ライフサイエンスコーパス: DNA melting

1 e importance of heat-capacity changes during DNA melting.

2 rase (RNAP), direct promoter DNA binding and DNA melting.

3 eron attributable to DNA bending rather than DNA melting.

4 ter recognition and contributes to localized DNA melting.

5 tching force is interpreted as force-induced DNA melting.

6 quences closely associated with the start of DNA melting.

7 on of entropy and heat-capacity changes upon DNA melting.

8 ssible role for such interaction in promoter DNA melting.

9 ucture representing an early conformation in DNA melting.

10 main is involved in promoter recognition and DNA melting.

11 key role for this base in the nucleation of DNA melting.

12 ering solution conditions to favor transient DNA melting.

13 articipates in both promoter recognition and DNA melting.

14 the most reliable quantitative indicators of DNA melting.

15 uctural changes in the promoter DNA, such as DNA melting.

16 binding halts diffusive CMG independently of DNA melting.

17 at G-quadruplex formation is correlated with DNA melting.

18 r sequencing but not with fluorescence based DNA melting.

19 romoter contacts and plays a crucial role in DNA melting.

20 for helicase activity and also origin (ori) DNA melting.

21 ransient clamp closure as a prerequisite for DNA melting.

22 re exerted at a step preceding nucleation of DNA melting.

23 ons for two aromatic amino acids involved in DNA melting.

24 on the thermodynamics and kinetics of duplex DNA melting.

25 of a functional, multimeric E1 helicase and DNA melting.

26 GMP alone can greatly increase the level of DNA-melting.

27 icant heat capacity increase associated with DNA melting, all of the above assumptions are self-consi

28 DNA melting analysis holds great promise for simple and

29 man single base variants examined by spatial DNA melting analysis included rs354439, HTR2A 102T > C,

30 Fluorescent high-resolution DNA melting analysis is a robust method of genotyping an

31 nd demonstrate a highly specific intracavity DNA melting analysis scheme utilizing an optofluidic las

32 is paper, we first theoretically investigate DNA melting analysis using an optofluidic laser and then

33 the three warfarin-related sites by spatial DNA melting analysis with 100% accuracy.

34 uidic device was used to demonstrate spatial DNA melting analysis with the resolution and reproducibi

35 enotyping of PCR products by high-resolution DNA melting analysis.

36 recognition of the oxdC promoter, stimulate DNA melting and activate transcription by core RNA polym

37 This remodeling facilitates DNA melting and allows the transition to the open comple

38 re scanned in buffer containing 1 mM Mg(2+), DNA melting and capsid denaturation both contribute to t

39 d stability of Tus-Ter interaction caused by DNA melting and capture of a flipped base by Tus generat

40 to perform biochemical reactions, including DNA melting and detection of single base mismatches.

41 and identify the transition between initial DNA melting and extensive unwinding as the first initiat

42 The results are discussed in the context of DNA melting and flexibility around the TATA box region a

43 E1 has origin recognition and ATP-dependent DNA melting and helicase activities, and it consists of

44 strate that separate functional elements for DNA melting and helicase activity can be distinguished.

45 l properties of nanoscale molecular systems (DNA melting and nanoscale water meniscus formation), the

46 at the origin of replication, catalyzing the DNA melting and nicking reactions during the hairpin rol

47 f RNAP parts normally associated with stable DNA melting and open complex formation.

48 We examined DNA melting and promoter clearance by using potassium pe

49 red by ATP binding and hydrolysis for origin DNA melting and replication fork unwinding.

50 flexible RNAP clamp domain, concomitant with DNA melting and template loading.

51 ion between states with different extents of DNA melting and that the extent of melting regulates ini

52 The mutation exhibits no defects in DNA melting and translocation in vitro but confers a mod

53 e describe has implication for understanding DNA melting and unwinding reactions, which are generally

54 large protein complex that functions in the DNA melting and unwinding steps as a component of replis

55 rrect NTPs suggested that it may represent a DNA melting and/or base pairing step.

56 abilises the preinitiation complex, enhances DNA melting, and stimulates abortive and productive tran

57 a coli RNA polymerase, deficient in promoter DNA melting, and variants of the P(R) promoter of bacter

58 Details of the reaction coordinate for DNA melting are fundamental to much of biology and biote

59 to downstream fork junctions is coupled with DNA melting around the transcription start point.

60 We consider studies of DNA melting as a function of ionic strength and show tha

61 r distortion or base flipping could initiate DNA melting as the second step in DNA replication.

62 he newly developed assay incorporated FO-SPR DNA melting assay, previously developed by our group.

63 fic promoter recognition but cannot initiate DNA melting at the -10 promoter element.

64 lex; and (iii) promote or maintain localized DNA melting at the upstream edge of the bubble.

