ライフサイエンスコーパス: template DNA

1 ss the flexibility to bypass obstructions in template DNA.

2 lamp loaders load sliding clamps onto primer-template DNA.

3 increased with negative supercoiling of the template DNA.

4 the site of DNA synthesis, likely unwinding template DNA.

5 n regardless of the topological state of the template DNA.

6 of CARM1 and methylated histone H3 with the template DNA.

7 otide addition (A) site for pairing with the template DNA.

8 24 nucleotides, but TBP remains bound to the template DNA.

9 the hybrid helix, the RNA separates from the template DNA.

10 not require a clamp loader or ATP to bind to template DNA.

11 apped by site-specific photocross-linking to template DNA.

12 nction probes containing single-stranded non-template DNA.

13 g elongation-proficient and deficient primer/template DNA.

14 ested at these lesions are not released from template DNA.

15 cation after strand invasion into homologous template DNA.

16 ortional to the initial concentration of the template DNA.

17 cation by tethering the polymerase to primer-template DNA.

18 tuck" binary-ternary complexes on the primer/template DNA.

19 and the DNA polymerase complexed with primer-template DNA.

20 was a specificity for double-stranded primer-template DNA.

21 above 300 ng of 68 kDa protein per microg of template DNA.

22 rmation of bizelesin covalent bonds with the template DNA.

23 cate past a cis-syn-thymine-thymine dimer in template DNA.

24 s few as three haploid genome equivalents of template DNA.

25 lated and with a much longer length than the template DNA.

26 des is influenced by the methylated bases in template DNA.

27 beta ring binds with high affinity to primer-template DNA.

28 projects without additional manipulations of template DNA.

29 posite both T and, less well, opposite dC in template DNA.

30 omic DNA is replaced by previously amplified template DNA.

31 s1, and Sp1 to form a ternary complex on the template DNA.

32 lex is also functional and can bind a primed template DNA.

33 merase, thereby enabling the regeneration of template DNA.

34 for RT in the presence or absence of primer/template DNA.

35 nt of the target DNA and the Fc-PNA from the template DNA.

36 boiled lysates or DNAzol-purified DNA as the template DNA.

37 h increasing stretches of ribonucleotides in template DNA.

38 ophage T4, bound to an open clamp and primer-template DNA.

39 multiple repeated copies of the amplicon and template DNA.

40 RNAP transcription complexes on bound single template DNAs.

41 Formation of this intermediate requires template DNA 40-50 base pairs downstream of the transcri

42 onents of the transcriptional machinery with template DNA 40-50 base pairs downstream of the transcri

43 e of the clamp domain and/or with binding of template DNA, a mechanism akin to that of natural produc

44 with a zinc ribbon motif involved in binding template DNA, a middle RNA polymerase domain, and a carb

45 RNA:DNA hybrid formed in the absence the non-template DNA acts as a negative regulator of EC stabilit

46 led with selective, stable binding to primer-template DNA allows RFC to scan DNA efficiently for prim

47 ation yielding a linear relationship between template DNA amount (0.1-50 ng) and cycle of threshold (

48 ybrid at least 9 nt long, formed between the template DNA and 3'-proximal RNA transcript, is necessar

49 egradation of the nascent and leading-strand template DNA and a loss of replication fork integrity as

50 und at the transcription start site with the template DNA and also with RNAP and demonstrate the impo

51 II (Pol IIIalpha) holoenzyme bound to primer-template DNA and an incoming deoxy-nucleoside 5'-triphos

52 us DNA polymerase I (Klentaq1) with a primer/template DNA and dideoxycytidine triphosphate, and that

53 n of ubiquitination requires the addition of template DNA and does not occur in the presence of an an

54 structure of RB69 DNA polymerase with primer-template DNA and dTTP, capturing the step just before pr

55 allows primase to select initiation sites on template DNA and implicates the regulatory domain as a "

56 en bonds between a Watson-Crick base pair of template DNA and incoming NTP are critical for efficient

57 tions between the polymerase protein, primer-template DNA and incoming nucleotide.

