Mini-chromosome maintenance complexes form a filament to remodel DNA structure and topology.

abstract：:Circular DNA can arise from all parts of eukaryotic chromosomes. In yeast, circular ribosomal DNA (rDNA) accumulates dramatically as cells age, however little is known about the accumulation of other chromosome-derived circles or the contribution of such circles to genetic variation in aged cells. We profiled circular...

journal_title：Nucleic acids research

authors： Prada-Luengo I,Møller HD,Henriksen RA,Gao Q,Larsen CE,Alizadeh S,Maretty L,Houseley J,Regenberg B

更新日期：2020-08-20 00:00:00

abstract：:We describe the further development of a widely used package of DNA/protein sequence analysis programs (1). Important revisions have been made based on user experience, and new features, multi-user capability, and a set of large scale homology programs have been added. The programs are very user friendly, economical o...

journal_title：Nucleic acids research

authors： Pustell J,Kafatos FC

更新日期：1984-01-11 00:00:00

abstract：:Previous studies of the epithelial specificity of the human papillomavirus type 16 (HPV-16) enhancer pointed out an important role of nuclear factor I (NFI). In epithelial cells, NFI proteins are derived from the NFI-C gene and referred to as NFI/CTF. In contrast, fibroblasts, where the enhancer is inactive, express h...

journal_title：Nucleic acids research

authors： Apt D,Liu Y,Bernard HU

更新日期：1994-09-25 00:00:00

abstract：:Two similar, but not identical, models have been proposed for the amino acid-base pair contacts in the CAP-DNA complex ('Model I,' Weber, I. and Steitz, T., Proc. Natl. Acad. Sci. USA, 81, 3973-3977, 1984; 'Model II,' Ebright, et al., Proc. Natl. Acad. Sci. USA, 81, 7274-7278, 1984). One difference between the two mod...

journal_title：Nucleic acids research

authors： Gunasekera A,Ebright YW,Ebright RH

更新日期：1990-12-11 00:00:00

abstract：:We have determined the nucleotide sequence at the 3' end of the vesicular stomatitis virus (VSV) polymerase or L gene and compared it to that obtained from a defective interfering particle (DI) RNA generated by this virus. The latter (DI 0.50) contains a large internal deletion within this gene. The deletion begins ex...

journal_title：Nucleic acids research

authors： De BK,Perrault J

更新日期：1982-11-11 00:00:00

abstract：:The side chains of the 20 types of amino acids, owing to a large extent to their different physical properties, have characteristic distributions in interior/surface regions of individual proteins and in interface/non-interface portions of protein surfaces that bind proteins or nucleic acids. These distributions have ...

journal_title：Nucleic acids research

authors： Tjong H,Qin S,Zhou HX

更新日期：2007-07-01 00:00:00

abstract：:The nucleotide sequence of 5.8S rRNA from the Chinese silkworm Philosamia cynthia ricini has been determined by gel sequencing and mobility shift methods. The complete primary structure is (sequence in text). This is one of the largest known 5.8S rRNAs. As compared to Bombyx 5.8S rRNA, it is two nucleotides longer; t...

journal_title：Nucleic acids research

authors： Feng YX,Krupp G,Gross HJ

更新日期：1982-10-25 00:00:00

abstract：:Ribosomal protein (rp)S5 belongs to the family of the highly conserved rp's that contains rpS7 from prokaryotes and rpS5 from eukaryotes. Alignment of rpS5/rpS7 from metazoans (Homo sapiens), fungi (Saccharomyces cerevisiae) and bacteria (Escherichia coli) shows that the proteins contain a conserved central/C-terminal...

journal_title：Nucleic acids research

authors： Lumsden T,Bentley AA,Beutler W,Ghosh A,Galkin O,Komar AA

更新日期：2010-03-01 00:00:00

abstract：:Plasmid DNA incubated in interphase Xenopus egg extracts is normally assembled into chromatin and then into synthetic nuclei which undergo one round of regulated replication. During a study of restriction endonuclease cut plasmid replication intermediates (RIs) by the Brewer-Fangman 2D gel electrophoresis technique, w...

journal_title：Nucleic acids research

authors： Lucas I,Hyrien O

更新日期：2000-05-15 00:00:00

abstract：:Caged antisense oligodeoxynucleotides (asODNs) are synthesized by linking two ends of linear oligodeoxynucleotides using a photocleavable linker. Two of them (H30 and H40) have hairpin-like structures which show a large difference in thermal stability (Delta T(m) = 17.5 degrees C and 11.6 degrees C) comparing to uncag...

journal_title：Nucleic acids research

authors： Tang X,Su M,Yu L,Lv C,Wang J,Li Z

更新日期：2010-06-01 00:00:00

abstract：:The Ensembl project has been aggregating, processing, integrating and redistributing genomic datasets since the initial releases of the draft human genome, with the aim of accelerating genomics research through rapid open distribution of public data. Large amounts of raw data are thus transformed into knowledge, which...

