ライフサイエンスコーパス: shotgun sequencing

1 tic material is simultaneously amplified for shotgun sequencing.

2 exome capture on maternal plasma DNA before shotgun sequencing.

3 subsequently yield much more useful data via shotgun sequencing.

4 assay aids in selecting the best sample for shotgun sequencing.

5 organisms, presents significant problems for shotgun sequencing.

6 hort DNA fragments obtained by environmental shotgun sequencing.

7 al community from human feces, using partial shotgun sequencing.

8 ows a more efficient outcome for full genome shotgun sequencing.

9 old lower than that required for full-genome shotgun sequencing.

10 nstream applications, including whole genome shotgun sequencing.

11 cing is assembling the fragments obtained by shotgun sequencing.

12 ces in complex genomes that are resistant to shotgun sequencing.

13 ng points in bacterial artificial chromosome shotgun sequencing.

14 was sequenced and assembled by whole-genome shotgun sequencing.

15 flanking DNA, were selected and subjected to shotgun sequencing.

16 ately aligning sequence contigs generated by shotgun sequencing.

17 nt and assessed performance compared to deep shotgun sequencing.

18 rol participants (n = 22) using whole-genome shotgun sequencing.

19 ing one allele more than another relative to shotgun sequencing.

20 OC-SCC) to normal patients using metagenomic shotgun sequencing.

21 obiome and resistome using 16S rRNA gene and shotgun sequencing.

22 eously with EMBx for %ddcfDNA measurement by shotgun sequencing.

23 l bioinformatic analysis and deep short-read shotgun sequencing.

24 21 years using both 16S rRNA and metagenomic shotgun sequencing.

25 initive microbial analyses using metagenomic shotgun sequencing.

26 omal RNA amplicon sequencing and metagenomic shotgun sequencing.

27 ubjected them to high-coverage, whole-genome shotgun sequencing.

28 the 16S rRNA gene coupled with direct whole shotgun sequencing.

29 tally healthy individuals using whole genome shotgun sequencing.

30 irome profile was analyzed using metagenomic shotgun sequencing.

31 te for hierarchical clone-by-clone map-based shotgun sequencing.

32 rated datasets from 16S and whole metagenome shotgun sequencing.

33 m applications such as PCR amplification and shotgun sequencing.

34 annotated Joint Sequence determined through "shotgun" sequencing.

35 proaches were compared including metagenomic shotgun sequencing, 16S rRNA gene pyrosequencing and clo

36 east Ty transposon, as a useful technique in shotgun sequencing [3].

37 The conditions can be viewed as the shotgun sequencing analogue of Ukkonen-Pevzner's necessa

38 syringae pv. maculicola Whole transcriptome shotgun sequencing analysis of the systemic leaves after

39 We show that compared to low-coverage shotgun sequencing and 1240 k capture, YMCA significantl

40 Using shotgun sequencing and a custom analysis pipeline, we id

41 We carried out metagenomic shotgun sequencing and a metagenome-wide association stu

42 elative abundance of species identified from shotgun sequencing and amplicon sequencing data derived

43 Utilizing whole genome shotgun sequencing and analyses of these genomes reveale

44 We apply the approach by shotgun sequencing and annotating the genome of Ricketts

45 Through whole-genome shotgun sequencing and assembly of the H. charithonia ge

46 The whole-genome shotgun sequencing and auto-assembly phase of the Tetrah

47 ke sequences from contigs were identified by shotgun sequencing and BLAST searches, and used to isola

48 is a complementary approach to whole-genome shotgun sequencing and can produce high-quality sequence

49 t, accuracy and robustness of this system by shotgun sequencing and de novo assembly of the Mycoplasm

50 ed the RhCMV 68-1 BAC genome by whole-genome shotgun sequencing and determined the protein content of

51 the utility of methods such as whole-genome shotgun sequencing and genome annotation by a community

52 On the basis of shotgun sequencing and genomic comparisons to Balsas teo

53 ved to include a combination of whole-genome shotgun sequencing and hierarchal map-assisted sequencin

54 -variety arowana using a combination of deep shotgun sequencing and high-resolution linkage mapping.

