ライフサイエンスコーパス: pyrosequence

1 pigenetic measurements, DNA was isolated and pyrosequenced.

2 egion of the 16S rRNA gene amplified and 454-pyrosequenced.

3 molecular phylogenetic analysis of 16S rDNA pyrosequences.

4 analyzed by 16S ribosomal RNA gene amplicon pyrosequencing.

5 re collected and profiled with 16S rRNA gene pyrosequencing.

6 fic DNA methylation analysis in plants using pyrosequencing.

7 rongosa National Park, Mozambique) using 454 pyrosequencing.

8 olution using high-throughput locus-specific pyrosequencing.

9 ection or a limitation of the sensitivity of pyrosequencing.

10 Findings were validated using bisulfite pyrosequencing.

11 The microbiota was monitored using 454 pyrosequencing.

12 The methylation status was confirmed by pyrosequencing.

13 ks and 6 months by 16S-based GS-FLX-titanium-pyrosequencing.

14 as performed on cellular RNA using Roche/454 pyrosequencing.

15 ory protocol) and by bacterial 16S rRNA gene pyrosequencing.

16 ma RNA and cell DNA specimens by OLA and 454 pyrosequencing.

17 d and analyzed by 16S ribosomal RNA targeted pyrosequencing.

18 A, and one at 69% by OLA and not detected by pyrosequencing.

19 es in the leptin promoter was measured using pyrosequencing.

20 ed annually between 5 and 14 years of age by pyrosequencing.

21 (n = 73) and at age of 4.5 years (n = 61) by pyrosequencing.

22 Clostridiaceae) inferred from 16S rRNA gene pyrosequencing.

23 nd 24 months were characterized by 16S-based pyrosequencing.

24 ta, across this landscape using qPCR and 454 pyrosequencing.

25 ota composition (dysbiosis) was evaluated by Pyrosequencing.

26 o those that were previously described using pyrosequencing.

27 ate landscape using 16S rRNA gene tagged 454 pyrosequencing.

28 A quantitative polymerase chain reaction and pyrosequencing.

29 mpared with standard single-region Roche 454 Pyrosequencing.

30 g enzymes and transporters were evaluated by pyrosequencing.

31 mor tissues and 9 matching normal tissues by pyrosequencing.

32 idization (FISH), and 16S rRNA gene amplicon pyrosequencing.

33 rom human liver (n = 22) was performed using pyrosequencing.

34 ced with Roche GS-FLX (Genome Sequencer-FLX) pyrosequencing.

35 analyzed by polymerase chain reaction (PCR)-pyrosequencing.

36 pG sites within the SFRP1 promoter region by pyrosequencing.

37 y and environmentally relevant species using pyrosequencing.

38 arate validation cohort of 30 MF patients by pyrosequencing.

39 C4 in response to exposure were validated by pyrosequencing.

40 vered Antarctic lakes by 16S rRNA gene-based pyrosequencing.

41 ity was tracked using 16S rRNA gene amplicon pyrosequencing.

42 munity data from two distinct studies by 454 pyrosequencing.

43 a viridis and Actinia equina using 16 S rDNA pyrosequencing.

44 n additional tumor samples using RT-qPCR and pyrosequencing.

45 eir promoter regions was analyzed by PCR and pyrosequencing.

46 r working with the raw flowgrams obtained by pyrosequencing.

47 16S rRNA gene polymerase chain reaction and pyrosequencing.

48 (96/126) with follow-up target-specific PCR/pyrosequencing.

49 first examination were analyzed by ultradeep pyrosequencing.

50 All controls screened negative by PCR/pyrosequencing.

51 was compared to quantitative PCR (qPCR) and pyrosequencing.

