ライフサイエンスコーパス: server

1 Each computation took 2 d on a single server.

2 spreadsheets and consolidated onto a central server.

3 post-processing, and subsequently to a cloud server.

4 n reads, in less than three days on a single server.

5 d data that are regularly released on an ftp server.

6 ioinformatics tool, Disorder Prediction Meta-Server.

7 ages and a tutorial are available via a wiki server.

8 spectra in just under an hour on a moderate server.

9 putation Service and the Michigan Imputation Server.

10 ucture Prediction (CASP11) as MULTICOM-NOVEL server.

11 pen-source code to launch their own PhyloBot server.

12 here are no login requirements for using the server.

13 d orchestrated via a JBOSS-based application server.

14 nner, and can be freely downloaded from this server.

15 ailable to researchers through an imputation server.

16 n of the method is available through the web server.

17 CHOR, MoRFpred, DISOPRED3, and MoRFchibi_web server.

18 on on CASP11 dataset as the MULTICOM-CLUSTER server.

19 ibuted Annotation and IGB-specific Quickload servers.

20 ted on a range of computers, from laptops to servers.

21 er than Impute2's throughput on our computer servers.

22 n conjunction with Metagenome-RAST (MG-RAST) servers.

23 es have been reorganized into taxon-specific servers.

24 l for automated protein structure prediction servers.

25 previous server and other publicly available servers.

26 hem cumbersome to store and analyze on local servers.

27 nned aerial vehicles (UAVs) and data storage servers.

28 through modeller 9.15v and evaluated through servers.

29 Here we present mtDNA-Server, a scalable web server for the analysis of mtDNA

30 we fill this gap by presenting the Genonets Server, a tool that provides the following features: (i)

31 The 3Drefine web server allows for convenient protein structure refinemen

32 The web server allows the end-user to protonate the biomolecule

33 In brief, the server allows the users to input the chemical fragments

34 The web server allows users to rapidly and automatically predict

35 In addition, the server also provides a RESTful API for programmatic acce

36 The Genomicus server also provides access to ancestral gene orders, to

37 The server also provides comprehensive analysis of submissio

38 The server also supports predicted miRNA:gene interactions f

39 n efficiently performing this, both as a web server and a standalone tool.

40 of a 50x human genome in 13 h on a low-cost server and alleviates a bioinformatics bottleneck that t

41 sented tool is integrated in the POLYVIEW-2D server and available from resulting pages of POLYVIEW-2D

42 Here we present BISQUE, a web server and customizable command-line tool for converting

43 netic variation (1000 Genomes, Exome Variant Server and Exome Aggregation Consortium).

44 nts will improve the quality of the I-TASSER server and further facilitate its use by the community f

45 a two-step procedure, using the Swiss-Model server and Modeller software.

46 have been observed compared to our previous server and other publicly available servers.

47 implemented in the SwarmDock server, pyDock server and ZDOCK server, with code available on request.

48 (SDARs) such as bioinformatics programs, web servers and databases are integral to modern science, bu

49 Although several web servers and stand-alone tools were developed to address

50 as a Galaxy Toolshed, on a Galaxy-based web server, and on a virtual cluster on the Amazon cloud.

51 d analyses are remotely executed in high-end servers, and all the functionalities are available throu

52 , users can submit this information to a web-server application that downloads the SOFT files, parses

53 ons are implemented either as multi-tier web server applications that require significant maintenance

54 The web server follows a client-server architecture built on PHP and HTML and utilizes D

55 Online servers are currently not available or maintained for th

56 While certain existing web servers are valuable and widely used, many expression an

57 cal role in MSC to osteoblast transition and servers as a downstream target of BMP signaling, was sig

58 Here we developed the Pathview Web server, as to make pathway visualization and data integr

59 The web server asks the user for microRNAs and mRNAs to be analy

60 FATHMM-indel is available via a web server at indels.biocompute.org.uk.

61 , Analyze and Tally NAb Panels) is a new web server at Los Alamos HIV Database, created to respond to

62 uraged to upload it to a recognized preprint server at the same time in order to make their results a

63 atabases can be downloaded from the Uniclust server at uniclust.mmseqs.com.

64 Users can create and submit jobs on our free server (at the URL listed above), or use our open-source

65 The server attempts to identify and to fix likely errors in

66 ting from a query sequence or structure, the server automatically collects homologues, infers their m

67 The server automatically provides a series of structural mod

68 AR, was comparable with other annotation web servers, AVIA v2.0 represents an enhanced web-based serv

69 ro is a heavily used protein-protein docking server based on the fast Fourier transform (FFT) correla

70 RNA-TVcurve is the first integrated web server, based on an alignment-free method, to deliver a

71 In contrast to the original server-based MPA application, this newly developed tool

72 Here, we present a new web server-based tool, the Pipeline for estimating EPIStatic

73 he protein atoms), and a point mutation, the server calculates the stability difference score between

74 and on a high-performance publicly available server called MAHA.

