ライフサイエンスコーパス: amplicon

1 o amplification of the PAK1 gene in an 11q13 amplicon.

2 match in the middle of the 251 base long PCR amplicon.

3 se family, encoded by CENTG1 located in CDK4 amplicon.

4 leased from intact spirochetes and to detect amplicon.

5 ate sequence variants among only a few short amplicons.

6 high-throughput sequencing of 16S rRNA gene amplicons.

7 o structured products and haunted off-target amplicons.

8 next-generation sequencing of 16S rRNA gene amplicons.

9 encing approach for pooled mitochondrial DNA amplicons.

10 after amplification of a pool of unique DNA amplicons.

11 for fungal internal transcribed spacer (ITS) amplicons.

12 hybridizes with different base pairs of PCR amplicons.

13 an be used to probe and distinguish specific amplicons.

14 g Illumina MiSeq sequencing of 16S rRNA gene amplicons.

15 e PCR assays and bidirectional sequencing of amplicons.

16 us was implemented in a sample of unpurified amplicons.

17 to quantitatively measure the resulting PCR amplicons.

18 for alignable, short reads of environmental amplicons.

19 used for environmental monitoring) and long amplicons (800-1200 bps, designed to cover the entire re

20 cancers, at least in part due to the 3q26.2 amplicon, alters cell survival and proliferation.

21 nging room) by cultivation and 16S rRNA gene amplicon analysis (cloning, pyrotagsequencing, and Phylo

22 First, Indel Detection by Amplicon Analysis (IDAA) determines the size and frequen

23 Results from 16S rRNA gene amplicon analysis and metagenomics suggested that distur

24 two next-generation sequencing techniques - amplicon and shotgun - on water samples across four of B

25 onsisting of multiple repeated copies of the amplicon and template DNA.

26 estinal microbes were estimated by using 16S amplicon and whole-genome sequencing.

27 Here, we applied 16S rRNA gene amplicon and whole-genome shotgun sequencing to examine

28 investigated by sequencing of 16S rRNA gene amplicons and a functional gene microarray.

29 aks' area of derivative of melting curves of amplicons and percentages of cow milk in milk mixes and

30 This study characterized microbial 16S rRNA amplicons and phage metagenomes associated with Montastr

31 hich RNA is converted into cross-linked cDNA amplicons and sequenced manually on a confocal microscop

32 zation of library content (from 1 to 40+ PCR amplicons) and a protocol that can be implemented in any

33 ies sampling with shotgun DNA, 16S rRNA gene amplicon, and metatranscriptome high-throughput sequenci

34 ce data generated from nonidentical 16S rRNA amplicons, and the appearance of data displayed by diffe

35 py number alterations in mutDNA using Tagged-Amplicon- and shallow Whole Genome- Sequencing.

36 gel electrophoresis and qPCR with both short amplicons ( approximately 200 bps, representative of ARG

37 To sequence entire Ab repertoires, amplicons are created from Ab H chain (IgH) transcripts

38 ia dielectrophoretic sorting, and the TaqMan amplicons are removed enzymatically prior to sequencing.

39 The fluorescein-labeled ssDNA amplicons are then analyzed using capture probe-modified

40 essfully distinguish side products from true amplicons arising from templates corresponding to the bi

41 for the 20 SOTR plasma samples, the smaller amplicon assay result was 2.6-fold, 3.4-fold, and 6.5-fo

42 In addition to ERBB2, other amplicon-associated highly phosphorylated kinases were i

43 In addition, VarDict performs amplicon aware variant calling for polymerase chain reac

44 differences between taxa, which would affect amplicon based and PCR free methods alike.

45 Amplicon based metabarcoding promises rapid and cost-eff

46 d-depth shotgun recovers more diversity than amplicon-based approaches.

47 bial operational taxonomic units (OTUs) from amplicon-based datasets are compositional.

48 ered when attempting to phase variants using amplicon-based long-read sequencing technologies.

49 Amplicon-based marker gene surveys form the basis of mos

50 cts has emerged as an essential component in amplicon-based metagenomic studies.

51 Many of the amplicon-based metagenomics datasets generated over the

52 to sources of experimental error and bias in amplicon-based microbial community and microbiome experi

53 and biases by comparing different methods of amplicon-based NGS library preparation.