52 Candidate genes were validated by bisulfite pyrosequencing (30 AGA, 21 SGA) and also analyzed in cor

53 For 42 real pyrosequencing ('454') datasets, assembly increased the

54 ); among 60 (61%) A (H3N2) viruses tested by pyrosequencing, 53 (88%) belonged to the drifted 3C.2a g

55 ssay results with phenotypic DST (97.0%) and pyrosequencing (97.8%) results from the same clinical sa

56 luated its occurrence in clinical samples by pyrosequencing all presumptive isolates of C. albicans s

57 Third, pyrosequencing allowed the detection of OTUs that were e

58 Our 16S rRNA gene pyrosequencing analyses revealed that the soil type dete

59 Based on pyrosequencing analyses, beta-Proteobacteria dominated i

60 Pyrosequencing analysis and qPCR revealed a dramatic tra

61 Pyrosequencing analysis of CpG rich regions, and CpG din

62 16S rDNA metagenomic pyrosequencing analysis of the microbial communities ass

63 Pyrosequencing analysis revealed that Geobacter species

64 Pyrosequencing analysis was conducted to determine the s

65 Using highly quantitative pyrosequencing analysis, we found extensive and highly v

66 dividuals for miRNA expression profiling and pyrosequencing analysis.

67 ribed algorithms to de-noise functional gene pyrosequences and performs ecological analysis on de-noi

68 mucosal microbiota assessed by 16S rRNA gene pyrosequencing and (1)H NMR spectroscopy.

69 The application of pyrosequencing and allele-specific PCR techniques establ

70 ormed on stool samples via 16S ribosomal RNA pyrosequencing and correlations between disease severity

71 Concordance between PCR/pyrosequencing and culture was 96.9% (1,085/1,120) for U

72 (n = 15) were analyzed by 16S ribosomal RNA pyrosequencing and culture-based methods.

73 Bisulphite pyrosequencing and demethylation treatment showed that N

74 umole photons s(-1) m(-2) ) and combined 454-pyrosequencing and enzymatic activity assays to evaluate

75 ological settings by 16S rRNA gene-based 454 pyrosequencing and explored their relationships to filtr

76 Pyrosequencing and fluorescence in situ hybridization an

77 particle purification, genome amplification, pyrosequencing and gene/genome reconstruction and annota

78 me were investigated using 16S rRNA amplicon pyrosequencing and high-throughput quantitative PCR.

79 16S ribosomal RNA gene amplicon pyrosequencing and HPV DNA testing were conducted annual

80 Here, we used 454 pyrosequencing and identity/divergence grid sampling to

81 firmed sepsis samples with Universal 16S PCR/pyrosequencing and in 76.4% (96/126) with follow-up targ

82 ycobacterium tuberculosis isolates combining pyrosequencing and IS6110 polymorphism.

83 Here, we used 16S rRNA gene pyrosequencing and metagenomic sequencing to examine ora

84 Quantification by Pyrosequencing and MLPA demonstrated levels of mutant ce

85 trations of approximately 2%, one at 8.8% by pyrosequencing and not detected by OLA, and one at 69% b

86 levels of resistant variants not detected by pyrosequencing and possibly below the threshold for phen

87 Pyrosequencing and qPCR revealed that laundry water micr

88 hberg) and verified hits using bisulfite PCR pyrosequencing and qPCR.

89 ces samples were analyzed by high-throughput pyrosequencing and quantitative real-time polymerase cha

90 thylation and mRNA levels by using bisulfite pyrosequencing and quantitative RT-PCR in monocytes in v

91 sing over 7 million cDNA sequences from both pyrosequencing and Sanger sequencing, we found that a mu

92 According to 16S rRNA pyrosequencing and shotgun metagenome sequencing analyse

93 We applied 454-pyrosequencing and single-cell RT-PCR of bulk and sorted

94 ymorphisms were typed using a combination of pyrosequencing and TaqMan genotyping assays.

95 mmunity DNA from MW309 was analyzed with 454 pyrosequencing and terminal restriction fragment length

96 1A, and caspase 1 was validated by bisulfite pyrosequencing and the findings were reproduced in the r

97 flocks was performed using Illumina and 454 pyrosequencing and the sequenced genomes compared to the

98 e PCR), DNA methylation status (by bisulfite pyrosequencing), and GAL peptide by RIA of the GAL syste

99 DMP was successfully validated by bisulfite-pyrosequencing, and identified DMPs were tested in postm

100 n primers, multiple DNA barcode markers, 454-pyrosequencing, and Illumina MiSeq sequencing to the sam

101 r 16S rRNA gene techniques (clone libraries, pyrosequencing, and real-time PCR), we show that polymet

102 pecific polymerase chain reaction, bisulfite pyrosequencing, and restriction enzyme-polymerase chain

103 tractive hybridisation (SSH) followed by 454 pyrosequencing, and RT-qPCR methods.

