ライフサイエンスコーパス: human microbiome

1 ew other collections of sequences (including human microbiomes).

2 esent previously unidentified members of the human microbiome.

3 ontributing to the protective effects of the human microbiome.

4 and converge along an axis toward the modern human microbiome.

5 on the discovery of small molecules from the human microbiome.

6 lations and existing populations such as the human microbiome.

7 e planet, including the trillions within the human microbiome.

8 us growth in the collective knowledge of the human microbiome.

9 and other pathways maintained throughout the human microbiome.

10 , and is now a vital tool for studies of the human microbiome.

11 arge-scale sequencing efforts to catalog the human microbiome.

12 in tumors that are in close proximity to the human microbiome.

13 the most numerically prominent genera of the human microbiome.

14 ty of commensal microbes, which comprise the human microbiome.

15 ing metabolism and immune homeostasis in the human microbiome.

16 ated an association between the diet and the human microbiome.

17 provide insight into the forces shaping the human microbiome.

18 tivate studies of hypervariation in the full human microbiome.

19 omplex heterogeneous communities such as the human microbiome.

20 ommunities to the symbionts that compose the human microbiome.

21 xenobiotic metabolism to spread through the human microbiome.

22 bitats, ranging from soil collectives to the human microbiome.

23 tics, to maximize sustainable changes in the human microbiome.

24 ve or suppress undesirable components of the human microbiome.

25 ained from high throughput sequencing of the human microbiome.

26 owledging nuance when describing the complex human microbiome.

27 e composition and variation of the "healthy" human microbiome.

28 the interrogation and interpretation of the human microbiome.

29 ch remains to be learned about phages in the human microbiome.

30 g O. formigenes in the context of its native human microbiome.

31 to unravel the highly dynamic nature of the human microbiome.

32 nly associated with environments outside the human microbiome.

33 f natural CRISPR-cas loci and targets in the human microbiome.

34 oils, extreme environments, bioreactors, and human microbiomes.

35 cific microbial functions within the healthy human microbiome across multiple body sites and can be u

36 both the extent to which these factors alter human microbiome activity and/or structure and the abili

37 tial to improve our understanding of how the human microbiome affects digestive health and disease.

38 Characterizing the human microbiome among hospitalized patients and identif

39 ida albicans is both a member of the healthy human microbiome and a major pathogen in immunocompromis

40 evalent T cell epitopes from bacteria in the human microbiome and a pan-variant epitope from SARS-CoV

41 gations focused on the interplay between the human microbiome and cancer development, herein termed t

42 s in length, the largest yet reported in the human microbiome and close to the maximum size ever repo

43 te and maintain functional redundancy in the human microbiome and contribute to its resilience.

44 trate a significant relationship between the human microbiome and COVID-19.

45 in power in testing the associations between human microbiome and diet intakes and habitual smoking.

46 s have demonstrated associations between the human microbiome and disease, yet fundamental questions

47 enomic evolution, as well as its role in the human microbiome and disease.

48 characterization of microbial communities in human microbiome and environmental samples.

49 heories and statistical tools to analyze the human microbiome and fully realize the potential of this

50 ersection of the indoor environment with the human microbiome and health is increasingly vital.

51 e, we jointly analyze the composition of the human microbiome and host genetic variation.

52 as obesity and the interactions between the human microbiome and intestinal cells.

53 One major challenge to studying human microbiome and its associated diseases is the lack

54 as been hypothesized to adversely affect the human microbiome and its immunomodulatory capacity.

55 h examples of the functional genomics of the human microbiome and its influences upon health and dise

56 ial interest in the species diversity of the human microbiome and its role in disease, the scale of i

57 The unexpected diversity of the human microbiome and metabolome far exceeds the complexi

58 Understanding the relation between the human microbiome and modulating factors, such as diet, m

59 s important for the goal of manipulating the human microbiome and other important microbial systems.

60 AGORA2 serves as a knowledge base for the human microbiome and paves the way to personalized, pred

61 ng of the chemical repertoire encoded by the human microbiome and provides a generalizable platform f

62 class of molecules are widely encoded in the human microbiome and that they exert potent antibacteria

63 al microbes influence the development of the human microbiome and the immune system is important to e

64 ces are available for many bacteria from the human microbiome and the ocean (over 800 and 200, respec

65 erstand the dynamic associations between the human microbiome and various diseases.