54 m nonpregnant women were tested for GBS, and amplicon-based sequencing targeting the 16S ribosomal RN

55 e homology (pseudogenes) are complemented by amplicon-based sequencing with specific primers to ensur

56 rized feature wherein multiple copies of the amplicon congregate as transcriptional units in the nucl

57 ols consisting of previously generated NASBA amplicons could be diluted 10(15) fold and still result

58 The generated amplicons could be sequenced by different methods, such

59 The two amplicons cover critical regions across the HIV-1 genome

60 through analysis of fluorophore-labeled PCR amplicons covering the nuclease target site by capillary

61 The amplicon curves for mitochondrial and nuclear DNA, and t

62 orresponding application, MetAmp, to combine amplicon data from multiple genomic markers into Operati

63 crobiome taxonomic profiles from 16S rRNA V3 amplicon data generated using universal primers.

64 Overall the amplicon data were more robust across both biodiversity

65 phylogenetic analysis tools to bar-coded 16S amplicon datasets, we observed higher abundance of Proch

66 We applied amplicon deep sequencing to P. vivax isolates from 78 Ca

67 Through amplicon deep-sequencing placental malaria samples from

68 oncentration and their ability to create new amplicons despite the theoretical lack of single-strande

69 eic acid amplification and solid array-based amplicon detection to identify Shiga toxin-producing Esc

70 of regions within small genomes, individual amplicon enrichment and normalization of an amplicon set

71 r modeling and correcting Illumina-sequenced amplicon errors.

72 This tailed amplicon facilitates detection via hybridisation to a su

73 one of the cases studied by FISH harbored an amplicon for C19MC.

74 A similarly delivered amplicon for scrambled siRNA did not inhibit TLR4 or MCP

75 -specific marker, which was combined with an amplicon for the conserved Shigella invasion antigen, Ip

76 high-throughput sequencing of 16S rRNA gene amplicons for aquatic insects (three mayfly species) in

77 ecific primers found 226bp and 126bp product amplicons for buffalo and cattle meat, respectively.

78 When amplicons for multiple markers such as the 16S rRNA gene

79 ; subsequent emulsion RT-PCR generated VH-VL amplicons for next-generation sequencing.

80 Infusion of amplicons for TLR4 or MCP-1 siRNA into the CeA or VTA fr

81 anoparticles for the labelling of the tagged amplicon from E. coli and Salmonella.

82 associated with roots were isolated, and PCR amplicons from 16S rRNA gene variable regions V1-V3 and

83 nvolved a primer library which targeted 3071 amplicons from 2078 exons comprised of 184 genes involve

84 fic to both clades were used to generate 18S amplicons from a range of environmental and faecal DNA s

85 with universal primers produces a mixture of amplicons from all rRNA operons in the genome, and the s

86 the sensor surface for the detection of LAMP amplicons from MRSA.

87 favorably to QIIME, UPARSE and Mothur using amplicons from one, two, and three markers.

88 n the basis of the Tm values of the LSG-qPCR amplicons from reference and clinical specimens, we were

89 PCR amplicons from the internal transcribed spacer 2 and the

90 OR gate that coordinately triggered on viral amplicons further guaranteed fail-safe virus detection.

91 lysis treatment arm, intrinsic subtype, HER2 amplicon gene expression, p53 mutation signature, and im

92 llumina MiSeq sequenced set of 18S V4-region amplicons generated from faecal DNAs using universal euk

93 de polymorphisms (SNPs) that distinguish DNA amplicons generated from Yersinia pestis, the causative

94 The two amplicons generated span 7,124 bp, providing substantial

95 In this study, the sequencing of PCR amplicons generated using primers targeting either ketos

96 ifiers for the highly accurate sequencing of amplicons >500 bp using Illumina short read paired-end s

97 he fine structure of MYC-containing dmin/hsr amplicons harboring sequences from several different chr

98 for a single genetic locus by testing longer amplicons harboring significantly more sequence informat

99 Pyrosequencing of pig caecal 16S rRNA gene amplicons identified 25 major families encompassing seve

100 that is incorporated into a target-specific amplicon if the target is present.

101 wever, the pathological significance of CDK4 amplicon in GBM formation remains incompletely understoo

102 The STARD3 gene belongs to the minimal amplicon in HER2-positive breast cancers and encodes a c

103 igins at six genomic loci, termed Drosophila amplicons in follicle cells (DAFCs) [10-12].