55 we discuss how the integration of microbiome shotgun sequencing and metabolic modeling approaches suc

56 Shotgun sequencing and metabolic pathway reconstruction

57 ve blue antelope museum specimens using both shotgun sequencing and mitochondrial genome target captu

58 ze draws similar conclusions from 16S versus shotgun sequencing and reveals both known and candidate

59 AFS uses metagenomic shotgun sequencing and sequence read counting to infer s

60 Whole-genome shotgun sequencing and sequencing analysis of the gene e

61 ther development is required for metagenomic shotgun sequencing and targeted sequencing to be widely

62 Subgingival samples were subjected to shotgun sequencing and the metagenomic datasets were ana

63 oral bacterial microbiome using whole-genome shotgun sequencing and the oral fungal microbiome using

64 s were subjected to whole-genome metagenomic shotgun sequencing and then analyzed by marker gene-base

65 o be elucidated at a fraction of the cost of shotgun sequencing, and (3) enhance genome sequencing ef

66 rdered-clone genome sequencing, whole-genome shotgun sequencing, and BioNano optical genome mapping,

67 d laser-capture microdissection, metagenomic shotgun sequencing, and FISH to characterize the human s

68 he form of complete genomes or the result of shotgun sequencing, and produce an annotated sequence in

69 DNA was isolated, processed for metagenomics shotgun sequencing, and taxonomic and functional profile

70 , due to comparatively poor NRY coverage via shotgun sequencing, and the relatively low and biased re

71 ybrid system was coupled with a whole genome shotgun sequencing approach for microbial genome analysi

72 We incorporated a more powerful metagenomic shotgun sequencing approach rather than a targeted ampli

73 We used a shotgun sequencing approach to determine the sequence of

74 This first large-scale survey of HPV using a shotgun sequencing approach yielded a comprehensive map

75 Using a shotgun sequencing approach, the 60,232 bp plasmid seque

76 deltaH has been determined by a whole-genome shotgun sequencing approach.

77 pon the contiguity observed from traditional shotgun sequencing approaches, with scaffold N50 values

78 ed using 1240k and Twist capture, as well as shotgun sequencing approaches.

79 mic (16S ribosomal RNA gene and whole-genome shotgun sequencing) approaches to 144 nasopharyngeal air

80 rther studies using other approaches such as shotgun sequencing are required to elucidate the ecology

81 rRNA gene sequence- and whole community DNA shotgun sequencing-based analysis of the adult human gut

82 studies used either 16S rRNA or metagenomic shotgun sequencing but not both.

83 loss of genomic sequences inherent in random shotgun sequencing by bacterial cloning because it ampli

84 We develop models of measurement error for shotgun sequencing by combining the two perspectives abo

85 Clone-Array Pooled Shotgun Sequencing (CAPSS) is based on pooling rows and

86 er a clone-by-clone approach or whole-genome shotgun sequencing, CAPSS requires relatively few librar

87 Using deep shotgun sequencing, chemical dietary analysis, and chlor

88 via amplicon sequencing were recovered from shotgun sequencing, clearly challenging the dogma that m

89 at, ordering of whole-genome or hierarchical shotgun sequencing contigs is primarily based on recombi

90 researchers with analyzing and interpreting shotgun sequencing data and developing standard operatin

91 phylogenetic regression on 16S amplicon and shotgun sequencing data and to visualize results.

92 Metagenomic shotgun sequencing data can identify microbes populating

93 d in pediatric UC; and (e) both 16S rRNA and shotgun sequencing data can predict pediatric UC status

94 etection and identification from metagenomic shotgun sequencing data derived from sonicate fluid for

95 plete workflow processes whole transcriptome shotgun sequencing data files by trimming reads and remo

96 uirements for de novo assembly of short-read shotgun sequencing data from these complex populations a

97 Our approach can also reduce error in shotgun sequencing data generated from libraries with sm

98 an subjects, by metagenomics analysis of the shotgun sequencing data generated from the NIH Human Mic