66 Antibiotics modify human microbiomes and may contribute to kidney stone ris

67 microbial time series, from plankton and the human microbiome, and investigate whether stochastic gen

68 ey are also found in multiple members of the human microbiome, and may play a beneficial role in trim

69 Studies of the human microbiome, and microbial community ecology in gen

70 variation in shaping the composition of the human microbiome, and provide a starting point toward un

71 ution of small-molecule-encoding BGCs in the human microbiome, and they demonstrate the bacterial pro

72 resent rare, low-abundance components of the human microbiome, and thus have great potential as broad

73 onal diversity and organismal ecology in the human microbiome, and we determined a core of 24 ubiquit

74 The trillions of bacteria that make up the human microbiome are believed to encode functions that a

75 Pathological shifts of the human microbiome are characteristic of many diseases, in

76 nces in the culture-independent study of the human microbiome are reviewed.

77 Simulated data and two real data sets on the human microbiome are used to illustrate the promise of o

78 associated with the human body, that is, the human microbiome, are complex ecologies critical for nor

79 may reflect the resistance burden within the human microbiome, as antibiotics and pathogens in wastew

80 We explore three core scenarios of human microbiome assembly: development in infants, repre

81 fferent cultures, requiring that the healthy human microbiome be characterized across life spans, eth

82 ity may in turn advance our understanding of human microbiome biology.

83 over the majority of abundant species in the human microbiome but only a small proportion of microbes

84 underlie the stability and resilience of the human microbiome, but this hypothesis has never been qua

85 e the basis for functional redundancy in the human microbiome by analyzing its genomic content networ

86 To demonstrate how dysbiosis of the human microbiome can drive autoimmune disease.

87 Under antibiotic pressure, the human microbiome can undergo rapid shifts on a scale of

88 bes that live in and on the human body - the human microbiome - can impact on cancer initiation, prog

89 and immune defense are important drivers of human-microbiome co-evolution.

90 relative complexity of soil, freshwater and human microbiome communities, and suggested that approxi

91 The resulting knowledge of human microbiome composition, function, and range of var

92 The human microbiome consists of bacterial, archaeal, and fu

93 nt joint publications of the findings of the Human Microbiome Consortium and related studies, the con

94 The human microbiome contains diverse microorganisms, which

95 whole-genome sequencing, and studies of the human microbiome continue to produce novel taxa and clea

96 The human microbiome contributes functional genes and metabo

97 The human microbiome could be manipulated by such "smart" st

98 immense diversity of resistance genes in the human microbiome could contribute to future emergence of

99 Overall these studies reveal that human microbiome data has been preserved in some coproli

100 article explores strategies for merging the human microbiome data with multiple additional datasets

101 d misses 60% of the true interactions in the human microbiome data, and, as predicted, most of the er

102 e the use of the package by applying it to a human microbiome dataset, where phylogeny structure amon

103 ion of our approach to bacterial genomes and human microbiome datasets allowed us to significantly ex

104 Applying ChronoStrain to two human microbiome datasets demonstrated its improved inte

105 ontains 20 proteins, all identified from the human microbiome datasets, illustrating the importance o

106 y active small molecules encoded directly in human microbiome-derived metagenomic sequencing data.

107 The human microbiome, described as an accessory organ becaus

108 harbor the specific pathogens present in the human microbiome during sepsis, as well as an underlying

109 ausation and further characterization of the human microbiome during states of health.

110 Finally, we show that long-read assembly of human microbiomes enables the discovery of full-length b

111 The human microbiome encodes extensive metabolic capabilitie

112 The human microbiome encodes vast numbers of uncharacterized

113 Out-of-the-box thinking in human microbiome engineering is leading to novel methods

114 cessfully exploited in the natural design of human microbiome evasion of C. difficile, and this metho

115 The human microbiome field has transitioned from cataloging

116 Here, I discuss the human microbiome from two perspectives: the first treats

117 and the outlook for future studies based on human microbiome GWAS.