65 e experimental evidence for the formation of DNA melting bubbles driven by high tension and prove the

66 does not prevent nucleation of the promoter DNA melting but instead blocks its propagation towards t

67 helicase and polymerase both participate in DNA melting, but each enzyme melts the junction base pai

68 nd the recognition of promoter sequences and DNA melting by holoenzyme, transcription initiation and

69 xidation was used to probe for the extent of DNA melting by human immunodeficiency virus, type 1 (HIV

70 n and reveal a novel interaction involved in DNA melting by RNA polymerase.

71 lts explain how ATP binding nucleates origin DNA melting by the CMG and maintains replisome stability

72 ed on which we suggest that Mtf1 facilitates DNA melting by trapping the non-template strand in the u

73 NAP, likely providing the mechanism by which DNA melting can occur in a minimal factor configuration,

74 ications of the pathogens are carried out by DNA melting curve analysis or gel electrophoresis.

75 Using gel electrophoresis and DNA melting curve analysis, we showed that LiCl-isopropa

76 val of artifact bias from qPCR results using DNA melting curve analysis.

77 is a flexible web-based tool for predicting DNA melting curves and denaturation profiles of PCR prod

78 DNA melting curves at different concentrations of WP631

79 DNA melting curves obtained from each sample were also a

80 e the use of LASR to measure single-molecule DNA melting curves with approximately 1 degrees C accura

81 binding affinity has been investigated using DNA melting (DeltaT(M)), circular dichroism (CD), and su

82 initiation, which elucidate the mechanism of DNA melting driven by ATPase activity of bEBPs and sugge

83 complex stability and region 1.2 involved in DNA melting during initiation.

84 ces between surface immobilized and solution DNA melting dynamics, which allows us to better understa

85 T. aquaticus RNA polymerase impair promoter DNA melting equally at temperatures from 25 to 75 degree

86 greater net dehydration of these bases upon DNA melting; ethylene glycol local accumulation is pract

87 uated in a comparative study on the basis of DNA melting experiments and T(m) values.

88 DNA structures using displacement assays and DNA melting experiments.

89 es into a continuous oligomer at the site of DNA melting, extending from a dsDNA anchor to engage a s

90 gp2.5 lowers the phage lambda DNA melting force as measured by single molecule force s

91 By studying the rate-dependent DNA melting force in the presence of gp2.5 and its delet

92 switch to (i) allow propagation of nucleated DNA melting from an upstream DNA fork junction and (ii)

93 the -10 region; and (iii) the propagation of DNA melting from the nucleation region is not rate-limit

94 unterpart, provides promoter recognition and DNA melting functions to the holoenzyme.

95 micking promoter DNA where the nucleation of DNA melting had taken place.

96 transcription initiation complex where full DNA melting has not yet occurred.

97 ircular dichroism spectroscopy revealed that DNA melting in the -4/-3 cross-link was greatly inhibite

98 otions control the promoter search and drive DNA melting in the absence of external energy sources.

99 ns of WP631 were fitted to McGhee's model of DNA melting in the presence of ligands, yielding an inde

100 Differential thermal analysis of DNA melting in these assays allowed analytical discrimin

101 capacity increase DeltaC(p) associated with DNA melting, in the range of 40-100 cal/mol K per base p

102 g a mechanism for the nucleation of promoter DNA melting initiation in which RNA polymerase destabili

103 eotide-dependent temporal pathway leading to DNA melting involving a small set of sigma54-DNA conform

104 We propose that DNA melting is an active process initiated in RPc and th

105 The amount or extent of DNA melting is not significantly affected by the length

106 a(54)-RNAP forms promoter complexes in which DNA melting is only triggered by an activator and ATP hy

107 (2) DNA melting is temperature-dependent, with a tm between

108 ation complex, which occurs concomitant with DNA melting, is coordinated with an opening of the RNAP

109 Our results indicate that target DNA melting may be a crucial step during RAG-mediated tr

110 fluorescence probes in conserved region 2.3 (DNA "melting motif") was prepared by replacing tryptopha

111 hich core enzyme mediates the final stage of DNA melting near the transcription start site, and that

112 al dehybridization, this optically triggered DNA melting occurs at a solution temperature that is 22

113 atively agree with a model that asserts that DNA melting occurs during the overstretching transition.

114 tween RNA polymerase and a promoter involves DNA melting of approximately 14 base pairs.

115 ver, some biochemical evidence suggests that DNA melting of multiple base pairs may occur separately

116 molecules bind to the duplex, which induces DNA melting of the duplex remote from the lesion.

117 ce of the next correct dNTP, indicating that DNA melting only occurs after the formation of the terna

118 We demonstrate that prior to DNA melting, only the sigma(54)-factor directly interact

119 In vitro, His-pi.F107S-dependent local DNA melting (open complex formation) occurs in the absen

120 reveal a previously unidentified process of DNA melting opening.

