ライフサイエンスコーパス: annotate

1 AT, 25 684+/-14 276 EGMs were automatically annotated.

2 to 100,982 unigenes and 59,509 unigenes were annotated.

3 ave been identified are not yet functionally annotated.

4 ean American individuals (SNP rs1633266) was annotated.

5 arge part of its transcriptome has yet to be annotated.

6 urally unique lipid species are detected and annotated.

7 and cause of treatment discontinuation were annotated.

8 Mb anchored into nine pseudo-chromosomes and annotated 29 229 gene models.

9 Using this information, we have annotated 291 previously undescribed or only partially a

10 nus excelsior tree from Gloucestershire, UK, annotating 38,852 protein-coding genes of which 25% appe

11 At 5 microM, the small molecule annotated 3F1 dispersed 50% of the established S. mutans

12 , mRNA isoforms with 3' ends that lie within annotated 5'-UTRs were overrepresented in polysomes and

13 A thoracic radiologist annotated 89 semantic image features of each patient's t

14 transcriptome data were used to produce and annotate a high-quality reference genome sequence.

15 We annotated a list of 93 CNVs and compared their frequenci

16 Kyriacou et al. manually annotated a subset of our recordings and reported that t

17 fera reference transcriptome and 11,084 were annotated against V. v. vinifera reference genome.

18 By objectively annotating all approximately 20,000 compounds in the LIN

19 manually checked confirming that Glycoforest annotated an additional 50 MS/MS spectra overlooked duri

20 We developed a framework to automatically annotate, analyze, visualize and easily share whole-brai

21 offers a powerful computational approach to annotate and interpret the noncoding genome.

22 rface analysis (LESA)-MS(2)I, to confidently annotate and localize a broad range of metabolites invol

23 f loss-of-function transcripts), a method to annotate and predict the disease-causing potential of lo

24 Here we report a crowdsourcing project to annotate and reanalyse a large number of gene expression

25 Pro, increase the overall number of residues annotated and allow more specific functional inferences.

26 Herein, we annotated and analyzed 72 HAdV genotypes for the HAdV TP

27 Moreover, 25 genes encoding SMPs were annotated and characterized that are involved in CaCO3 c

28 The assembled 84,055 unigenes were annotated and classified functionally based on protein d

29 Our analysis of annotated and de novo assembled lncRNAs showed many are

30 gions of 13 previously untreated, clinically-annotated and genetically-defined high grade gliomas.

31 segmenting both templates and nlTPMs; and 4) annotated and labeled these structures using an existing

32 We also putatively annotated and mapped the subcellular localization of 29

33 Loci transcribing both lineage-specific annotated and novel lncRNA are adjacent to lineage-speci

34 ome RNA-sequencing to profile mRNAs and both annotated and novel long noncoding RNAs (lncRNAs) in hum

35 nt and tree estimation can incorporate newly annotated and publically available plastomes and can acc

36 s in the GEUVADIS samples and show that both annotated and unannotated (novel) expressed regions exhi

37 GLANET annotates and performs enrichment analysis on these loci

38 etMSSpectrum assisting in the common task of annotating and evaluating in-source mass spectra as obta

39 We identified 411 (198 annotated) and 27 (15 annotated) enriched mRNAs at the v

40 includes a metadata harvester to regularize, annotate, and preserve workflows and facilitate and enha

41 avirus genomes within PaVE have been further annotated, and now includes the major spliced mRNA trans

42 ne resource for computing, storing, sharing, annotating, and comparing GWAS.

43 study, we sought to establish a pipeline for annotating antibiotic resistance genes (ARGs) based on m

44 et of loss-of-function mutants for the three annotated Arabidopsis (Arabidopsis thaliana) DHARs.

45 We applied CrY2H-seq to investigate sparsely annotated Arabidopsis thaliana transcription factors int

46 cluding a DNA methylase and four other genes annotated as a helicase domain, a phospholipase D (PLD)

47 responsible gene at LGS1 codes for an enzyme annotated as a sulfotransferase and show that functional

48 g partner in spirochetes-a member of pgf 54, annotated as BBI39.