104 The multiplexing system enables pooling amplicons into a single tube.

105 The 3q26.2 amplicon is among the most frequent genomic aberrations

106 The amplicon is rapidly and quantitatively detected using a

107 The dimension of the amplicons is suitable for the analysis of degraded DNA o

108 12q13-q15 (Cyclin-dependent kinase 4 (CDK4) amplicon) is frequently observed in numerous human cance

109 approximately 200 bps, representative of ARG amplicon lengths commonly used for environmental monitor

110 coverage bias predominantly generated at the amplicon level (1-10 kb).

111 methods of next-generation sequencing (NGS) amplicon library preparation.

112 ecific primers that amplify small fragments (amplicons <200 base pairs) of the mitochondrial gene.

113 llelic DNA methylation results from targeted amplicon, massively parallel sequencing of bisulfite con

114 Using a 16 S rRNA amplicon metagenomic approach, we explored the structure

115 HCV nonstructural 5B (NS5B) amplicons (n = 94) were generated from 77 individuals (1

116 Targeted amplicon, next-generation sequencing was performed using

117 ring cell differentiation as well as gauging amplicon numbers in cDNA samples after pre-amplification

118 oxF gene, and used 454 pyrosequencing of PCR amplicons obtained from the DNA of four coastal marine e

119 The results also lead to a refined ERBB2 amplicon of 106 kb and show that several cases of amplif

120 , exploiting tailed primers, resulting in an amplicon of a duplex flanked by single stranded DNA tail

121 p was obtained for the concentrations of PCR amplicon of Campylobacter spp. between 1 and 25 nM with

122 but not others, and attempts to sequence the amplicon of this pool failed, as did attempts to amplify

123 exas Red labeled single-stranded DNA (ssDNA) amplicons of 262 and 251 bases for the groEL and metH ta

124 Our sequencing results of 16S rRNA gene amplicons of 27 postmortem samples from cadavers demonst

125 and complex sample, we have studied the PCR amplicons of 303, 361 and 568 base pairs by using symmet

126 le to detect synthetic target as well as PCR amplicons of different base pairs.

127 reads, which are nearly all confined to the amplicons of interest.

128 Amplicons of RT-PCR positive cases were sequenced for ch

129 Then, the amplicons of the LAMP reaction were detected using the c

130 ree sets of paired qPCR (P-qPCR) assays with amplicons of variable length were used to study CMV DNA

131 at the long ncRNA CCAT2, located at the 8q24 amplicon on cancer risk-associated rs6983267 SNP, regula

132 lysis of the melting temperature (Tm) of the amplicons on qPCR platforms (the Mx3000P qPCR system [St

133 Previous evidence indicated that these amplicon origins are activated by nucleosome acetylation

134 ion to a locus-specific replication from six amplicon origins.

135 Endpoint amplicon production in the droplets is detected and quan

136 In addition to the discrete amplicon products, this method also produces higher mole

137 s of the colonic transcriptome and fecal 16S amplicon profiling was performed.

138 microbiome were investigated using 16S rRNA amplicon pyrosequencing and high-throughput quantitative

139 16S ribosomal RNA gene amplicon pyrosequencing and HPV DNA testing were conduct

140 We apply the method to 454 amplicon pyrosequencing data obtained from a malaria vir

141 16S rRNA amplicon pyrosequencing showed an increase in the relati

142 Amplicon pyrosequencing targets a known genetic region a

143 al community was tracked using 16S rRNA gene amplicon pyrosequencing.

144 iota were analyzed by 16S ribosomal RNA gene amplicon pyrosequencing.

145 degradation measured with the short and long amplicons qPCR, respectively.

146 After PCR, the DMD amplicons reacted with copper ion by reduction of ascorb

147 embling overlapping read pairs and (iii) for amplicon reads, by exploiting unique sequence abundances

148 and long-range polymerase chain reaction and amplicon resequencing with maize, one of the most repeti

149 Naked-eye fluorescent visualization of amplicons revealed intensely fluorescing products that i

150 an additional 800 isolates and environmental amplicon sequence data both genomic clusters and subclus

151 dances of major taxa, we show that disparate amplicon sequence data can be combined at the taxonomy-b

152 he use of HRM for identifying numerous short amplicon sequences automatically and reliably.