58 fied products originated from B. burgdorferi template DNA and indicated 100% sensitivity and specific

59 nd the conjugates were complexed with primer/template DNA and inserted into lipid bilayers over indiv

60 the reaction, the clamp loader binds primer-template DNA and positions it in the center of a clamp t

61 ning yeast RNA polymerase II with associated template DNA and product RNA, was determined by electron

62 These barriers include damage to the template DNA and proteins bound to this template.

63 In "digital LAMP", small quantities of both template DNA and reagents are encapsulated within a drop

64 Template DNA and RNA polymerase were sufficient to obtai

65 erases are complex enzymes which bind primer-template DNA and subsequently either extend or excise th

66 formation of the ternary complex with primer/template DNA and substrate.

67 The results imply that CEdG within template DNA and the corresponding triphosphate possess

68 Finally, structural perturbations in the template DNA and the nascent RNA in the presence of mism

69 p between the log copy number of the initial template DNA and threshold time was observed allowing fo

70 tion components (chloride, deoxynucleotides, template DNA) and injection conditions must be controlle

71 WI) ATP-driven motor protein, core histones, template DNA, and ATP.

72 omplex of RB69 DNA polymerase (gp43), primer-template DNA, and RB69 single-stranded DNA-binding prote

73 ding and hydrolysis, interaction with primer-template DNA, and release of ADP all result in significa

74 uctive binding of N to non-specific sites on template DNA, and that NusA protein covers RNA sites on

75 hat nascent transcripts can rehybridize with template DNA, and that this can lead to DNA strand break

76 extract, without pretreatment to purify the template DNA, and the allowed increase in dye concentrat

77 fically to complementary target sequences in template DNA, and the positions of the tagged sequences

78 Rather than being an unchanging template, DNA appears subject to a good deal of environm

79 Pol/UL42 associated with primer-template DNA approximately 2-fold faster than did Pol an

80 nalysis, and allele determination of genomic template DNA are carried out on a fluorescence-detecting

81 nteractions between gamma complex and primer/template DNA are investigated using fluorescence depolar

82 m cell division chromosomes containing older template DNA are segregated to the daughter destined to

83 ting buffering ions, Cl-, excess primer, and template DNA are unretained.

84 responsible for binding and selecting primer-template DNA as the target for clamp assembly remain unk

85 technology permits very efficient use of the template DNA as well as sequence reads, which are nearly

86 ed through chemical modifications of the DNA template, DNA-associated proteins, and RNA-mediated proc

87 pgt34) capable of recognizing 50 pg chimeric template DNA at a pig to human cellular ratio of 1/10,00

88 M. thermautotrophicus RNAP transcribed this template DNA at a rate of approximately 20 nucleotides p

89 gion 3.2 loop position, which influences the template DNA at the active site, thereby reducing the ef

90 in a similar base stacking interaction with template DNA at the position of the gap, in contrast wit

91 NA onto DNA, a method that utilizes a primer-template DNA attached to agarose beads via biotin-strept

92 and a homologous DNA primer for annealing to template DNA, avoiding the requirement for prior convers

93 ds much more avidly to non-extendable primer/template DNA because recycling to the high affinity bind

94 Negative supercoils accumulate in the template DNA because the positive supercoils are prefere

95 14-16 nt in the course of transcription, non-template DNA becomes essential for maintaining a stable

96 bined results explain how FEN avoids cutting template DNA between Okazaki fragments and link local FE

97 The results show that the two template DNAs bind histones with similar affinities but

98 DinB selectively adds dGTP across from tC in template DNA but cannot extend beyond the newly formed G

99 ery rapidly and with high affinity to primer/template DNA but is converted subsequently to a much low

100 reduces the rate of dissociation from primer-template DNA but not the rate of elongation.

101 tested, gp44/62 binds specifically to primer-template DNA but not to single-stranded DNA or blunt-end

102 nzyme; the separation of the double-stranded template DNA by helicase activity and its coupling to th

103 cleotide incorporation into 24/36-mer primer/template DNA by purified fetal calf thymus DNA polymeras

104 kinetic processing of double-stranded primer-template DNA by T4 pol is much more complex than that of

105 ecently introduced BigDye terminators, large-template DNA can be directly sequenced with custom prime

106 he combination of Cas9, guide RNA and repair template DNA can induce precise gene editing and the cor

107 ymes to copy past bulky adducts or distorted template DNA can result in a greater propensity for them

108 ce between the BP ring system and the primer-template DNA causes displacement of the modified templat

109 RFC bound only to primer-template DNA coated with the single-stranded DNA-binding

110 Likewise, trypsinogen template DNA-coated magnetic beads (2.8 mum diameter, 17

111 on at the same site in the polymerase-primer-template DNA complex.

