ライフサイエンスコーパス: workflow

1 rstand the tissues behaviour during surgical workflow.

2 al samples and following a simple laboratory workflow.

3 on process development in a biomanufacturing workflow.

4 o evaluate a potential radiologist-augmented workflow.

5 r optimize their strategies in an end-to-end workflow.

6 g a simple, isocratic, high-throughput LC-MS workflow.

7 as evaluated using an end-to-end phenotyping workflow.

8 ted successfully from the sample preparation workflow.

9 from whole-slide images (WSI) and effect on workflow.

10 in a clinically relevant multimodal imaging workflow.

11 change in a clinical context by the proposed workflow.

12 ylcholines were identified by this DMS-EIEIO workflow.

13 ded antibodies and >20,000 genes in a single workflow.

14 he first two steps in the data preprocessing workflow.

15 R systems, consumables, instrumentation, and workflow.

16 :0, and has been integrated into an LC-MS(3) workflow.

17 nd industrial-grade integration into routine workflow.

18 g IM-MS into conventional LC/MS metabolomics workflows.

19 -edge bioinformatics tools in pre-configured workflows.

20 arge imaging datasets and expensive analysis workflows.

21 compatible with multiplexing and diagnostic workflows.

22 on between these target- and disease-centric workflows.

23 n unidentified in typical top-down proteomic workflows.

24 racterized by rapidity, low cost, and simple workflows.

25 different protocols and data pre-processing workflows.

26 ptured at higher throughput than in standard workflows.

27 hat reasons on the knowledge base to produce workflows.

28 tional LC-MS-based metabolomic and lipidomic workflows.

29 ently integration in third-party software or workflows.

30 ackage optimized for oncology clinical trial workflows.

31 quid chromatography tandem mass spectrometry workflows.

32 -throughput experimental antibody sequencing workflows.

33 einstalled, curated bioinformatics tools and workflows.

34 us, time-consuming, and expensive analytical workflows.

35 study analysing a broad spectrum of RNA-seq workflows.

36 n revealed by long-term imaging and analysis workflows.

37 cede broad range integration into analytical workflows.

38 Using this accelerated workflow, 15367 phosphorylation sites from 13029 differe

39 ic analysis by automating the development of workflows, a task that requires significant domain exper

40 omes from testing to deploy a semi-automatic workflow able to classify and label images generated by

41 The presented workflow addresses many of the methodological challenges

42 h alternative methods, this LC/MS-compatible workflow allows for robust profiling of mitochondrial me

43 The presented workflow allows the screening of large macrocyclic pepti

44 Directions for accessing software tools and workflows, along with instructional documentation, can b

45 Our workflow also generates quality score metrics in order t

46 per milligram of protein level, making this workflow an extremely versatile tool for high-throughput

47 Here, we discuss the workflow and architecture of PyRadiomics and demonstrate

48 ssues in blood culture bottles on laboratory workflow and cost.

49 To streamline automation workflow and minimize operator intervention, a non-enzym

50 opment of pipelines orchestrating the entire workflow and optimizing usage of available computational

51 data using the Predictive Ecosystem Analyzer workflow and projected the fate of this ecosystem under

52 s important to optimize the variant analysis workflow and the used analysis tools to reduce the overa

53 vester to regularize, annotate, and preserve workflows and facilitate and enhance data depositions to

54 a analyses driven by the user via customized workflows and interactive visualization.

55 Open-source computational workflows and models will be available for download and

56 e authors analyse a wide spectrum of RNA-seq workflows and present a comprehensive analysis protocol

57 ional analysis procedures, such as multistep workflows and tedious procedures.

58 In this study, we evaluated workflows and turnaround times for a benchtop long-read

59 asingly implemented in high throughput omics workflows, and new informatics approaches are necessary

60 ght the performance characteristics of these workflows, and the data generated in this study could al

61 re easily missed or discarded by some common workflows, and therefore probably underreported.