104 uantitative polymerase chain reaction (PCR), pyrosequencing, and standard culture techniques.

105 ogical studies, we developed and validated a pyrosequencing approach that enables identification of s

106 cts were sequenced using both Sanger and 454 pyrosequencing approaches.

107 ns identified by Universal 16S rRNA gene PCR/pyrosequencing as containing staphylococci, streptococci

108 e promoter of ADCYAP1R1 (cg11218385) using a pyrosequencing assay in DNA from white blood cells.

109 A pyrosequencing assay was established that reproduced the

110 A novel pyrosequencing assay was used to determine genetic group

111 ured by bisulphite-polymerase chain reaction pyrosequencing assay.

112 ions were verified by MassARRAY Epityper and pyrosequencing assays and could be further replicated in

113 R amplification on bisulfite-treated DNA and pyrosequencing assays as well as the quantification of t

114 A methylation using bisulfite conversion and pyrosequencing assays on DNA from buccal cells provided

115 distinguish these variants reliably and thus pyrosequencing assays were developed.

116 ee sources are suitable for standard PCR and pyrosequencing assays.

117 cortex and performed quantitative bisulfite pyrosequencing at nine loci.

118 as largely due to bacteria being detected by pyrosequencing but not by culture.

119 s readily adopted by another laboratory with pyrosequencing capabilities.

120 riteria for pyrosequence processing or among pyrosequencing, cloning and microscopy, while taxon iden

121 ely 7.5 h when including target-specific PCR/pyrosequencing compared to 27.9 +/- 13.6 h for Gram stai

122 veloped in-house), were utilized to expedite pyrosequencing data analysis.

123 We apply the method to 454 amplicon pyrosequencing data obtained from a malaria virulence ge

124 Pyrosequencing data revealed that the dominant phyla rel

125 Analysis of ultradeep pyrosequencing data sets derived from virus amplicons fr

126 The pyrosequencing data were cross-checked by using the sing

127 Targeted bisulfite pyrosequencing demonstrated that miR-34A was inactivated

128 Error-correcting algorithms for pyrosequences ('denoising') reduced discrepancies in ric

129 Evaluation of pyrosequencing-derived 16S rRNA gene sequences recovered

130 Pyrosequencing errors, consisting mainly of nucleotide i

131 f 16S rRNA-encoding gene sequence reads (454-pyrosequencing) examined viable and total biofilm commun

132 Pyrosequencing experiments validated the cell type-speci

133 terial 16S rRNA genes, we amplified and then pyrosequenced faecal DNA from stool samples.

134 Fresh soils were pyrosequenced for fungal internal transcribed spacer (IT

135 Tumour DNA was pyrosequenced for KRASc.146, BRAF, NRAS, and PIK3CA muta

136 e assessed HVR1 evolution by using ultradeep pyrosequencing for a cohort of treatment-naive, chronica

137 polymerase chain reaction amplification with pyrosequencing for a rapid approach to generate the comp

138 length p17 and p24 gag were generated by 454 pyrosequencing for all pairs near the time of transmissi

139 We employed bacterial fingerprinting and pyrosequencing for microbiome analysis.

140 Our findings confirm the potential of pyrosequencing for quantifying microbial diversity, but

141 umbricus rubellus through utilizing 16S rRNA pyrosequencing for the first time to establish the micro

142 Independent verification by bisulfite pyrosequencing generally confirmed the percentage methyl

143 Pyrosequencing generated more than 150,000 sequences, re

144 Pyrosequencing genotyping and sequencing of the voltage

145 anscriptome profiling and gene-specific cDNA-pyrosequencing have documented that transcriptome shock

146 all and medium CMNs using Sanger sequencing, pyrosequencing, high-resolution melting analysis, and mu

147 Pyrosequencing identified abundant atypical bacteria in

148 DNA pyrosequencing identified hypermethylated regions of the

149 Thus, pyrosequencing illustrated that while DB, PRB, and SRB r

150 est were verified by means of locus-specific pyrosequencing in 35 sibling pairs and replicated in an

151 thylation was measured by means of bisulfite pyrosequencing in patients.

152 terval [CI]) for Universal 16S rRNA gene PCR/pyrosequencing included sensitivity of 77.8% (69.5 to 84

153 Pyrosequencing indicated biofilm communities were all si

154 lly available high-throughput locus-specific pyrosequencing instruments allow for the simultaneous an

155 motives, which cannot be evaluated by these pyrosequencing instruments due to software limitations.

