ライフサイエンスコーパス: single base

1 le, which are not observable in a mixture of single bases.

2 These DinB polymerases also generate single-base (-1) deletions at high frequencies with most

3 firmed 15 off-target sites, each harboring a single-base bulge and one to three mismatches to the gui

4 By contrast, single-base bulges 6'U7' and 6'A7' on the target strand

5 Our studies establish that single-base bulges 7T8, 5A6 and 4A5 on the guide strand

6 gonaute (TtAgo) ternary complexes containing single-base bulges positioned either within the seed seg

7 1 patient 3 years apart did not accumulate a single base change across the genome.

8 igo contained multiple nucleotide changes: a single base change allowing recombinant selection, and s

9 st-transcriptional mechanism that can make a single base change on specific nucleotide sequence in an

10 Genome sequencing identified a single base change resulting in a threonine-to-methionin

11 ntaining complex variation (i.e. more than a single base change), thus making identification of such

12 Experiments with RNA also showed effective single-base change discrimination.

13 onfirmed by DNA analysis, which identified a single-base change of cytosine to guanine at the second

14 onucleotides is a strategy aimed at inducing single base changes into the genome, generating a perman

15 single nucleotide polymorphisms (nsSNPs) are single base changes leading to a change to the amino aci

16 t the chromosome and structural level, while single base changes occur at very low rates.

17 sses modifications ranging from thousands of single base changes to megabase-scale path reorganizatio

18 s chromosomal rearrangements, deletions, and single base changes.

19 analogues with energetically representative single-base changes (replacements, deletions and inserti

20 ssible amino acid substitutions arising from single-base changes affecting codons 62 and 63 to explor

21 ed technique that delineates the majority of single-base changes, indels, and copy number variants di

22 s laxa, we engineered a cutis laxa mutation (single base deletion) into the human elastin gene contai

23 ss of Y-family polymerases is that they make single-base deletion errors at high frequencies in repet

24 that the interdomain linker also affects the single-base deletion frequency and the mispair extension

25 e spectrum of transitions, transversions and single base deletions are observed.

26 n the previously estimated mutation rate for single base deletions in homopolymers in the Buchnera ge

27 opose two distinct mechanisms for generating single base deletions in vivo.

28 Remarkably, the rate of single base deletions is preferentially increased in cod

29 le base than large deletions, and that these single base deletions were possibly caused by replicatio

30 ral Old World monkeys and apes by frameshift single-base deletions forming premature stop codons.

31 tter property explains how hPolkappa creates single-base deletions in non-repetitive sequences, but d

32 CMS) revealed four molecular variations (two single-base deletions, a nonsense mutation, and a canoni

33 herichia coli DinB polymerase, which creates single-base deletions, prefers to extend slipped DNA sub

34 bilized misalignment mechanism when creating single-base deletions, we find that Dpo4 predominantly u

35 Thus, the tumor-dependent introduction of a single base difference in the miR-376a* sequence dramati

36 ization probe that would enable near-optimal single-base discrimination and perform robustly across d

37 Here the authors show high efficient single-base editing in zebrafish using modified Cas9 and

38 quencing technologies that are less prone to single-base errors should confirm these results by apply

39 single and metagenomic assemblies, including single-base errors, insertions/deletions, genome rearran

40 ide datasets, multiplex-PCR and detection by single-base extension and MALDI-TOF mass spectrometry, i

41 to bind and disrupt nucleosomes containing a single base gap and, because of this property, enhanced

42 racterization of DNMT-mutant ESCs, including single-base genome-wide maps of the targets of these enz

43 L1, and NEBL, with mutational hot spots at a single base in 3 of 12 tumors sequenced.

44 re capable of distinguishing variations of a single base in a stretch of target DNA.

45 nthesis in which a nucleotide specified by a single base in the DNA template is repetitively added to

46 , which allow selective UV excitation of one single base in the strand.

47 rtion in polymerase active sites could allow single base insertion or deletion mutations to occur, an

48 The second carries a single base insertion with respect to the wild type.

49 substantial differential methylation at the single base level.

