ライフサイエンスコーパス: functional annotation

1 , the non-coding genomic regions lacking any functional annotation.

2 sification into Pfam clans, as well as their functional annotation.

3 port mechanism of EPS were proposed based on functional annotation.

4 s novel insight into the goat genome and its functional annotation.

5 ever likely to have) experimentally verified functional annotation.

6 2 to week 104, which is consistent with our functional annotation.

7 as protein grouping as well as taxonomic and functional annotation.

8 mbiguity will incur errors in structural and functional annotation.

9 similar proteins to be used for analysis and functional annotation.

10 , yet hundreds of their proteins lack robust functional annotation.

11 al gene or sequence and (iv) enrichment of a functional annotation.

12 ns based on the similarities and propagating functional annotation.

13 n category within the Critical Assessment of Functional Annotation.

14 applications, particularly similarity-based functional annotation.

15 llowed by de novo transcriptome assembly and functional annotation.

16 se a major challenge to accurate species and functional annotation.

17 s were assembled and used for structural and functional annotation.

18 unique genes, of which half had no previous functional annotation.

19 nes better characterised by another trait or functional annotation.

20 or each RBP, including basic information and functional annotation.

21 ed representatives, and 40% of the UHGP lack functional annotations.

22 rganism, including those without substantial functional annotations.

23 uire function in ways that differ from known functional annotations.

24 chments for 24 categories of SNPs defined by functional annotations.

25 e, even after conditioning on a broad set of functional annotations.

26 lationships, gene evolutionary histories and functional annotations.

27 For the ES events, we performed multiple functional annotations.

28 he latest available protein interactions and functional annotations.

29 when variant risk status can be predicted by functional annotations.

30 specific protein domains, beyond our current functional annotations.

31 ormation, such as linkage disequilibrium and functional annotations.

32 oritize potentially causal variants based on functional annotations.

33 acyltransferase, providing directions to our functional annotations.

34 enes (greater than twofold change) and their functional annotations.

35 e.g. gene lists, gene interactions and gene functional annotations.

36 consequently do not maximize the utility of functional annotations.

37 levels, each with integrated and summarized functional annotations.

38 cell-specific transcripts and protein-level functional annotations.

39 ctivate and repress gene sets sharing common functional annotations.

40 re LCRs in protein sequences with additional functional annotations.

41 base, miRDB, for miRNA target prediction and functional annotations.

42 features of the different immune subtypes by functional annotations.

43 spacer regions (ITS1/2) and expanded protein functional annotations.

44 se pathogenicity scores using a broad set of functional annotations.

45 ative trait loci), chromatin interaction and functional annotations.

46 expected based on their depletion for known functional annotations.

47 es, the quality of orthology assignments and functional annotations (80% coverage) has persisted with

48 eins, or protein domains, sharing a specific functional annotation across genomes of given size.

49 improve fine-mapping accuracy by leveraging functional annotations across the entire genome-not just

50 plementary to the standard approach based on functional annotation alone.

51 wed by a focus on sustainable biocuration of functional annotation, an area which has particularly fe

52 Functional annotation analyses indicated that a wide var

53 RNA-sequencing and functional annotation analyses revealed that PPP1R1A reg

54 n and conducted quantitative trait locus and functional annotation analyses.

55 Functional annotation analysis revealed its involvement

56 Functional annotation analysis revealed sex-specific mod

57 lls and E18.5 small intestine, combined with functional annotation analysis revealed that Blimp1 has

58 Functional annotation analysis showed enrichment in tran

59 an essential and challenging step preceding functional annotation analysis.

60 Gene ontology (GO) functional annotations analysis using Database for Annot

61 ship with chromatin states, gene expression, functional annotation and 3D chromosomal organization.

62 Functional annotation and analysis of modules identified

63 from state-of-the-art in silico methods for functional annotation and assign functions to 66 of the

64 ct nearly every major bee-gut bacterium, and functional annotation and auxiliary metabolic gene disco

65 ) amino acid sequences, domain architecture, functional annotation and available experimental structu

66 ted genes in paired samples were applied for functional annotation and biological significance.

67 many applications in protein classification, functional annotation and evolutionary studies.