118 The human microbiome has become a recognized factor in promo

119 The human microbiome has been linked to various host phenoty

120 The Human Microbiome has been variously associated with the

121 ne microbial and functional diversity in the human microbiome has enabled studies of microbiome-relat

122 Research on the human microbiome has established that commensal and path

123 discovery of the size and complexity of the human microbiome has resulted in an ongoing reevaluation

124 ition and functional capacity present in the human microbiome has revolutionized many concepts in our

125 uencing of microbes in human ecosystems (the human microbiome) has complemented single genome cultiva

126 Alterations in the human microbiome have been observed in a variety of cond

127 To date, however, most studies of the human microbiome have focused on characterizing the comp

128 Comparative analyses of the human microbiome have identified both taxonomic and func

129 Advances in metagenome sequencing of the human microbiome have provided a plethora of new insight

130 es coupled with our growing knowledge of the human microbiome have reduced, but not eliminated, measu

131 in fields such as molecular genetics and the human microbiome have resulted in an unprecedented recog

132 Comparative analyses of the human microbiome have revealed substantial variation in

133 like during African ape diversification, but human microbiomes have deviated from the ancestral state

134 etic approach to reconstruct how present-day human microbiomes have diverged from those of ancestral

135 Relative to the microbiomes of wild apes, human microbiomes have lost ancestral microbial diversit

136 rk specifically in metabolic modeling of the human microbiome, highlighting both novel methodologies

137 Applying PRO-seq to the human microbiome highlights taxon-specific RNAP pause mo

138 ubgingival plaque samples were identified by human microbiome identification microarray.

139 data from the IBD cohort of the integrative human microbiome (iHMP-IBD) project.

140 s reported the structure and function of the human microbiome in 300 healthy adults at 18 body sites

141 lso been shown to play a role in shaping the human microbiome in different cultures, requiring that t

142 population-based studies of the role of the human microbiome in disease etiology and exposure respon

143 sformed our understanding of the role of the human microbiome in health and many diseases.

144 Here, we review the human microbiome in the first 1000 days - referring to t

145 nd thus can be considered a component of the human "microbiome" in addition to their role in illness

146 roteins are highly abundant and those of the human microbiome, in particular, may perform diverse fun

147 re increasingly acquired in research on the (human) microbiome, in environmental studies and in the s

148 e genes characterized by biofilm-forming and human-microbiome-influenced environments with correspond

149 Using transplantation of human microbiomes into several animal models of infectio

150 of research on the lung and related areas of human microbiome investigation were reviewed and discuss

151 The human microbiome is a complex biological system with num

152 The human microbiome is a vast reservoir of microbial divers

153 Research on the human microbiome is beginning to address factors associa

154 ions and community membership of the healthy human microbiome is critical to accurately identify the

155 ying novel microbe-based therapeutics in the human microbiome is great.

156 eutics, the role of bacterial lectins in the human microbiome is largely unexplored.

157 The human microbiome is notoriously variable across individu

158 Although the composition of the human microbiome is now well-studied, the microbiota's >

159 ective genetic potential (metagenome) of the human microbiome is orders of magnitude more than the hu

160 nd as we have yet to characterize the entire human microbiome it is likely that many nucleases are ye

161 tion for a unique framework for studying the human microbiome, its organization, and its impact on hu

162 rved in some coprolites, and these preserved human microbiomes match more closely to those from the r

163 Increased inter-individual variation in the human microbiome may be associated with human dietary di

164 red standard test sequences derived from the Human Microbiome Mock Community test sets and compared M

165 rehensive reference data set of the "normal" human microbiome of 242 healthy adults at 5 major body s

166 The composite human microbiome of Western populations has probably cha

167 While developed to study the human microbiome, our software can be employed in variou

168 recognition, nearly a century ago, that the human microbiome plays a clinically relevant role in dru

169 The human microbiome plays a key role in a wide range of hos

170 Although the human microbiome plays a key role in health and disease,

171 The human microbiome plays a key role in health and disease.

172 The human microbiome plays a key role in human health and is

173 The body-wide human microbiome plays a role in health, but its full di

174 The human microbiome plays an important role in human diseas

175 Anaerobic bacteria from the human microbiome produce a wide array of molecules at hi

176 The composition of the human microbiome profoundly impacts human well-being.

177 As our understanding of the human microbiome progresses, so does the need for natura

178 We included 16S rRNA gene sequences from the Human Microbiome Project (HMP) and from 16 additional st

179 The new algorithm was tested on the human microbiome project (HMP) dataset, currently one of

180 onomic classification by 61% compared to the Human Microbiome Project (HMP) genome collection and ach

181 s the Earth Microbiome Project (EMP) and the Human Microbiome Project (HMP) have revealed robust ecol

182 Phase 1 of the Human Microbiome Project (HMP) investigated 18 body subs

183 The Human Microbiome Project (HMP) is following in the foots

184 c approach that combines public genomes with Human Microbiome Project (HMP) metagenomes to study the

185 The Human Microbiome Project (HMP) provides a comprehensive

186 veal new human sequences found in individual Human Microbiome Project (HMP) samples.