journal_title：Nucleic acids research

authors： Zerbino DR,Achuthan P,Akanni W,Amode MR,Barrell D,Bhai J,Billis K,Cummins C,Gall A,Girón CG,Gil L,Gordon L,Haggerty L,Haskell E,Hourlier T,Izuogu OG,Janacek SH,Juettemann T,To JK,Laird MR,Lavidas I,Liu Z,Lovel

更新日期：2018-01-04 00:00:00

abstract：:Recombinant plasmids which contain EcoRI fragments of tobacco chloroplast DNA carrying tRNA genes were constructed. Plasmids pTC211 and pTC293 contain the base sequences for tRNAAsn in their 1.4 and 1.1 Md EcoRI fragments, respectively. These two tRNA sequences are identical and are; 5'-TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGC...

journal_title：Nucleic acids research

authors： Kato A,Shimada H,Kusuda M,Sugiura M

更新日期：1981-11-11 00:00:00

abstract：:Oligonucleotide models of ribosomal RNA domains are powerful tools to study the binding and molecular recognition of antibiotics that interfere with bacterial translation. Techniques such as selective chemical modification, fluorescence labeling and mutations are cumbersome for the whole ribosome but readily applicabl...

journal_title：Nucleic acids research

authors： Dibrov SM,Parsons J,Hermann T

更新日期：2010-07-01 00:00:00

abstract：:In Saccharomyces cerevisiae the majority of the genes for 5S rRNA lie within a 9kb rDNA sequence that is present as 100-200 tandemly-repeated copies on Chromosome XII. Following our observations that about 10% of yeast 5S rRNA exists as minor variant sequences, we screened a collection of yeast DNA fragments cloned in...

journal_title：Nucleic acids research

authors： Piper PW,Lockheart A,Patel N

更新日期：1984-05-25 00:00:00

abstract：:The 'POU' (acronym of Pit-1, Oct-1, Unc-86) family of transcription factors share a common DNA-binding domain of approximately 160 residues, comprising so-called 'POUs' and 'POUh' sub-domains connected by a flexible linker. The importance of POU proteins as developmental regulators and tumor-promoting agents is due to...

journal_title：Nucleic acids research

authors： Alazard R,Mourey L,Ebel C,Konarev PV,Petoukhov MV,Svergun DI,Erard M

更新日期：2007-01-01 00:00:00

abstract：:Thousands of eukaryotic protein-coding genes generate circular RNAs that have covalently linked ends and are resistant to degradation by exonucleases. To prove their circularity as well as biochemically enrich these transcripts, it has become standard in the field to use the 3'-5' exonuclease RNase R. Here, we demonst...

journal_title：Nucleic acids research

authors： Xiao MS,Wilusz JE

更新日期：2019-09-19 00:00:00

abstract：:A Fortran computer algorithm has been used to analyze the nucleotide sequence of several structural genes. The analysis performed on both coding and complementary DNA strands shows that whereas open reading frames shorter than 100 codons are randomly distributed on both DNA strands, open reading frames longer than 100...

journal_title：Nucleic acids research

authors： Casino A,Cipollaro M,Guerrini AM,Mastrocinque G,Spena A,Scarlato V

更新日期：1981-03-25 00:00:00

abstract：:PCAF and hGCN5 are distinct human genes that encode proteins related to the yeast histone acetyltransferase and transcriptional adapter GCN5. The PCAF protein shares extensive similarity with the 439 amino acids of yGCN5, but it has an approximately 350 amino acid N-terminal extension that interacts with the transcrip...

journal_title：Nucleic acids research

authors： Smith ER,Belote JM,Schiltz RL,Yang XJ,Moore PA,Berger SL,Nakatani Y,Allis CD

更新日期：1998-06-15 00:00:00

abstract：:A general procedure, based on a new activated alkyne linker, for the preparation of peptide-oligonucleotide conjugates (POCs) on solid support has been developed. With this linker, conjugation is effective at room temperature (RT) in millimolar concentration and submicromolar amounts. This is made possible since the u...

journal_title：Nucleic acids research

authors： Wenska M,Alvira M,Steunenberg P,Stenberg A,Murtola M,Strömberg R

更新日期：2011-11-01 00:00:00

abstract：:We describe a cell-free chromatin assembly system derived from the yeast Saccharomyces cerevisiae, which efficiently packages DNA into minichromosomes in a reaction dependent on exogenous core histones and an ATP-regenerating system. Both supercoiled and relaxed plasmid DNA serve as templates for nucleosomal loading i...