68 Functional annotation and gene regulatory information ca

69 This genome collection enabled functional annotation and genus-level taxonomic assignme

70 rioritization method that integrates genomic functional annotation and GWAS test statistics.

71 Our approach to utilize state-of-the-art functional annotation and implement trans-ethnic associa

72 we improved eggNOG online services for fast functional annotation and orthology prediction of custom

73 Functional annotation and pathway analyses showed that g

74 m evidence-supported gene finding as well as functional annotation and pseudogene detection up to the

75 b tools were developed for cluster analysis, functional annotation and survival analysis.

76 F <= 0.05) were evaluated jointly by various functional annotations and 4-kb sliding windows.

77 amework in which we explicitly model various functional annotations and allow for linkage disequilibr

78 uence-based bioinformatics tools, (2) enable functional annotations and enzyme predictions over large

79 ed data, such as predicted sequence domains, functional annotations and functional clustering (known

80 Functional annotations and genome-scale metabolic modell

81 on is thus a suitable framework for tracking functional annotations and linking to complex human path

82 tionary signatures are strongly enriched for functional annotations and phenotypes.

83 MF proteins (238 proteins), using the latest functional annotations and protein-protein interaction n

84 Within the occurrence table, the functional annotations and summaries of the disjunctions

85 Functional annotations and the literature showed that th

86 eir molecular interaction subnetworks, their functional annotations and their association to distinct

87 y by chromosome, minor allele frequency, and functional annotations and to test for enrichment of rar

88 ogy and several pathway databases to enhance functional annotation, and elastic net and a gene expres

89 serves to automate differential expression, functional annotation, and exploratory data analyses to

90 s objective, the composition of tick miRNAs, functional annotation, and expression profiling was char

91 Differential expression, functional annotation, and gene ontology enrichment anal

92 rays, large imputation reference panels, and functional annotation approaches.

93 Importantly, when functional annotations are not predictive of risk status

94 Functional annotations are regularly updated using the m

95 two reasons: (i) unlike genes, isoform-level functional annotations are scarce.

96 These miRNAs, as well as associated functional annotations, are presented in the FuncMir Col

97 Direct incorporation of one functional annotation as weight in existing dispersion a

98 By incorporating functional annotations as predictors, statistical learni

99 Functional annotations as well as correlations with spec

100 4 established EA FG or FI loci with detailed functional annotation, assessed their relevance in AA in

101 onal genomic databases universally store the functional annotations at the gene level.

102 Beyond having no functional annotation, barely detectable transcription i

103 at have emerged for their classification and functional annotation based on expanding and more compre

104 umor formation in xenograft experiments, and functional annotation based on in vitro cell viability a

105 se reported or novel loci, we also performed functional annotations by bioinformatics prediction and

106 The Critical Assessment of Functional Annotation (CAFA) is an ongoing, global, comm

107 conducted the second critical assessment of functional annotation (CAFA), a timed challenge to asses

108 e second round of the Critical Assessment of Functional Annotation (CAFA2), Phylo-PFP demonstrated su

109 method for the third critical assessment of functional annotation (CAFA3), in this paper we propose

110 iors, and show that targeted sequencing plus functional annotation can identify potentially causative

111 After functional annotation, candidate variants were analyzed

112 type and their effect sizes across different functional annotation categories of the genome using sum

113 Functional annotation check on detected outliers demonst

114 gene-disease associations or indirectly via functional annotations, chemicals and pathways.

115 Further, functional annotation clustering analysis revealed the e

116 bio-ontologies, working together to improve functional annotation, computational function prediction

117 With the growing volume of functional annotation data and sequencing variants, exis

118 lay, which includes population frequency and functional annotation data as well as short read support

119 cilitate interpretation, we included various functional annotation data, especially brain eQTL, methy

120 emonstrate in simulations that by leveraging functional annotation data, fastPAINTOR increases fine-m

121 vidence across correlated traits, as well as functional annotation data, to improve fine-mapping accu

122 gion and to incorporate additional layers of functional annotation data.