99 onal reconstruction of genome sequences from shotgun sequencing data has been greatly simplified by t

100 been under-explored. Using whole-metagenome shotgun sequencing data in 1,004 twins, we first observe

101 By analyzing 16S rRNA and whole metagenome shotgun sequencing data in tandem with culture-based met

102 ing metagenome-assembled genomes (MAGs) from shotgun sequencing data is an increasingly common task i

103 Here we reanalysed whole microbial community shotgun sequencing data of 12,262 longitudinal samples f

104 The shotgun sequencing data reveals that in both locations,

105 Here we used whole-metagenome shotgun sequencing data together with assembly and binni

106 ng STR markers directly from high-throughput shotgun sequencing data without a reference genome, and

107 o classify microorganisms using whole-genome shotgun sequencing data, comprehensive comparisons of th

108 Microbiota engraftment, determined from shotgun sequencing data, correlated with larger microbio

109 including both 16S rRNA and whole-metagenome shotgun sequencing data, enhanced our abilities to under

110 Using metagenome shotgun sequencing data, the predictive power of the mic

111 en compared to 30-fold coverage whole-genome shotgun sequencing data.

112 timates of nucleotide diversity from genomic shotgun sequencing data.

113 ren and adults using either 16S rRNA gene or shotgun sequencing data.

114 cumulation lines by analysis of whole genome shotgun sequencing data.

115 temporal map of human pathogens, we screened shotgun-sequencing data from 1,313 ancient humans coveri

116 n after (included in the whole transcriptome shotgun sequencing dataset) the systemic challenge.

117 We used simulated and published shotgun sequencing datasets containing Salmonella-derive

118 nts from paired amplicon (V3 U341F/534R) and shotgun sequencing datasets, we demonstrate that extensi

119 con, quantitative reduced representation and shotgun sequencing datasets.

120 argely unassembled sequence data obtained by shotgun sequencing DNA isolated from the various environ

121 Shotgun sequencing enables the reconstruction of genomes

122 Environmental shotgun sequencing (ESS) has potential to give greater i

123 We performed shotgun sequencing experiments (n = 35) of mesocosms con

124 of DNA for many uses, including metagenomic shotgun sequencing for infection diagnosis.

125 Metagenomic shotgun sequencing for the identification of pathogens i

126 ssembled human genome and mouse whole genome shotgun sequencing fragments.

127 ched healthy controls, and whole metagenomic shotgun sequencing from 24 MS subjects (all newly diagno

128 Shotgun sequencing generates large numbers of short DNA

129 D without PSC, were subjected to metagenomic shotgun sequencing, generating 17 billion paired-end seq

130 ion sequencing (NGS) technologies, full cDNA shotgun sequencing has become a major approach in the st

131 genomes directly from the environment, using shotgun sequencing, has only become possible recently.

132 ibosomal RNA gene sequencing and metagenomic shotgun sequencing, have been applied to profile microbi

133 Shotgun sequencing holds substantial promise for food te

134 Metagenomic shotgun sequencing identified 268 bacterial taxa at the

135 overy by applying 16S rRNA gene amplicon and shotgun sequencing, identifying ancient oral microbiota,

136 The use of restrictive libraries in genome shotgun sequencing in plant genomes should allow signifi

137 Metagenomic shotgun sequencing is a new tool to identify organisms u

138 Whole metagenome shotgun sequencing is a powerful approach for assaying t

139 t advances in NGS technologies, whole-genome shotgun sequencing is cost-prohibitive for species with

140 rase chain reaction, and whole transcriptome shotgun sequencing is critically dependent on RNA qualit

141 One reason for the difference is that shotgun sequencing is highly automated but finishing is

142 ethods for identifying CDS from whole-genome shotgun sequencing is not fully established.

143 Shotgun sequencing is routinely employed to study bacter

144 ries have been constructed, and whole-genome shotgun sequencing is underway.

145 onsisting of viral particle purification and shotgun sequencing, is a powerful technique for discover

146 Using recombinant vector clones from shotgun sequencing libraries, resistance to tetracycline

147 man genome was generated by the whole-genome shotgun sequencing method.