187 A primary goal of the Human Microbiome Project (HMP) was to provide a referenc

188 e whole meta-genome sequencing data from the Human Microbiome Project (HMP), consisting of 298 health

189 expert review of metagenome annotations and Human Microbiome Project (HMP)-specific metagenome sampl

190 iew of metagenome annotations (IMG/M ER) and Human Microbiome Project (HMP)-specific metagenome sampl

191 body sites on 102 individuals as part of the Human Microbiome Project (HMP).

192 As part of the Integrative Human Microbiome Project (HMP2 or iHMP), we followed 132

193 from the prediabetes study of the Integrated Human Microbiome Project (iHMP).

194 in 88% of the National Institutes of Health Human Microbiome Project (NIH HMP) stool samples, and th

195 Using Human Microbiome Project 16S rRNA gene sequence data for

196 Using Human Microbiome Project and Earth Microbiome Project da

197 tion sequencing has made it feasible for the Human Microbiome Project and other initiatives to genera

198 rom two large-scale metagenomic studies--the Human Microbiome Project and the Student Microbiome Proj

199 among bacteria more broadly, analysis of the Human Microbiome Project data demonstrate that at least

200 Comparative genomic analysis with Human Microbiome Project data revealed that the human bo

201 alyzed the 279 unique GUS sequences from the Human Microbiome Project database and identified 14 puta

202 the association networks we obtain from the Human Microbiome Project datasets show credible results

203 mining the shotgun metagenomic data from the Human Microbiome Project for host DNA reads, we gathered

204 The National Institutes of Health Human Microbiome Project has provided one of the broades

205 al community surveys such as MetaHit and the Human Microbiome Project have described the composition

206 for thousands of RefSeq isolate genomes and Human Microbiome Project metagenomes and provide these d

207 ased coding algorithm and applying it to the Human Microbiome Project population.

208 The Human Microbiome Project provided a census of bacterial

209 ext-generation sequencing technology and the human microbiome project underway, current sequencing ca

210 The Human Microbiome Project used rigorous good clinical pra

211 a healthy cohort (n = 87) obtained from the Human Microbiome Project were aligned against the NCBI b

212 publicly available dataset obtained from the Human Microbiome Project which associates taxa abundance

213 organism from the high-priority group of the Human Microbiome Project's "Most Wanted" list, and, to o

214 These findings have implications for ongoing Human Microbiome Project(s), and highlight important cha

215 In the application to the data from the Human Microbiome Project, a close evaluation of the biol

216 more than 200 normal adults enrolled in the Human Microbiome Project, and metagenomically determined

217 ys such as MetaHIT and the recently released Human Microbiome Project, detailed investigations of the

218 these tools to 520 oral metagenomes from the Human Microbiome Project, finding evidence of site tropi

219 etagenomic deconvolution to samples from the Human Microbiome Project, successfully reconstructing ge

220 Most recently, the Human Microbiome Project, using new genomic technologies

221 Using simulated and real data from the Human Microbiome Project, we show that such compositiona

222 nOCC to a microbial ecology dataset from the Human Microbiome Project, which in addition to reproduci

223 on a set of 94 metagenomic samples from the Human Microbiome Project.

224 relation network of microbe species from the Human Microbiome Project.

225 ces cerevisiae, and 891 new genomes from the Human Microbiome Project.

226 otgun sequencing data generated from the NIH Human Microbiome Project.

227 the >700 shotgun metagenomic samples of the Human Microbiome Project.

228 tion in 752 metagenomic samples from the NIH Human Microbiome Project.

229 an genome project and marked progress in the human microbiome project.

230 lysis and analysis of genomes related to the Human Microbiome Project.

231 uences being generated for the International Human Microbiome Project.

232 enges will be critical for the International Human Microbiome Project.

233 ly 12,000 samples as part of the integrative Human Microbiome Project.

234 d from six major human body sites by the NIH Human Microbiome Project.

235 seven profilers on datasets of CAMI and the Human Microbiome Project.

236 nd metagenomic sequencing efforts, including human microbiome projects, reveal that microbes often en

237 dress one key question emerging from various Human Microbiome Projects: Is there a substantial core o

238 ntact with natural environments enriches the human microbiome, promotes immune balance and protects f

239 itope length matches (8-12 amino acids) with human microbiome proteins, suggestive of a possible cros

240 st-microbe co-diversification in shaping the human microbiome, providing a key foundation for compara

241 Klebsiella pneumoniae is part of the healthy human microbiome, providing a potential reservoir for in

242 nomically assigned shotgun sequences using a human microbiome reference.