123 sed with bioinformatics approaches-including functional annotation databases and gene-based and pathw

124 Therefore, comprehensive and dedicated functional annotation databases for TF-DNA interaction a

125 Using SNP-to-gene mapping, functional annotation databases, and functional associat

126 These applications include functional annotation, disease gene prioritization, comp

127 aningful gene clusters consistent with known functional annotation (e.g., the RAS-RAF-MEK-ERK cascade

128 utes haplotype pairs and provides additional functional annotations (e.g. amino acids and KIR ligands

129 he three-dimensional (3D) co-localization of functional annotations (e.g. centromeres, long terminal

130 ormatics pipelines, including structural and functional annotations (e.g., transposable elements and

131 ly allows the visualization and retrieval of functional annotations, estimates of nucleotide diversit

132 top-performing methods in the community-wide functional annotation experiment, CAFA.

133 ctural bioinformatics, machine learning, and functional annotation filters in order to provide intera

134 s with draft genomes available but levels of functional annotation for putative protein products are

135 Additionally, the analysis provided new functional annotation for the currently undercharacteris

136 far uncharacterized yeast genes and provide functional annotation for them.

137 Providing functional annotation for these proteins presents a sign

138 o obtain consistent taxonomic and integrated functional annotations for defined prokaryotic clades.

139 statistics for a meta-analysis; incorporate functional annotations for enhanced discoveries in nonco

140 of the experimental assays, resulting in new functional annotations for more than 1000 genes.

141 re limited in cell resolution by the lack of functional annotations from difficult-to-characterize or

142 evolutionary information from ENSEMBL, with functional annotations from the Encyclopaedia of DNA Ele

143 after conditioning on all genes and 75 known functional annotations (from the baseline-LD model), a s

144 Functional annotation further reveals that these indels

145 embled nuclear chromosomes and contains more functional annotation gene models than previous assembli

146 Functional annotations highlight lipid metabolism and a

147 The importance of functional annotation, how it can be submitted and the s

148 nning needed for more accurate taxonomic and functional annotation in communities of microorganisms,

149 trong candidate genes for sympetaly based on functional annotation in organ boundary specification.

150 this package to reveal associations between functional annotations in an Arabidopsis thaliana gene n

151 hich estimates pairwise associations between functional annotations in biological networks and pathwa

152 er learning framework (tlDLP) to incorporate functional annotations in Gene Ontology (GO).

153 ages diverse types of genomic and epigenomic functional annotations in genetic risk prediction for co

154 Scientists rely on the functional annotations in the GO for hypothesis generati

155 the basis of taxonomical classification and functional annotation including the Comprehensive Antibi

156 For these ~48K FGs, we performed functional annotations including gene assessment across

157 tervals using next generation sequencing and functional annotation, including enhancers, transcriptio

158 Functional annotation indicated that SKAP1 regulates exp

159 ed a web-based tool, Enlight, which overlays functional annotation information, such as histone modif

160 Integrative analysis that incorporates such functional annotations into sequencing studies can aid t

161 Structural and functional annotation is carried out by JGI's genome and

162 an suffer substantial loss of power when the functional annotation is not predictive of the risk stat

163 elationships could not be explained by other functional annotations known to be associated with psych

164 weak linkage disequilibrium in Africans and functional annotation led to the identification of candi

165 nomics Consortium has published whole-genome functional annotation maps in 127 human cell types by in

166 ipeline that improves the reproducibility of functional annotation maps.

167 de a useful guide to quantitatively evaluate functional annotation methods and to detect gene sets wi

168 re-based pipeline and other state-of-the-art functional annotation methods, particularly for targets

169 ghly half of this effect can be explained by functional annotations negatively correlated with LLD, s

170 tilizing the large numbers of structures and functional annotations now available, we have investigat

171 roach for modulating gene expression and for functional annotation of 3'-UTRs in the native context.

172 ccomplishes alignment, variant detection and functional annotation of a 50x human genome in 13 h on a

173 Functional annotation of a set of 106 genes with the hig

174 Functional annotation of bacterial genomes is an obligat

175 Functional annotation of clusters of transcripts with si

176 Functional annotation of differentially expressed genes

177 rated biochemical reactions designed for the functional annotation of enzymes and the description of

178 Rhea has been designed for the functional annotation of enzymes and the description of

179 Functional annotation of gene models identified ortholog

180 Functional annotation of genes remains a challenge in fu

181 d range of applications from therapeutics to functional annotation of genes.

182 ens are powerful tools for the discovery and functional annotation of genetic elements.

