ライフサイエンスコーパス: curation

1 ta compiled through comprehensive literature curation.

2 ll as to participate in their assignment and curation.

3 zed definitions frequently derived by manual curation.

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

5 isolated internal loops that require further curation.

6 restricted to certain genomes or need better curation.

7 ization and editing tools for efficient data curation.

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

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

10 ation and their results often require manual curation.

11 g both the efficiency and accuracy of manual curation.

12 ften require manual population and continual curation.

13 s have become a viable alternative to manual curation.

14 king of nuclei in local searches with manual curation.

15 ltradeep coverage validated our approach for curation.

16 nsuming aspects of conserved domain database curation.

17 erved domain database) search and literature curation.

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

19 tional literature mining and accurate manual curation.

20 bolites are nonsystematic and require manual curation.

21 ve function, and we perform extensive manual curation.

22 l processing to expedite the process of data curation.

23 performing literature data mining and manual curation.

24 users to edit and contribute to the network curation.

25 ide new insights, but requires further human curation.

26 presentative set of mutants, validation, and curation.

27 oblematic gene predictions and to aid manual curation.

28 analysis of deep sequencing data and manual curations.

29 tools and data views to support improved TE curation and annotation efforts.

30 by a team of trained annotators using a new Curation and Annotation Tool.

31 The content represents the integration of curation and automated processing from NCBI's Reference

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

33 We neglect, often to our cost, the curation and cataloguing of the processes that we use to

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

35 tein families that are the product of manual curation and close strain comparison.

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

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

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

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

40 nd features, comprehensive manual literature curation and genome-wide data sets, and supports sophist

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

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

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

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

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

46 Curation and integration of exposure data within the CTD

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

48 Curation and manipulation of networks is facilitated usi

49 Stringent curation and processing of the data from three independe

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

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

52 ls, extensive ontology development, metadata curation and representative genomic sequence identificat

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

54 The curation and visualization of electron transfer processe

55 in situ data (95-99% concordance with manual curation) and compare with regional microarray studies a

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

57 s with integrated sequencing reads analysis, curation, and manipulation capabilities.

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

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

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

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

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

63 Existing tools for automated curation are few, which bottleneck the analysis pipeline

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

65 Two levels of curation are now available within the database, with bot

66 Full scientific literature curations are available on 83 major cancer genes and 49

67 ased publication and manually intensive data curation, are now being enhanced with new systems for fe

68 stry, taphonomy (fossilization process), and curation artifacts.

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

70 ntology are limited by the level of database curation associated with the organism of interest.

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

72 orrectly, researchers often resort to manual curation based on detailed structural and biochemical in

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

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

75 e art and the current challenges for process curation, both within and without the Life Sciences.

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

77 will provide user-friendly tools to promote curation by experts within the fission yeast community.

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

79 t in several important tasks, e.g., database curation (by locating new experimental knowledge) and pa

80 ts reported in the literature, we found that curation can be error-prone and possibly of lower qualit

81 ntically indexed into conceptual spaces, the curation can be task specific.

82 Third, it provides a user-curation capability through the familiar Wiki interface.

83 re annotation is applied by a combination of curation, collaboration, propagation from other sources

84 a web-based central resource, allowing easy curation, comparison and analysis of vaccine-related res

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

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

87 Gene-model curation creates consensus gene models by combining mult

88 thod for identifying papers containing these curation data types among a large pool of published scie

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

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

91 The curation effort aims at increasing coverage and providin

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

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

94 n model collections, and maintains an active curation effort that aims at providing fine grained clas

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

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

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

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

99 teraction data providers to share literature-curation efforts and make a nonredundant set of protein

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

101 be used to increase the efficiency of manual curation efforts and to provide additional features in s

102 n efforts with our predictions and find that curation efforts are biased towards adding (rather than

103 he incorporation of new data sets, tools and curation efforts as well as a new website design to simp

104 the annotation behavior of current database curation efforts with our predictions and find that cura

105 st two decades, far outstripping the pace of curation efforts.

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

107 Community curation enables researchers to contribute data from the

108 CTD is unique in numerous respects: curation focuses on environmental chemicals; interaction

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

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

111 With further input and curation from the Arabidopsis community, these datasets

112 Manual curation further increased the number of protein-coding

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

114 CDD curation generates alignment models of representative se

115 ce disease representation and provide expert curation guidance.

116 g the new EST evidence, automated and manual curation has resulted in substantial improvements to the

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

118 Manual curation identified only the subset of publications that

119 submissions undergo syntactic validation and curation in an effort to uphold data integrity and quali

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

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

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

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

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

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

126 Thus appropriate curation, including semantic mark-up, would enable proce

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

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

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

130 The PPDMs resource and curation interface is available at https://www.ebi.ac.uk

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

132 pported search functionality and an improved curation interface.

133 Using the Subsystem approach the manual curation is carried out, ensuring a previously unattaine

134 BioGRID curation is coordinated through an Interaction Managemen

135 tations are curated manually, however manual curation is costly, time consuming and requires expert k

136 While manual literature curation is expensive and labour intensive, the developm

137 However, manual curation is tedious and not readily scalable or standard

138 However, manual curation is too slow and costly to be completed even for

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

140 Manual curation lacks the scalability to extract this informati

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

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

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

144 unctionality; (ii) more expressive phenotype curation methods; (iii) new downloads files and archival

145 The SGN curation model is community-driven, allowing researchers

146 they are open to the research community for curation, modification, and contribution.