243 The importance of the human-microbiome relationship for positive health outcom

244 The study of the human microbiome relies heavily on the genomes of bacter

245 in mice and suggest that alterations in the human microbiome represent a risk factor for PD.

246 The human microbiome represents a new frontier in understand

247 The human microbiome represents a vastly complex ecosystem t

248 The field of human microbiome research has revealed the intimate co-a

249 Human microbiome research is an actively developing area

250 Human microbiome research is rife with studies attemptin

251 Human microbiome research was larger than any other envi

252 dress many other key questions in animal and human microbiome research.

253 ple is an important clinical goal in current human microbiome research.

254 ehensive current model for understanding the human microbiome's role in complex inflammatory disease.

255 While the human microbiome's structure and function have been exte

256 DNA templates, cultured bacterial cells and human microbiome samples in the virtual microfluidics sy

257 roduces marked biases both across and within human microbiome samples, and identify sample- and gene-

258 causal models for detecting interactions in human microbiome samples.

259 Through human microbiome sequencing, we can better understand ho

260 primarily due to the exponential increase in human microbiome studies and a growing appreciation of o

261 Observations from human microbiome studies are often conflicting or inconc

262 what is, to our knowledge, one of the first human microbiome studies in a well-phenotyped prospectiv

263 The translational power of human microbiome studies is limited by high interindivid

264 In order for human microbiome studies to translate into actionable ou

265 atory and bioinformatic processing steps for human microbiome studies, a lack of consistency in DNA e

266 t-microbiota interactions and explore recent human microbiome studies.

267 on 16S ribosomal RNA sequences obtained from human microbiome studies.

268 angulation may be more broadly applicable to human microbiome studies.

269 understanding the ecological dynamics of the human microbiome, such as compositional variability with

270 gous to sequences from bacteria found in the human microbiome than type 1 epitopes.

271 ylogenetically distinct enzymes found in the human microbiome that decarboxylate tryptophan to form t

272 duced by commensal-pathogenic members of the human microbiome that possess the clb (aka pks) biosynth

273 sthma to the composition and function of the human microbiome, the collection of microbes that reside

274 We show that within the human microbiome this ecological architecture continues

275 le intra- and interpersonal variation in the human microbiome, this variation can be partitioned into

276 of temporal variation in the ecology of the human microbiome, this work demonstrates the feasibility

277 fungi in buildings exert an influence on the human microbiome through aerosol deposition, surface con

278 g technologies have enabled the study of the human microbiome through direct sequencing of microbial

279 r, exert tremendous collateral damage to the human microbiome through overuse and broadening spectrum

280 demonstration, local similarity analysis of human microbiome time series shows that core operational

281 duration, high resolution time series of the human microbiome to decipher the networks of correlation

282 e importance of strain-level analysis of the human microbiome to define the role of commensals in hea

283 Despite evidence linking the human microbiome to health and disease, how the microbio

284 ans of understanding the contribution of the human microbiome to health and its potential as a target

285 A better understanding of human microbiome transmission will have implications for

286 Finally, mono-colonizations and human microbiome transplantations into germ-free mice re

287 analyze large microbial communities from the human microbiome, uncovering significant variation in di

288 d CRISPR loci and cas genes in the body-wide human microbiome using 2,355 metagenomes, yielding funct

289 Community composition within the human microbiome varies across individuals, but it remai

290 However, the diversity of the human microbiome varies between body sites, between pati

291 Although the taxonomic composition of the human microbiome varies tremendously across individuals,

292 n effort to improve our understanding of the human microbiome, we compare gut microbiome composition

293 In the human microbiome, we find no overt changes in the richne

294 Considering the diversity of the human microbiome (which numbers over 40,000 operational

295 ated a set of 20 Bacteroidia pilins from the human microbiome whose structures and mechanism of assem

296 suggests translation to communities like the human microbiome will be quite challenging.

297 Studies of metagenomics and the human microbiome will tremendously expand our knowledge

298 More detailed knowledge of the human microbiome will yield next-generation diagnostics

299 ch aim at associating the composition of the human microbiome with other available information, such

300 ced new microbial populations resembling the human microbiome, with stable O. formigenes colonization