121 DNA at temperatures well below the onset of DNA melting or capsid denaturation.

122 ld be located in a DNA contact important for DNA melting or is associated with activator interaction

123 tensive origin DNA unwinding but not initial DNA melting or recruitment of helicase-activation protei

124 ent RNA polymerase-promoter complex involves DNA melting over a region of about 12 base-pairs, which

125 range interactions, the length dependence of DNA melting parameters per base pair, the applicability

126 s can be considered the initial steps of the DNA melting pathway.

127 ence in support of models which describe the DNA melting process accompanying open complex formation

128 The promoter DNA melting process is subject to activation by an enhan

129 embles on DNA and provides insights into the DNA melting process.

130 Comparing the DNA melting profiles in reference plant materials and in

131 However, the precise role of DNA melting remains unknown.

132 g its diffusion and facilitating the initial DNA melting required to initiate DNA replication.

133 We propose that DNA melting requires the cooperation of the E1 helicase

134 We show that DNA melting requires the simultaneous presence of Rpo41

135 and the restriction-induced double-stranded DNA melting resets the systems.

136 e stretching is used to lower the barrier to DNA melting, resulting in direct mechanical manipulation

137 mplexes serves as a nucleation point for the DNA melting seen in open promoter complexes and restrict

138 absence of Mg(2+) and lower ionic strength), DNA melting shifts to lower temperatures and the two eve

139 ce of large scale lipid phase transitions or DNA melting, small temperature-dependent changes in the

140 he nucleotide-binding domain and induces the DNA melting so that the substrate DNA can access Mre11.

141 al promoters, where regulation occurs at the DNA melting step.

142 roofreading of DNA by epsilon subunit is the DNA-melting step.

143 DNA melting studies using a homogeneous 214 bp DNA fragm

144 s supported by the Na(+)-dependent nature of DNA melting studies, in which significantly higher Na(+)

145 tent with nearest-neighbor data derived from DNA melting studies.

146 arding several fundamental assumptions about DNA melting, such as the absence of longer range interac

147 es, in particular those that depend on local DNA melting, such as the initiation of replication and t

148 ismatches should be implemented in models of DNA melting, such as the widely used thermodynamic neare

149 versed by addition of ethidium bromide or by DNA melting, suggesting that flavopiridol binds to (and

150 Permanganate assays for DNA melting support this view.

151 th the approximately 6 degrees C decrease in DNA melting temperature of the modified oligonucleotide,

152 ese data and from a well-known dependence of DNA melting temperature on G.C content, the contribution

153 pH, f(ov)(pH), from the known dependence of DNA melting temperature on pH.

154 significantly below the regular (zero force) DNA melting temperature, the overstretching force, f(ov)

155 At temperatures slightly above the regular DNA melting temperature, we predict stabilization of dsD

156 linkers are uniformly distributed above the DNA melting temperature, while visibly accumulating at t

157 perature that is 22 degrees C lower than the DNA melting temperature.

158 vable from nanorod-based complexes below the DNA melting temperature.

159 ambient solution temperature well below the DNA melting temperature.

160 IP-RP-LC can be performed above DNA melting temperatures, avoiding the detection of seco

161 e titration and effects of ligand binding on DNA melting temperatures, concluding that isothermal tit

162 .36 M urea and 19.2 % formamide to lower the DNA melting temperatures.

163 shape deformations of droplets, regulated by DNA melting temperatures.

164 n suggests a previously unobserved transient DNA melting that may occur during double-stranded DNA su

165 Finally, we define a standard state for DNA melting, the temperature at which thermal contributi

166 ow the controls over protein recruitment and DNA melting to be separated, enhancing the diversity of

167 ad defects that appear to be associated with DNA melting to create the fork junction.

168 most distal upstream contacts accompanied by DNA melting to form open complexes.

169 anism that couples DH formation with initial DNA melting to license replication initiation in human c

170 ently linking both DNA strands, ICLs prevent DNA melting, transcription, and replication.

171 The DNA melting transition temperature was found to vary lin

172 hed data on DeltaH and DeltaS values for the DNA melting transition under various conditions.

173 quantitatively translated into multiplexable DNA melting transitions within 30 min.

174 ermination of protein/DNA binding, localized DNA melting transitions, and mRNA production at physiolo

175 es sigma(54) regulatory sequences needed for DNA melting upon activation.

176 just downstream from -10 hexamer to prevent DNA melting upon RNAP binding were used to mimic RNAP-pr

177 sekeeping sigma factor, sigma(70), nucleates DNA melting via recognition of conserved bases of the pr

178 The signal of the DNA melting was enhanced by means of gold nanoparticle l

179 rature data for effects of urea and of GB on DNA melting, we propose that urea is an effective nonspe

180 f the mutations on the mechanism of promoter DNA melting were investigated by studying the interactio

181 We further infer that (i) the nucleation of DNA melting, which occurs during the isomerization from

182 a theoretical analysis of the probability of DNA melting within the plasmid as a function of superhel