183 Substantial progress has been made in the functional annotation of genetic variation in the human

184 Genetic screens are powerful tools for the functional annotation of genomes.

185 Structural and functional annotation of H. schachtii transcriptome led

186 ules is invaluable not only to the automatic functional annotation of large datasets of protein struc

187 As part of the fifth edition of the Functional Annotation of Mammalian Genome (FANTOM5) proj

188 st publication of the fifth iteration of the Functional Annotation of Mammalian Genomes collaborative

189 Functional annotation of metagenomic and metatranscripto

190 Functional annotation of metagenomic sequences identifie

191 novative bioinformatics tool for visualizing functional annotation of miRNA-mRNA pairs in a network,

192 ing (LSI) for prioritization, clustering and functional annotation of miRNAs.

193 cation coverage for different gene features, functional annotation of modified mRNAs, and comparisons

194 te use of our dataset for vaccine design and functional annotation of mutations observed during viral

195 This not only enables the functional annotation of new channel structures as soon

196 that genetic dissection of a complex trait, functional annotation of new genes, and the generation o

197 Biology-based methods have great promise for functional annotation of non-coding RNAs.

198 or predictions from eight different tools on functional annotation of non-coding variants.

199 Functional annotation of novel proteins lags behind the

200 es, as "other," providing a new approach for functional annotation of phage proteins.

201 Functional annotation of proteins exhibiting significant

202 onships between proteins, and thereby enable functional annotation of proteins, we determined changes

203 This technology allows the high-throughput functional annotation of putative regulatory elements in

204 Thus, OncoBase is a useful resource for the functional annotation of regulatory noncoding regions an

205 Exploiting functional annotation of RRBS loci 739 IV.

206 Functional annotation of shotgun metagenomic data has be

207 ime of flight mass spectrometry, followed by functional annotation of the differential proteome data

208 Functional annotation of the genes and miRNAs altered in

209 sequenced genomes is rapidly increasing, but functional annotation of the genes in these genomes lags

210 esis overcomes clonal variance by permitting functional annotation of the genome directly in sister c

211 logies enable high-throughput, reproducible, functional annotation of the genome.

212 ophila and will be a powerful method for the functional annotation of the genome.

213 Improved functional annotation of the human genome and transition

214 hat new tools are required for more accurate functional annotation of the increasing number of ion ch

215 interaction networks will vastly expand the functional annotation of the kinetoplastid genomes, whic

216 Online Mendelian Inheritance in Man, the Functional Annotation of the Mammalian genome 5, the Gen

217 In surveying the Functional Annotation of the Mammalian Genome and Gene E

218 during mouse preimplantation and facilitates functional annotation of the mammalian transcriptome.

219 Sequence-based functional annotation of the protein is inadequate, sinc

220 Our functional annotation of the risk alleles within 15q24.3

221 ing putative functions to genes based on the functional annotation of their co-expressed partners, in

222 Our work provides the first functional annotation of these essential mitochondrial c

223 has a large genome, greater than 230 kb, and functional annotation of these genes is important for id

224 Further expression analysis provided the functional annotation of these lncRNAs in humans and rat

225 he transcriptome are not well conserved, and functional annotation of these sequences is challenging.

226 Functional annotation of these three signals implicated

227 The functional annotation of transcriptomes and identificati

228 me best-practice approaches for the accurate functional annotation of uncharacterized genomic sequenc

229 tes for each hypothesis are available, e.g., functional annotation of variants in genome-wide associa

230 Instead, the functional annotation of variants is typically inferred

231 rs, substantial effort has been put into the functional annotation of variation in human genome seque

232 ides an additional epigenomic anchor for the functional annotation of vertebrate genomes and the stud

233 The uses of pVOGs include functional annotation of viral proteins, identification

234 DisoFun assumes the functional annotations of genes are aggregated from thos

235 arding the experimental characterization and functional annotations of IDPs/IDRs, and is intended to

236 The main bottleneck is that functional annotations of isoforms are generally unavail

237 However, how to distinguish the functional annotations of isoforms, whose annotations ar

238 ral Order of Pathway mutations by leveraging functional Annotations of mutations (PATOPA).

239 ations at the pathway level while leveraging functional annotations of mutations.