62 y, and kinetic analyses in a straightforward workflow applicable to a range of systems, enabling the

63 al anesthesia [GA]) affects the angiographic workflow applied for treatment of endovascular stroke in

64 nd not dictated by a specific MS1 value, our workflow applies equally well to the identification of b

65 utomatically annotated spectra output by the workflow are provided in the Supporting Information and

66 y are very costly because the image analysis workflows are required to be executed several times to s

67 generally high accuracy, indicating that the workflows arrived at largely complementary sets of valid

68 We present the machine learning workflow as a series of IPython notebooks hosted on GitH

69 n (UVPD) for MS/MS analysis in a middle-down workflow, as demonstrated for proteins from E. coli lysa

70 This results in a robust and efficient workflow, as segmentation need only be performed at one

71 erpretation; therefore, a degree of software workflow autonomy is required for broad-scale metabolite

72 Using a suspect screening workflow based on liquid chromatography-high resolution

73 We have developed an automated data analysis workflow based on OpenMS for the identification of diffe

74 In order to improve the analytical workflow both protein extraction and purification protoc

75 We showcase our workflow by annotating N-methyl-uridine monophosphate (U

76 We have validated the workflow by cloning 24 human proteins of biopharmaceutic

77 We validated the workflow by correctly identifying 10 methylated nucleosi

78 d clinical triggers, captured in the natural workflow by laboratory staff, identified complex cases t

79 mbleFBA can be included in a systems biology workflow by predicting essential genes in six Streptococ

80 r accelerates and informs the image analysis workflow by providing a tool for experimenting with and

81 an be integrated with existing data analysis workflows by providing initial preprocessing bulk nonlin

82 Here we developed a bioinformatics workflow called MetaboDIA to build customized MS/MS spec

83 els of sophistication, up to the one where a workflow can be executed using a cluster whose nodes com

84 The workflow can be used as a template for analysis of furth

85 his "chemically guided functional profiling" workflow can therefore use ecological context to facilit

86 Mass spectrometry (MS)-based proteomics workflows can crudely be classified into two distinct re

87 disparate software tools into sophisticated workflows, challenging its adoption by nonexpert, bench

88 from human blood serum, using an integrative workflow combining high-resolution native mass spectrome

89 n of this technique to two target enrichment workflows, commonly used for oncology applications, and

90 tools, they have not evaluated the analysis workflows comprehensively to unleash the power within RN

91 The workflow consisted of a multi-stage procedure including:

92 od is a computationally efficient, iterative workflow consisting of protein sampling and ligand docki

93 The automatable compMS(2)Miner workflow consists of the following steps: (i) matching u

94 These workflows, coupled with the ease of use of the environme

95 istical models, assembled in a comprehensive workflow covering sequence quality control, automated sg

96 throughput bottom-up and top-down proteomics workflows depend on acquisition of thousands of tandem m

97 y in determining needs for HCV screening and workflow design.

98 Among the higher performing workflows, different workflows exhibit a precision/recal

99 ence of the mode of sedation on angiographic workflow during treatment for endovascular stroke (eg, p

100 easured pathologists' read rates to evaluate workflow efficiency between WSI and TM.

101 tic figures in melanomas, and to measure the workflow efficiency of WSI compared with TM.

102 To assess performance characteristics and workflow efficiency, the Lumipulse G TP-N assay was comp

103 ntegration of chemical probes into proteomic workflows enables the interrogation of protein activity,

104 box that is fully integrated into the visual workflow environment KNIME.

105 ributed, and the data needs to be moved into workflow execution sites ranging from lab workstations t

106 of the files in the manifest to the site of workflow execution.

107 g the higher performing workflows, different workflows exhibit a precision/recall tradeoff, and the u

108 g modeling with experimental data processing workflows, facilitated by a comprehensive Python interfa

109 on was impacted by environmental, human, and workflow factors.

110 The THRIVE platform provides an integrated workflow for analyzing whole-slide immunofluorescence im

111 We here present a systematic workflow for annotating unknown epimetabolites using hig

112 the ontology and natural language processing workflow for annotation, curation, query processing, and

113 rtantly, the server presents a comprehensive workflow for both regular and integrated pathway analysi

114 n developing and implementing the logistical workflow for deceased donor uterus procurement in a dece

115 at efficiently executes the variant analysis workflow for detecting and annotating mutations using cl

116 RNAs in single cells employing an integrated workflow for dual-analyte co-detection.

117 We propose a new workflow for fast phosphoproteome profiling.

118 Finally, we present a workflow for fusion protein design and discuss best prac

119 ion and interpretation constitute a powerful workflow for high-throughput and accurate de novo peptid

120 resent CloudNeo, a cloud-based computational workflow for identifying patient-specific tumor neoantig

121 Therefore, we include a detailed workflow for image processing and analysis (including MA

122 We report an analytical workflow for in-depth profiling of the milk metabolome b

123 h is a high-throughput, automated microscopy workflow for large strain collections that requires mini

124 ner integrates many useful tools in a single workflow for metabolite annotation and also provides a m

125 re not identified previously, and provides a workflow for pathway analysis and drug repurposing using

126 ch provides a fully automatic image analysis workflow for PC shape quantification.

