ライフサイエンスコーパス: pipeline

1 systems are emerging from the bioinformatics pipeline.

2 ls using a metagenomic multivariate analysis pipeline.

3 reinvigorate the natural products discovery pipeline.

4 rral center using a customized bioinformatic pipeline.

5 n the health-care setting, treatability, and pipeline.

6 the-art toolbox in the driver gene discovery pipeline.

7 uent targets in the cancer immunotherapeutic pipeline.

8 GS, and an in-house-developed bioinformatics pipeline.

9 n natural sleep, analysed using an automated pipeline.

10 the HPA high-throughput antibody production pipeline.

11 dly, online implementation of this automated pipeline.

12 P) analysis was performed using the in-house pipeline.

13 se were characterised using an N-terminomics pipeline.

14 ngle-cell mass cytometry on the experimental pipeline.

15 computational analysis and parameterization pipeline.

16 pproach that also uses a spectral comparison pipeline.

17 d platform, were submitted to our analytical pipeline.

18 uming processes required in a non-integrated pipeline.

19 efficient, transparent and reproducible data pipeline.

20 eatments are in the preclinical and clinical pipeline.

21 n (SHM) and class switch recombination (CSR) pipeline.

22 ous Disease (SSGCID) structure determination pipeline.

23 re identified by our in-house bioinformatics pipeline.

24 to kill P. aeruginosa thereby validating our pipeline.

25 rting a heavy crude through a small-diameter pipeline.

26 omated these tasks via a novel computational pipeline.

27 d often a major bottleneck in the evaluation pipeline.

28 t routinely integrated into drug development pipelines.

29 is a useful initial step for other assembly pipelines.

30 al RNA with Ribozero depletion) and analysis pipelines.

31 rison of call sets between different studies/pipelines.

32 and output variations in image segmentation pipelines.

33 regions with respect to a set of surveyed VC pipelines.

34 f the key failure mechanisms of buried steel pipelines.

35 are and combine tools into powerful analysis pipelines.

36 Vs can be used in developing genetic testing pipelines.

37 d as a module in end-to-end feature learning pipelines.

38 o quickly and easily form complex analytical pipelines.

39 y to implement and incorporate into existing pipelines.

40 s were observed for airports, railroads, and pipelines.

41 ut by JGI's genome and metagenome annotation pipelines.

42 The pipeline accommodates both un-stranded and stranded RNA-

43 amed RNACocktail, along with a computational pipeline achieving high accuracy.

44 Unlike most steps in the pipeline, alignment is particularly amenable to benchmar

45 sequences is an important part of sequencing pipelines, allowing the categorization and prioritizatio

46 This simulation pipeline allows direct comparisons of simulated and obse

47 is assay includes a convolutional neural net pipeline and allows us to discriminate between normal an

48 Here we describe a versatile, functional pipeline and apply it to SNPs at 1p22, a locus identifie

49 be integrated into any WES based processing pipeline and exploits multi-core capabilities.

50 discoveries are then included in a company's pipeline and help bring novel treatments to patients.

51 antiSMASH biosynthetic gene cluster analysis pipeline and is also available as an open-source, standa

52 quence data using an automated bioinformatic pipeline and laptop-based genomic assembly demonstrated

53 t has constructively reshaped the antibiotic pipeline and offers the best chance of making safe and e

54 ation accuracy of the former structure-based pipeline and other state-of-the-art functional annotatio

55 Each scenario has a pipeline and rail pathway, and the dilbit without diluen

56 results validate our enhancer identification pipeline and reveal that enhancers transcribed in breast

57 gree of miscall varied by clade of organism, pipeline and specific settings used.