50 Not only can maNCB identify m(6)A at the single-base level but it also can quantify the extent of

51 At the single-base level with Illumina data, ALE recovers 215 o

52 er analysis using expressed region-level and single base-level approaches provides a compromise betwe

53 Using single-base methylation maps and transcriptome analyses

54 been considered to monitor hybridization of single base mismatch (SBM) in synthetic oligonucleotides

55 calibration curve of the chMB for detecting single base mismatch and ultraviolet (UV)-induced DNA da

56 Generating a single base mismatch in the growing primer duplex, which

57 ly challenging due to the presence of only a single base mismatch in the middle of the 251 base long

58 s quantitation platform can also distinguish single base mismatch of DNA hybridization and observe th

59 he probe and was found that the system has a single base mismatch selectivity.

60 non-complementary target (un-hybridized) and single base mismatch target (named as SMM) hybridized su

61 ed (non-complementary target hybridized) and single base mismatch target hybridized surfaces sensitiv

62 of noncomplementary NA, even to the level of single base mismatch, permanent pore blockade is not see

63 f XPD onto kilobase DNA strands containing a single base mismatch, which is not a specific substrate

64 significantly lower binding with DNA having single base mismatch.

65 to relocalize onto DNA strands containing a single base mismatch; EndoIII mutants that are defective

66 ard the complementary DNA target, as well as single-base mismatch selectivity.

67 Moreover, it has high selectivity against single-base mismatch sequences and can be used directly

68 RNA detection with attomolar sensitivity and single-base mismatch specificity.

69 sensor to study the type and location of the single-base mismatch, as well as the influence of the le

70 gets that are perfectly matched or contain a single-base mismatch.

71 es can be reliably quantified with excellent single-base-mismatch differentiation capability by this

72 for the complementary oligonucleotides over single-base-mismatch, two-base-mismatch, and noncompleme

73 n fully complementary, non-complementary and single base mismatched targets, and even between the com

74 excellent discrimination efficiency toward a single-base mismatched target.

75 ynamic difference between the target and the single-base-mismatched DNA, resulting in a differential

76 chemical sensing system for the detection of single base mismatches (SBMs) using ferrocene-modified D

77 intensity of the complex with DNA containing single base mismatches correlates with the thermodynamic

78 move all non-target nucleic acids, including single base mismatches flanked by adenines or uracils.

79 ) serves as a luminescent "light switch" for single base mismatches in DNA.

80 perturbations and capable of distinguishing single base mismatches in the target miRNA.

81 to program Cpf1 nucleases are insensitive to single base mismatches, but that many of the other bases

82 ions, including DNA melting and detection of single base mismatches.

83 sults, such as the greater Cas9 tolerance to single-base mismatches in PAM-distal region than to PAM-

84 he enzymes facilitated the discrimination of single-base mismatches within the recognition or ligatio

85 roduplex structures and is even able to nick single-base mismatches.

86 pots' within the miRNA guide strand at which single base modifications significantly reduce immune st

87 DNA with the capability of discriminating a single-base mutant of DNA.

88 C.I. 1.82 x 10(-10) to 5.23 x 10(-10)) and a single base mutation rate of 2.08 x 10(-10)/site/generat

89 Our data document the power of a single base mutation, inducing an extensive remodeling o

90 RNA comprising either a terminal or a middle single base mutation.

91 A single-base mutation at codon 6 leads to formation of Hb

92 t mismatch is also demonstrated by detecting single-base mutation in target nucleic acids.

93 ein VpsT, the LuxR-type regulator VqmA, or a single-base mutation in the hapR promoter that prevents

94 ical assays of BsRppH on RNA substrates with single-base-mutation changes in the first four nucleotid

95 litate, for the first time, the detection of single base mutations in a gene segment and, specificall

96 Recently, the landscape of single base mutations in diffuse large B-cell lymphoma (

97 c diversity of HsDhn3 alleles and effects of single base mutations on the intrinsically disordered st

98 sed to detect and phase up to 82% of de novo single base mutations with a false-positive rate of abou

99 14 mutations, including 5 short indels and 9 single base mutations, and no evidence of larger structu

100 ding deletions at the LdMT transporter gene, single-base mutations and changes in somy.

