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1 y of these concatenated sequences into large circular DNA.
2 dR dissociation from linear DNA but not from circular DNA.
3 at it plays a crucial role in the binding of circular DNA.
4 genomes remain episomal, either as linear or circular DNA.
5 g, HBeAg, and intrahepatic covalently closed circular DNA.
6 t end products; duplex linear DNA or relaxed circular DNA.
7 e capable of opening and unloading PCNA from circular DNA.
8 bis-intercalating antibiotic, on linear and circular DNA.
9 ends in the DNA backbone for both linear and circular DNA.
10 hibited by 1 microg RNA or covalently closed circular DNA.
11 arch for the minimum energy configuration of circular DNA.
12 demonstrates that the NR-element represents circular DNA.
13 isplace Smc2/4 prebound to a labeled, nicked-circular DNA.
14 ation more significantly for linear DNA than circular DNA.
15 ontributions during the synthesis of relaxed circular DNA.
16 es underwent massive accumulation to >95% of circular DNA.
17 otide fragment annealed to a single-stranded circular DNA.
18 rcularized plus-strand DNA generates relaxed circular DNA.
19 esence of E. coli topoisomerase I and closed circular DNA.
20 sence of transcription-induced stresses in a circular DNA.
21 nally includes loss of HBV covalently closed circular DNA.
22 y removing all DNA species other than closed circular DNA.
23 eins, replicative DNA, and covalently closed circular DNA.
24 r, 1-long-terminal-repeat (1-LTR), and 2-LTR circular DNAs.
25 e torsional rigidities of weakly supercoiled circular DNAs.
26 fication method that exponentially amplifies circular DNAs.
27 ly acquired and undescribed extrachromosomal circular DNAs.
28 to double-stranded nicked or single-stranded circular DNAs.
29 ease in the level of the full-length relaxed circular DNA, a 4- to 5-fold decrease in the plus-strand
31 on of site-specific labels in long linear or circular DNA allows unambiguous identification of variou
32 ion is due to a less rapid covalently closed circular DNA amplification, leading to lower viremias an
35 l cure are the presence of covalently closed circular DNA and ineffective/exhaustive immune system.
36 ions increases slowly with concentration for circular DNA and more rapidly for linear DNA, but more s
37 al connection between the occurrence of this circular DNA and subtelomeric recombination events in T.
38 ion (CSR), including extrachromosomal switch circular DNAs and circle transcripts generated by direct
40 pressions include: linear, sheared, bent and circular DNA, and models of the nucleosome superhelix, c
41 oir (circular covalently closed DNA, relaxed circular DNA, and pregenomic RNA: 5.6, 2.4, and 1.1 copi
42 rements on sufficiently small (< or =247 bp) circular DNAs, and values in the range C = 300-450 fJ fm
43 ds; (iii) loading mthPCNA onto singly nicked circular DNA; and (iv) supporting mthPolB-catalyzed PCNA
44 d onto freely diffusing, single-stranded M13 circular DNA annealed with fluorescently labeled DNA oli
47 HXT6 HXT6/7 HXT7 amplifications, suggesting circular DNAs are intermediates in chromosomal amplifica
52 educe the fractions of knotted and catenated circular DNA below thermodynamic equilibrium values.