58 calculates the cost of transporting CO2 via pipeline and tanker truck to appropriately paired sinks

59 owever, due to the slowing of the antibiotic pipeline and the rapid emergence of resistance to approv

60 ational copy number variant (CNV) prediction pipelines and an exome-tiling chromosomal microarray wer

61 n of our model into reference-based analysis pipelines and comparisons of de novo assembled genomes w

62 rated into more comprehensive bioinformatics pipelines and different architectures (local desktop, cl

63 omparison of assemblies generated by various pipelines and discuss how the platform associated data c

64 de oil is currently transported primarily by pipelines and rail from extraction sites to refineries a

65 Yet, state-of-the-art pipelines and services for human nuclear genome variant

66 chloroplast genomes and removes the need for pipelines and software on personal hardware.

67 rves into liquids that can be transported in pipelines and upgraded to value-added chemicals.

68 notype Ontology, an improved quality control pipeline, and the addition of patient-friendly terminolo

69 MGT) concatenate tool, the immune repertoire pipeline, and the somatic hypermutation (SHM) and class

70 t is the first step in most RNA-seq analysis pipelines, and the accuracy of downstream analyses depen

71 UCTURE analysis with post-processing using a pipeline approach in addition to implementing parallel c

72 Therapeutic strategies in the pipeline are appraised, ranging from SMN1 gene replaceme

73 variants on NGS techniques and bioinformatic pipelines are available, our results point to core diffe

74 To alleviate this difficulty, pipelines are commonly employed.

75 ata; (iii) reanalyzes existing data when new pipelines are developed; and (iv) allows users to build

76 of the accuracy and robustness of analytical pipelines are essential to progress in both research and

77 on values for each miRNA, but quantification pipelines are in a primitive stage and still evolving; t

78 le only tens of samples, and most analytical pipelines are optimized for these smaller studies.

79 However, pipelines are typically implemented to automate a specif

80 eMapView can be integrated into map building pipelines as it seamlessly incorporates output from R/qt

81 ssions decreased by 15% and 73% for rail and pipelines as the capacity increased from 100000 to 80000

82 rmatics whole-genome sequencing (WGS) typing pipelines at Public Health England are dependent on the

83 ISEScan is a highly sensitive software pipeline based on profile hidden Markov models construct

84 de novo transcriptome assembly optimization pipeline based on Trinity assembler was developed to obt

85 ssemblies than the faster and more efficient pipelines based on the MHAP hashing algorithm, and it is

86 In the pipeline, Burrows-Wheeler Aligner and Assembly Based ReA

87 Further, we establish the sensitivity of our pipeline by detecting subtle alterations in normal cells

88 that it will enhance therapeutic development pipelines by accelerating efficiency, maximizing cost-ef

89 tion of our gene fusion neoantigen discovery pipeline, called INTEGRATE-Neo, by identifying gene fusi

90 The decomposition in the manual pipeline can be replaced with any NMF algorithm, for fur

91 tionary history of a given gene family; this pipeline can model gene sequence evolution, gene duplica

92 The pipeline can process a typical RNA-seq sample in a matte

93 All pipelines can be run independently or combined, dependin

94 new stage of development, in which phenomic pipelines can help researchers transform large numbers o

95 We have expanded the pipeline capabilities and provide a user-friendly, onlin

96 o an inventory of 62 major Canadian and U.S. pipelines (capacity greater than 100000 barrels/day) to

97 configured a new network-based computational pipeline, combined with a machine learning method, to mi

98 Our pipeline combines popular sequence datasets and tree bui

99 The assembly pipeline comprised initial read correction with Canu and

100 CIPHER's pipelines conduct extensive quality and contamination co

101 test area where 13 bridges were left by the pipeline construction company.

102 hus a major hurdle in the compound discovery pipeline, currently involving large scale animal testing

103 ty, making it a useful complement to any NGS pipeline dealing with the analysis of the morbid human g

104 ltilevel regional heritability analyses in a pipeline designed to identify MDD-associated pathways.

105 A large number of software tools and pipelines developed by various computing techniques are

106 sport as a function of crude oil parameters, pipeline dimensions, and external factors.

107 Localized corrosion of pipelines due to MIC is one of the key failure mechanism

108 pplication of a CRISPR-Cas9 reverse-genetics pipeline enabled insertional mutagenesis of 18 of these

109 cells, we propose an integrative analytical pipeline encompassing the evaluation of molecular and ce

110 ndardized image-analysis and quality-control pipeline established by the ENIGMA consortium.