240 riefly describe some of the technologies for functional annotations of non-coding variants, including

241 The functional annotations of OGs have been expanded to also

242 tic similarity between proteins based on the functional annotations of proteins; it then predicts fun

243 s of protein C termini is very important for functional annotations of proteomes, while proteome-wide

244 Functional annotations of regulated proteins and measure

245 Functional annotations of the M4 module were consistent

246 f two different miRNAs based on the enriched functional annotations of their target gene sets.

247 Interestingly, the functional annotations of this core set center around re

248 We further performed functional annotation on QRS-associated loci using these

249 knowledge, which excludes genes with little functional annotation or no protein product such as long

250 iotropy (P < 3.3 x 10(-3)) and enrichment of functional annotations (P < 3.3 x 10(-3)) in loci influe

251 cs analysis of the candidates, which include functional annotation, pathway analysis, and protein-pro

252 Here we introduce MetaLAFFA, a functional annotation pipeline designed to take unfilter

253 MetaLAFFA is a new end-to-end metagenomic functional annotation pipeline with distributed computin

254 Currently available metagenomic functional annotation pipelines, however, suffer from se

255 an disease studies, but the lack of accurate functional annotations prevents their interpretation.

256 Conditional analysis and functional annotation prioritized the missense variant r

257 Functional annotations prioritized several dozen genes w

258 the appropriate classifier for the specific functional annotation problem, within the bounds of the

259 Moreover, the functional annotations provided by the FunFams are found

260 Functional annotations, provided for each species, were

261 rpretable) and are significantly enriched in functional annotations related to gene regulation.

262 For CD8+ T-cells, genes with functional annotation relating to lymphocyte differentia

263 unctions exist beyond metabolism and current functional annotations remains an open question.

264 e genome-scale variants in large and complex functional annotation resources.

265 Functional annotation results revealed that both SNPs mi

266 Fine-mapping analyses and functional annotation revealed this variant as likely ca

267 Functional annotation revealed unknown functions (37.2%)

268 ANTHER has expanded the number of different 'functional annotation sets' available for functional enr

269 oped unified tests that can utilize multiple functional annotations simultaneously for integrative as

270 The method combines user-supplied functional annotation such as expression quantitative tr

271 -art tools for discovering LCRs and provides functional annotations such as domain detection, transme

272 Our study identifies a crucial role for functional annotations such as IMPACT to improve the tra

273 Our association results and functional annotation suggest the involvement of new gen

274 Functional annotations suggest that the TNFSF10 gene may

275 Functional annotation suggested that several of these va

276 Functional annotation suggested the role of inflammation

277 Functional annotation supports a regulatory effect on ge

278 lust50 clusters showed better consistency of functional annotation than those of UniRef90 and UniRef5

279 ough many studies have identified non-coding functional annotations that overlap disease-associated v

280 a, which is the root cause of the inaccurate functional annotations that plague databases, functional

281 raw sequencing reads, genome assemblies and functional annotation, the resource provides extensive d

282 Based on functional annotation, these loci included genes encodin

283 Functional annotation thus far did not take into account

284 ciation studies' findings with regulatory or functional annotations to classify features relevant to

285 Annotation Integrator is tailored to adding functional annotations to variant calls; it offers a mor

286 n abundances, domain-domain interactions and functional annotations--to predict alternative forms of

287 Functional annotation using data from ENCODE filtered fo

288 using non-negative matrix factorization, and functional annotation using gene-set enrichment analyses

289 Functional annotation using the ENCODE data indicates th

290 Partitioning heritability across 28 functional annotations, we observe enrichment of heritab

291 considerable number of genes without current functional annotation were among direct targets providin

292 lyses of gene expression profiles as well as functional annotation were performed at 24 hours post ir

293 assembled genomes, longer contigs and better functional annotations when compared to culture-independ

294 Our functional annotations will allow for better interpretat

295 y of high-quality genomes with comprehensive functional annotations will promote advances in clinical

296 r findings showcase the power of integrating functional annotation with genetic data to understand th

297 Functional annotation with publicly available data shows

298 Overall, these systematic functional annotations with epigenomic data improve inte

299 ulticopy gene families is reflected in their functional annotation, with single-copy genes being main

300 This is followed by a functional annotation workflow that combines sequence co