journal_title：Nucleic acids research

authors： Rodríguez-Campos A,Koop R,Faraudo S,Beato M

更新日期：2004-07-28 00:00:00

abstract：:Apolipoprotein B (apoB) is a major protein component of low density and very low density lipoproteins. Because of its large size and heterogeneity, molecular studies of apoB have been difficult, and its structure and regulation remain poorly understood. We now report the identification of human apoB cDNA clones by ant...

journal_title：Nucleic acids research

authors： Mehrabian M,Schumaker VN,Fareed GC,West R,Johnson DF,Kirchgessner T,Lin HC,Wang XB,Ma YH,Mendiaz E

更新日期：1985-10-11 00:00:00

abstract：:The mouse c-Ki-ras protooncogene promoter contains a homopurine-homopyrimidine domain that exhibits S1 nuclease sensitivity in vitro. We have studied the structure of this DNA region in a supercoiled state using a number of chemical probes for non-B DNA conformations including diethyl pyrocarbonate, osmium tetroxide, ...

journal_title：Nucleic acids research

authors： Pestov DG,Dayn A,Siyanova EYu,George DL,Mirkin SM

更新日期：1991-12-11 00:00:00

abstract：:RNA exhibits a large diversity of conformations. Three thousand nucleotides of 23S and 5S ribosomal RNA from a structure of the large ribosomal subunit were analyzed in order to classify their conformations. Fourier averaging of the six 3D distributions of torsion angles and analyses of the resulting pseudo electron m...

journal_title：Nucleic acids research

authors： Schneider B,Morávek Z,Berman HM

更新日期：2004-03-11 00:00:00

abstract：:MPromDb (Mammalian Promoter Database) is a curated database that strives to annotate gene promoters identified from ChIP-seq results with the goal of providing an integrated resource for mammalian transcriptional regulation and epigenetics. We analyzed 507 million uniquely aligned RNAP-II ChIP-seq reads from 26 differ...

journal_title：Nucleic acids research

authors： Gupta R,Bhattacharyya A,Agosto-Perez FJ,Wickramasinghe P,Davuluri RV

更新日期：2011-01-01 00:00:00

abstract：:The pattern of sites for cleavage mediated by topoisomerase II was determined in 830 kb of cloned DNA from the Drosophila X chromosome, with the objectives of comparing it with mapped structural and functional landmarks and examining if the correlations with such landmarks reported in individual loci can be generalize...

journal_title：Nucleic acids research

authors： Miassod R,Razin SV,Hancock R

更新日期：1997-06-01 00:00:00

abstract：:Traditional chromatin analysis methods only test one locus at the time or use different templates for each locus, making a standardized analysis of large genomic regions or many co-regulated genes at different loci a difficult task. On the other hand, genome-wide high-resolution mapping of chromatin accessibility empl...

journal_title：Nucleic acids research

authors： Basheer A,Berger H,Reyes-Dominguez Y,Gorfer M,Strauss J

更新日期：2009-04-01 00:00:00

abstract：:We present a general method for isolating molecular markers specific to any region of a chromosome using existing mapping populations. Two pools of DNA from individuals homozygous for opposing alleles for a targeted chromosomal interval, defined by two or more linked RFLP markers, are constructed from members of an ex...

journal_title：Nucleic acids research

authors： Giovannoni JJ,Wing RA,Ganal MW,Tanksley SD

更新日期：1991-12-11 00:00:00

abstract：:Telomeric regions of the genome are inherently difficult-to-replicate due to their propensity to generate DNA secondary structures and form nucleoprotein complexes that can impede DNA replication fork progression. Precisely how cells respond to DNA replication stalling within a telomere remains poorly characterized, l...

journal_title：Nucleic acids research

authors： Jørgensen SW,Liberti SE,Larsen NB,Lisby M,Mankouri HW,Hickson ID

更新日期：2019-05-21 00:00:00

abstract：:LTR units associated with cellular retrovirus-like elements are abundantly present in chromosomal DNA of animal cells. We have analyzed the promoter and enhancer activities of diverse LTR units associated with different members of the murine retrovirus-like family known as VL30. We report here that the structurally he...

journal_title：Nucleic acids research

authors： Rotman G,Itin A,Keshet E

更新日期：1986-01-24 00:00:00

abstract：:To investigate the mechanism of N4-aminocytidine-induced mutagenesis, N'-alkyl-N4-aminocytidines and N4-alkyl-N4-aminocytidines were prepared and their mutagenicity on bacteria were assayed. N'-Methyl-N4-aminocytidine, N'-(2-hydroxyethyl)-N4-aminocytidine and N',N'-dimethyl-N4-aminocytidine showed direct-acting mutage...

journal_title：Nucleic acids research

authors： Nomura A,Negishi K,Hayatsu H

更新日期：1985-12-20 00:00:00