111 s forced to explore the literature for mtDNA pipelines, evaluate them, and implement their own instan

112 ocessing large data volumes through complex "pipelines", even in cases where only a single metabolite

113 Here, we develop a robust bioinformatics pipeline exploiting Hidden Markov Models for the identif

114 We present an optimized sample-processing pipeline for analysis of the human plasma proteome that

115 we report the development of the PepSAVI-MS pipeline for bioactive peptide discovery.

116 ng to a more effective analysis and modeling pipeline for bioinformatics research.

117 rMATS-DVR combines a stringent GATK-based pipeline for calling SNVs including SNPs and RNA editing

118 The two methods can be combined to form a pipeline for cell-line editing that facilitates the test

119 this work, we introduce MetaPlotR, a Perl/R pipeline for creating metagene plots.

120 Here, we present a pipeline for developing STR markers directly from high-t

121 We present a ChIP-seq pipeline for epigenome mapping in the neuronal and nonne

122 We devised a pipeline for identifying and functionally validating put

123 gorithms with diverse evolutionary models, a pipeline for inferring the evolutionary history of a gen

124 inference algorithms, we built an integrated pipeline for inferring the evolutionary history of a giv

125 encing (Iso-Seq), we developed an integrated pipeline for Iso-Seq transcriptome data analysis.

126 tation as part of the standard preprocessing pipeline for MRI data analysis.

127 In this study, we describe a pipeline for network comparison and its application to t

128 ng space, thereby streamlining the discovery pipeline for new natural products.

129 f the problems of x-ray crystallography as a pipeline for obtaining the required structures.

130 Here we present AFS, a software pipeline for quantification of species composition in fo

131 Here, we present a comprehensive pipeline for reliable bedside collection, sequencing, an

132 ional regulation program in breast cancer, a pipeline for RNA-seq analysis in 780 breast cancer and 1

133 a user-friendly, cloud-based, data analysis pipeline for the deconvolution of pooled screening data.

134 BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visual

135 hine learning (ML)-enabled image-phenotyping pipeline for the genetic studies of abiotic stress iron

136 ndependent high-throughput-amenable analysis pipeline for the high-confidence annotation and acyl com

137 s of US Federal agencies (e.g. the FDA's SNP pipeline for tracking foodborne pathogens).

138 n be implemented in other species to build a pipeline for transcript-level expression and alternative

139 l and an associated bioinformatics pipeline (Pipeline for Untangling Reticulate Complexes (Purc)) tha

140 adaptive immune response, but bioinformatics pipelines for analysis of these data are constrained by

141 opment of genome databases and user-friendly pipelines for data analysis, all accessible at lower cos

142 Standard data analysis pipelines for digital PCR estimate the concentration of

143 ology search is widely adopted in integrated pipelines for functional analysis.

144 is an important step in many variant calling pipelines for next-generation sequencing (NGS) data.

145 Conventional image analysis pipelines for phenotype identification comprise multiple

146 resses the need to modularize and govern NGS pipelines for Precision Medicine.

147 sensors into cells, coupled with advances in pipelines for quantifying and extracting single-cell dat

148 substantial potential to assemble practical pipelines for recurrent selection and hybrid seed produc

149 Existing tools built on volume visualization pipelines for single channel or red-green-blue (RGB) cha

150 heet microscopy and a novel image processing pipeline, for the 4D profiling of chemoconvulsant action

151 ethod combines call sets derived by multiple pipelines from arbitrary numbers of datasets and interpo

152 ogenetic techniques throughout the discovery pipeline - from target identification and validation, to

153 Compared to other GBS pipelines, GB-eaSy rapidly and accurately identified the

154 ng technologies and a suite of computational pipelines have been combined into shotgun metagenomics m

155 Simultaneously, analysis pipelines have been improved, evaluated, and adapted to

156 ranges do not overlap, thus confirming that pipelines have lower GHG emissions, which is important i

157 rved discordance between state-of-the-art VC pipelines, however, indicates that the current practice

158 Our computational pipeline identified 7029 canonically-spliced putative li

159 not only to factors arising from their drug pipelines (idiosyncratic risk), but also from general ec

160 Our mapping pipeline illustrates the use of ontology in aiding biolo

161 and how they can be integrated into research pipelines in hopes that they will be broadly applied in

162 The output of our pipeline includes an alignment in FASTA format and a tre

163 ranking and electoral voting into IRaPPA, a pipeline integrating biophysical properties.

