ライフサイエンスコーパス: functional annotation

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

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

3 ns based on the similarities and propagating functional annotation.

4 n category within the Critical Assessment of Functional Annotation.

5 applications, particularly similarity-based functional annotation.

6 llowed by de novo transcriptome assembly and functional annotation.

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

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

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

10 This is partially due to limited noncoding functional annotation.

11 es and reinforces its reliability for use in functional annotation.

12 created in 1997, has been a popular tool for functional annotation.

13 types including raw reads, assembly data and functional annotation.

14 model organism databases that have extensive functional annotation.

15 d maximum-likelihood trees, as well as broad functional annotation.

16 encing, creating a significant challenge for functional annotation.

17 y reduces the manual work required in genome functional annotation.

18 rehensive catalogue of protein sequences and functional annotation.

19 about 60% of these proteins have any sort of functional annotation.

20 lections of bacterial proteins have resisted functional annotation.

21 2 to week 104, which is consistent with our functional annotation.

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

23 mbiguity will incur errors in structural and functional annotation.

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

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

26 consequently do not maximize the utility of functional annotations.

27 levels, each with integrated and summarized functional annotations.

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

29 ctivate and repress gene sets sharing common functional annotations.

30 dvances in gene (or gene's product proteins) functional annotations.

31 specific protein domains, beyond our current functional annotations.

32 urce, miRDB, for miRNA target prediction and functional annotations.

33 th molecular immunology data and large-scale functional annotations.

34 nding sites, gene and protein sequences, and functional annotations.

35 ctive scheme to compare and determine genome functional annotations.

36 mation retrieval were used to preprocess the functional annotations.

37 arison by automatically comparing 87% of the functional annotations.

38 oritize potentially causal variants based on functional annotations.

39 acyltransferase, providing directions to our functional annotations.

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

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

42 Its functional annotation, a substantial improvement over pr

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

44 and offers a seamless approach to propagate functional annotation across periodic genome updates.

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

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

47 Functional annotation analyses indicated that a wide var

48 Functional annotation analyses revealed an enrichment of

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

50 ssion versus muscle mass or age changes, and functional annotation analysis identified gene signature

51 Functional annotation analysis of DNA microarray data wa

52 Functional annotation analysis revealed its involvement

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

54 A functional annotation analysis was performed on 241 sele

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

56 Overall, the DFLAT project contributes new functional annotation and gene sets likely to enhance ou

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

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

59 Functional annotation and network analyses using the Ing

60 Functional annotation and pathway analyses showed that g

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

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

63 Small-molecule inhibitors can accelerate the functional annotation and validate the therapeutic poten

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

65 mbryo sac transcriptome when comparing known functional annotations and both shared expressed genes i

66 y induced clusters containing auxin-response functional annotations and clusters exhibiting delayed i

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

68 gene list enrichment analysis using multiple functional annotations and network-based gene prioritiza

69 We show distinct functional annotations and properties of different TF co

70 At least 40 floral-dominant genes lacked functional annotations and thus may be novel floral tran

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

72 f deviations from normality on gene calling, functional annotation, and prospective molecular classif

73 and transporter-encoding genes have credible functional annotations, and this number is even lower in

74 cified in advance, for example, based on SNP functional annotations, and we also provide an adaptive

75 ies, (iv) improvements of the clustering and functional annotation approach, (v) adoption of a revise

76 ge: the lack of the training data--all known functional annotations are at the gene level.

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

78 Functional annotations are provided from source database

79 Functional annotations are regularly updated using the m

80 Previous reports and functional annotations are typically linked by the genom

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

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

83 By incorporating functional annotations as predictors, statistical learni

84 Functional annotations as well as correlations with spec

85 4 established EA FG or FI loci with detailed functional annotation, assessed their relevance in AA in

86 The Developmental FunctionaL Annotation at Tufts (DFLAT) project aims to i

87 Beyond having no functional annotation, barely detectable transcription i

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

89 proaches: multiethnic fine-mapping, putative functional annotation (based upon epigenetic data and ge

90 ification of genes encoding proteins lacking functional annotation, but that are coregulated with cel

91 nnotation extensions improves the utility of functional annotation by representing dependencies betwe

92 ot the same and a scheme to obtain consensus functional annotations by integrating different results

93 lishment of the first Critical Assessment of Functional Annotation (CAFA) was aimed at increasing pro