156 uency by single-genome amplification and 454 pyrosequencing, (iv) virion-associated Env content, and

157 In summary, shotgun pyrosequencing metagenomic analyses of agricultural dust

158 In this study, we performed shotgun pyrosequencing metagenomic analyses of DNA from dusts fr

159 alignment showed that 19% or 62% of shotgun pyrosequencing metagenomic DNA sequence reads from swine

160 Mutational status was determined by pyrosequencing method, allelic discrimination, or Sanger

161 Using a pyrosequencing method, we determined that the tumor posi

162 the Sanger sequencing, the 'next generation' pyrosequencing, microarrays, quantitative PCR, and the r

163 Culture-independent pyrosequencing microbiome analysis was used to examine t

164 However, out of 23 candidates tested by pyrosequencing, none could be confirmed.

165 Repeat pyrosequencing of 13 specimens showed reproducible detec

166 Pyrosequencing of 16S rDNA is widely used to study micro

167 Pyrosequencing of 16S rDNA was used to study changes in

168 Analyses of community composition by pyrosequencing of 16S rRNA and hoxH genes indicate that

169 Fecal and ileal microbiota were analyzed by pyrosequencing of 16S rRNA genes and enumeration of sele

170 In total, 24 samples were examined using pyrosequencing of 16S rRNA genes and various chemical pr

171 Pyrosequencing of 16S rRNA genes results revealed an age

172 Quantitative PCR (qPCR) and pyrosequencing of 16S rRNA genes was used to quantify th

173 ng six marine lakes and one ocean site using pyrosequencing of 16S rRNA genes.

174 Pyrosequencing of 16S rRNA transcripts from the indigeno

175 By combining pyrosequencing of 18S ribosomal RNA genes with data on m

176 acterization was performed by using 16S rDNA pyrosequencing of 872 nasal swabs collected biweekly fro

177 We demonstrate via 16S rRNA gene pyrosequencing of 922 specimens from 58 subjects that th

178 We used 454 pyrosequencing of a normalized adult cDNA library and de

179 shed from C. albicans and C. dubliniensis by pyrosequencing of a short region of ITS2, and we have ev

180 In contrast, SSCP and pyrosequencing of an unrelated single SNP (rs1835740:C >

181 Using pyrosequencing of bacterial 16S rRNA genes, we observed

182 bacterial communities were characterized by pyrosequencing of barcoded 16S rRNA genes and clustered

183 DNA methylation was assessed by pyrosequencing of bisulfite converted DNA and methylated

184 independent sample set of 558 subjects using pyrosequencing of bisulfite-converted DNA (min P-value <

185 ent case-control participants using targeted pyrosequencing of bisulfite-converted DNA.

186 Utilizing extensive transcriptome pyrosequencing of diverse taxa, we established a resolve

187 Direct Sanger sequencing as well as pyrosequencing of environmental isolates demonstrated th

188 Data to support this includes V1-V3 pyrosequencing of formation water and drilling mud, as w

189 and analyzed community composition based on pyrosequencing of fungal internal transcribed spacer (IT

190 Pyrosequencing of genetic marker, COI (cytochrome c oxid

191 geting clades of the xoxF gene, and used 454 pyrosequencing of PCR amplicons obtained from the DNA of

192 DGGE and 454-pyrosequencing of PCR-amplified 16S rRNA genes were used

193 Pyrosequencing of pig caecal 16S rRNA gene amplicons ide

194 MeTIL markers can be determined by bisulfite pyrosequencing of small amounts of DNA from formalin-fix

195 idiopathic IBD (n = 10) were analyzed by 454-pyrosequencing of the 16S rRNA gene and qPCR assays.

196 f 86 school age children was analyzed by 454 pyrosequencing of the 16S rRNA gene fragments.

197 200 paired sputum samples from 93 CF adults; pyrosequencing of the 16S rRNA gene was applied to 59 pa

198 Using 454 pyrosequencing of the 16S rRNA gene, we compared bacteri

199 8) and peri-implantitis (n = 6) sites using pyrosequencing of the 16S rRNA gene.

200 ed soil, rhizosphere, and plant roots by 454-pyrosequencing of the 16S rRNA gene.