75 published a genome-scale functional network server called RiceNet, constructed by integrating divers

76 se a user-friendly and easily accessible web server called wANNOVAR to prioritize candidate genes for

77 gorithm, we developed a freely available web server, called PseKRAAC (the pseudo K-tuple reduced amin

78 For the primary sequences alone, the web server can compute the secondary structures using free e

79 ASP10, CASP11 and the other benchmarks, this server can obtain approximately 84% Q3 accuracy for 3-st

80 This server can predict poly(A) sites for ten species, includ

81 AIDA server can use domain assignments provided by the user o

82 This substantial increase in the server capacity is achieved by utilization of experiment

83 ed, which is implemented in a new public web server, COLMARm, that permits the coanalysis of up to th

84 e fundamental innovation of the MinePath web-server concerns its advanced visualization and interacti

85 The server consists of a number of utility tools, in additio

86 As a result, the 3Drefine web server conveniently provides a useful tool easily access

87 eview and list the state-of-the-art methods, servers, databases, and tools for protein-protein intera

88 Our evaluation data shows that mtDNA-Server detects heteroplasmies and artificial recombinati

89 The web server DichroCalc allows one to compute from first princ

90 Here we present an integrated web server, DMINDA 2.0, which contains: (i) five motif predi

91 an only identify the longest match while the server does not learn which sequence of SNPs the user qu

92 Here we introduce the server DPDR-CPI, which can make real-time predictions ba

93 This server employs a powerful in-house deep learning model D

94 DelPhiForce web server enables modeling of electrostatic forces on indiv

95 The Ensembl REST server enables the easy retrieval of a wide range of Ens

96 the core of the portal is a newly developed server, ENM 1.0, which permits users to efficiently gene

97 It outperforms other servers, especially for proteins without close homologs

98 The ConSurf web server, established over 15 years ago, analyses the evol

99 hest rediscovery rate from the Exome Variant Server (EVS; 89.3%) and 1000 Genomes (1KG; 84.1%) and th

100 Currently, the server examines only the stability of a given interface

101 ALCON@home as a protein structure prediction server focusing on remote homologue identification.

102 The web server follows a client-server architecture built on PHP

103 Here we present mCSM-AB, a user-friendly web server for accurately predicting antibody-antigen affini

104 We present Arpeggio, a web server for calculating interactions within and between p

105 3Drefine is an interactive web server for consistent and computationally efficient prot

106 We have also created a user-friendly web server for data query, exploration and visualization.

107 Here, we present DupliPHY-Web a web server for DupliPHY that implements additional maximum l

108 Then, we implement this method as a web server for lncRNA-disease association prediction (LDAP).

109 We present systemsDock, a web server for network pharmacology-based prediction and ana

110 th 788 080 links, along with a companion web server for network-assisted functional hypothesis genera

111 PASPA is a web server for P: oly( A: ) S: ite prediction in P: lants an

112 Here we present a web server for Peptiderive, which is incorporated within the

113 PSAT), a web-based, sequence annotation meta-server for performing integrated, high-throughput, genom

114 Here, we present BepiPred-2.0, a web server for predicting B-cell epitopes from antigen seque

115 Protein-Sol is a web server for predicting protein solubility.

116 We present an update to our Galaxy-based web server for processing and visualizing deeply sequenced d

117 CoinFold is a web server for protein contact prediction and contact-assist

118 Ontobee is also the default linked data server for publishing and browsing biomedical ontologies

119 o-tags the data and transmits it to a remote server for real time tracking of micronutrient deficienc

120 Here we present mtDNA-Server, a scalable web server for the analysis of mtDNA studies of any size wit

121 tudy was to modify our widely recognized Web server for the integrated mRNA-miRNA analysis (MMIA) and

122 Here we demonstrate the usage of the server for various biological problems including protein

123 (LIMS) which can be easily deployed on local servers for any genome research laboratory.

124 While there are several online servers for design of RNA secondary structure, there are

125 Here, we describe three web servers for modeling atomic structures based on SAXS pro

126 Although many web-servers for predicting protein subcellular localization

127 Here, we provide interactive web servers for the PFP and ESG algorithms that are equipped

128 romolecular structure or extrapolated on the server from a specific PDB chain.