127 ntical parameters and provides a centralized workflow for prioritizing germline mutations in human di

128 spo toolbox, a python package implementing a workflow for reasoning on logical networks families.

129 A suitable workflow for segmenting image masks and texture mapping

130 is analysis pipeline will provide an initial workflow for TCR sequencing data with serial time points

131 uman plasma, we introduce a novel, validated workflow for the determination of 14 fat-soluble vitamin

132 Here, we describe a complete workflow for the generation of humanized ossicles with a

133 nique and incorporated it into a streamlined workflow for the generation of Pichia pastoris expressio

134 Here, we report the development of a rapid workflow for the measurement of CCS values of a large nu

135 The general workflow for this technology involves image acquisition

136 However, scientific workflows for combining climate projections with ecologi

137 With Illumina MiSeq/MiniSeq, the workflow from patient sample to results can be completed

138 borrowing methods to design experiments and workflows from the bioprocess engineering community, we

139 l methods that facilitate fully automated MD workflows gains more importance.

140 Finally, a meta-investigation of the workflows generated from the knowledge base produced a q

141 y, and processed through a novel landmarking workflow, GESSA (Geodesic Ensemble Surface Sampling Algo

142 nal techniques, but the impact on laboratory workflow has yet to be addressed.

143 h throughput and liquid chromatography-based workflows has been limited due to the relatively slow na

144 onal LC-MS-based metabolomics and lipidomics workflows has been shown to enhance peak capacity, spect

145 s, as part of a conventional full proteomics workflow, identified post-translational modifications, i

146 s across 11 classes were examined using this workflow in both positive and negative ion modalities, a

147 We demonstrate the applicability of the workflow in wild type zebrafish and three treated fish t

148 d preparation time, of peptide mapping LC-MS workflows in protein analytical research, we here invest

149 to assess the validity of various lipidomics workflows in providing accurate quantitative measurement

150 tandard instrumentation, thereby simplifying workflows in studies of cell-signaling cascades.

151 A typical CIPHER workflow includes: (1) raw sequence evaluation, (2) read

152 In this study, we implemented a workflow including novel analytical and data evaluation

153 We propose to introduce a data-preprocessing workflow including the preliminary data treatment by MZm

154 A workflow including XCMS Online for data processing and r

155 hod and optimized multiple dimensions of the workflow, including reduced clearing time, improved effi

156 All data are analyzed with the same workflows, including creation of gene orthology profiles

157 The workflow integrates group theory, informatics and densit

158 d comparative genomic hybridization analysis workflow, integrating computational improvements and fun

159 ephalography (SEEG) signals, the physicist's workflow involves several operations, including determin

160 Data was curated and analyzed in a linked workflow involving non-linear principal component analys

161 The latest release and an example workflow is available in the package vignette and a vers

162 The workflow is based on the use of accelerated in-solution

163 h cognitive load required to navigate such a workflow is detrimental to hypothesis generation.

164 The efficiency of this workflow is exemplified with the analysis of six fractio

165 The workflow is flexible enough to handle the complex barcod

166 identification yield, an additional two-step workflow is implemented to provide sufficient analysis r

167 s are associated with this approach, a novel workflow is presented by hybridizing ligand binding assa

168 The workflow is set up to use a variety of popular sgRNA lib

169 The pipeline is a Common Workflow Language (CWL) implementation of human leukocyt

170 and specific obstacles within computational workflows limit the translation of existing methods to t

171 When integrated into a larger lipidomics workflow, LipidMatch may increase the probability of fin

172 Computing workflows need to follow the same practices as lab proje

173 This workflow not only provided the quantitative results for

174 The general workflow of 2DCOS analysis is demonstrated by HSI exampl

175 e objective was to evaluate the accuracy and workflow of bacterial and yeast ID and bacterial AST usi

176 n genetics and genomics and be useful in the workflow of high-throughput targeted resequencing studie

177 evelop, standardize, and validate the entire workflow of IG/TR NGS assays for 1) clonality assessment

178 LipidHunter resembles a workflow of manual spectra annotation.

179 plinary education, tools integrated into the workflow of nurses and prescribers that facilitate revie

180 The high sensitivity and simple workflow of the Simoa method represent excellent advanta

181 Through adaptation of the immunofluorescence workflow on FFPE sections milled at histological thickne

182 e is no consensus regarding texture analysis workflow, or reporting of parameter settings crucial for

183 Workflow parameters are easily set using a single config

184 e is a need for a comprehensive and flexible workflow platform that can accelerate data processing an

185 hat CIPHER is an efficient and comprehensive workflow platform that can analyze several NGS datasets

186 e have developed an integrative, stand-alone workflow platform, named CIPHER, for the systematic anal

187 data standards, and adaptation to Web-based workflow platforms.