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

95 cipated in the recent Critical Assessment of Functional Annotations (CAFA) challenge; since then we h

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

97 d and used to define HMMs, but gene ontology functional annotations can now be made at any node in th

98 After functional annotation, candidate variants were analyzed

99 e with an improved query structure, enhanced functional annotation categories and flexible output pre

100 Functional annotation check on detected outliers demonst

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

102 established bioinformatics methods based on functional annotation, cis-acting expression quantitativ

103 Functional annotation cluster analysis revealed broad on

104 Functional annotation clustering demonstrated significan

105 Based on the functional annotation comparison results, we designed a

106 In the functional annotation comparison section, we employed ge

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

108 fforts have resulted in a rich collection of functional annotation data of diverse types that need to

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

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

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

112 se of ontologies to integrate structural and functional annotation data.

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

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

115 earch bias in biology, the regularly updated functional annotation databases, i.e., the Gene Ontology

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

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

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

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

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

121 al variation in pathogen sensing and provide functional annotation for genetic variants that alter su

122 omain classification is an important step in functional annotation for next-generation sequencing dat

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

124 T phylogenetic placement is used to derive a functional annotation for the query, including confidenc

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

126 and genome, and is an expansive resource of functional annotations for biomedical research.

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

128 Functional annotations for genomic elements are curated

129 based tool that provides an aggregate set of functional annotations for genomic variation data by cha

130 These predictions provide specific functional annotations for large amounts of human non-co

131 is the primary source for evidence-supported functional annotations for mouse genes and gene products

132 s and maintains the comprehensive listing of functional annotations for mouse genes using the Gene On

133 (GRCm38), improved access to comparative and functional annotations for mouse genes with expanded rep

134 Functional annotations for the subnetwork signature incl

135 method is capable of inferring high-quality functional annotations from curated phenotype data.

136 utomated scheme that is capable of comparing functional annotations from different sources and conseq

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

138 pes, using statistical methods to suggest GO functional annotations from existing MP phenotype annota

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

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

141 ra of sequence variants in relation to their functional annotation, gene position, pathway and conser

142 sources such as protein domain, interactome, functional annotation, genome-wide gene expression, and

143 Functional annotations highlight lipid metabolism and a

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

145 More recent works have shown that genomic functional annotations (i.e., localization of tissue-spe

146 Functional annotation identified genes encoding proteins

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

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

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

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

151 Functional annotation indicated enrichment for extracell

152 Functional annotation indicated that SKAP1 regulates exp

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

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

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

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

157 This readjustment of fdr based on functional annotations is achieved empirically by fittin

158 tion, it automatically determined 87% of the functional annotations, leaving only 13% of the genes fo

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

160 ipeline that improves the reproducibility of functional annotation maps.

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

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

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

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

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

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

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

168 Functional annotation of affected genes was improved by

169 The functional annotation of all completely sequenced genome

170 Using functional annotation of Arabidopsis (Arabidopsis thalia

171 Functional annotation of bacterial genomes is an obligat

172 The automated functional annotation of biological macromolecules is a

173 ALL and provide a general framework for the functional annotation of cancer epigenomes.

174 viral-transposon systems may accelerate the functional annotation of cancer genomes by enabling inse

175 multiplexed format that will facilitate the functional annotation of cancer genomes.

176 Functional annotation of clusters of transcripts with si

177 is supports our results and gives a detailed functional annotation of different stages, tissues and c

178 interaction networks, and can be useful for functional annotation of disease-associated SNPs.

179 efore, our work provides a blueprint for the functional annotation of diverse bacteria using mutant f

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

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

182 to continuously improving the structural and functional annotation of Escherichia coli K-12, one of t

183 genetics and human genomics facilitates the functional annotation of evolutionarily conserved genes

184 Functional annotation of gene models identified ortholog

185 As a step toward functional annotation of genes required for floral initi

186 ver, can be jeopardized because of imperfect functional annotation of genes, and ambiguity in the ass

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

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

189 ings highlight the importance of integrating functional annotation of genetic variants for gene expre

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

191 Functional annotation of genomic variations and the abil

192 isoform functions, enabling high-resolution functional annotation of human transcriptome.

193 Broader functional annotation of known as well as putative genet

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

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

196 Functional annotation of metagenomic and metatranscripto

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

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

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

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

201 assively parallel approaches can improve the functional annotation of noncoding sequences, advance ou

202 lated to sets of homologous proteins help in functional annotation of novel protein families and in i

203 transcription factor (TF) binding sites and functional annotation of peak associated genes.