153 isolate were matched to culture-independent amplicon sequences from the same individuals to assess i

154 It predicts and extracts all amplicon sequences in a large sequence database from a l

155 Amplicon sequences of the viral DNA were used for agent

156 By mapping individual environmental amplicon sequences to sequences derived from functionall

157 ass spectrometry data and microbial 16S rRNA amplicon sequences.

158 atory tsetse populations using 16S rRNA gene amplicon sequencing allowed us to examine whether the "W

159 Amplicon sequencing also revealed 27% more families.

160 Through parallel FCM and 16S rRNA gene amplicon sequencing analysis of environments spanning a

161 Amplicon sequencing analysis showed the heterogeneous as

162 ial community was assessed via 16S rRNA gene amplicon sequencing and ammonia monooxygenase (amoA) abu

163 pproach combined deep coverage SSU rRNA gene amplicon sequencing and bioinformatics with RT-qPCR and

164 High-throughput amplicon sequencing and colony PCR sequencing revealed t

165 ions of microbiota were analyzed by 16S rRNA amplicon sequencing and quantitative PCR.

166 , based on characterization by 16S rRNA gene amplicon sequencing and respiratory quinone composition.

167 e-of-the-art library preparation methods for amplicon sequencing and showed that the library preparat

168 loci and sequenced them in a parallel-tagged amplicon sequencing approach using the PacBio platform.

169 loci and sequenced them in a parallel-tagged amplicon sequencing approach using the PacBio platform.

170 demonstrates the potential of 16S rRNA gene amplicon sequencing as a supporting tool in algal bloom

171 ed panfungal polymerase chain reaction (PCR) amplicon sequencing assay for culture-independent diagno

172 A multiplexing 16S rRNA gene amplicon sequencing based on two-step PCR amplifications

173 Amplicon sequencing corroborated shifts from r- to K-sel

174 to increase accuracy of existing and future amplicon sequencing data, particularly where extensive p

175 ror patterns for the MiSeq based on 16S rRNA amplicon sequencing data.

176 erence of microbial ecological networks from amplicon sequencing datasets that addresses both of thes

177 en preference over the traditional method of amplicon sequencing for multilocus sequence typing (MLST

178 We have developed an amplicon sequencing method on the Ion Torrent PGM platfo

179 High-throughput amplicon sequencing of environmental DNA (eDNA metabarco

180 act of management on nitrifying populations, amplicon sequencing of markers associated with ammonia a

181 pilot study, we evaluated the performance of amplicon sequencing of Mycobacterium tuberculosis DNA fr

182 16S rRNA gene amplicon sequencing of pH 7.2 and pH 5.5 ACS enrichments

183 Amplicon sequencing of second year soil samples showed t

184 Amplicon sequencing of selected samples revealed the pre

185 Amplicon sequencing of several independent saddle patter

186 Using amplicon sequencing of the 16S ribosomal RNA gene, we fo

187 Using Illumina-based amplicon sequencing of the 16S rRNA gene, we found that

188 Using amplicon sequencing of the fungal internal transcribed s

189 Second, we did amplicon sequencing of the recurrent PIK3R2 mutation (Gl

190 hpat was used to analyse multiplex bisulfite amplicon sequencing on a range of CpG island targets acr

191 rs, we performed culturing and 16S rRNA gene amplicon sequencing on samples collected from phylogenet

192 ar trends to those displayed in the integron amplicon sequencing pipeline described above, corroborat

193 We developed a novel high-throughput amplicon sequencing pipeline that enables characterizati

194 The amplicon sequencing protocol has been designed for the b

195 past decade based primarily on 16S rRNA gene amplicon sequencing regarding the diversity, structure,

196 Metagenomics and 16S rRNA gene amplicon sequencing revealed the dominant flanking commu

197 16S rRNA gene amplicon sequencing showed that alginate PA bacteria wer

198 16S rRNA amplicon sequencing showed that the genus Arthrobacter c

199 of VDJ rearrangements followed by long read amplicon sequencing spanning the VDJ junctions.