129 Here, we present a web server, GWAB (www.inetbio.org/gwab), for the network-bas

130 The PhyreStorm Web server has been designed to provide comprehensive, up-to

131 The web server has been extensively tested and used by many user

132 The updated server has been extensively tested using a benchmark con

133 The JPred4 web server has been re-implemented in the Bootstrap framewor

134 The server has been tested with unpublished data from 200 in

135 This server has high value for researchers interested in stud

136 r, the lack of intuitive and integrative web servers impedes the progress of making effective use of

137 ind CAMEO benchmark, our fully-automated web server implementing this method successfully folded 6 ta

138 ince we first described our deepTools Galaxy server in 2014, we have implemented new solutions for ma

139 e report recent improvements of the COFACTOR server in the development of new pipelines to infer func

140 The good performance of our servers in CASP11 demonstrates the effectiveness and rob

141 can also host Shiny--phyloseq from a remote server, in which case users need only have a Web browser

142 ersion for interfacing with a variety of web servers including, PECAN , PINE, TALOS-N, CS-Rosetta, SH

143 th seven other methods publicly available on servers, including several based on the popular elastic

144 Using a standard server, indel discovery and characterization in the exon

145 els through the BioLiP library, the COFACTOR server infers three categories of protein functions incl

146 The ModFOLD6 server integrates scores from three pure-single model me

147 The MetaPred2CS web-server interfaces a sequence-based meta-predictor specif

148 The ANM server, introduced by us in 2006 helped making this tool

149 The COFACTOR web server is a unified platform for structure-based multipl

150 The WebSTAR3D web server is a user-friendly online interface for the align

151 The ClusPro server is a widely used tool for protein-protein docking

152 The ModFOLD6 server is also continuously automatically evaluated as p

153 templates is reduced, while the I-TASSER-MR server is designed to solve the phase problem for protei

154 The server is freely available to all users without restrict

155 Although the server is heavily used, runs are generally completed in

156 The server is implemented using Python, Flask, NumPy and Sci

157 A new pKa prediction web server is released, which implements DelPhi Gaussian die

158 The input of the LDAP server is the lncRNA sequence.

159 To our knowledge, the SFESA web server is the only tool that refines alignments by evalu

160 The aim of this web server is to automate the screening of large amounts of

161 The server is unique in providing output for multiple altern

162 are supported and data access on remote ftp servers is possible.

163 parative approach, as implemented in our web server, is demonstrated by highlighting genes with excep

164 The new web server jsPISA has a substantially improved user interfac

165 technology (ICT) products such as desktops, servers, laptops, smart phones, and tablets.

166 In addition to the public server, local copies of Babelomics can be downloaded and

167 We have developed the integrative web server MANORAA (Mapping Analogous Nuclei Onto Residue An

168 The MutaBind server maps mutations on a structural protein complex, c

169 The R3D-2-MSA server maps these ranges to the appropriate columns of t

170 ently acquired data files to data processing servers, mimicking just-in-time production strategies fr

171 Our successful refinement of initial server models combined with our built-in ASEs were instr

172 In this work we describe a new web server, Mollack, for the automated construction of unfol

173 lemented as two protein structure prediction servers: MULTICOM-CONSTRUCT and MULTICOM-CLUSTER that pa

174 We report here a server named Primerize that makes available an efficient

175 A web server, named SeqTU, was developed to automatically iden

176 e present an interpretable and efficient web-server, namely FUEL-mLoc, using eature- nified predictio

177 FTMap serves as the basis for other servers, namely FTSite, which is used to predict ligand-

178 The server not only expands the core functions of Pathview,

179 A web-server of our predictor is made available for free publi

180 n-coding genetic variants, and provide a web server of pre-computed scores.

181 software is now freely available in the web server of Qprob.

182 In order to eliminate the legacy application server of the old platform and to accommodate new change

183 can be run fully automated via the ROSIE web server or manually on a computer with user control of in

184 studies, there is currently no universal web server or toolkit available for generating this wide var

185 es, are obtained from the Mentha interactome server, or power-users may upload a pre-made network pro

186 uencing (RNA-seq) experiments, the rMAPS web server performs motif analyses of RBPs in the vicinity o

187 We developed a new software and web server (pHMM-tree) to allow four major types of inputs:

188 ophila genomes can be queried on our new web server, PhyloGene.

189 Currently available web servers predict protein homo-oligomer structures either

190 Here, we introduce PEASE, a web server predicting antibody-specific epitopes, utilizing

191 RaptorX Property is a web server predicting structure property of a protein sequen

192 accuracy of the best co-evolution based meta-server predictor by 22%; the magnitude of the improvemen

193 cially ranked third out of all 143 human and server predictors according to the total scores of the f

194 he two servers were ranked among the best 10 server predictors.