188 The workflow presented here describes a comprehensive analys

189 This is causing significant workflow problems in ICUs nationally.

190 The workflow provided rapid annotation of a diversity of end

191 We propose that such a workflow provides a target rich method for the identific

192 tant first step in many metagenomic analysis workflows, providing the basis for identification and qu

193 echniques for orthogonal quantification, but workflows rarely overlap.

194 ations in human disease within a streamlined workflow rather than a pool of program executions.

195 In the simulated data set, our workflow recovered 96% of simulated SVs.

196 Improvements made to the workflow reduced total analysis time to less than 3 h.

197 oteoform identification and characterization workflow resolved four known MBP ASVs and hundreds of di

198 the implementation of the described coupled workflow revealed that targeted analysis using combinati

199 The workflow robustly handles the high numbers of artifacts

200 for running and editing, infrastructure for workflow sharing and version tracking, and access to TCG

201 nd ease of incorporation into the laboratory workflow should be considered when selecting a phenotypi

202 This workflow should enable future research into recombinant

203 /recall tradeoff, and the ultimate choice of workflow should take into consideration how the results

204 The experiments with two segmentation workflows show that the proposed approach can (i) quickl

205 oteomics can follow, in principle, a modular workflow similar to that of bottom-up proteomics, we hyp

206 investigated through a multiscale tomography workflow spanning eight orders of magnitude, combining X

207 nd verification of current data, proposing a workflow strategy for identification of reference miRNAs

208 be directly integrated into a computational workflow such as provided by the Galaxy Project.

209 raphy-mass spectrometry (LC-MS) metabolomics workflow, such as metabolite extraction, the sample reco

210 Our workflow suggests the existence of multiple stable Golgi

211 pose standards, readily deployed in a single workflow, supporting seamless quantitative transition fr

212 The experimental workflow takes 1 week plus 2 additional weeks for proteo

213 We describe an MS-based HTS workflow that addresses these challenges.

214 We report an integrated workflow that allows mass spectrometry-based high-resolu

215 With a MinION-only workflow that balances accuracy against turnaround time,

216 Herein, we construct a workflow that can be followed manually or by a robot to

217 his paper, therefore, offers a computational workflow that can curate and evaluate BP-related genetic

218 y to established methods, but with a simpler workflow that captures precise DNA ends.

219 potential for the development of a powerful workflow that could be used to evaluate the metabolic st

220 rt the development of continuous analysis, a workflow that enables reproducible computational analyse

221 The best results were obtained with a workflow that included initial fast, high-energy HCD (Or

222 , we developed GB-eaSy, a GBS bioinformatics workflow that incorporates widely used genomics tools, p

223 a structured, unbiased, internally validated workflow that may be applied to other combinatorial stud

224 aphy-high-resolution mass spectrometry-based workflow that significantly increases the accuracy of me

225 We present a two-dimensional multiplexing workflow that utilizes synthetic peptides for each prote

226 escribe a hybrid collisional activation/UVPD workflow that yields near-complete structural informatio

227 nsive set of analysis tools and consolidated workflows that enable the researcher to combine these tw

228 uated BETSY and found that it could generate workflows that reproduce and go beyond previously publis

229 determined because of cumbersome haplotyping workflows that require fractions of the genome to be seq

230 As an alternative workflow, the user can also decompose a dataset onto pre

231 imization has been integrated into discovery workflows, thereby increasing the value of specific reac

232 lication has been developed as a part of the workflow to allows for quantitative assessments based on

233 Here we describe a flow cytometry workflow to determine carbapenem susceptibility from bac

234 ve of this study was to develop an efficient workflow to discover alpha-amylase inhibitory peptides f

235 To address this challenge, we developed a workflow to enable the cartography of metabolomic and mi

236 ple inefficient steps, while simplifying the workflow to enhance sensitivity and create the potential

237 Here we describe a phosphoproteomics workflow to examine the effects of electrically evoked m

238 le integrated computational and experimental workflow to expand discovery from cancer genomes.

239 These results provide a generalizable workflow to explore sHsps, expand our understanding of s

240 al design space in a quality-by-design (QbD) workflow to facilitate the HILIC method development.