101 to Cas9 nickase, up to 28% of site-specific single-base mutations are achieved in multiple gene loci

102 onsynonymous germ-line variants, to identify single-base mutations with a high impact on protein stru

103 is used to directly measure the kinetics of single-base nucleotide incorporation into primed DNA tem

104 In contrast, hpol iota inserted a single base opposite 1,N(6)-gamma-HMHP-dA but was unable

105 Using optical tweezers with single base pair (bp) resolution, we analyzed DNA unwind

106 s significantly slower than the fraying of a single base pair and (ii) initiating branch migration in

107 A changes and propose that the likelihood of single base pair change differs across three orders of m

108 rties by the snake proteins, but rather to a single base pair change in a Hox/Paired box (Pax)-respon

109 In the diminuendo mouse, which carries a single base pair change in the seed region of miR-96, th

110 BFX-GFPstopUS27 is a FIX variant with a single base pair change in the US27 open reading frame,

111 y an Alu-mediated recombination event, and a single base pair deletion disrupted the ORF of SIGLEC17.

112 of the Rdy phenotype has been described as a single base pair deletion in exon 4 of the CRX gene, thu

113 Gene mapping identified a single base pair deletion in membrane-type frizzled rela

114 h-M74a strain (GhV-F) is likely incorrect: a single base pair deletion near the N terminus results in

115 strating the ability of our method to detect single base pair differences in DNA specificity of two s

116 ls that the method can resolve as small as a single base pair distance at the extreme vicinity of the

117 NA oligonucleotides has been used to alter a single base pair in a variety of biological systems.

118 a limit of detection of 1nM and can detect a single base pair mismatch between probe and complementar

119 Our data indicate that a single base pair mismatch in the invader stalls branch m

120 lly relevant concentration levels as well as single base pair mismatch, without requiring complex and

121 d we track the effects of incorporating a CA single base pair mismatch.

122 nsor was optimized to allow the detection of single base pair mismatched sequences, able to detect as

123 -canonical bases like 2,4-difluorotoluene or single base pair mismatches in the central region of the

124 d the influence of the cooperative effect on single base pair mismatches.

125 cus genome purified from yeast identified 14 single base pair missense mutations, one frameshift, one

126 from circulating clades require as few as a single base pair mutation to quantitatively switch their

127 lds seamless mutations that are precise to a single base pair of DNA.

128 nthesis products, and from DNA duplexes with single base pair overhangs.

129 determine distribution of 5-mC and 5-hmC at single base pair resolution at MspI restriction sites.

130 ths of inherited microsatellite alleles with single base pair resolution from short sequence reads is

131 ssible the rapid identification of CGRs with single base pair resolution.

132 nscription factor (TF)-DNA interactions with single base pair resolution.

133 ntensive and time-consuming and of less than single base pair resolution.

134 nome-wide measurements of DNA methylation at single base pair resolution.

135 is revealed that instead of unwinding RNA in single base pair steps, Rrp44 accumulates the energy rel

136 Here, we report that a homozygous single base pair substitution in POLE1 (polymerase epsil

137 ls to engineer mouse strains with reciprocal single base pair substitutions (B6-Cdh23(c.753A>G) and 1

138 cross much of its target site, such that few single base pair substitutions cause a significant decre

139 ndergo ion-induced folding is conferred by a single base pair that follows the conserved A.G pairs, t

140 The genomic impact ranged from a single base pair to 5.4 Mb.

141 a purine and often primed transcription on a single base pair to either the terminal or penultimate r

142 on mutations in TTDN1 ranging in size from a single base pair to over 120 kb.

143 d the binding and cleavage properties of all single base pair variant target sites of the canonical L

144 ile most indels at non-coding regions were a single base pair, 3 base pair indels were observed when

145 The two strains differ by a single base pair, which causes a nonsense mutation in th

146 inguish between two alleles that differ by a single base pair.

147 differs from the wild-type allele at only a single base pair.

148 criminate between DNA ligands differing by a single base pair.