148 he current attainability of whole-genome and shotgun sequencing methods.

149 ntal microbiomes using ultradeep metagenomic shotgun sequencing.Methods: Airway specimens from 85 ind

150 Studies comparing metagenomic shotgun sequencing (MSS) and culture-based methods in SA

151 y, 16S rRNA gene sequencing, and metagenomic shotgun sequencing (MSS) for Clostridium difficile ident

152 Metagenomic shotgun sequencing (MSS) is an important tool for charac

153 Metagenomic whole genome shotgun sequencing (mWGS) allows for strain-level taxono

154 In this study, we combined shotgun sequencing of 1,203 stool samples from 26 mother

155 tative genetic analysis through whole-genome shotgun sequencing of 300 gene bank accessions.

156 st by real-time PCR, followed by metagenomic shotgun sequencing of 91 specimens to identify coinfecti

157 studies with genome-wide data, we undertook shotgun sequencing of a Ghanaian clinical isolate (with

158 Combined with deep shotgun sequencing of all stools, we find that multidrug

159 zleri whole genome sequence, obtained by 454 shotgun sequencing of an isolate from a clinically-healt

160 Shotgun sequencing of bacterial genomes remains labor-in

161 Through massive shotgun sequencing of circulating cell-free DNA from the

162 Sanger shotgun sequencing of clone inserts, however, has now be

163 Here, using random shotgun sequencing of DNA from a natural acidophilic bio

164 Shotgun sequencing of DNA from the input pooled VLP prep

165 By shotgun sequencing of DS affinity-enriched proteomes ext

166 to identify novel pathogens from metagenomic shotgun sequencing of epidemiologically related foodborn

167 pecies in the langur genus Presbytis through shotgun sequencing of faecal DNA (P. femoralis femoralis

168 a literature survey and empirical study how shotgun sequencing of faecal DNA is a still underutilize

169 and 234 control individuals, conducted deep shotgun sequencing of fecal DNA, followed by metagenome-

170 hism (SNP) markers derived from whole-genome shotgun sequencing of five laboratory inbred strains.

171 to improve the phylogeny of Psilocybe using shotgun sequencing of fungarium specimens, from which we

172 We used shotgun sequencing of genomic DNA, using an Illumina MiS

173 A from the input pooled VLP preparation plus shotgun sequencing of gut microbiota samples and purifie

174 low levels of endogenous DNA, precluding the shotgun sequencing of many interesting samples because o

175 of parental haplotypes in maternal plasma by shotgun sequencing of maternal plasma DNA allows the inh

176 Shotgun sequencing of MEM-treated human intestinal biops

177 Shotgun sequencing of microbial communities, referred to

178 identification in DNA sequences derived from shotgun sequencing of microbial communities.

179 We used shotgun sequencing of microbial community DNA and target

180 Here, we applied whole-genome shotgun sequencing of microbial DNA extracted directly f

181 Through extensive shotgun sequencing of pertinent clones and sequence asse

182 Whole-genome shotgun sequencing of Prochlorococcus MIT9312 plones sho

183 Viral metagenomics, or shotgun sequencing of purified viral particles, has revo

184 nomic next-generation sequencing (mNGS), the shotgun sequencing of RNA and DNA from clinical samples,

185 se three species and demonstrate that direct shotgun sequencing of sediment DNA, without target enric

186 Random shotgun sequencing of subcloned fragments of the archaea

187 Shotgun sequencing of such communities' metagenomes prov

188 C, a subsidiary of Monsanto Co., performed a shotgun sequencing of the Arabidopsis thaliana Landsberg

189 (pulsed-field gel electrophoresis [PFGE]) to shotgun sequencing of the entire genome (whole-genome se

190 Random shotgun sequencing of the M. avium subsp. paratuberculos

191 The whole-genome shotgun sequencing of the Tetrahymena macronucleus has r

192 Shotgun sequencing of the two BAC clones and BLASTN sear

193 Prior to capture, shotgun sequencing of these libraries yielded an average

194 havioral and molecular techniques, including shotgun sequencing of two bacterial artificial chromosom

195 By using shotgun sequencing of uncultured marine picobiliphytes,

196 Shotgun sequencing of vaginal swabs from postmenopausal

197 encing overcomes this drawback by untargeted shotgun sequencing of whole metagenomes at affordable co

198 ular difficulties encountered in the random 'shotgun' sequencing of an entire eukaryotic chromosome.

