ライフサイエンスコーパス: curation

1 d then prioritization of variants for manual curation.

2 while achieving high accuracy in HPO concept curation.

3 zed definitions frequently derived by manual curation.

4 as database 1.0 using text-mining and manual curation.

5 s to assess the ratio of papers relevant for curation.

6 ve function, and we perform extensive manual curation.

7 l processing to expedite the process of data curation.

8 performing literature data mining and manual curation.

9 users to edit and contribute to the network curation.

10 ide new insights, but requires further human curation.

11 presentative set of mutants, validation, and curation.

12 oblematic gene predictions and to aid manual curation.

13 alternative to available methods and manual curation.

14 ta compiled through comprehensive literature curation.

15 ll as to participate in their assignment and curation.

16 ble of supporting both IMEx- and MIMIx-level curation.

17 isolated internal loops that require further curation.

18 restricted to certain genomes or need better curation.

19 ization and editing tools for efficient data curation.

20 ns, leaving only 13% of the genes for manual curation.

21 ation and their results often require manual curation.

22 ser Interface that also allows user-friendly curation.

23 particle sets and does not require post hoc curation.

24 g regions and efficiently guide their manual curation.

25 rs of the rbcL sequences were modified after curation.

26 rom 15,187 patients without any form of data curation.

27 analysis of deep sequencing data and manual curations.

28 on of residue coverage may help guide future curation activities.

29 The curation also involves encoding models in standard forma

30 uch as read-across requires significant data curation and analysis based on knowledge of relevant tox

31 simply provide access to data, with the data curation and analysis deferred until later and delegated

32 ocused tandem mass spectrometry (MS(2)) data curation and analysis infrastructure.

33 roducible data transparency, streamline data curation and analysis, and increase statistical literacy

34 In-house and web-based third-party sequence curation and annotation have resulted in more than 275 0

35 This methodology enables the curation and annotation of complex experimental morpholo

36 Through expert curation and automated data provisioning from various so

37 a Gene record represents the integration of curation and automated processing from RefSeq, collabora

38 Here, combining both manual curation and automatic pipelines, we present a genome-wi

39 ue of multidisciplinary collaboration in the curation and classification of variants in public locus-

40 blic sequence archives and from computation, curation and collaboration.

41 BioCyc, KEGG and UniPathway, through manual curation and computational methods.

42 omplished via a combination of manual expert curation and computational methods.

43 rent approaches require many hours of manual curation and depend on approaches that are difficult to

44 Curation and development efforts have targeted high qual

45 we have developed a strategy for materials' curation and dissemination.

46 are classified using a combination of manual curation and highly precise automated methods.

47 luded in 2009, using a combination of manual curation and highly precise automated tools, aiming to h

48 elopment of tools facilitating community-led curation and inclusion of the corresponding host target(

49 ncing exposure science through chemical data curation and integration in the Comparative Toxicogenomi

50 ZFIN curators provide expert manual curation and integration of comprehensive data involving

51 The resource is the result of curation and integration of data from the IUPHAR Databas

52 Curation and integration of exposure data within the CTD

53 ted GWASdb which provides comprehensive data curation and knowledge integration for GWAS TASs.

54 grated information from extensive literature curation and large-scale experimental surveys into a dat

55 rmits authors to claim credit for their Pfam curation and link them to their ORCID record.

56 try commons with standardized data handling, curation and metrics.

57 variant burden in complex disorders, and the curation and prioritization of variants in recall-by-gen

58 elease frequency by increasing automation of curation and providing scaling improvements.

59 have established a central platform for the curation and publication of locus-specific databases inv

60 d a dedicated resource with custom tools for curation and publication.

61 odel organisms as well as the lack of expert curation and quality control of the input genomic data.

62 ows; 2) developing new technologies for data curation and quality control; 3) conducting fundamental

63 ticular, we discuss the status of literature curation and recently added data, detail new features of

64 lopment framework to enable community-driven curation and refinement.

65 consider how best to extend community-based curation and screening efforts to approach saturation fo

66 Repository was established in 2015 to enable curation and storage of known BGCs.

67 generated content that could support content curation and targeted interventions.

68 n be utilized to reduce the burden of manual curation and to more comprehensively benchmark automated

69 ses are built on automated or semi-automated curations and can contain various annotation errors.