241 We have developed a bioinformatic workflow to generate a chromatin space that allows to cl

242 he platform provides either a target-centric workflow to identify diseases that may be associated wit

243 novel data independent acquisition (DIA)-MS workflow to identify HCP peptides using automatically co

244 with a specific target, or a disease-centric workflow to identify targets that may be associated with

245 We applied this workflow to LC-ESIMS profiles obtained from 69 honey sam

246 The package provides a convenient, flexible workflow to process raw sequencing reads into a high-qua

247 Here we report a mass spectrometry-based workflow to study the changes in protein phosphorylation

248 We applied this newly developed MALDI-HDX workflow to study the effect of several common excipient

249 advanced management strategies that improve workflow to the creation of programs for patient engagem

250 We applied a dual RNA-seq workflow to these subjects, together with 25 viral qPCR-

251 We applied this workflow to three independently derived primary human cu

252 ludes demonstrating the applicability of the workflow to three-part assemblies for a monoclonal antib

253 The move of computational genomics workflows to Cloud Computing platforms is associated wit

254 om analyzing terabytes of data using complex workflows to developing new analysis methods in common l

255 n that it is possible to apply the described workflows to food fraud problems, with an objective of i

256 heterogeneity in the performance of RNA-Seq workflows to identify differentially expressed genes.

257 The workflow tool also performs systematic analysis on the s

258 Our workflow tool capitalizes on the capabilities of the Kep

259 The presented workflow tool facilitates the management and deployment

260 Additionally, the workflow tool reduces user input time by automating repe

261 re we report the development of an automated workflow tool to perform AMBER GPU MD simulations.

262 Data analysis workflows typically don't access the full breadth of inf

263 ing (HPC), bioinformatics support, multistep workflows, updated analysis software, and the ability to

264 Our workflow uses high-affinity magnetic immunocapture to ra

265 The most popular bottom-up proteomics workflow uses trypsin to enzymatically cleave proteins C

266 solution that optimizes the execution of the workflow using computational resources from different cl

267 We present a comprehensive analytical workflow using online and subsequent offline secondary e

268 utility of our multiple-attribute monitoring workflow using the model mAbs Remicade and Remsima and h

269 Users may create their own workflow using the source code that is staged for downlo

270 The proposed quantitative workflow utilized extracted ion chromatograms (XICs) fro

271 The workflow was benchmarked against an accepted sphingolipi

272 d by LC-HRMS and a comprehensive statistical workflow was designed.

273 A workflow was developed and technical feasibility was eva

274 The novel streamlined metabolomics workflow was established using anion-exchange chromatogr

275 A workflow was established using telomerase-immortalized h

276 This workflow was found to be generally applicable to profile

277 The workflow was process mapped, decision tree models were c

278 ing a high-resolution variant interpretation workflow, we classified 17 variants as pathogenic or lik

279 For our workflow, we developed a flexible tool for counting the

280 tio theory with experiments in an integrated workflow, we find eight ternary vanadate oxide photoanod

281 and enhance reproducibility of computational workflows, we have developed NMRbox, a shared resource f

282 rformance, the average times to results, and workflow were compared to those of the routine standard

283 surrogate peptide analysis and our proposed workflow were obtained in vitro and in vivo with the adv

284 Many workflows were found to exhibit similar overall performa

285 us to evaluate the performance of 495 unique workflows, when accounting for differences in expression

286 rapid multiepitope immuno-mass spectrometry workflow which is capable of unambiguously differentiati

287 , and ultrafiltration was analyzed using the workflow with 1D-LC.

288 e, we combined a tissue-level strain-mapping workflow with laser ablation of live-imaged mouse embryo

289 o, can be inserted into the current surgical workflow with no alterations.

290 further investigation in DN and providing a workflow with potential applications to other diseases.

291 ImmunoNodes allows users to build complex workflows with an easy to use and intuitive interface wi

292 se microarchitecture we demonstrate supports workflows with arbitrary numbers of reaction and clean-u

293 ocessing steps are performed in a sequential workflow, with the output of each step passed as input t

294 States, and development of a successful SAF workflow within it is needed.

295 To develop an SAF teledermatology workflow within the Epic system, the existing EHR system

296 Development of internal SAF workflows within existing electronic health records (EHR

297 ations wanting to create SAF teledermatology workflows within the Epic EHR system.

298 coupled C18 columns enable a straightforward workflow without fraction pooling and desalting while sh

299 ne, it is possible to construct very complex workflows without the need for coding.

300 ies probes for preclinical imaging, the same workflow would be applicable in a clinical setting.