112 ired measurements due to PCR inhibition, low template DNA concentrations, or analytical error are not

113 fluctuations of replication fork and primer-template DNA constructs labeled with Cy3/Cy5 donor-accep

114 s this issue we constructed forked or primer-template DNA constructs with 1 or 2 adjacent 2-aminopuri

115 nscriptase (RT) during replication of primer/template DNA containing guanine (G), O(6)-methylguanine

116 hter cell, demonstrating that segregation of template DNA correlates with lung cancer cell fate.

117 w and propensity to form G-quadruplex in non-template DNA, corroborating with all biochemically estab

118 Template DNA cosegregation was enhanced by cell-cell con

119 tic activity and does not contact the primer/template DNA directly, serves as an allosteric regulator

120 In the template DNA-DNA duplex, the dT-dA base pairs are more s

121 very different from that of the tract in the template DNA-DNA duplex.

122 describe SeqZip, a methodology that uses RNA-templated DNA-DNA ligation to retain and compress connec

123 suggesting that some of the non-transcribed template DNA does help to position the first two templat

124 ement for downstream DNA is transient, since template DNA downstream of +40 is dispensable for assemb

125 and imply that yeast RNAP II is able to scan template DNA downstream of the preinitiation complex for

126 emains bound or can become reattached to the template DNA duplex (for example, through R-loop formati

127 n elongation of nascent RNA anchoring to the template DNA duplex.

128 Cosegregation of template DNA during mitosis is one mechanism by which ce

129 plicative barriers are proteins bound to the template DNA, especially transcription complexes.

130 r various DNA structures, RFC selects primer-template DNA even in the presence of a 50-fold excess of

131 =2.5 infected cells was tested by the use of template DNA extracted from Ehrlichia chaffeensis, Ricke

132 samples demonstrated products amplified from template DNA extracted from Ixodes scapularis ticks coll

133 rlapping gene segments that are then used as template DNA for another PCR to create a full-length pro

134 pplications will include analyses of limited template DNA for biomedical, ancient DNA and forensic pu

135 aracterized by a similar organization of the template DNA for both Pols gamma.

136 and a gap large enough to provide undamaged template DNA for elongation past the adduct, although ga

137 ected with P. mirabilis were used to prepare template DNA for PCR amplification.

138 Replicative helicases that unwind the template DNA for polymerases at the fork can displace pr

139 ian motion of an RNA polymer tethered to its template DNA, free diffusion, and a few examples of poly

140 ked urine samples detected 1 to 10 copies of template DNA; freezing spiked whole urine greatly reduce

141 further tested by use of A. phagocytophilum template DNA from both North America and Europe and from

142 e, deer, bovine, and wood rat samples and of template DNA from closely related species (Anaplasma mar

143 No amplification products were observed with template DNA from nonstaphylococcal species, and the eff

144 ponding to the conserved nt flanking cna and template DNA from Sa strains that do not encode cna, we

145 (4) The RNA-DNA hybrid protects the template DNA from single-strand footprinting reagents.

146 If unfolding of template DNA from the nucleosome surface is facilitated

147 urification step that effectively eliminated template DNA from the products.

148 near polyacrylamide was first used to remove template DNA from the sequencing samples.

149 CR allows specific and sensitive (<100 fg of template DNA) identification of the Ames strain.

150 plicative DNA polymerases (DNAPs) move along template DNA in a processive manner.

151 gamma complex composite rapidly binds primer/template DNA in an ATP hydrolysis independent step.

152 microl reaction master mix with 1 microl of template DNA in each reaction.

153 These results indicate that the melted template DNA in the open complex is positioned to bind t

154 family of polymerases, complexed with primer-template DNA in the presence or absence of the incoming

155 Asymmetric cell division of template DNA in tumor cells has remained elusive, howeve

156 lso interact with downstream single-stranded template DNA in very different ways.