49 Approximately one thousand proteins are annotated as being palmitoylated, and for some of these,

50 s among vlhA alleles, as well as among genes annotated as coding for a cell wall surface anchor prote

51 v2466c gene encodes an oxidoreductase enzyme annotated as DsbA.

52 erved FBS-derived RNA species can be falsely annotated as human or mouse transcripts.

53 cell activation markers, and numerous genes annotated as interferon (IFN)-inducible.

54 tified 206 proteins that were not previously annotated as localized to mitochondria.

55 nic DNase I hypersensitive sites (DHSs) were annotated as noncoding, with 24% in intergenic, 12% in p

56 te in light were identified, 35 of which are annotated as photosynthesis genes.

57 Both mammalian proteins are annotated as RNA transporters in databases.

58 s (ssp1, 2 and 3) encoding proteins that are annotated as SSPs and that exhibited of 4,500- fold exp

59 YubA and YubD are annotated as transporters and may also be targets becaus

60 commonly controls the expression of proteins annotated as urea carboxylases and multidrug efflux pump

61 Over half of these variants are annotated as VUS by clinical diagnostic laboratories.

62 cessing software to automatically detect and annotate band sizes, calculate average TL, as well as th

63 Moreover, several genes were functionally re-annotated based on domain signature, indicating novel ca

64 with up to four additional oxygen atoms were annotated based on the accurate mass recordings (1.5 ppm

65 lding accurate classifiers for automatically annotating behaviours may allow for the examination of i

66 BI's Conserved Domain Database (CDD) aims at annotating biomolecular sequences with the location of e

67 , predicts lncRNA candidates, quantifies and annotates both known and novel lncRNA candidates, and ge

68 subjects with moderate to severe asthma were annotated by gene set variation analysis using 42 gene s

69 32 MS/MS previously unannotated spectra were annotated by Glycoforest.

70 Among the unigenes, 29.03% were annotated by one or more databases, suggesting their wel

71 n screening in a large number of genomically annotated cancer cell lines.

72 orks, it is therefore critical to accurately annotate cell type-specific TSS and PAS.

73 nterest in the construction of automatically annotated chemical knowledge bases that integrate chemic

74 An annotated chemical library, the library of pharmacologic

75 idden Markov model, diHMM, to systematically annotate chromatin states at multiple length scales.

76 )ribose-1-phosphate isomerase (MtnA), and an annotated class II aldolase-like protein (Ald2) to form

77 nalyses considerably increased the number of annotated CLE peptides in the model legume species, M. t

78 ns between several enhancers and genes whose annotated clinical features are strongly associated with

79 These results suggest that the annotated coding indels from the 1000 Genomes Project, w

80 CLS approximately doubled the annotated complexity of targeted loci, outperforming exi

81 Data were tracked with annotated control charts and with interrupted time-serie

82 ut in other characteristics similar to their annotated counterparts.

83 ethod both by comparison to EM gold standard annotated data and by examining its capacity to reproduc

84 Pathway Analysis (IPA) database, containing annotated data from the public domain.

85 Education Partnership produces high-quality annotated data sets and analyses that could not be gener

86 cate this finding and show that the manually annotated data, the original automatically segmented dat

87 By curating and annotating data from the literature and major public dat

88 phenotypes, which we share in an open-access annotated database.

89 itecture, and was evaluated using a manually annotated dataset of the University of Pittsburgh Medica

90 hile individual groups have made customized, annotated datasets available on the web with few ways to

91 NER systems require task-specific, manually-annotated datasets, which are expensive to develop and t

92 ease database is an integrated compendium of annotated diseases mined from 68 data sources.

93 omes with Microbiome Samples system contains annotated DNA and RNA sequence data of (i) archaeal, bac

94 We annotated each predicted gene within the QTL and found t

95 Three physicians annotated each segment for the highest mobility level.

96 sibility and sidechain hydrogen bonds, XSuLT annotates each amino acid residue with residue depth, ch

97 ble, publication-quality graphics focused on annotating each gene fusion at the transcript- and prote

98 We then employed this strategy to annotate eight unknown compounds from cancer studies and

99 We identified 411 (198 annotated) and 27 (15 annotated) enriched mRNAs at the vegetal and animal pole

100 that cell's chromatin accessibility code and annotate every mutation in the genome with its influence

101 POSTAR annotates every transcript and its RBP binding sites usi

102 enomes from picozoans and colponemids and re-annotated existing mitochondrial genomes using hidden Ma

103 al report, built with a comprehensive set of annotated files that are navigated through a graphic use

104 me: the new start codon is in the previously annotated first intron.