204 The ongoing functional annotation of proteins relies upon the work o

205 dwide structural genomics efforts facilitate functional annotation of proteins through structural cha

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

207 light how combined sequencing and systematic functional annotation of rare variation at GWAS loci can

208 We developed a method for massively parallel functional annotation of sequences from 3' UTRs (fast-UT

209 The functional annotation of sequences in the Critical Asses

210 Broader functional annotation of single nucleotide variations is

211 ovided a three-dimensional (3D) template for functional annotation of the AAV5 capsid with respect to

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

213 Functional annotation of the differentially expressed ge

214 Functional annotation of the genes and miRNAs altered in

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

216 ditional cultured cell types will facilitate functional annotation of the genome and expand our view

217 Other highlights include progress on functional annotation of the genome and the release of s

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

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

220 Improved functional annotation of the human genome and transition

221 a of DNA Elements (ENCODE) and data from the Functional Annotation of the Mammalian Genome (FANTOM5)

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

223 Functional annotation of the network showed an over-repr

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

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

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

227 The functional annotation of transcriptomes and identificati

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

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

230 Comprehensive functional annotation of vertebrate genomes is fundament

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

232 Functional annotations of domain families revealed that

233 Functional annotations of Fam20C substrates suggest role

234 vidence from large association data sets and functional annotations of genetic variants.

235 us groups thus extending its applications to functional annotations of genomes and protein families.

236 r analyzing and reviewing the structural and functional annotations of genomes in a comparative conte

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

238 (i) Functional annotations of non-coding SNPs mapped by GWAS

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

240 The functional annotations of OGs have been expanded to also

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

242 Functional annotations of regulated proteins and measure

243 s prior information about gene element-based functional annotations of SNPs, so that SNPs from catego

244 Functional annotations of the M4 module were consistent

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

246 Analysis of functional annotations of these proteins indicates that

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

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

249 es developed that is still widely in use for functional annotation, pathway analysis, and, most impor

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

251 roteins provides preliminary information for functional annotation, protein design and ligand optimiz

252 stigated 412 candidate signals and leveraged functional annotation, protein structure modeling, epige

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

254 Genic-SSR's coupled with the functional annotations provided by the unigenes will aid

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

256 Functional annotation represents a key step toward the u

257 nd consequently obtaining a consensus genome functional annotation result.

258 signed a decision tree to obtain a consensus functional annotation result.

259 However, the functional annotation results from different services ar

260 Functional annotation results revealed that both SNPs mi

261 Functional annotation revealed unknown functions (37.2%)

262 mprises data retrieval services for specific functional annotations, services to search across the co

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

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

265 tion in various in silico GPCR screening and functional annotation studies.

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

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

268 Functional annotations suggest that the TNFSF10 gene may

269 Functional annotation suggested that several of these va

270 e function, offers perhaps the most suitable functional annotation system for this purpose.

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

272 DFLAT has produced a considerable body of functional annotation that we demonstrate provides valua

273 idate gene association studies of cancer and functional annotations that link genes containing mutati

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

275 Although CT263 lacks sequence-based functional annotation, the crystal structure of CT263 di

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

277 The plugin displays these novel functional annotations, their confidence, the molecular

278 Based on functional annotation, these loci included genes encodin

279 ing 'dcGO Predictor', can be used to provide functional annotation to protein sequences.

280 uce a computational approach that uses known functional annotations to extract genes playing a role i

281 biochemical data to assign fully consistent functional annotations to orthologous genes, particularl

282 a on TF-binding sites, chromatin markers and functional annotations to predict genes associated with

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

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

285 e has been integrated with data from genomic functional annotations, trancriptomic experiments, prote

286 sing definitions of homology associated with functional annotation transfer, we estimate that conserv

287 Functional annotation using data from ENCODE filtered fo

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

289 gene, and are therefore good candidates for functional annotation using mutant fitness.

290 Functional annotation using the ENCODE data indicates th

291 For 57 of these genes without a specific functional annotation, we found additional evidence to s

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

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

294 supervised learning requires 'ground-truth' functional annotations, which are lacking at the isoform

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 obal hypo-acetylation at H3K9 and changes in functional annotation with highly significant representa

298 Functional annotation with publicly available data shows

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

300 eration of various quantities of contigs and functional annotations within the selection window of k-