200 nitrifying conditions and performed Illumina amplicon sequencing targeting nirK, typical nosZ and aty

201 Microbial communities were analysed using amplicon sequencing targeting the bacterial 16S rRNA V3-

202 Here, we investigate by rRNA and ITS amplicon sequencing the diversity of microorganisms from

203 icrobiome studies commonly use 16S rRNA gene amplicon sequencing to characterize microbial communitie

204 We used 16S rRNA amplicon sequencing to characterize the global pattern o

205 ressing Drosophila embryos and used Illumina amplicon sequencing to compare repair junctions.

206 We used Illumina amplicon sequencing to determine bacterial and fungal co

207 Here, we used high-resolution 16S rDNA amplicon sequencing to examine the diversity of Trichode

208 Here we use amplicon sequencing to explore changes of microbial comm

209 Use of this amplicon sequencing tool to screen patients for Klebsiel

210 16S rRNA amplicon sequencing using paired-end sequencing on the M

211 16S rRNA amplicon sequencing was combined with GeoChip metagenomi

212 In this case-control study, 16S rRNA gene amplicon sequencing was done on 210 oesophageal samples

213 In the present study, high throughput amplicon sequencing was undertaken in conjunction with a

214 16S ribosomal RNA amplicon sequencing was used for identification and rela

215 16S rRNA V4 amplicon sequencing was used to compare the relative abu

216 Less than 50% of phyla identified via amplicon sequencing were recovered from shotgun sequenci

217 characteristics by using highly multiplexed amplicon sequencing without a live-culturing step.

218 scence in situ hybridization, 16-S rRNA gene amplicon sequencing), yet high-throughput methods for as

219 ex microbial communities via high throughput amplicon sequencing, a very low proportion of community

220 gle-cell genomics, metagenomics, single-cell amplicon sequencing, and fluorescence in situ hybridizat

221 ta were determined by 16S ribosomal RNA gene amplicon sequencing, and metabolite profiles were analyz

222 c MDS using whole exome sequencing, targeted amplicon sequencing, and/or RNA-sequencing of 46 pediatr

223 High throughput 16S rRNA gene amplicon sequencing, fluorescence in situ hybridization,

224 Using 16S rRNA-gene amplicon sequencing, our analysis revealed that bacteria

225 fecal microbiota, evaluated by 16S rRNA gene amplicon sequencing, shifted to a state of reduced bacte

226 cal analyses using a combination of 16S rRNA amplicon sequencing, shotgun metagenome sequencing, and

227 in employing shotgun sequencing, rather than amplicon sequencing, to analyze microbiome samples.

228 gambiae mosquitoes from Burkina Faso by 16 S amplicon sequencing, we found that the different environ

229 3'LTR single-genome amplification and direct amplicon sequencing, we have identified the presence of

230 Through deep amplicon sequencing, we uncovered 148 unique alleles at

231 entially methylated regions, using bisulfite amplicon sequencing.

232 ltivated and native agaves, through Illumina amplicon sequencing.

233 of these samples was analysed using 16S rRNA amplicon sequencing.

234 using culture-based techniques coupled with amplicon sequencing.

235 d in parallel using 16S rRNA gene T-RFLP and amplicon sequencing.

236 Mutations were validated using high depth amplicon sequencing.

237 althy control women (HC) using 16S rRNA gene amplicon sequencing.

238 al calculus specimens previously analyzed by amplicon sequencing.

239 r than another recently described method for amplicon sequencing.

240 clinical follow-up using exome and targeted amplicon sequencing.

241 racterized by high-throughput 16 s rRNA gene amplicon sequencing.

242 ancient microbiome reconstructions based on amplicon sequencing.

243 assayed for mutations at each cut site using amplicon sequencing.

244 n total, n = 1,121 samples) by 16S-rRNA gene amplicon sequencing.

245 and Proteobacteria (6.9%), via 16S rRNA gene amplicon sequencing.

246 nity structure determined by next-generation amplicon sequencing.

247 al microbiota, analyzed by 16S ribosomal DNA amplicon sequencing.

248 uppression of plant defenses using 16 S rRNA amplicon sequencing.

249 PCR-enriched amplicon-sequencing data have special characteristics th

250 amplicon enrichment and normalization of an amplicon set.