70 provide infrastructure for data collection, curation, and annotation, and more importantly, to suppo

71 ation parameters, require significant manual curation, and are often not sufficiently adaptable to ca

72 against a combination of computation, manual curation, and collaboration to produce a standard set of

73 lopment, explain current limitations to data curation, and explore new approaches to address the prob

74 methods, inadequate records, unsatisfactory curation, and insufficient public knowledge of relevant

75 and (vi) network graph visualizations, data curation, and sharing are made possible via the compMS(2

76 l or better than features that require human curation, and that a semantic distance measure derived f

77 in PubMed each year are relevant for UniProt curation, and that, despite appearances, expert curation

78 ditional reactions through continuing expert curation, and the development of a new website to serve

79 Our high-resolution curation approach is globally unique, giving substantial

80 ntial for N2 fixation, manual collection and curation are becoming intractable because of the large n

81 t screening methods combined with literature curation are identifying many of the protein-protein int

82 this validates the effort and cost of their curation as well as supports the practice of the type me

83 turn benefits from the continuous community curation available on WikiPathways.

84 Fifty-seven genes were selected for curation based on their frequent inclusion in HCM testin

85 otate these gene-gene interactions; however, curation becomes difficult as the literature grows expon

86 lly-reconstructed draft GENREs still require curation before useful predictions can be made.

87 ofunctional groups (validated against manual curation), but DASP3 gathers and clusters protein sequen

88 fic literature, and partially replace expert curation, but such machine learning frameworks often req

89 Plasmid associated data undergoes ongoing curation by members of the scientific community and by A

90 researchers and students on gene and pathway curation by offering workshops and online tutorials.

91 y based on an interplay of manual literature curation, computational text mining, and genome analysis

92 It has been expanded by manual curation, contains extensive text descriptions providing

93 e and pan-cancer genomic data collection and curation), data types (noncoding RNAs and protein-coding

94 Some of the topics that received intensive curation during this period include cobamides biosynthes

95 eir work and making errors introduced during curation easier to correct.

96 The resource takes advantage of a curation effort aimed at embedding a large fraction of t

97 The curation effort aims at increasing coverage and providin

98 his system represents a fully automated GWAS curation effort and is made possible by a paradigm for c

99 s and Data Services Registry is assured by a curation effort driven by and tailored to local needs, a

100 conserved domain architectures, and a recent curation effort focuses on providing functional characte

101 db was assembled through an extensive manual curation effort, reflecting the combined information of

102 k at hand.Here we present a community-driven curation effort, supported by ELIXIR-the European infras

103 est milestones in our pathway collection and curation effort, we also highlight the latest means to a

104 in, as well as those produced by an in-house curation effort.

105 d filtering pipeline is comparable to manual curation efforts and more sensitive than previously publ

106 This data will contribute to community gene curation efforts and will reduce erroneous and inconclus

107 In the recent past, annotation and curation efforts have helped overcome the challenge in u

108 e of SCOPe, 2.07, we have focused our manual curation efforts on larger protein structures, including

109 The curation efforts that build these individual databases d

110 l need to be rigorously evaluated in ongoing curation efforts to determine their validity as Mendelia

111 tures used for mining literature in database curation efforts.

112 d graphs for each prediction to guide manual curation efforts.

113 hat had previously been identified by manual curation efforts.

114 Community curation enables researchers to contribute data from the

115 egrated into the Genome Reference Consortium curation framework for further improvement, with the ult

116 interactive and efficient phenotype concept curation from clinical text with automated concept norma

117 of disease-gene associations based on manual curation from experimental studies and computational ide

118 Manual curation further increased the number of protein-coding

119 With the well-defined structure and manual curation, Gene Ontology (GO) is the most frequently used

120 CDD curation generates alignment models of representative se

121 ce disease representation and provide expert curation guidance.

122 an information in databases, let alone their curation, has been a difficult problem.

123 Manual curation identified only the subset of publications that

124 ng users to examine how different designs or curation impact a wide range of system behaviours, minim

125 We have focused our efforts on data curation, improved data quality maintenance, new tool de

126 tiating the long-standing practice of manual curation in comparative genomics analyses.