105 e of Molecular Cell, Phanstiel et al. (2017) annotate five classes of loops during macrophage develop

106 Genes carrying promising variants were annotated for 1) reported associations with facial devel

107 catalytic activity and reversed in proteins annotated for binding and transcription regulatory activ

108 This relationship is prominent for proteins annotated for catalytic activity and reversed in protein

109 and saved aligned reads in a uniform format, annotated for cell of origin.

110 that the majority of proteins have not been annotated for fold classification.

111 ost-translational modifications, as manually annotated from 48 114 publications.

112 random forest algorithm trained on epitopes annotated from antibody-antigen protein structures.

113 n the task, we annotated the Colorado Richly Annotated Full Text (CRAFT) corpus with coreference rela

114 The L1Base database contains annotated full-length sequences of LINE-1 transposons in

115 Annotated functions of these three genes suggest their c

116 te utility, we build and analyze a condition-annotated GCN from a compendium of 2,016 mixed gene expr

117 gth of statistical association, proximity to annotated gene models, and root or nodule expression.

118 dite flowers, identified new loci outside of annotated gene models, suggesting their involvement in s

119 dite flowers, identified new loci outside of annotated gene models, suggesting their involvement in s

120 is a significant depletion of these genes in annotated gene sets.

121 zed, resulting in the correction of 2241 mis-annotated genes and the identification of 8091 previousl

122 PIECE 2.0 contains annotated genes from 49 sequenced plant species as compa

123 ain diversity (n = 21 sequence types, 18% of annotated genes in the core genome); substantial plasmid

124 he transcriptome comprised 28,294 expressed, annotated genes, 78 novel protein-coding genes, and 567

125 ded a 52.5 Mbp genome with 8153 functionally annotated genes.

126 s were found to harbour potentially relevant annotated genes.

127 CNV regions (CNVRs), overlapping with 1,522 annotated genes.

128 Several tools have been developed to annotate genetic variants by their genomic location and

129 m of action of small molecules, functionally annotate genetic variants of disease genes, and inform c

130 endophenotype traits with systems biology to annotate genetic variants, and to facilitate discovery o

131 Our Java based solution loads annotated genetic variants and well phenotyped patients

132 for visualizing synteny between two or more annotated genome assemblies.

133 The reported transgenesis method and annotated genome sequence will permit sophisticated gene

134 rop Sorghum bicolor has a sequenced and well-annotated genome, making it an ideal monocot model for a

135 es in the plant molecular toolkit, including annotated genomes, high-throughput omics profiling, and

136 le to visualize synteny across any number of annotated genomes.

137 Our analysis of 88 clinically annotated HBs revealed three risk-stratifying molecular

138 s-approach to interrogate a panel of 14 well-annotated HGS-OvCa patient-derived xenografts for sensit

139 to be updated due to the high prevalence of annotated homozygous indels in the general population.

140 sequences of lincRNAs are collected from the annotated human DNA genome data.

141 ), which provides voxel-conjugate FM and EM (annotated) images of the same individual synapses.

142 asses of the eight ontologies that have been annotated in earlier versions of the CRAFT corpus.

143 nical cohorts and that WDR26 might be poorly annotated in exome variant-interpretation pipelines, we

144 ues capturing approximately 70% of the genes annotated in maize RefGen_v3 genome.

145 r enrichment for disease susceptibility loci annotated in the genome-wide association studies (GWAS)

146 to examine transcription of the 43,673 genes annotated in the Xenopus laevis genome under a variety o

147 events involving half of the 326 TE families annotated in this plant species.