199 Here we describe the shotgun-sequencing of ancient DNA from five specimens of

200 mnological methods with the whole-metagenome shotgun-sequencing of sedDNA we were able to paint a com

201 Ancient metagenomic studies using capture or shotgun sequencing often perform pairwise alignment of i

202 umatoid arthritis patients and controls, and shotgun sequencing on a subset of 44 such samples.

203 Deep shotgun sequencing on next generation sequencing (NGS) p

204 ance information extracted from metagenomics shotgun sequencing or 16s rRNA gene amplicon sequencing,

205 false-positive calls than tools designed for shotgun sequencing or diploid genomes.

206 Environmental shotgun sequencing (or metagenomics) is widely used to s

207 Ordered shotgun sequencing (OSS) has been successfully carried o

208 .0001), beta-diversity changes (whole genome shotgun sequencing; P = 0.02), and fermentation products

209 h samples from all patients and whole genome shotgun sequencing performed.

210 For shotgun sequencing, PRIMO reads assembled sequence conti

211 ontigs during the course of the whole-genome shotgun sequencing process.

212 obust to be used in the finishing phase of a shotgun sequencing project and is amenable to semiautoma

213 IMO can be used in the finishing stages of a shotgun sequencing project, in sequencing by directed pr

214 ing a large number of gaps in a whole-genome shotgun sequencing project.

215 However, recent whole-genome shotgun sequencing projects have violated this assumptio

216 Read Archive and assemblies for whole-genome shotgun sequencing projects in GenBank, is currently imp

217 archives) available through the whole-genome shotgun sequencing projects of 12 Drosophila species to

218 fining sequences emanating from whole-genome shotgun sequencing projects to a similar quality level.

219 other in a 'hybrid' approach to whole-genome shotgun sequencing projects, but assembly software must

220 In shotgun sequencing projects, the genome or BAC length is

221 telomeres on draft sequences of whole genome shotgun sequencing projects.

222 rtificial chromosome fingerprint mapping and shotgun sequencing projects.

223 We first employ a metagenomic shotgun sequencing protocol on a total of 93 clinical sa

224 This method applies modified shotgun sequencing protocols to sequence both alleles co

225 Unlike culture, shotgun sequencing quantitatively characterizes the burd

226 If finishing rates are to increase to match shotgun sequencing rates, most finishing decisions also

227 There is increasing interest in employing shotgun sequencing, rather than amplicon sequencing, to

228 le about a DNA sequence from a collection of shotgun sequencing reads collected from it.

229 is assembled from single-molecule, real-time shotgun sequencing reads collinear with an optical map.

230 mated benchmarking workflow, using synthetic shotgun sequencing reads for which we know the true CDS

231 With the vast amount of shotgun sequencing reads generated in a metagenomic proj

232 le of a microbial community from unannotated shotgun sequencing reads is one of the important goals i

233 taset of 17,676 viral contigs assembled from shotgun sequencing reads of VLP DNAs, we identified viru

234 nchoring millions of chimpanzee whole-genome shotgun sequencing reads onto the human genome.