127 and we have created new tools for community curation in response to the ever-increasing volume and c

128 rators and researchers, to support community curation in the fission yeast database, PomBase.

129 e-fueled investigations have placed metadata curation in the hands of researchers with little taxonom

130 ation, and that, despite appearances, expert curation in UniProt is scalable.

131 h serves as an interactive pipeline for data curation, in-depth analysis, and customized visualizatio

132 e transcript models, (ii) updated literature curation, including results from proteomic analyses of m

133 interact with the Catalog and changes to the curation infrastructure.

134 We also highlight diverse functional curation initiatives that support multiple uses of RefSe

135 o advance its practices in data acquisition, curation, integration and efficient data retrieval.

136 a web-based tool that provides an intuitive curation interface for both curators and researchers, to

137 r utilizing this framework and access to the curation interface is available on our website.

138 BioGRID curation is coordinated through an Interaction Managemen

139 Similarly, in model development, data curation is rarely performed with sufficient rigor, part

140 Manual curation is therefore required to correctly represent re

141 CARD curation is updated monthly based on an interplay of man

142 in the number of genomes described, improved curation, mapping of genomes to both NCBI and RDP taxono

143 olism, as well as acting as a semi-automated curation methodology for genome-scale metabolic modeling

144 n 1.75 of the SCOP database, using automated curation methods to classify many structures released si

145 I-ML application development, including data curation, model design, quality control, and clinical te

146 logies are constructed through manual expert curation, NeXO uses a principled computational approach

147 either anonymously or with attribution; and curation occurs after publication, incorporating communi

148 nior participants enabled the generation and curation of 20 000+ annotated tissue regions.

149 lts from 28 366 tumours with complete manual curation of 23 489 individual publications focused on 18

150 tments, and is supported by extensive manual curation of 491 literature citations.

151 Curation of 90 to 127 genetic variants in each participa

152 tematic recording of relevant clinical data, curation of a gene-phenotype knowledge base, and develop

153 er reduces the manual effort required in the curation of a metabolic model.

154 Recent improvements include extensive curation of additional reference sequences and mutations

155 tionally, we performed extensive manual data curation of all entries to improve the annotation qualit

156 ture-based interface assignment with careful curation of available literature.

157 een great progress in the field of automated curation of biomedical networks and models, aided by tex

158 ses for Wikidata, including the crowdsourced curation of biomedical ontologies, phenotype-based diagn

159 Conversely, our curation of cancer genomes (over 12,000) emphasizes know

160 to keep RegulonDB up to date, and initiated curation of ChIP and gSELEX experiments.

161 institution-wide platform for the augmented curation of clinical notes from 77,167 patients subjecte

162 nitourinary disorders will require stringent curation of clinical variant databases and detailed case

163 Thus, the curation of data for molecular networking using a specif

164 with antimalarial activity, and establishes curation of data from screening assays, used routinely i

165 for an infrastructure to enable sharing and curation of data.

166 able improvement to the state of the art for curation of disease-gene-variant relationships.

167 Augmented curation of EHRs suggests that only a minority of COVID(

168 so focus on strengthening the collection and curation of epidemiological and observational data that

169 erials have been proposed and applied to the curation of existing materials.

170 ene expression data benefit from an in-depth curation of experimental intent, resulting in biological

171 The REDfly database provides a comprehensive curation of experimentally-validated Drosophila transcri

172 In GNPS, crowdsourced curation of freely available community-wide reference MS

173 ere enhanced through a combination of manual curation of gene models and the development of an improv

174 used in conjunction with Medusa to guide the curation of genome-scale metabolic network reconstructio

175 s and the interpretation, communication, and curation of imaging-informed information, business decis

176 However, curation of integrated datasets that match a user's part

177 From 2004 to 2012 the IEDB curation of journal articles published since 1960 has ca

178 s researchers to reduce time spent on manual curation of large lists of GO terms, minimize biases int

179 elieve it will be an invaluable tool for the curation of large WGS datasets.

180 Prediction of CYP2D6 phenotype relies on curation of literature-derived functional studies to ass

181 Collectively, we provided a comprehensive curation of metabolic characterization in depression.

182 re tool to support the manual comparison and curation of metabolic models.

183 ntial as a tool for fundamental research and curation of metabolism.

184 software for quality control, filtering and curation of miRNA candidates.

