an important approach to the design and synthesis of sequence-specific DNA-binding proteins. However, it is still a challenging task to design and manufacture effective TALE modulators because of the limited knowledge of TALE-DNA interactions. Here we synthesi...

journal_title：Nucleic acids research

authors： Zhang H,Li J,Hou S,Wang G,Jiang M,Sun C,Hu X,Zhuang F,Dai Z,Dai J,Xi JJ

更新日期：2014-08-01 00:00:00

abstract：:The 0.048502 megabase (Mb), primarily double-stranded DNA of bacteriophage lambda has single-stranded, complementary termini (cohesive ends) that undergo either spontaneous intramolecular joining to form open circular DNA or spontaneous intermolecular joining to form linear, end-to-end oligomeric DNAs (concatemers); c...

journal_title：Nucleic acids research

authors： Louie D,Serwer P

更新日期：1991-06-11 00:00:00

abstract：:The particular behaviour of eukaryotic RNA polymerases along different gene regions and amongst distinct gene functional groups is not totally understood. To cast light onto the alternative active or backtracking states of RNA polymerase II, we have quantitatively mapped active RNA polymerases at a high resolution fol...

journal_title：Nucleic acids research

authors： Jordán-Pla A,Gupta I,de Miguel-Jiménez L,Steinmetz LM,Chávez S,Pelechano V,Pérez-Ortín JE

更新日期：2015-01-01 00:00:00

abstract：:Upon infection of Escherichia coli by bacteriophage Qβ, the virus-encoded β-subunit recruits host translation elongation factors EF-Tu and EF-Ts and ribosomal protein S1 to form the Qβ replicase holoenzyme complex, which is responsible for amplifying the Qβ (+)-RNA genome. Here, we use X-ray crystallography, NMR spect...

journal_title：Nucleic acids research

authors： Gytz H,Mohr D,Seweryn P,Yoshimura Y,Kutlubaeva Z,Dolman F,Chelchessa B,Chetverin AB,Mulder FA,Brodersen DE,Knudsen CR

更新日期：2015-12-15 00:00:00

abstract：:The P. falciparum pPFrep20 repetitive element from the Palo Alto Uganda strain has been isolated and sequenced. The Palo Alto pPFrep20 repeat (pPFPArep20) has a clustered subtelomeric location and on chromosome 1 has been deleted from one end. Analysis of chromosome 1 from 5 other strains has revealed that pPFrep20 se...

journal_title：Nucleic acids research

authors： Patarapotikul J,Langsley G

更新日期：1988-05-25 00:00:00

abstract：:The effect of UV-irradiation on the conversion of the single-stranded DNA of the parvovirus Minute-Virus-of-Mice (MVM) to duplex Replicative Forms (RF) was studied after infection of mouse A9 fibroblasts. UV-irradiation of the virus prior to infection of unirradiated cells resulted in a dose-dependent, single-hit, inh...

journal_title：Nucleic acids research

authors： Rommelaere J,Ward DC

更新日期：1982-04-24 00:00:00

abstract：:We report the consensus sequence of members of a new dispersed middle-repetitive DNA family, MT, which is present in mouse and rat genomes. This family is shown to be as abundant as the described rodent B1 and B2 families. Hybridization experiments with radioactive single-stranded cDNAs from different tissues indicate...

journal_title：Nucleic acids research

authors： Heinlein UA,Lange-Sablitzky R,Schaal H,Wille W

更新日期：1986-08-26 00:00:00

abstract：:POGO-DB (http://pogo.ece.drexel.edu/) provides an easy platform for comparative microbial genomics. POGO-DB allows users to compare genomes using pre-computed metrics that were derived from extensive computationally intensive BLAST comparisons of >2000 microbes. These metrics include (i) average protein sequence ident...

journal_title：Nucleic acids research

authors： Lan Y,Morrison JC,Hershberg R,Rosen GL

更新日期：2014-01-01 00:00:00

abstract：:The rat beta-casein gene is a member of a small gene family, encoding the principal milk proteins. In order to understand the mechanisms by which its stage- and tissue-specific expression are regulated, initially, a 14 kb genomic clone containing the entire 7.5 kb rat beta-casein gene with 3.5 kb of 5' and 3.0 kb of 3...

journal_title：Nucleic acids research

authors： Lee KF,DeMayo FJ,Atiee SH,Rosen JM

更新日期：1988-02-11 00:00:00

abstract：:The properties of the interaction of 5-fluorocytosine-containing DNA with the EcoRII methyltransferase were studied. The DNA used was either a polymer synthesized in vitro, or a 20-mer containing one CCA/TGG sequence. The DNA could be methylated by the enzyme. In the process the enzyme formed a tight binding adduct wi...

journal_title：Nucleic acids research

authors： Friedman S,Ansari N

更新日期：1992-06-25 00:00:00

abstract：:Protein-RNA interactions in small nuclear ribonucleoproteins (UsnRNPs) from HeLa cells were investigated by irradiation of purified nucleoplasmic snRNPs U1 to U6 with UV light at 254 nm. The cross-linked proteins were analyzed on one- and two-dimensional gel electrophoresis systems, and the existence of a stable cross...