149 mains using targeted mutations as small as a single base pair.

150 ing low expression of these putative piRNAs, single-base pair CpG methylation analyses across the gen

151 uggested that these helicases unzip dsNAs in single-base pair increments, consuming one ATP molecule

152 described, which allows for the presence of single-base pair mismatches arising from sequencing erro

153 By profiling genome-wide DNA methylation at single-base pair resolution in thirteen DLBCL diagnosis-

154 most direct evidence thus far that forward, single-base pair stepping of a helicase utilizes the spo

155 Single-base pair steps by NS3 were observed, along with

156 at is accessible from the current state by a single base-pair addition/deletion following the Gillesp

157 t signal attenuation upon incorporation of a single base-pair mismatch demonstrates that CT is DNA-me

158 thermore, we extend this approach to perform single base-pair modifications in the TERT promoter; rev

159 Patterns of single base-pair mutations (SNPs) in aligned pairs disti

160 discriminate between alleles differing by a single base-pair regardless of the position in the guide

161 d for transcriptome analysis that provides a single base-pair resolution map of transcription start s

162 tprints, high-resolution X-ChIP-seq achieves single base-pair resolution of transcription factor bind

163 eosomes and subnucleosome-sized particles at single base-pair resolution throughout the budding yeast

164 the kinetics of much longer RNA sequences at single base-pair resolution while also allowing for the

165 enabling precise chromosome modifications at single base-pair resolution with an efficiency of >40%,

166 e the folding kinetics of an RNA molecule at single base-pair resolution.

167 rteen of the most widely used BCG strains at single base-pair resolution.

168 characterized yeast centromeric chromatin at single base-pair resolution.

169 tive method to pinpoint unmethylated CpGs at single base-pair resolution.

170 cing data and pinpoints their breakpoints at single base-pair resolution.

171 estigation of genome-wide RBP-RNA binding at single base-pair resolution.

172 ure into smaller substructures composed of a single base-pair stack, which allows us to leverage exis

173 e, a secondary structure kinetics model with single base-pair steps and a coarse-grained molecular mo

174 ing nucleosomes do not provide the necessary single-base-pair accuracy to determine these positions.

175 This patient carries a homozygous, germline, single-base-pair deletion in FASLG exon 1, leading to a

176 e presence of an excess of a sequence with a single-base-pair mismatch.

177 etection, with the capabilty to discriminate single-base-pair mismatched DNA mutation (single nucleot

178 and the donor carries different densities of single-base-pair mismatches.

179 Notably, we demonstrate that this single-base-pair mutation abrogates the ability of the e

180 These results suggest how a single-base-pair mutation can cause a dramatic epigeneti

181 ng tool for genome-editing DNA in cells with single-base-pair precision, which allows novel in vitro

182 cis-regulatory binding sites (footprints) at single-base-pair resolution to compare binding sites and

183 made it possible to decode DNA methylomes at single-base-pair resolution under various physiological

184 Pol II), and nucleosome turnover dynamics at single-base-pair resolution.

185 ndividual DNA-binding proteins (for example, single-base-pair stepping of DNA translocases) along wit

186 The single-base-pair substitution in the seed region of miR-

187 modification of the ssODNs enabled effective single-base-pair substitution.

188 We describe how a small number of single-base-pair substitutions can generate hotspots de

189 of selected novel dinB alleles, generated by single-base-pair substitutions in the dnaE915 strain, in

190 the toxT promoter, promoter derivatives with single-base-pair transversions spanning the ToxR-footpri

191 toolbox at three length scales, ranging from single base pairs to megabase-scale chromosomal domains,

192 resistance alleles, including alteration of single base pairs.

193 We further report that alterations of single base-pairs or a single amino acid substitution (R

194 let-7 microRNA family that differ in only a single base position.

195 technology to define TOP2 cleavage sites at single-base precision, and use the technology to charact

196 developed experimental methods allow direct single-base profiling of either 5-hmC or 5-mC.