148 ence for many more splice junctions than are annotated in WormBase, with many of these suggesting alt

149 The main AAGs could be annotated, including bullatacin (rolliniastatin-2) and a

150 quence was incorporated, the number of genes annotated increased 24% to 34 211, average gene length a

151 renhancers, which can be navigated to obtain annotated information about superenhancer signal profile

152 We annotated internal promoter usage in operons using SL1 a

153 ribe an automated computational framework to annotate ions for possible chemical identity using a mul

154 periments from sample extracts can assist in annotating ions, the spatial information about these mol

155 f supporting full-length reads with those of annotated isoforms and explore the translational capacit

156 s to be able to accurately and automatically annotate ISs in prokaryotic genome sequences.

157 at bidirectional promoters and functionally annotate known and novel regulatory lncRNAs.

158 Driven by those newly annotated lincRNA data, deep learning methods based on a

159 LipidMatch allows users to annotate lipids across a wide range of high resolution t

160 Depletion of the annotated lncRNA, IFNG-AS1, or one IFNG enhancer-associa

161 r validated our findings in TCGA dataset and annotated lncRNAs using TANRIC.

162 ), an alignment-free program that accurately annotates lncRNAs based on a Random Forest model trained

163 The 1293 segregating SNPs were annotated/located within genes for various ion channels,

164 Each entry of ADPriboDB is annotated manually by at least two independent curators

165 inked glycomes) for which MS/MS spectra were annotated manually.

166 econstructed a comprehensive, validated, and annotated map of signal transduction pathways in inflamm

167 on, and graphically summarizes results as an annotated mass spectrum.

168 cases to affect the correct rank of the MoNA annotated metabolite.

169 Using annotated metadata and responses to a set of voltage-cla

170 rive an atomic model from a cryo-EM map with annotated metadata.

171 Finally, we report a list of potentially mis-annotated miRNAs in miRBase based on their aggregated mo

172 This study provides complete, annotated mitogenomes of two additional cicadellid, spec

173 ons, the distributions of over 80 putatively annotated molecular species are determined with 40 mum s

174 potential of PDX drug response evaluation to annotate MS-based pathway activities.

175 ively, de novo peptide sequencing algorithms annotate MS/MS spectra and deduce peptide/protein inform

176 We show that heavily annotated ('multifunctional') genes are likely to appear

177 Overall, our data annotated multiple genes to previously reported CKD-asso

178 ient multicloud based solution to detect and annotate mutations.

179 variant analysis workflow for detecting and annotating mutations using cloud resources from differen

180 r each strain were annotated using the fully annotated Mycoplasma reference genome.

181 We showcase our workflow by annotating N-methyl-uridine monophosphate (UMP), lysomon

182 We discuss several leading methods for annotating noncoding variants and how they can be integr

183 e tumor models may be useful to functionally annotate novel lncRNAs, especially cancer-associated lnc

184 Here, we annotate observed k-turn motifs within a non-redundant R

185 ified 16 neuronal subtypes that were further annotated on the basis of known markers and cortical cyt

186 n the genome of Bam35, nearly half of the 32 annotated open reading frames (ORFs) have no homologs in

187 InterVar can take a pre-annotated or VCF file as input and generate automated in

188 their gradient distribution to those of well-annotated organelle marker proteins.

189 e in genetic statistical dependencies within annotated pathways between drug sensitive and drug non-s

190 ility parameters (600 m/s, 40 V), 90% of the annotated peptides occupied just 23% of the ion mobility

191 action data as input, with output containing annotated phase information and refined structure models

192 most rheostats are not, predictors appear to annotate position conservation better than mutational ef

193 represents an early effort to systematically annotate post-transcriptional regulatory maps and explor

194 Here, we present MAPPIN (Method for Annotating, Predicting Pathogenicity, and mode of Inheri

195 With this protocol, we identify and annotate previously undescribed molecular interactions b

196 Notably, 17 of them are previously annotated promoters of functionally unrelated genes, and

197 open-reading frames (altORFs) in addition to annotated protein coding sequences (CDSs).

198 ed in MiD51/Mief1/SMCR7L, a gene encoding an annotated protein promoting mitochondrial fission.

199 roteogenomics: (i) generation of customized, annotated protein sequence databases from RNA-Seq data;

200 This increased the number of annotated protein-coding genes by 14% (from 3612 to 4113

201 pts (>200 nt) from the intergenic regions of annotated protein-coding genes.

202 nd translation were observed for all but 265 annotated protein-coding genes.