235 s (0.03% and 0.08% alignable high-throughput shotgun sequencing reads) of their respective DNA conten

236 This method, entitled directed random shotgun sequencing, requires highly redundant sequencing

237 logies-amplicon sequencing and whole-genome (shotgun sequencing)-respectively generate two contrastin

238 Whole-genome shotgun sequencing results revealed that fiber consumpti

239 Based on the shotgun sequencing results, there was no evidence of a f

240 ofiling by 16S ribosomal RNA and metagenomic shotgun sequencing revealed that clinical outcomes were

241 Metagenomic shotgun sequencing revealed that strain-level variation

242 Whole-genome shotgun sequencing reveals a small number of genomic seq

243 evious work has demonstrated that direct RNA shotgun sequencing (RNA-Seq) can be used to circumvent t

244 We applied an RNA shotgun sequencing (RNA-Seq) method without PCR amplific

245 Whole-transcriptome shotgun sequencing (RNA-Seq) provides new possibilities

246 We used whole-transcriptome shotgun sequencing (RNA-seq) to compare the S. pneumonia

247 Whole transcriptome shotgun sequencing (RNA-seq) was used to assess the tran

248 spleens were analyzed by whole transcriptome shotgun sequencing (RNA-sequencing).

249 gap persists, even though many thousands of shotgun sequencing runs from human metagenomic samples e

250 Shotgun sequencing showed high classification agreement

251 In shotgun sequencing, statistical reconstruction of a cons

252 Whole genome shotgun sequencing strategies generate sequence data pri

253 etely sequenced to about 8x coverage using a shotgun sequencing strategy and primer walking for gap c

254 In most cases, a shotgun sequencing strategy is being used, which rapidly

255 f the Drosophila genome using a whole-genome shotgun sequencing strategy supported by extensive clone

256 We used a random shotgun sequencing strategy to define the genomes of NYM

257 tificial chromosome/P1 artificial chromosome shotgun sequencing strategy.

258 e 12p13, was generated using the large-scale shotgun sequencing strategy.

259 Next, it will introduce shotgun sequencing technologies such as metagenomics and

260 pecies are being sequenced with whole-genome shotgun sequencing technologies.

261 sequenced cell-free DNA with high-throughput shotgun sequencing technology from plasma of pregnant wo

262 approach to genotyping based on multiplexed shotgun sequencing that can identify recombination break

263 By means of purifying and shotgun sequencing the viral community directly from the

264 multidrug resistant USA300 strain, by random shotgun sequencing, then compared it with the sequences

265 plification (RCA) to amplify the genome, and shotgun sequencing to 8x depth coverage to obtain the co

266 gle-molecule real-time (Pacific Biosciences) shotgun sequencing to assemble the six chromosomal regio

267 recipient's genome, we used high throughput shotgun sequencing to develop a universal noninvasive ap

268 The application of shotgun sequencing to environmental samples has revealed

269 alyses, stable isotope measurements, and DNA shotgun sequencing to examine diet and health status.

270 lied 16S rRNA gene amplicon and whole-genome shotgun sequencing to examine the microbial diversity in

271 Given the ease of use of shotgun sequencing to generate partial genomic sequences

272 We applied shotgun sequencing to single foraminiferal specimens, as

273 We have applied "whole-genome shotgun sequencing" to microbial populations collected e

274 Three commercial metagenomic shotgun sequencing tools, CosmosID, One Codex, and IDbyD

275 he design of optimal assembly algorithms for shotgun sequencing under the criterion of complete recon

276 Shotgun sequencing was performed on stool samples collec

277 Whole transcriptome shotgun sequencing was performed to determine differenti

278 uantitative metagenomics study based on deep shotgun sequencing was performed, using gut microbial DN

279 Whole-genome metagenomic shotgun sequencing was performed.

280 Whole-genome shotgun sequencing was used to study the sequence variat

281 Here, using 16S ribosomal DNA and shotgun sequencing, we characterized the associations of

282 With stable isotope probing (SIP)-enabled shotgun sequencing, we found taxa from the Solibacterale

283 By ultra-deep metagenomic shotgun sequencing, we revealed higher relative abundanc

284 nciple, every analysis based on whole-genome shotgun sequencing (WGS) data, such as SNP and insertion

285 its introduction a decade ago, whole-genome shotgun sequencing (WGS) has been the main approach for

286 ing DM discovery algorithms use whole genome shotgun sequencing (WGS) in isolation, which can potenti

287 microbiome was assessed by whole-metagenome shotgun sequencing with taxonomic profiling.

288 tes generated by an established whole-genome shotgun sequencing workflow with those returned by full-