197 Although single base resolution and differentiation have been dem

198 Applications that do not require single base resolution are completed with faster separat

199 quantify expression of nearly 10,000 TSS at single base resolution by Capp-Switch sequencing, which

200 ability to detect DNA modification sites at single base resolution could significantly advance studi

201 across flowering plant species, we compared single base resolution DNA methylomes of 34 diverse angi

202 of AmpSeq-SSR were nearly 100 and 94% with a single base resolution for homozygous and heterozygous s

203 Nearly single base resolution of short tandem repeats relevant

204 mC levels can be computationally inferred at single base resolution using sequencing or array data fr

205 me showing differential expression signal at single base resolution without relying on existing annot

206 nsive methylomes of two H. pylori strains at single base resolution, using Single Molecule Real-Time

207 for visual bacterial pathogen detection with single base resolution.

208 electronically at single molecule level with single base resolution.

209 d estimates CpG methylation probabilities at single base resolution.

210 ling its genome-wide cytosine methylation at single base resolution.

211 e determination of charged tRNA fractions at single-base resolution (Charged DM-tRNA-seq).

212 Last, whole-genome single-base resolution 5-hydroxymethylcytosine (hmC) map

213 to determine cytosine methylation states at single-base resolution across entire genomes and populat

214 s the most promising approaches due to their single-base resolution and genome-wide coverage.

215 fy a comprehensive, experimentally obtained, single-base resolution CGI catalog.

216 alyses of human and mouse methylomic data at single-base resolution confirm that sloping shores are u

217 nary rates against experimentally determined single-base resolution DNA methylation data derived from

218 le stochastic simulation tool that generates single-base resolution DNA methylation data genome-wide.

219 rack, an efficient mechanism for visualizing single-base resolution DNA methylation data on a genome

220 Single-base resolution DNA methylation measurements were

221 We describe large-scale single-base resolution DNA methylation profiling on a di

222 nce genome assemblies and methods to profile single-base resolution DNA methylation states, DNA methy

223 pproaches for locating alkylation adducts at single-base resolution in DNA could enable new technolog

224 quencing (CAB-Seq) that can detect 5caC with single-base resolution in DNA.

225 whole-genome profiles of DNA methylation at single-base resolution in five human iPSC lines, along w

226 quantitatively locate 5mC and 5hmC marks at single-base resolution in genomic DNA.

227 cificity, and dynamics of DNA methylation at single-base resolution in human and mouse frontal cortex

228 A methylation and hydroxymethylation maps at single-base resolution in human normal liver and lung as

229 equencing to evaluate the mutational load at single-base resolution in individual gene-corrected huma

230 ytosine (5hmC) and 5-formylcytosine (5fC) at single-base resolution is important to understand their

231 This study provides the first single-base resolution map of the mammalian cardiac DNA

232 ylation (gbM) within exons, we have gathered single-base resolution methylome data that span the phyl

233 Here, we report 1,107 high-quality single-base resolution methylomes and 1,203 transcriptom

234 Herein, we obtained the DNA methylomes at single-base resolution of Madin-Darby canine kidney cell

235 n electrophoresis ("micelle-ELFSE") provides single-base resolution of Sanger sequencing products up

236 ampered by the lack of a method to map it at single-base resolution on a genome-wide scale.

237 However, genome-wide detection of 5fC at single-base resolution remains challenging.

238 ion in mammalian cells, requires an accurate single-base resolution sequencing method.

239 how a much-conserved synteny, whereas at the single-base resolution there are considerable species di

240 7 DNAP at the replication fork junction with single-base resolution to create a structural model that

241 molecule electronic DNA sequencing data with single-base resolution were obtained.

242 epigenetic modification that is studied at a single-base resolution with bisulfite treatment followed

243 By generating single-base resolution, allele-specific DNA methylomes f

244 ncing (TAB-seq), which can identify 5-hmC at single-base resolution, as well as determine its abundan

245 quantitative method to decode 5fC in DNA at single-base resolution, based on a selective chemical re

246 rate methylome maps for four sample types at single-base resolution, identify a link between DNA meth

247 To interrogate 6mA sites at single-base resolution, we report DA-6mA-seq (DpnI-Assis

248 egrees of protein-induced perturbations with single-base resolution, where the largest changes occur

249 cation of cytosine DNA methylation states at single-base resolution.