203 canonical and led to N-terminal extension of annotated proteins or translation of upstream small open

204 First, it determines the set S r of annotated proteins that is semantically similar to p by

205 atching the molecules representing p and the annotated proteins.

206 enotype, we insertionally inactivated the 14 annotated PTS EIIC-encoding genes in the GAS MGAS5005 ge

207 ps, allow for linkage group comparisons, and annotate QTL regions.

208 ch can be expected to yield the 5-10 million annotated reads necessary for accurate abundance measure

209 geted metabolomics that relies on thoroughly annotated reference data sets.

210 A well-assembled, annotated reference genome is a central resource for pur

211 anisms or samples lacking a complete or well-annotated reference sequence set.

212 s and flexible options, the time it takes to annotate regions, an artificial one-to-one region-to-ann

213 xel-by-pixel evaluation compared to manually annotated regions of invasive ductal carcinoma.

214 tative promoters, many of which mapped to un-annotated regions of the complex, segmented genome.

215 cs approaches, the inability to structurally annotate relevant features and map them to biochemical p

216 w data sequencing into a comprehensive final annotated report of predicted superenhancers.

217 50% of active SINE elements residing within annotated RNA Polymerase II loci.

218 orferi and characterization of previously un-annotated RNA transcripts expressed by the spirochete du

219 ntribute to natural phenotypic variation and annotated roles and interactions of miRNAs and their tar

220 Individually annotated RTnS reads can be used to infer the evolutiona

221 In light of these functions, we annotated Rv2672 as mycobacterial secreted hydrolase 1 (

222 is limited access to high-quality, expertly annotated seizure data from prolonged recordings.

223 scription site is found by feeding the whole annotated sequences through the deep learning machine, w

224 ncing data from 1000 Genomes Project, KGGSeq annotated several thousand more reliable non-synonymous

225 NIH sponsored project intended for managing, annotating, sharing, and quantitatively analyzing digita

226 nomeVIP's ability to provide high-confidence annotated somatic, germline, and de novo variants of pot

227 las from accurate m/z values, was helpful to annotate specific compounds, such as alkaloids, saponins

228 All automatically annotated spectra output by the workflow are provided in

229 Although software has been introduced to annotate spectral degeneracy, current approaches are una

230 eported in metabolomic databases do not have annotated spectral data from standards.

231 predict how likely distant mutations around annotated splice sites were to disrupt splicing.

232 evaluating the data often involves manually annotating structures of interest.

233 A common analysis step is to annotate such genomic regions to genomic annotations (pr

234 ption from areas of the genome not currently annotated suggests active transcription of previously un

235 inciples, we used an alternative approach to annotate susceptibility loci and identify candidate gene

236 Annotated TCR sequences, previously associated with self

237 se time series derived from large corpora of annotated texts dating from the 12th to 21st centuries t

238 However, these models do not annotate the actual density values of the atoms nor thei

239 reverse genetic screens to help functionally annotate the Ae. aegypti genome.

240 yadenylation site sequencing (PAS-seq) to re-annotate the bamboo genome, and identify genome-wide alt

241 l information of high-resolution homologs to annotate the base-pairing interactions in the low-resolu

242 rs can assemble their raw sequence reads and annotate the contigs using RASTtk.

243 rithm to rapidly process and then accurately annotate the extremely large progenitor transposon inser

244 del and non-model organisms has been used to annotate the human genome and to increase the understand

245 ChromHMM helps to annotate the noncoding genome using epigenomic informati

246 s, it becomes an important task to track and annotate the sources of this activity: full length eleme

247 and to increase performance on the task, we annotated the Colorado Richly Annotated Full Text (CRAFT

248 In this study, we sequenced, assembled, and annotated the genomes of 2 C. amylolentus isolates, CBS6

249 s for transgenic reporters, we assembled and annotated the M. lignano genome, including genome-wide m

250 Here we sequenced and annotated the nearly complete mitochondrial genomes of f

251 tegrative omics and biochemical analyses for annotating the functions of poorly characterized signali

252 (reference epigenomic datasets), effectively annotating the genome with epigenomic properties.

253 nged to develop fast and effective method to annotate their subcellular localization.