journal_title：Nucleic acids research

authors： Woppmann A,Rinke J,Lührmann R

更新日期：1988-12-09 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：:OMA (Orthologous MAtrix) is a database that identifies orthologs among publicly available, complete genomes. Initiated in 2004, the project is at its 11th release. It now includes 1000 genomes, making it one of the largest resources of its kind. Here, we describe recent developments in terms of species covered; the al...

journal_title：Nucleic acids research

authors： Altenhoff AM,Schneider A,Gonnet GH,Dessimoz C

更新日期：2011-01-01 00:00:00

abstract：:The stable intermediates formed in the reaction of cytosine, cytidine and adenosine with chloracetaldehyde were isolated. The -CH2CH/OH/- bridge between the exo and endo nitrogen atoms of the parent base was found in these compounds by means of PMR spectroscopy. Their acid-induced dehydration resulted in formation of ...

journal_title：Nucleic acids research

authors： Biernat J,Ciesiołka J,Górnicki P,Adamiak RW,Kryzosiak WJ,Wiewiórowski M

更新日期：1978-03-01 00:00:00

abstract：:The dicistrovirus intergenic internal ribosome entry site (IGR IRES) directly recruits the ribosome and initiates translation using a non-AUG codon. A subset of IGR IRESs initiates translation in either of two overlapping open reading frames (ORFs), resulting in expression of the 0 frame viral structural polyprotein a...

journal_title：Nucleic acids research

authors： Ren Q,Au HH,Wang QS,Lee S,Jan E

更新日期：2014-08-01 00:00:00

abstract：:The ability of Deinococcus radiodurans to recover from extensive DNA damage is due in part to its ability to efficiently repair its genome, even following severe fragmentation by hundreds of double-strand breaks. The single-strand annealing pathway plays an important role early during the recovery process, making use ...

journal_title：Nucleic acids research

authors： Sugiman-Marangos SN,Peel JK,Weiss YM,Ghirlando R,Junop MS

更新日期：2013-11-01 00:00:00

abstract：:Addition of thiol compounds containing an anionic group to the 3'-terminal unsaturated sugar of the 5' fragment obtained from an oligonucleotide containing an AP site cleaved by beta-elimination, can be followed by gel electrophoresis. The technique enables to distinguish between two mechanisms of cleavage of the C3'-...

journal_title：Nucleic acids research

authors： Bailly V,Verly WG

更新日期：1988-10-25 00:00:00

abstract：:DAXX displays complex biological functions. Remarkably, DAXX overexpression is a common feature in diverse cancers, which correlates with tumorigenesis, disease progression and treatment resistance. Structurally, DAXX is modular with an N-terminal helical bundle, a docking site for many DAXX interactors (e.g. p53 and ...

journal_title：Nucleic acids research

authors： Mahmud I,Liao D

更新日期：2019-09-05 00:00:00

abstract：:The dynamic topological structure of telomeric DNA is closely related to its biological function; however, no such structural information on full-length telomeric DNA has been reported due to difficulties synthesizing long double-stranded telomeric DNA. Herein, we developed an EM-PCR and TA cloning-based approach to s...

journal_title：Nucleic acids research

authors： Zhang X,Zhang Y,Zhang W

更新日期：2020-07-09 00:00:00

abstract：:The potency of the immune response has still to be harnessed effectively to combat human cancers. However, the discovery of T-cell targets in melanomas and other tumors has raised the possibility that cancer vaccines can be used to induce a therapeutically effective immune response against cancer. The targets, cancer-...

journal_title：Nucleic acids research

authors： Almeida LG,Sakabe NJ,deOliveira AR,Silva MC,Mundstein AS,Cohen T,Chen YT,Chua R,Gurung S,Gnjatic S,Jungbluth AA,Caballero OL,Bairoch A,Kiesler E,White SL,Simpson AJ,Old LJ,Camargo AA,Vasconcelos AT

更新日期：2009-01-01 00:00:00

abstract：:In Escherichia coli transcription of individual genes generally requires concomitant translation, and thus the decay of mRNAs cannot be studied without the complication of translation. Here we have used T7 RNA polymerase to transcribe in vivo lacZ genes carrying ribosome binding sites of variable efficiency. We show t...

journal_title：Nucleic acids research

authors： Chevrier-Miller M,Jacques N,Raibaud O,Dreyfus M

更新日期：1990-10-11 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：: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：:Enzymes that form transient DNA-protein covalent complexes are targets for several potent classes of drugs used to treat infectious disease and cancer, making it important to establish robust and rapid procedures for analysis of these complexes. We report a method for isolation of DNA-protein adducts and their identif...

journal_title：Nucleic acids research

authors： Kiianitsa K,Maizels N

更新日期：2014-07-01 00:00:00

abstract：:NusG is an essential transcription factor that plays multiple key regulatory roles in transcription elongation, termination and coupling translation and transcription. The core role of NusG is to enhance transcription elongation and RNA polymerase processivity. Here, we present the structure of Escherichia coli RNA po...

journal_title：Nucleic acids research

authors： Liu B,Steitz TA

更新日期：2017-01-25 00:00:00