185 In-depth curation of more than 1800 messenger RNAs shows specific

186 By systematic review and curation of multiple lines of evidence, we included almo

187 e ETHNOS software that catalyzes development curation of national/ethnic genetic databases, (ii) the

188 provide an evidence-based framework for the curation of NDD genes based on the level of information

189 ining computer programs and extensive manual curation of OMIM full-text descriptions and original lit

190 nces, revision of the ontological structure, curation of over 500 new AMR detection models, developme

191 ossible causal connections and aiding in the curation of pathway models.

192 iva (rice) as a reference species for manual curation of pathways and extends pathway knowledge to an

193 MTB curators acquire data through manual curation of peer-reviewed scientific literature and from

194 software infrastructure to support the open curation of phylogenetic data by the community of biolog

195 Recent developments include the start of curation of predicted cis-regulatory modules in addition

196 ithm for facilitating the identification and curation of previously known and new metabolic pathways,

197 e knowledgebases that will add value through curation of primary image data.

198 in combination with in-house validation and curation of published literature.

199 Detailed curation of published molecular data is essential for an

200 i and other web services to enable input and curation of published phylogenetic statements.

201 Here, by manual curation of putative loss-of-function (pLoF) variants in

202 most reliable computational methods for the curation of quality multiple sequence alignments since t

203 ce 2017, CARD has expanded through extensive curation of reference sequences, revision of the ontolog

204 ur work represents a step towards making the curation of scientific literature more efficient using a

205 These data permit comprehensive curation of species- and clade-specific variation in miR

206 us constraints associated with biased manual curation of TFs or enhancers.

207 were more than one; and (iii) careful manual curation of the annotation of the COGs, aimed at detaile

208 veloped software for manual labeling and for curation of the automated results.

209 Curation of the biomedical literature in an effort to ex

210 Expert manual curation of the functions of individual E. coli gene pro

211 Two use cases are presented: assisted curation of the GlycoEpitope database, and assessing cov

212 We performed a literature review and curation of the IIS and target of rapamycin signalling p

213 tion information has been obtained by manual curation of the peer-reviewed literature.

214 Manual curation of the primary literature remains a central foc

215 pid, algorithmically guided condensation and curation of the progenitor collection into a high-qualit

216 High-quality curation of the proteins and interactions in signaling p

217 In addition to general curation of the published literature for the major model

218 Through curation of the scientific literature and by collaborati

219 ide a 3D editor and inspector for the manual curation of the segmentation results as well as a progra

220 based cell detection, fast human-in-the-loop curation of these detections, and running of active cont

221 draft metabolic reconstructions, the manual curation of these networks to produce high quality genom

222 Due to the infeasibility of the manual curation of these relations, computational methods that

223 ly enriched true positives among top: manual curation of top 100 metabolites showed a true precision

224 ledgebase with the systematic collection and curation of TSGs in multiple cancer types is critically

225 ated web form to engage the community in the curation of unvalidated TF-binding profiles.

226 Curation of variation and other related information from

227 erage datasets and reduce data filtering and curation on any data.

228 limited developer resources and maximize the curation output.

229 We developed a manual curation paradigm that captures exposure data from the s

230 ce, the annotation profiles of models in the curation pipeline, major infrastructure changes, ability

231 sed on annotation transfer, and to establish curation pipelines for the literature corpus of this org

232 We describe here significant changes in curation policy and a new confidence score, which is ass

233 Also, conservative curation policy recommends minimizing destructive sampli

234 'Pathway View' visualization tool, enhanced curation practices, pilot chemical-phenotype results and

235 ill require visualization, dissemination and curation, preferably from a centralized platform.

236 validations using QUAST software; and (iii) curation: presents methods to finishing assemblies throu

237 The curation problems encountered and the future directions

238 The new annotation interface has made the curation process faster and more effective.

239 Current supervised AI methods require a curation process for data to optimally train, validate,

240 e RNA-Seq and other data types in our manual curation process for vertebrate, plant, and other specie

241 We have described our curation process, demonstrated how exposure data can be

242 ration, text mining tools can facilitate the curation process, increasing accuracy, coverage, and pro

243 a strong emphasis on the transparency of the curation process, the quality and availability of the st

244 and some existing problems with the PHI-base curation process.