164 omising path for integrating the phenotyping pipeline into genomic prediction, and provides a systema

165 The pipeline is a Common Workflow Language (CWL) implementat

166 nerally, this experimental and computational pipeline is a fast, scalable and extensible way to analy

167 Our RSF pipeline is able to detect many possible junctions (espe

168 The immune repertoire pipeline is an extended version of our previously publis

169 The MAAB pipeline is readily adaptable and can be modified to opt

170 Thus, specific details of how a pipeline is used (including OTU generation strategy, ref

171 Our highly customizable pipeline is widely applicable, capable of detecting filo

172 g them to indicate the data flow through the pipeline, it is possible to construct very complex workf

173 ed in situ and in-service water distribution pipeline leak repair via clogging.

174 s over Sanger sequencing, automated analysis pipelines make NGS accessible to molecular laboratories

175 quires the development of custom scripts and pipelines, making it problematic for biomedical research

176 the results from multiple GBS bioinformatics pipelines may be the optimal strategy to obtain the larg

177 Using our pipeline, mutations can be readily introduced into elite

178 Toward this goal, we developed a software pipeline named digit that implements a novel measure of

179 nanopore sequencer and a novel computational pipeline-NanoSV.

180 We developed a new pipeline, NeBcon, which uses the naive Bayes classifier

181 ce of long ageing and for the use of plastic pipelines no more operative.

182 ng opportunities to create a more innovative pipeline of control tools for parasitic and related dise

183 t instrumentation and an imaging informatics pipeline of five steps to achieve mapping of organelle n

184 ar reasons behind market failures and a poor pipeline of MNPs available to date.

185 The pipeline of more targeted topical and systemic therapies

186 ished assemblies than Miniasm and the manual pipeline of NCTC based on the HGAP assembler and Circlat

187 and as a python module, for integration into pipelines of paired-genomic-loci analyses.

188 ing made in an era in which drug development pipelines offer the potential to specifically target pat

189 We evaluated our pipeline on both artificial samples (including synthetic

190 hole slide tissue images, run a segmentation pipeline on the selected regions to extract nuclei and c

191 This pipeline opens new avenues for early disease diagnostics

192 mples, using state-of-the-art image analysis pipelines optimized for both the cerebellum and the cere

193 e can be easily included into bioinformatics pipeline or used stand-alone.

194 mputational needs require the development of pipelines orchestrating the entire workflow and optimizi

195 The PMAnalyzer pipeline performs a growth curve analysis to parameteriz

196 The Polyomics integrated Metabolomics Pipeline (PiMP) fulfils an unmet need in metabolomics da

197 ut protocol and an associated bioinformatics pipeline (Pipeline for Untangling Reticulate Complexes (

198 isualization includes a multilevel streaming pipeline plus a triple-buffer compositing technique.

199 We conclude that the Seqping pipeline predictions are more accurate than gene predict

200 This pipeline provides a novel technique for hypothesis gener

201 Our pipeline provides a platform for functional variant disc

202 e sequences reassembled using a standardized pipeline provides a unique resource for population genom

203 lculated using the same statistical analysis pipeline released via GitHub as part of the original pub

204 ant information for policy makers conducting pipeline reviews.