53 used with different DNA sequences, linear or circular DNA, bulk genomic DNA, recombinant or native Dr
55 gyrase introduces negative supercoiling into circular DNA by catalyzing the passage of one DNA segmen
56 oscopy to image the compaction of linear and circular DNA by the yeast mitochondrial protein Abf2p, w
59 only linear and supercoiled DNA, not nicked-circular DNA, can completely displace Smc2/4 prebound to
61 e intermediates, including covalently closed circular DNA (cccDNA) and Dane particles, were detected
64 nt does not affect initial covalently closed circular DNA (cccDNA) conversion but inhibits the synthe
65 eradication of the stable covalently closed circular DNA (cccDNA) form of the viral genome, which is
72 biogenesis.IMPORTANCE The covalently closed circular DNA (cccDNA) is the persistent form of the hepa
73 ubgenomic RNA from the HBV covalently closed circular DNA (cccDNA) minichromosome, both in cultured c
74 nal template, a long-lived covalently closed circular DNA (cccDNA) molecule, is degraded noncytolytic
78 of hepatitis B virus (HBV) covalently closed circular DNA (cccDNA) requires the removal of the covale
79 the nuclear pool of viral covalently closed circular DNA (cccDNA) transcriptional template of HBV, w
80 both encapsidated DNA and covalently closed circular DNA (cccDNA) were turned over independently of
81 e hepatitis B virus (HBV), covalently closed circular DNA (cccDNA), has been difficult to study in pa
82 stable minichromosome, the covalently closed circular DNA (cccDNA), in the nucleus of infected hepato
83 transcriptional template, covalently closed circular DNA (cccDNA), is long lived in infected hepatoc
84 does not directly affect nuclear HBV closed circular DNA (cccDNA), the genomic form that templates v
86 ation and formation of new covalently closed circular DNA (cccDNA), the viral transcriptional templat
87 surrogates of silencing of covalently closed circular DNA (cccDNA), to characterize this dissociation
88 te or inactivate the viral covalently closed circular DNA (cccDNA), which is a stable episomal form o
93 of episomal viral genomes [covalently closed circular DNA (cccDNA)] in the nuclei of infected cells.
95 ficantly higher amounts of covalently closed circular DNA compared with wild-type HBV replicating cel
96 lerate the rate of conversion of a linear to circular DNA, compared to extracts from resting cells.
97 associated primarily with covalently closed circular DNA, consistent with this structure being the t
99 cell and molecular biology, double-stranded circular DNA constructs, known as plasmids, are extensiv
101 e have exploited the observation that closed-circular DNA containing an inverted repeat can release t
102 this selection can be transplanted to other circular DNA contexts and retain transcriptional activit
105 found that although viral covalently closed circular DNA declined 20- to 100-fold, integrated viral
106 fied their bona fide circular topology using circular DNA deep-sequencing, 2D gel electrophoresis and
107 by the repair of lesion-bearing HBV relaxed circular DNA delivered by the virions to hepatocytes.
109 nclusion of a vast excess of non-radioactive circular DNA did not disrupt binding to radioactive f394
110 motherapeutic clearance of covalently closed circular DNA did not involve the replacement of the infe
111 attached to an Ab; thus, in the presence of circular DNA, DNA polymerase, and nucleotides, amplifica
112 AG)n and (CTG)n extrusions in relaxed closed circular DNA do in fact support MutSbeta-, replication f
113 NAs, Cas9 protein and a long-single-stranded-circular DNA donor vector (lsscDNA, 6.7 kb) containing t
114 ue of Molecular Cell, Gerhold et al. find no circular DNA during mitochondrial DNA (mtDNA) replicatio
118 palmeri: a massive, ~400-kb extrachromosomal circular DNA (eccDNA) that harbors the 5-ENOYLPYRUVYLSHI
119 ation mechanism and a large extrachromosomal circular DNA (eccDNA) that is tethered to the chromosome
128 out amplification by using covalently closed circular DNA extracted from the liver of an infected woo
130 , taurocholate uptake, HBV covalently closed circular DNA formation, and expression of all HBV marker
132 performed that amplifies a product only from circular DNA forms that could represent transposition in
133 ly of a histone octamer onto a 192-base pair circular DNA fragment from Caenorhabditis elegans and de
134 We previously showed that both linear and circular DNA fragments containing the 2-LTR palindrome j
140 r organelle) contains an approximately 35-kb circular DNA genome of unusually high A/T content (>86%)
141 The synthesis of the hepadnavirus relaxed circular DNA genome requires two template switches, prim
142 ate, termed pregenomic RNA, into the relaxed circular DNA genome, which is subsequently converted int
145 ful replication and segregation of the first circular DNA genomes in precellular ancestors of Gram-ne
147 re lytic bacteriophages with single-stranded circular DNA genomes, showed high substitution rates (>1
148 d reduction in polymerase activity on primed circular DNA, had dramatically reduced processivity, and
149 duces two smaller DNA circles when acting on circular DNA harboring two recombination sites in head-t
150 removal of undesired linear DNA when nicked circular DNA has been enzymatically prepared from superc
151 nd genome-wide frequency of extrachromosomal circular DNA have not yet been profiled extensively.