254 iple experiments onto the annoPeak server to annotate them with biological context, identify associat

255 e a large number of miRNAs have already been annotated, there may well be large numbers of miRNAs tha

256 ly connected clusters within the network and annotate these clusters using a database of over 20 mill

257 We functionally annotate these pQTLs, predict and experimentally confirm

258 h segment, we determined its weakest link by annotating timemin, powermin, Delta-Impmin, CFmin, FTImi

259 otein level by immunostaining for CYP27A1 in annotated tissue microarrays.

260 ine DNA methylation of 12 CpG sites that was annotated to 9 genes [e.g., mitogen-activated protein ki

261 crease in lead exposure; p=2.3x10-7) and was annotated to C-Type Lectin Domain Family 11, Member A (C

262 increase in lead exposure; p=1.1x10-06), was annotated to Dynein Heavy Chain Domain 1 gene (DNHD1) wh

263 ecificity of a new class E sortase (SavSrtE) annotated to perform housekeeping roles in Streptomyces

264 multiple genomic locations, including probes annotated to SKI (involved in neural tube development),

265 , ANKS3 were associated with GGT and 1 probe annotated to SLC7A11 was associated with ALT after Bonfe

266 Eight probes annotated to SLC7A11, SLC1A5, SLC43A1, PHGDH, PSORS1C1,

267 The 2 variants annotated to the genes hedgehog interacting protein (HHI

268 Genetic variants annotated to the hedgehog interacting protein (HHIP) are

269 From this dataset 81,064 transcripts were annotated to V. v. vinifera reference transcriptome and

270 291 previously undescribed or only partially annotated transcript isoforms, including eight novel ant

271 "missing cache" of splicing regulators among annotated transcription factors, some of which dually re

272 arge CpG-rich NFRs that extend downstream of annotated transcriptional start sites are nevertheless b

273 RNA-sequencing and produced a comprehensive annotated transcriptome assembly for L. granatensis.

274 These data broadly extend the annotated transcriptome, identify 40,000 novel 3' term

275 n quantitative trait loci (eQTLs) across all annotated transcripts were mapped and examined for enric

276 produced by RNAseq, containing over 140,000 annotated transcripts, including metabolic and adipocyto

277 In addition to the annotated translation initiation sites (TISs), the trans

278 , 223 transcriptional factors (TFs), and 155 annotated transporter proteins exhibited differential ex

279 than the next comparable method (In-seq) for annotating transposon mutant collections by combinatoria

280 iption of thousands of treatment-induced non-annotated TSSs (TINATs) following DNMTi and HDACi treatm

281 We here present a systematic workflow for annotating unknown epimetabolites using high resolution

282 alleles might be systematically functionally annotated using morphological profiling of cDNA construc

283 The collective contigs for each strain were annotated using the fully annotated Mycoplasma reference

284 th a G+C content of 35% and 2,704 genes, was annotated using the NCBI Prokaryotic Genomes Automatic A

285 f a set of randomly selected 210 metabolites annotated using xMSannotator in an untargeted metabolomi

286 producibly tallying, filtering, flagging and annotating variants.

287 In addition, we annotated various classes of non-coding RNA including mi

288 yses, we created novel tools that analyze or annotate VCF files and organized these tools into a comm

289 We developed annoPeak, a web application to annotate, visualize and compare predicted protein-bindin

290 dated by genetic mapping of 54,000 SNPs, and annotated with 26,661 predicted protein-coding genes.

291 Facial photographs annotated with automated measurements of eyelid position

292 The corpus was manually annotated with coreference relations, including identity

293 te between different epi-allelic haplotypes, annotated with CpG methylation status and DNA polymorphi

294 on results and more than 300 000 images, all annotated with detailed and standardized metadata.

295 r schemes such as Kabat and Chothia and then annotated with key information such as complementarity-d

296 iated SNPs, of which only 20 were previously annotated with known bZIP motifs.

297 Uniclust sequences are annotated with matches to Pfam, SCOP domains, and protei

298 on, raw counts) as well as sample attributes annotated with ontology terms.

299 enomic loci with regulatory potential can be annotated with various properties.

300 s of long noncoding RNAs (lncRNAs) have been annotated, yet their functions remain unclear.