245 nclude enhanced efficiency of our literature curation processes and the incorporation of Transcriptio

246 using ad hoc, error-prone and time-consuming curation processes because existing databases of plasmid

247 Building on our manual curation processes, we are introducing new initiatives t

248 jor model species, BioGRID undertakes themed curation projects in areas of particular relevance for b

249 rm makes possible large-scale prediction and curation protein interactions using the conservation of

250 on tools, faceted search infrastructure, and curation provided by the FaceBase Hub offer flexible and

251 mated text-mining approaches, and to enhance curation quality control.

252 regulation processes, a lack of standardized curation, quality control and analysis procedures have h

253 language processing workflow for annotation, curation, query processing, and evaluation.

254 ation and filtering are powerful, but manual curation remains crucial for removing artefacts, and is

255 A number of databases with extensive manual curation represent the current knowledge base for signal

256 bility, which decreases the amount of manual curation required to maintain them.

257 For resource-limited curation, research, and breeding programs of underutiliz

258 Manual curation revealed that 28 variants (15%) had been misann

259 mplementation of AI include the lack of data curation, sharing, and readability; the inability to ill

260 g-lived tradition of deposition and possible curation spanning at least 3500 years, from the Early Br

261 ations as a publicly available resource, CDD curation staff continues to develop hierarchical classif

262 CDD curation staff supplements a comprehensive collection of

263 subcellular localization data sets had four curation steps including a manually built, comprehensive

264 s content increase, entity analysis, revised curation strategies, new website features and expanded d

265 of publicly available datasets, while manual curation, submission and access to private datasets and

266 quence discovery, an automated retrieval and curation system is necessary.

267 rome project, we have developed an automatic curation system to extract genomic knowledge from PubMed

268 The revised curation target since 2012 has been to make recent resea

269 also present a summary of recent and future curation targets.

270 The curation team actively engages researchers and students

271 tilizing an evidence-based framework, 3 gene curation teams blinded to each other's work scored the l

272 tool is now utilized by multiple additional curation teams, all of whom annotate data directly into

273 nt of the evidence scored by the independent curation teams.

274 We applied a curation technique and quality control to find the most

275 the highest quality databases require manual curation, text mining tools can facilitate the curation

276 We showed by manual curation that drug-SE pairs that appeared in both data s

277 base including 1066 fusion genes with manual curation that were compiled from public resources of fus

278 st, experimental interrogation; second, data curation; third, model building and integration; fourth,

279 o ensure that they are as accurate as manual curation, though there are many proteins to which our me

280 s through structured ontologies, to expedite curation through semi-automated text-mining approaches,

281 rm holds tremendous potential for scaling up curation throughput, thus enabling EHR-powered early dis

282 rks are an accurate method that require less curation time, are generalizable to a multiplicity of ce

283 uracy and lead to a significant reduction in curation time.

284 ysis in combination with simultaneous manual curation to achieve near complete assembly and accurate

285 ations that can greatly assist in any manual curation to be performed following the automated reconst

286 implemented in bioinformatic approaches for curation to ensure that metabolic and evolutionary analy

287 Here, we discuss genome curation to improve and, in some cases, achieve complete

288 enebanks need efficient characterization and curation to make them more accessible and usable and to

289 tAct has developed a sophisticated web-based curation tool, capable of supporting both IMEx- and MIMI

290 fforts are arranged in three primary facets: curation, user interface and architecture.

291 Canto supports curation using OBO ontologies, and can be easily configu

292 B), actively participates in the deposition, curation, validation, archiving and dissemination of mac

293 g, optical character recognition, and manual curation, we identified 64,643 pathway figures published

294 After stringent variant curation, we identify 1,455 individuals with high-confid

295 g 100 bp paired-end reads and minimal manual curation, we produce a finished genome sequence for the

296 ubclonal phylogenetic trees by manual expert curation, we show how different configurations of our to

297 g deep sequencing, genome mapping and manual curations, we have characterised the miRNAome of D. magn

298 e name, aliases, phenotype and Gene Ontology curation, whereas other tabs display more in-depth infor

299 gene losses have required significant manual curation, which hampers their scalability for the ever-i

300 ata, typically requiring human oversight and curation, which limit both accuracy and throughput.