201 rm and nonfarm children were analyzed by 454-pyrosequencing of the bacterial 16S ribosomal RNA gene.

202 In this work, pyrosequencing of the bacterial 16S rRNA gene was firstl

203 CM fungal communities were identified by 454 pyrosequencing of the fungal internal transcribed spacer

204 DNA methylation levels were assessed by pyrosequencing of the LINE-1 retroelement promoter in DN

205 es (73.1 and 44.6%), and, as revealed by 454-pyrosequencing of the microbial 16S rRNA gene, decreased

206 Pyrosequencing of the PCR amplicons identified a total o

207 Pyrosequencing of the pfcrt gene codon 76 region was per

208 Pyrosequencing of the two feeding groups found that meth

209 Biofilm samples were analyzed by FLX+ pyrosequencing of the V1 to V4 hypervariable regions of

210 ace sediments were used as templates for tag pyrosequencing of the V4 region of the 18S ribosomal DNA

211 or out of season (n = 4) were amplified and pyrosequenced on the 454 GS FLX+ System.

212 amplicons were subjected to high-throughput pyrosequencing on a Roche 454 GS-FLX platform.

213 centage methylation (%5mC) was analysed with pyrosequencing on buccal DNA.

214 tive was to perform whole-genome shotgun 454 pyrosequencing on the same fecal specimens collected in

215 Second, although most of the pyrosequenced operational taxonomic units (OTUs) were di

216 and homozygote mutant genotypes compared to pyrosequencing or Sanger sequencing.

217 In conclusion, the OLA and pyrosequencing performed similarly in the quantification

218 c Gram-negative rods had target-specific PCR/pyrosequencing performed.

219 Pyrosequencing permits accurate quantification of DNA me

220 e for the presence of similar sequences, the pyrosequencing platform correctly classified all 12 inci

221 le-measure incidence assay by implementing a pyrosequencing platform.

222 critical for ligation of the OLA probes and pyrosequencing primers, respectively.

223 hic locations and then conducted 454 shotgun pyrosequencing procedures to obtain 16-24 x coverage of

224 ight the importance of careful evaluation of pyrosequence processing for using this method to address

225 agnitude either using different criteria for pyrosequence processing or among pyrosequencing, cloning

226 We analyzed, based on pyrosequencing profiling of the biofilm communities in 1

227 e sample processing was included for PCR and pyrosequencing protocols, the molecular approach yielded

228 We developed a pyrosequencing (PSQ) assay including eight subassays for

229 We described AM fungal communities using 454-pyrosequencing, quantified the proportion of root length

230 own of residence, and experimental plate for pyrosequencing reactions.

231 ified by adenosine triphosphate analysis and pyrosequencing, respectively.

232 ial 16S ribosomal RNA gene was amplified and pyrosequenced, resulting in 370,849 high-quality reads f

233 The pyrosequencing results corroborated our analysis, withou

234 Pyrosequencing results suggested Dechloromonas and Tetra

235 Based on the pyrosequencing results, it appears that clindamycin has

236 actors most likely to affect the accuracy of pyrosequencing results.

237 The 16S rDNA-targeted pyrosequencing revealed a significant change in the comp

238 Pyrosequencing revealed an increase in percentage of Gra

239 Pyrosequencing revealed pronounced diversity co-exists w

240 Pyrosequencing revealed relatively stable bacterial comm

241 Pyrosequencing revealed shared HIV-1 antibody clonal lin

242 However, pyrosequencing revealed that 15/15 (100%) of patients ha

243 Methylated DNA immunoprecipitation-PCR and pyrosequencing revealed that developmental BPA exposure

244 Pyrosequencing revealed that the population belonging to

245 Community analysis using 16S rRNA pyrosequencing revealed the dominance of Methanosarcina

246 16S amplicon analysis (454 FLX pyrosequencing) revealed significantly lower alpha diver

247 49 subjects with paired specimens tested by pyrosequencing, S. aureus was identified from 11 (22%) a

248 2.0%, and at 125 codons (28%; P < 0.0001) by pyrosequencing sensitive to 0.1%.