157 products were dependent on the logarithm of template DNA input over 40- (r2 = 0.98), 60- (r2 = 0.96)

158 Template DNA integrity could influence dPCR performance:

159 a' subunits, correlating with the loading of template DNA into the catalytic cleft of RNAP.

160 The composition of the template DNA is another important factor determining the

161 lved in a topologically limited system where template DNA is bound to the surface may facilitate the

162 says perform best when the input quantity of template DNA is controlled to within about a factor of r

163 When the template DNA is damaged by a carcinogen, the fidelity of

164 m supporting DNA replication when either the template DNA is damaged or the replication machinery mal

165 transcription bubble and the single-stranded template DNA is delivered to the RNAP active site.

166 t the configuration of RNAP, transcript, and template DNA is different in each complex.

167 Once the template DNA is prepared, the method can be completed in

168 Instead, template DNA is required for the assembly of the T4 repl

169 We conclude that organization of the template DNA is the major factor contributing to the sti

170 cationic components within the DNA-membrane template; DNA is highly anionic and condenses the Cd(2+)

171 Surprisingly, misincorporation opposite templating DNA is not enhanced by the increased base-sta

172 ation of either 5-NapITP or 5-AnITP opposite templating DNA is reduced and presumably reflects steric

173 moter escape stage of transcription requires template DNA located downstream of the elongating polyme

174 However, low-template DNA (LTDNA) profiles are subject to stochastic

175 HR), DNA synthesis copies information from a template DNA molecule.

176 reaction is often used in the preparation of template DNA molecules for next-generation sequencing.

177 chambers, allows for enumeration of discrete template DNA molecules, as well as sequestration of non-

178 and detected at their positions along single template DNA molecules.

179 is enhanced by binding to either RNA or DNA, template DNA must be removed by DNase digestion and ultr

180 eal OC, which elucidates the path of the non-template DNA (ntDNA) strand and interaction sites of the

181 c contacts with a T-rich sequence in the non-template DNA (ntDNA) strand within the paused transcript

182 (e.g., chloride and dideoxynucleotides) and template DNA on the injected amount and separation effic

183 The deleterious effect of template DNA on the separation of sequencing fragments w

184 RNA polymerase (RNAP) and transcript RNA or template DNA onto the x-ray crystal structure.

185 ered by the binding of either matched primer template DNA or ddATP.

186 ition of an intercalating dye located in the template DNA or placement of multiple identical dye acce

187 ct approximately 10 pg of purified wild-type template DNA or the presence of approximately 4 CFU of w

188 ates, emphasizing the relative importance of template DNA organization in modulating Pol gamma activi

189 P-driven assembly of beta clamps onto primer-template DNA (p/tDNA), enabling processive replication.

190 owever, the conformation of the unpaired non-template DNA part of the full transcription bubble (TB)

191 Homology modeling suggests that downstream template DNA passes through a tunnel prior to entering t

192 Although ribonucleotides in template DNA perturb replicative polymerases and can be

193 On model oligonucleotide templates, DNA polymerase III core is inhibited by SSB.

194 onstrated that, depending on the sequence of template DNA, polymerases may pause after incorporation

195 to alter chromatin of the corresponding PHB template DNA predominantly in differentiated cells.

196 that retention of chromatids with the "old" template DNA preserves the epigenetic memory of cell fat

197 le group II intron RT in complex with an RNA template-DNA primer duplex and incoming deoxynucleotide

198 ctures: single-stranded DNA (ss-DNA), primer-template DNA (pt-DNA), and blunt-end double-stranded DNA

199 Clamps must be loaded onto primer-template DNA (ptDNA) by clamp loaders that open and clos

200 ll nuclear antigen (PCNA) clamps onto primer-template DNA (ptDNA) during replication.

201 )-catalyzed loading of the clamp onto primer template DNA (ptDNA).

202 t to open PCNA (at ~2 s(-1)) and bind primer-template DNA (ptDNA).