250 eq), a method that directly maps 5fC/5caC at single-base resolution.

251 ze the methylomes of Dnmt2-only organisms at single-base resolution.

252 nce DNA methylation of a whole genome at the single-base resolution.

253 n state of a whole genome, the methylome, at single-base resolution.

254 of cytosine methylation of bacterial DNA at single-base resolution.

255 of a single-stranded DNA (ssDNA) molecule at single-base resolution.

256 traploids and their diploid-progenitors at a single-base resolution.

257 can discriminate between viral strains with single-base resolution.

258 is method generated a genome-wide 5fC map at single-base resolution.

259 he unbiased study of RNA epigenome at a near single-base resolution; however, unique features of this

260 Here we show that the single base-resolution DNA methylome from adult mouse de

261 s a part of a software suite for genome-wide single base-resolution methylation data analysis that su

262 and non-CpG cytosine methylation analysis at single base-resolution using high-throughput locus-speci

263 , and primordial germ cell (PGC), as well as single-base-resolution maps of oxidized cytosine bases f

264 Here, we report single-base-resolution whole-genome DNA methylomes, mRNA

265 Speed, single-base sensitivity and long read lengths make nanop

266 Clear identification of DNA with single-base sensitivity and the observation of a hybridi

267 ual specificity of the T-box is allowed by a single base shift on the SL from one overlapping codon t

268 mology tool and provides a means to identify single base structural changes in dsDNA.

269 reduced infectivity of CM972 and detected a single base substitution in TC_0236 in CM3.1 that may be

270 Each mutational lesion (single base substitution or deletion) extended the fabK

271 However, we found a higher frequency of single base substitution than deletion mutations.

272 pair missense mutations, one frameshift, one single base substitution to a stop codon and one dinucle

273 Bidirectional sequencing identified the single-base substitution +57C>T in miR-184.

274 spectrum in which T-->C is the most frequent single-base substitution and differs significantly from

275 is and candidate genes for causing the major single-base substitution in cancer-associated DNA mutati

276 Deep sequencing identified a single-base substitution in guanylate cyclase 2D, membra

277 Family 1 had a single-base substitution that led to the replacement of

278 m the remains and one living relative, and a single-base substitution when compared with a second rel

279 Single base substitutions (SBSs) and insertions/deletion

280 We observed divergent spectra of single base substitutions derived from general and induc

281 ecular spectrum of fast-neutron (FN)-induced single base substitutions differed substantially from th

282 ted diseases have been found to be caused by single base substitutions, small insertions or deletions

283 kely to be due to both inherited and somatic single base substitutions.

284 y of disease-associated mutations constitute single-base substitutions and short deletions and/or ins

285 facilitate the high-fidelity introduction of single-base substitutions via HDR following co-delivery

286 nts, enabling isolation of mutant lines with single-base substitutions without antibiotic selection.

287 eosarcomas exhibit a specific combination of single-base substitutions, LOH, or large-scale genome in

288 ls, approximately 70% of mutations comprised single-base substitutions, mostly at G.C base-pairs, wit

289 rtiary interactions in a group I ribozyme by single-base substitutions.

290 a 'molecular tuning' effect with respect to single-base termination and improved nucleotide fidelity

291 cular tuning of enzymatic properties such as single-base termination and improved nucleotide selectiv

292 characterized with respect to incorporation, single-base termination, nucleotide selectivity and phot

293 In addition, we found that FNs induced more single base than large deletions, and that these single

294 ation data may be viewed at any scale from a single base to an entire chromosome.

295 us to dissect the contribution of different single bases to the excited state.

296 comW bypass mutations and mapped them to 10 single-base transitions, all within rpoD, encoding the p

297 omain motions of NS3 helicase and reproduced single-base translocation of NS3 helicase along ssDNA in

298 We further fine-mapped and validated a single-base variant that modulates YY1 binding and the a

299 nomics to predict the impact of all possible single-base variants and deletions.

300 ysis is highly suitable for the detection of single-base variants and small insertions or deletions.