152 y target hepatitis B virus covalently closed circular DNA (HBV cccDNA), the episomal form of the viru
153 r; transfer of SRV provirus and unintegrated circular DNA in blood from the nonviremic donor did not
154 nd, which would nevertheless preserve closed circular DNA in either single-stranded (SS) or double-st
155 generate a small amount of covalently closed circular DNA in LMH cells, a chicken hepatoma cell line
156 o describe the landscape of extrachromosomal circular DNA in neuroblastoma, a tumor arising in childh
157 analyze HIV-1 2-long terminal repeat (2-LTR) circular DNA in PBMC, which indicates new HIV-1 infectio
161 fic PCR assays and (i) finding WHVNY relaxed circular DNA in the serum samples collected from all sup
162 or permanently silence the covalently closed circular DNA in those cells, and that will stimulate HBV
165 input ratio) in supercoiling relaxed, closed circular DNA, in inducing ligase-mediated circularisatio
166 ntermediates were not observed, but abundant circular DNA indicated transposon "suicide" by auto-inte
167 ynthesis but a reduction in the formation of circular DNA, indicating a block after reverse transcrip
171 from certain mutant yeast strains shows that circular DNA introns exist and are produced by reverse t
172 y of RecG but not for RuvAB, whereas relaxed circular DNA is a poor cofactor for RecG but an excellen
173 does not turnover and additional cleavage of circular DNA is not observed by inclusion of RecBCD, a h
178 The high efficiency of pWGA in amplifying circular DNA makes it a potential tool in diagnosis and
179 tens of thousands of short extrachromosomal circular DNAs (microDNA) in mouse tissues as well as mou
180 The genome of Streptococcus sanguinis is a circular DNA molecule consisting of 2,388,435 bp and is
182 entified a self-propagating extrachromosomal circular DNA molecule that results from intrachromosomal
183 sion), and illegitimate recombination of any circular DNA molecule with an origin-flanking palindrome
184 l fluorescent particles distributed around a circular DNA molecule, given their three-dimensional tra
187 Here, we captured rearrangement-specific circular DNA molecules across the genome to gain insight
190 Site-specific recombination on supercoiled circular DNA molecules can yield a variety of knots and
192 t with a model for DNA condensation in which circular DNA molecules fold several times into progressi
193 formation of H-NS nucleoprotein complexes on circular DNA molecules having different arrangements of
194 foreign, single-stranded, covalently closed, circular DNA molecules identical in length to the phi X1
195 telomerator is designed to inducibly convert circular DNA molecules into mitotically stable, linear c
196 ed of thousands of topologically interlocked circular DNA molecules that form the kinetoplast DNA (kD
205 mmalian mitochondria contain several 16.5 kb circular DNAs (mtDNA) encoding electron transport chain
211 he kinetics of accumulation of serum relaxed circular DNA of WHV demonstrated that the virions produc
212 e cure (ie, eradication of covalently closed circular DNA) of CHB, several challenges in basic resear
214 enzymatic substrate abilities of a series of circular DNA oligonucleotides that are entirely composed
215 31-nucleotide fragments from single-stranded circular DNA only in the presence of the S. cerevisiae s
216 no effect on the level of covalently closed circular DNA or HBV transcripts was observed at late tim
218 peat sequences to a palindrome at the Ori of circular DNAs or at the termini of circularized linear D
220 matids, consists of thousands of interlocked circular DNAs organized into a compact disk structure.