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

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

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

150 Curation of 90 to 127 genetic variants in each participa

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

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

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

154 IMG ER provides tools for the review and curation of annotations of both new and publicly availab

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

156 lationships relevant to the construction and curation of biological networks and pathways.

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

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

159 -conserved regions, (2) rapid extraction and curation of conserved sequences, and (3) for bacteria, i

160 described previously the classification and curation of data for small molecule ligands in the datab

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

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

163 other databases and a pilot project for the curation of enzymes as drug targets.

164 The curation of epitopes related to autoimmunity is expected

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

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

167 available algorithms combined with extensive curation of experimental literature.

168 ally implemented in the future to streamline curation of experimental results and bridge the gaps amo

169 ffinity purification, as well as from manual curation of experiments on individual systems.

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

171 We found that manual curation of gene models using the anomaly reports genera

172 tree of life is the time required for manual curation of genomic data into multi-gene phylogenetic ma

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

174 Eventually, the CGD may assist the rapid curation of individual genomes as part of active medical

175 Curation of information from bioscience literature into

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

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

178 These were further filtered on the basis of curation of literature reports.

179 t state of the art, which is based on manual curation of literature.

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

181 ered for adoption by any party interested in curation of metabolic, regulatory, and genome-related in

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

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

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

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

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

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

188 led, manual GO annotations obtained from the curation of peer-reviewed papers are directly contribute

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

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

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

192 M genes in six gene families based on manual curation of protein domain structures, Gene Ontology ann

193 In an evaluation of existing curation of protein interaction experiments reported in

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

195 Detailed curation of published molecular data is essential for an

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

197 Detailed manual curation of recent platelet proteome and transcriptome s

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

199 Curation of such experiments, however, is an expert acti

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

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

202 tained from diverse sources including manual curation of the biomedical literature and direct contrib

203 Data are obtained and integrated via manual curation of the biomedical literature, direct contributi

204 Other recent developments include curation of the chemical structures of approximately 200

205 Re-curation of the DECA corpus was performed, with our meth

206 tomy ontology provides an essential tool for curation of the Dictyostelium genome.

207 AspGD combines high-quality manual curation of the experimental scientific literature exami

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

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

210 Manual curation of the known proteins in the inventory establis

211 as determined a priori based on an extensive curation of the literature published during the last thr

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

213 UPHAR); the data are provided through manual curation of the primary literature by a network of over

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

217 Through curation of the scientific literature and by collaborati

218 riptions were gathered primarily from manual curation of the scientific literature.

219 A closely related variant from curation of the sequence database resulted in a native-l

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

223 list of splices of the BK channel by manual curation of Unigene clusters mapped to mouse, human, chi

224 Curation of variation and other related information from

225 ZFIN are derived from three primary sources: curation of zebrafish publications, individual research

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

227 in the literature, only accessible by manual curation or sophisticated text text-mining technology to

228 limited developer resources and maximize the curation output.

229 otDB was collected through manual literature curation over the years by analysts at the J.

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

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

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

233 ble under an Open Source license from http://curation.pombase.org/.

234 ng centers, and other issues relating to the curation practices of those managing public databases su

235 Together with extended curation practices that maintain data uniformity, a rela

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

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

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

239 The curation problems encountered and the future directions

240 All entries undergo validation and curation procedures to ensure completeness, consistency

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

242 can be potentially used to assist the human curation process in discovering new domains or folds fro

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

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

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

246 with data added daily as part of our ongoing curation process.

247 2009, including updates to database content, curation processes and Web and programmatic interfaces.

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

249 ese patterns suggest that the current manual curation processes will take far too long to complete th

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

251 We consider the concepts of preservation, curation, provenance, discovery, and access in the conte

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

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

254 To estimate the curation quality, we compared our dataset with a union o

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

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

257 l functionalities of PaperBrowser to support curation quite successfully.

258 The content of this database derives from curation, re-annotation and statistical analysis of sele

259 The content of this database derives from curation, re-annotation and statistical analysis of sele

260 nology can facilitate tasks such as database curation remains unclear.

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

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

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

264 gene annotation efforts focus on centralized curation resources, but it is increasingly clear that th

265 Common curation rules have been developed, and a central regist

266 CDD curation staff supplements a comprehensive collection of

267 tion of various information sources and high curation standards, the PlateletWeb knowledge base offer

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

269 To date, manual curation still produces the highest quality models.

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

286 These tools effectively allow some curation to be delegated to qualified researchers, while

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

288 automated analyses, collaboration and manual curation to generate an up-to-date representation of the

289 proteomics data and literature-based manual curation to model human metabolism within and between di

290 eloped eCRAIG (ensemble CRAIG), an automated curation tool that combines multiple sources of evidence

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

292 Curation tools now permit rapid updates, resulting in an

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

294 ing automated text-mining and expert (human) curation we have systematically extracted information fr

295 To enhance the rate of curation, we have automated the identification of key da

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

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

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

299 are obtained through manual literature-based curation, while the others are the genes preferentially

300 It is being used in the curation work flow at WormBase for automatic association