203 d erythrocytes and suggest that insertion of templated DNA represents an additional mechanism of anti

204 Addition of the single-stranded template DNA resulted in selective broadening of the met

205 Template DNA, RNA polymerase holoenzyme, and purified Nu

206 We use methods of base-pair-templated DNA self assembly to create a hybrid DNA gel c

207 ypothesis posits that NTP substrates bind to templated DNA sites prior to translocation into the acti

208 Primer-template DNA slippage resulting in single nucleotide del

209 NA products remain stably base-paired to the template DNA strand and are functional for initiating DN

210 s between the nascent RNA transcript and the template DNA strand at CTG.CAG tracts promote instabilit

211 lude that WRN stimulates (CTG)(n) HPR on the template DNA strand by resolving the hairpin so that it

212 e for removing adenines misincorporated on a template DNA strand containing G or 7,8-dihydro-8-oxogua

213 n one side of RfaH(N) interacts with the non-template DNA strand during recruitment, whereas a hydrop

214 that interaction of fork loop 2 with the non-template DNA strand facilitates NTP sequestration throug

215 complex near the TATA box and then scans the template DNA strand for start sites.

216 ultiple roles in human MMR by protecting the template DNA strand from degradation, enhancing repair e

217 se pairs further, where G-density on the non-template DNA strand gradually drops to the genome averag

218 er element of the terminator, namely the non-template DNA strand in the region of the terminal transc

219 A non-template DNA strand is not needed for the stability of t

220 s portion of the transcript to anneal to the template DNA strand is reduced.

221 R system processes a (CTG)(n) hairpin on the template DNA strand much less efficiently than a (CAG)(n

222 acts with an unpaired DNA residue in the non-template DNA strand one nucleotide ahead from the active

223 i) key contacts by Thr-84 and Lys-173 to the template DNA strand phosphates at the outer margins of t

224 Additionally, a CpG sequence of the template DNA strand spanning the active site of RNAP inh

225 cyclobutane pyrimidine dimers (CPDs) in the template DNA strand stall transcription elongation by RN

226 ns result in successive displacements of the template DNA strand within the protein pore, which can b

227 oops form by thread-back of the RNA onto the template DNA strand, and here we report that G clusters

228 However, the mechanism of AID access to the template DNA strand, particularly when hybridized to a n

229 the RNA transcript can thread back onto the template DNA strand, resulting in an R loop.

230 tially occurs at methylated cytosines on the template DNA strand, suggesting a co-transcriptional fee

231 tion is redundant in the presence of the non-template DNA strand, which alone can control the proper

232 elongation reaction, but not mutation of the template DNA strand, which is protected by E. coli RNA p

233 f negative supercoiling or breaks in the non-template DNA strand.

234 nding to, or directly clash with, the melted template DNA strand.

235 ubble and may help displace the RNA from the template DNA strand.

236 solution in the presence of a complementary template DNA strand.

237 ust simultaneously displace a downstream non-template DNA strand.

238 by allowing polymerase to gain access to the template DNA strand.

239 charged backbones of nucleotides in the non-template DNA strand.

240 cent RNA forms an 8-9bp long hybrid with the template DNA strand.

241 t the 5'-end of the first intron, on the non-template DNA strand.

242 ughout much of its length, while the C-rich (template) DNA strand is essentially resistant.

243 We find that the G-rich (non-template) DNA strand of each switch sequence is hypersen

244 retain a set of chromosomes that contain old template DNA strands (i.e., "immortal DNA strands").

245 LREC selectively retain their 3HTdR-labeled template DNA strands and pass newly synthesized 5BrdU-la

246 nition for initiation, nicking of one of the template DNA strands and unwinding of the duplex prior t

247 of the "open promoter complex," in which the template DNA strands have separated but RNA synthesis ha

248 ter chromatids at mitosis such that the same template DNA strands stay together through successive di

249 mplex (consisting of the protein, the primer-template DNA strands, and the incoming nucleotide) subje

250 mplete topological unlinking of the parental template DNA strands, partition of the daughter chromoso

251 ancer risk by selective segregation of their template DNA strands.

252 the polymerase (43 protein), and/or a primer template DNA substrate demonstrate (a) that the 45 prote

253 ormations without dissociating from a primer-template DNA substrate.