251 y Illumina HiSeq sequencing of 16S rRNA gene amplicons showed the presence of B. subtilis in the gut

252 PCR products, and while alignment of the ITS amplicons showed very little sequence variation, there w

253 argeting 16S rRNA/tRNA(val) region having an amplicon size of 530bp using the specific primers for sh

254 Assays with amplicon sizes </=86 bp had significantly higher results

255 igher results compared to assays with larger amplicon sizes (>/=105 bp) (P < .001).

256 er provides genome sequences and the desired amplicon sizes and size differences.

257 ed methods using fluorescent PCR primers and amplicon sizing on a Sanger-style sequencer to generate

258 ere, a PCR primer designed to generate a PCR amplicon tagged with single stranded DNA tails at each e

259 rains, each containing a different telomeric amplicon (Tamp), ranging in size from 0.4 to 1,000 kb.

260 ence read data into metagenomic (random) and amplicon (targeted) sequence data sets.

261 ing the high-capacity herpes simplex virus-1 amplicon technology to deliver bacterial artificial chro

262 of mock community abundances, produce longer amplicons that can differentiate taxa unresolvable with

263 we used Herpes Simplex Virus (HSV) vectors (amplicons) that retain in vivo neurotropism.

264 analysis method is used to identify minimum amplicon tiling paths.

265 hlight reveals the presence of the final DNA amplicon to the naked eye, providing a "sample-to-answer

266 he corresponding single-stranded DNA (ssDNA) amplicons to be generated and tagged with a fluorescein

267 e utilized MiSeq sequencing of 16S rRNA gene amplicons to identify complex oral microbiota associated

268 We then apply this method to Ab H chain amplicons to sequence the first, to our knowledge, highl

269 r STR assays rely on a limited number of PCR amplicons, typically in the tens.

270 ns of microbial taxonomic counts from paired amplicon (V3 U341F/534R) and shotgun sequencing datasets

271 ial cell transforming 2, located in the same amplicon via distinct binding mechanisms.

272 The smallest amplicon, Vv3, produced a coincident melting curve shape

273 The partial sequence of the 16S rRNA amplicon was 100% identical with Dehalogenimonas alkenig

274 Nucleosome position at the amplicons was highly similar among developmental stages

275 llumina MiSeq sequencing of 16S rRNA gene amplicons was used to characterise the vaginal microbiot

276 ences and 9.4 million high-quality 16S V1-V2 amplicons) we identified two deep-branching plastid line

277 Using MiSeq sequencing of 16S rRNA gene amplicons, we characterised the vaginal microbiota of a

278 Using community profiling of 16S rRNA gene amplicons, we reveal that in Lotus, distinctive nodule-

279 Target amplicons were also tested for mutations by Sanger seque

280 readout was achieved when the gold-modified amplicons were captured by the specific antibodies.

281 Amplicons were deep sequenced and HCV genomic diversity

282 ental isolates revealed that the prp and cps amplicons were detected only in clinical isolates identi

283 During the amplification, the amplicons were labelled at the same time with biotin/dig

284 By sequencing, all 44 amplicons were not IS901but ISMav6, which was recently o

285 DNA was extracted, and partial 16S rRNA gene amplicons were sequenced using the Illumina platform.

286 Both LAMP amplicons were simultaneously hybridized with ssDNA prob

287 These amplicons were used in an unpurified form to hybridize t

288 d product, molecular-beacon was designed and amplicons were visualized directly using fluorescent han

289 ned from artificial DNA pools or from pooled amplicons, were used to test the method.

290 high-throughput sequencing of 16S rRNA gene amplicons which showed that methanethiol gave a competit

291 e design of genosensors for detection of HDA amplicons, which may assist in the development of point-

292 nced and assembled with high fidelity, using amplicon, whole genome shotgun or single molecule sequen

293 ghtly to use tailed primers, resulting in an amplicon with a duplex flanked by two single stranded DN

294 An azide-modified 523 bp PCR amplicon with all 335 thymidines replaced by AHP dU was

295 We designed a pool of diverse PCR amplicons with a defined structure, and then used Illumi

296 siderably by degenerate primers or targeting amplicons with conserved priming sites.

297 elt curve signatures as compared to 16S rDNA amplicons with enhanced interspecies discrimination.

298 -F ITS sequence and 0/8 subspecies, produced amplicons with IS901PCR primers.

299 omologous DNA sequences while giving rise to amplicons with maximally diverse signatures.

300 A gene as a model system, we found that long amplicons yield more complex HRM curve shapes.