205 mera traps, we evaluated crossing rates of a pipeline right-of-way in a control area with no bridges

206 We present an automated gene prediction pipeline, Seqping that uses self-training HMM models and

207 The pipeline shortens the time line, but it most prominently

208 We show the performance of the weekly update pipeline since the release of ECOD, describe improvement

209 sive and customizable sRNA-Seq data analysis pipeline-sRNAnalyzer, which enables: (i) comprehensive m

210 orporated useful parameter features into the pipeline such as, handling variable-length read data, an

211 As a new pipeline, super-delta provides new insights to the area

212 pproximately 7 d and the basic bioinformatic pipeline takes 1 d.

213 Here, we reported a novel NGS pipeline, termed a Sequencing System of Digitalized Barc

214 f a comprehensive and flexible computational pipeline that allows the user to analyze private, unpubl

215 An automated pipeline that can measure these components of yield from

216 StrAuto implements a pipeline that combines STRUCTURE analysis with the Evann

217 his need, we report on a top-down proteomics pipeline that combines superficially porous reversed-pha

218 proach is to design an integrated processing pipeline that encodes data to avoid costly synthesis and

219 B provides an automated structure-processing pipeline that extracts structural features from DNA-prot

220 DMRfinder is a novel computational pipeline that identifies differentially methylated regio

221 ross 22 Diptera species, using a subtraction pipeline that infers Y genes from male and female genome

222 describe Leapfrog, a simple automated BLAST pipeline that leverages increased taxon sampling to over

223 ermore present an siRNA off-target discovery pipeline that not only predicts the off-target transcrip

224 genes, it is important to have a convenient pipeline that quantifies and visualizes the GO function

225 eveloped a robust and unbiased computational pipeline that simultaneously identifies putative subtype

226 ess of mapping new mutations, we developed a pipeline that takes next-generation sequencing fastq fil

227 mes Project, we outline an analysis/cleaning pipeline that utilizes our approach to formally assess w

228 sity medications are in the drug-development pipeline, the most promising drugs are novel molecules t

229 Even when using the same classification pipeline, the specific OTU-generation strategy, referenc

230 and the current inadequacy of the antibiotic pipeline, there is increasing interest in nontraditional

231 We develop a hierarchical pipeline, ThreaDomEx, for both continuous domain (CD) an

232 We applied this pipeline to a cohort of children with severe specific la

233 obstacle by applying a centralized analysis pipeline to a SCZ cohort of 21,094 cases and 20,227 cont

234 This protocol provides a massively parallel pipeline to achieve high stringency and throughput.

235 ere, we present a new IS elements annotation pipeline to address these issues.

236 We have also shared a 'plug and play' pipeline to allow other researchers to easily use these

237 We develop an automated analysis pipeline to analyze and quantify 3D-SIM images and gener

238 axy includes the newly developed SHM and CSR pipeline to analyze SHM and/or CSR in BCR rearrangements

239 DAV (CRISPR Data Analysis and Visualization) pipeline to analyze the CRISPR NGS data in a high throug

240 Here, we develop a statistical pipeline to assess statistical and biological significan

241 if and amino acid bias (MAAB) bioinformatics pipeline to classify HRGPs into 23 descriptive subclasse

242 tention) in higher education, as well as the pipeline to college, and (b) have been evaluated in at l

243 Applying this pipeline to data from the 1000 Genomes Project we have c

244 Specifically, we apply our pipeline to derive gene-sets from transcriptomic data me

245 We developed an RNA-sequencing-based pipeline to discover differentially expressed cell-surfa

246 Here, we report a chemoinformatic pipeline to enable prenyltransferase substrate predictio

247 the Tract-Based Spatial Statistics analytic pipeline to first analyze fractional anisotropy (FA), th

248 Here, we present a computational pipeline to identify metabolic enzymes, pathways, and ge

249 Here, Mahajan and Bachtrog use a subtraction pipeline to identify Y-linked genes in 22 Diptera specie

250 We propose a two-step pipeline to initially assess for a treatment effect, in

251 e have developed a new whole-genome analytic pipeline to optimize ChIP-Seq protocols on patient-deriv

252 loped PreMosa, an efficient, fully automatic pipeline to perform the four preprocessing tasks above r