221 ncy of detectable HIV 2-long terminal repeat circular DNA (P=.013) were significantly lower in CD4+ T
222 e a system that will allow the rescue of any circular DNA (plasmid or phage) using an in vitro transp
225 cally, probably by eliminating their relaxed circular DNA precursors and perhaps by destabilizing the
226 licative intermediate DNA, covalently closed circular DNA, pregenomic RNA, and the percentage of WHV
228 on is initiated predominantly on linear, not circular, DNA, producing multi-genomic branched chromoso
231 allow the synchronized synthesis of relaxed circular DNA (rcDNA) and subsequent conversion into cccD
232 demonstrated that deproteinized (DP) relaxed circular DNA (rcDNA) of hepatitis B virus (HBV) existed
233 cDNA is converted from viral genomic relaxed circular DNA (rcDNA) through a complex process that invo
234 d by conversion of capsid-associated relaxed circular DNA (rcDNA) via unknown mechanisms and exists i
235 he minus strand [(-)strand] of viral relaxed circular DNA (rcDNA), which generates a deproteinated rc
237 translocation lifetime, which is elevated on circular DNA relative to linear DNA, is important to RA.
241 olecule containing hundreds of copies of the circular DNA sequence that remain attached to the Ab and
243 assays, and topological analyses with closed circular DNA show that the properties of multiprotein AG
245 ngly, gel shift assays using both linear and circular DNA showed that PF0610 does bind DNA, at least
247 icroDNAs, a family of small extrachromosomal circular DNA species, and tRNA-derived fragments, which
248 based on phage-mid DNA vectors to prepare a circular DNA substrate containing a single-stranded bubb
252 racts, we analyzed correction of mispairs in circular DNA substrates with single defined nicks and me
255 perimental systems where various HBV relaxed-circular-DNA substrates are repaired to form cccDNA by b
257 concerted insertion of the two ODNs into the circular DNA target, here termed full-site integration.
258 on for the rolling circle amplification of a circular DNA template and simultaneous overlap extension
259 rm a long single stranded DNA or RNA using a circular DNA template and special DNA or RNA polymerases
260 is observed on an SSB-coated single-stranded circular DNA template in the presence of the beta/gamma
262 longation by bacteriophage T7 RNAP on small, circular DNA templates approximately 100 bp in size.
263 ing random primers and phi29 DNA polymerase, circular DNA templates can be amplified 10,000-fold in a
266 2/4 to plasmid promote a geometric change in circular DNA that can be trapped as knots by type II top
267 tone-DNA interactions were studied on closed circular DNA that was either moderately or positively co
269 era pallida exists as a population of small, circular DNAs that, taken individually, are of insuffici
271 and impaired production of covalently closed circular DNA, the template for DHBV gene expression and
275 g as loading sites for the enzyme as relaxed circular DNA treated with DNA gyrase, resulted in the hi
276 The presence of RPA and/or pol/prim restored circular DNA unwinding activity of compromised mutants p
277 g and introducing negative supercoiling into circular DNA using free energy derived from ATP hydrolys
279 xtended opposite the single strand form of a circular DNA vector followed by enzymatic ligation and p
281 , we first constructed exonuclease-resistant circular DNA via simultaneous ligation of oligonucleotid
282 ormed in two different laboratories: a small circular DNA viral genome (ancient caribou feces associa
283 We show that the genetic diversity of small circular DNA viral genomes in various mammals, including
285 cken anemia virus (CAV) is a single-stranded circular DNA virus that carries 3 genes, the most studie
288 We selectively enriched for the genomes of circular DNA viruses in over 70 animal samples, ranging
289 Anelloviruses are a group of single-stranded circular DNA viruses infecting humans and other animal s
291 e metagenomics to identify a family of small circular DNA viruses-named Redondoviridae-associated wit
293 urface (HBs) antigens, and covalently closed circular DNA, was observed in HUHEP and HIS-HUHEP mice.
294 erse circular DNA populations but 94% of the circular DNA were lost after ~15 divisions, whereas rDNA
295 s failed to unwind a small origin containing circular DNA whereas replication competent mutants did s
296 he predominant pathway gives rise to relaxed circular DNA, while the other pathway yields duplex line
298 catenanes with one site in each ring than on circular DNA with two sites, which indicates that the ca
299 ear and weakly strained large (> or =340 bp) circular DNAs yield torsional rigidities in the range C
300 Site-specific recombination on supercoiled circular DNA yields a variety of knotted or catenated pr