249 454 pyrosequencing showed a significant selection for diazot

250 16S rRNA amplicon pyrosequencing showed an increase in the relative abunda

251 16S rRNA gene pyrosequencing showed that Gram-positive bacteria affili

252 Pyrosequencing showed that novel strains Peptoniphilacea

253 Operational taxonomic units were pyrosequenced targeting 16S ribosomal RNA and volatile o

254 somal RNA gene libraries sequenced using 454-pyrosequencing targeting the V1 to V3 and V7 to V9 regio

255 Amplicon pyrosequencing targets a known genetic region and thus i

256 Pyrosequencing technology provides an important new appr

257 om DNA analyses of the in situ samples using pyrosequencing technology, we found the highest abundanc

258 gender-matched controls using the bisulphite pyrosequencing technology.

259 ial changes were monitored by amplifying and pyrosequencing the 16 S ribosomal small subunit region.

260 e fecal microbiota from these two species by pyrosequencing the 16S V1-V3 hypervariable regions using

261 We profiled the fecal microbiota by pyrosequencing the gene encoding 16S ribosomal RNA (rRNA

262 ith pine seedlings, and colonized roots were pyrosequenced to detect resistant propagules of ECM fung

263 We used 16S rRNA gene amplification and pyrosequencing to characterize, for the first time to ou

264 used capillary electrophoresis and Roche 454 pyrosequencing to determine the number of repeats in eac

265 We used next generation 454 pyrosequencing to discern the whole-body microbiome of t

266 s were subjected to whole-genome shotgun 454 pyrosequencing to identify both fecal bacterial populati

267 ions by using phylogenic microarrays and 454 pyrosequencing to identify microorganisms and functional

268 We used pyrosequencing to investigate allelic imbalance of Oxtr

269 tersubtype Env recombinants and utilized 454 pyrosequencing to investigate the distribution of over 4

270 eotrichia (class Spirotrichea), by comparing pyrosequencing to Sanger-sequenced clone libraries and m

271 Here we compared the results of PCR/pyrosequencing to those of culture for detecting bacteri

272 ten-eleven translocation-assisted bisulfite pyrosequencing, to quantify FMR1 5mC and 5hmC levels.

273 The initial PCR/pyrosequencing took approximately 5.5 h to complete or a

274 ing microscopy, and molecular biology (i.e., pyrosequencing) tools.

275 In this study, we used ultradeep pyrosequencing (UDPS) to map the viral heterogeneity of

276 uencing (NGS), capillary electrophoresis and pyrosequencing under the term 'NGS+' for typing Y-STRs a

277 ive to 2.0%, at 71 codons (16%; P = 0.78) by pyrosequencing using a cutoff value of >/= 2.0%, and at

278 arine sediment cores by quantitative PCR and pyrosequencing using newly designed DEH 16S rRNA gene ta

279 Next-generation pyrosequencing validated the congruence of the potential

280 454-pyrosequencing was able to recover 10 more families of a

281 Pyrosequencing was employed to characterize bacteria and

282 ent for detection of bacteria by culture and pyrosequencing was good for aerobic bacteria such as P.

283 While pyrosequencing was more sensitive, detection of mutants

284 Targeted bisulfite pyrosequencing was performed on a validation cohort of 3

285 ity structure appeared to remain stable when pyrosequencing was performed on samples that were not su

286 Pyrosequencing was used for DNA methylation quantificati

287 454 pyrosequencing was used to assign operational taxonomic

288 s prior to DNA extraction, and 16S rRNA gene pyrosequencing was used to characterize their bacterial

289 Bisulfite pyrosequencing was used to compare the methylation level

290 Pyrosequencing was used to confirm the imprinting status

291 Pyrosequencing was used to evaluate deviation from monoa

292 In this study, 454 pyrosequencing was used to identify the bacteria associa

293 Culture-independent high-density Roche 454 pyrosequencing was used to survey the distal gut microbi

294 Next-generation sequencing (454 pyrosequencing) was performed to reveal the CPB transcri

295 Using pyrosequencing we followed up the two most differentiall

296 Using pyrosequencing, we elucidated how important phylotypes o

297 DNA extraction and pyrosequencing were done on several core sections in ord

298 tive polymerase chain reaction (PCR) and 454 pyrosequencing were used to analyze bacterial 16S riboso

299 ferent spot positions, quantitative PCR, and pyrosequencing, were used to confirm the role of the can

300 during monochloramine disinfection using PMA-pyrosequencing, while the community structure appeared t