253 Further, we build an automated computational pipeline to reconstruct phylogenies and ancestral genome

254 We have created an analytical pipeline to recover immune receptor alleles from genome

255 Here we present an automated computer vision pipeline to reliably track populations of neurons with s

256 Ultrafast and Comprehensive lncRNA detection pipeline to tackle the challenge.

257 We apply our pipeline to the analysis of the DrugMatrix and the TG-GA

258 By applying the proposed "3D" analysis pipeline to the real example of prostate cancer subjects

259 As a case study, we applied this pipeline to the STIMATE (TMEM110) gene family, which has

260 Seqping provides researchers a seamless pipeline to train species-specific HMMs and predict gene

261 d simplifies retooling targeted resequencing pipelines to focus on new targets as new genetic evidenc

262 ative tools, we have developed computational pipelines to identify extracellular traps from an in vit

263 nd can be integrated in existing CNV calling pipelines to report accurately the number of copies in s

264 (ii) applies a common set of bioinformatics pipelines to submitted data; (iii) reanalyzes existing d

265 eenhouse gas (GHG) emissions associated with pipeline transport as a function of crude oil parameters

266 stigate the possibilities for more efficient pipeline transport of crude oil.

267 -principles, fluid mechanics-based crude oil pipeline transportation emissions model (COPTEM) that ca

268 Results show that pipeline transportation produced between 61% and 77% few

269 variability of GHG emissions associated with pipeline transportation.

270 nd found that the uncertainty was larger for pipelines (up to +/-73%) and smaller for rail (up to +/-

271 We developed a pipeline using fuzzy-C-means (FCM) soft clustering appro

272 , is supported by industrial doubled haploid pipelines using intraspecific crosses to in vivo haploid

273 E, MOTHUR and a pplacer-based classification pipeline, using a novel software package: DECARD.

274 ith an innovative high-throughput genotyping pipeline utilizing KASP (Kompetitive Allele-Specific PCR

275 lop a novel oral-specific mock community for pipeline validation.

276 orting a light crude through a high-diameter pipeline, vs transporting a heavy crude through a small-

277 y Orthologs (BUSCO) analysis showed that the pipeline was able to identify at least 95% of BUSCO's pl

278 Specifically, a new pipeline was built based on a meta-Lasso regression mode

279 Materials and Methods A PET/MR imaging AC pipeline was built by using a deep learning approach to

280 The pipeline was evaluated using the Oryza sativa and Arabid

281 Besides the Nipponbare reference genome, the pipeline was run on genome assemblies of IR 64, 93-11, D

282 An automated pipeline was used to objectively measure hippocampal sub

283 Using an integrative annotation pipeline, we assembled tissue-specific RNA-Seq libraries

284 Validating its utility as a discovery pipeline, we establish that two of these proteins promot

285 Using this pipeline, we generated metabolic pathway databases for 2

286 Using this pipeline, we have widened the known antimicrobial spectr

287 whole-genome sequencing and a computational pipeline, we identified aminophospholipid transporting A

288 programs within the MAKER genome annotation pipeline, we were able to improve the annotation of the

289 To automate the development of pipelines, we have investigated expert systems.

290 ly annotated in exome variant-interpretation pipelines, we would anticipate that this disorder could

291 ints to be propagated down the data analysis pipeline, weighed with their probability.

292 lete genome data generated with the in-house pipeline were imported into the commercial software and

293 These include many different SNP pipelines, wgMLST approaches, k-mer algorithms, whole ge

294 Although there are pipelines which use independent pieces of software to pr

295 d ribosome assembly (RAMBL), a computational pipeline, which integrates taxonomic tree search and Dir

296 We evaluated our QC pipeline with both large collections of public ChIP-exo/

297 To address this, we designed a novel pipeline with stringent filters and assembled a comprehe

298 loped Yet Another RNA Normalization software pipeline (YARN), that includes quality control and prepr

299 NVs that were consistent between informatics pipelines yet inconsistent with haplotype transmission (

300 omputationally intensive PBcR-BLASR assembly pipeline yielded better assemblies than the faster and m