254 ciently through certain regions in which the templates (DNA substrates for the sequencing process) fo

255 n 4.8 and 9.8 among eight loci for 0.3-10 ng template DNA suggest that this method is indeed suitable

256 E. coli DNA polymerase III, while permitting templated DNA synthesis from the cap guanosine 3'-OH pri

257 In conjunction with RNA- and DNA-templated DNA synthesis, a hydrolytic activity of the sa

258 the Y63 residue of HP, the priming site for templated DNA synthesis, almost completely eliminated DN

259 ural template bases are reported for the DNA-templated DNA synthesis, and comparison is made with rec

260 As with Hepsilon-templated DNA synthesis, the protein-primed transferase

261 is essential for genome maintenance through templated DNA synthesis.

262 at its terminator, an oligo(dT) tract in non-template DNA, terminates 3' oligo(rU) synthesis within t

263 ility gene XPV, bypasses UV photoproducts in template DNA that block synthesis by other DNA polymeras

264 pplied, which utilizes T7 RNA polymerase and template DNAs that are either moderately or highly posit

265 terminal protein cannot accommodate upstream template DNA, thereby explaining its specificity for ini

266 nous full-length APC inhibits replication of template DNA through a function that maps to amino acids

267 condary structure and gradual opening of the template DNA, through a series of visually similar templ

268 omologous recombination (HR) with engineered template DNA to alter virtually any gene and create muta

269 and motif B loop, which block the access of template DNA to the active site in the apo-form mini-vRN

270 ion to repeatedly shuttle H3 and H4 from the template DNA to the RNA.

271 ail each that are simultaneously annealed to template DNA together with the set of mutagenic primers

272 laced target DNA will hybridize with another template DNA, triggering another round of primer extensi

273 Binding to primed template DNA triggers gamma complex to hydrolyze ATP and

274 om both double- and single-stranded circular template DNA using specific primer pairs.

275 ized in primer extension assays in which the template DNA was adducted at a single adenine by either

276 oncentration, where a quantifiable amount of template DNA was extracted from aqueous samples containi

277 l, while the affinity of Pol/UL42 for primer-template DNA was increased approximately 15-fold relativ

278 e rescue of replication forks stalled on the template DNA was investigated using an assay for synthet

279 Template DNA was prepared by boiling cells in Chelex.

280 ng reaction products was developed, in which template DNA was removed by ultrafiltration and the tota

281 anscribing complex, with base pairing to the template DNA, was revealed by X-ray crystallography.

282 However, when either PCNA or primer-template DNA were also present 2.6 or 2.7 ATPgammaS mole

283 Template DNAs were amplified from each T. kodakarensis s

284 ary complex of the same enzyme with a primer/template DNA, were determined to a resolution of 2.3, 2.

285 g cell division, CD133 cosegregated with the template DNA, whereas the differentiation markers prosur

286 r cell cultures asymmetrically divided their template DNA, which could be visualized in single cells

287 rofiles were routinely obtained with 5 pg of template DNA, which is equivalent to 1-2 diploid cells.

288 of transcription of agn43 from unmethylated template DNA, which is essential for deoxyadenosine meth

289 annealing of the 3'-end of primer 2 with the template DNA, which leads to no primer extension.

290 nique five base single-stranded extension of template DNA whose sequences varied at positions +1 and

291 iophage T4 DNA polymerase (T4 pol) to primer-template DNA with 2-aminopurine (2AP) located at the pri

292 A defined template DNA with a single psoralen cross-link and the S

293 with comparable efficiency onto naked primer/template DNA with either a 3'-junction or a 5'-junction.

294 its "Klentaq" large fragment bind to primed-template DNA with significant negative heat capacities.

295 ation of the target DNA opens up a stem-loop template DNA with the Fc-PNA hybridized to its extruded

296 es can also be incorporated opposite natural templating DNA with variable degrees of efficiency.

297 e (nt) RNA whose 3'-proximal 9-10 nt pair to template DNA within an 11-nt noncomplementary bubble of

298 of 10(9) copies from less than 100 copies of template DNA within an hour.

299 ear that, for Esigma54 promoters, loading of template DNA within the catalytic cleft of RNAP is depen

300 acterial cell lysate spiked with 1 pg mL(-1) template DNA without requiring the use of organic solven