195 Finally, this server predicts tertiary structure of a sequence by feed

196 Importantly, the server presents a comprehensive workflow for both regula

197 The server provides a simple home page for basic use, requir

198 Moreover, the server provides additional options that can be chosen by

199 The LigParGen web server provides an intuitive interface for generating OP

200 The server provides facilities for users to interactively re

201 The server provides genetic ancestry estimation for differen

202 The server provides rapid analysis of protein variants from

203 Additionally, the server provides three options for producing global score

204 Phenopolis is an open-source web server providing an intuitive interface to genetic and p

205 se needs we have developed the Companion web server providing parasite genome annotation as a service

206 IRaPPA has been implemented in the SwarmDock server, pyDock server and ZDOCK server, with code availa

207 3D Structure-to-Multiple Sequence Alignment Server (R3D-2-MSA) is a new web service that seamlessly

208 The inputs of the web server require RNA primary sequences, while correspondin

209 We describe remote server resources that allow researchers to carry out imp

210 NA mutation and phylogenetic analysis, a web server (RNA-TVcurve) was designed based on this alignmen

211 The server's algorithms are based on the Voronoi diagram of

212 cribe the interfaces and capabilities of the servers (salilab.org/foxs), followed by demonstrating th

213 via dynamically generated links between web server search results, the most relevant genes in the Gt

214 ally, our experiments conducted on a 12-core server show that HS-BLASTN can be 22 times faster than M

215 f the metadata are also presented on the web server showing interesting global patterns of RNA-Seq st

216 Tested on the CASP and CAMEO targets, this server shows significant advantages over existing ones o

217 iety of environments and devices, client and server side alike.

218 nd [Formula: see text] 10.8 s for client and server side, respectively, on laptop computers.

219 We have implementated the server-side announcement and control portions of this Bi

220 FindNeighbour and FindNeighbour2 are server-side applications which build, maintain, and pers

221 w technical enhancements at both, client and server sides, makes the user experience faster and more

222 e is available as a software package and web server (spectrus.sissa.it/spectrus-evo_webserver).

223 The server starts by efficiently searching the vast conforma

224 The server summarizes several in silico prediction algorithm

225 Here, we present CSM-Lig, a web server tailored to predict the binding affinity of a pro

226 The web server takes advantage of MPI parallel implementation in

227 The server takes primary sequence and raw crystal diffractio

228 ed website with implementation of modern web server technologies.

229 Here, we present SpartaABC, a web server that aims to solve this issue.

230 Previously, we developed the iFoldRNA server that allows accurate prediction of short (<50 nt)

231 BalestraWeb is an online server that allows users to instantly make predictions a

232 n data sets are combined into a single BLAST server that allows users to select and combine sequence

233 ing), a versatile toolkit with an online web server that can generate 21 types of PSSM-based feature

234 tation To Cancer Therapy Scan (mTCTScan) web server that can systematically analyze mutations affecti

235 , AVIA v2.0 represents an enhanced web-based server that extends genomic annotations to cell-specific

236 FTMap is a computational mapping server that identifies binding hot spots of macromolecul

237 nowledge, this is the first pathway analysis server that introduces and offers visualization of the u

238 SAbPred is a server that makes predictions of the properties of antib

239 re, we present a new version of the iFoldRNA server that permits the prediction of tertiary structure

240 Here we present PathAct, a web server that predicts the effect that interventions over

241 or genetic information (e.g. an allele) on a server that stores a large genomic database and aims to

242 Ontobee is a linked ontology data server that stores ontology information using RDF triple

243 Beacons are web servers that answer allele-presence queries--such as "Do

244 to keep the query and result private and the server the database.

245 ddition to the freely available Primerize-2D server, the primer design code is available as a stand-a

246 y, through the command-line tool and the web server, these protocols provide a convenient means to an

247 pocket detection to our NVIDIA GPU-equipped servers through a WebGL graphical interface.

248 The SIFTER web server thus provides access to precomputed predictions o

249 rce program named ORFanFinder and a free web server to allow automated classification of a genome's g

250 We developed a web server to allow easy database navigation and data queryi

251 from multiple experiments onto the annoPeak server to annotate them with biological context, identif

252 We developed the GenomeRunner web server to automate systematic statistical analysis of SN

253 ed application sends the captured image to a server to automatically determine well-turbidity, with r

254 /Bioconductor package connected to an online server to avoid installation of non-R software.

255 We developed a DelPhiForce web server to calculate and visualize the electrostatic forc

256 ating to AMR, we have updated the PATRIC FTP server to enable access to genomes that are binned by th

257 roved GSDraw tool was implemented in the web server to enhance the analysis and display of gene struc

258 Here we describe the LASER server to facilitate application of the method to a wide

259 We have developed SG-ADVISER mtDNA, a web server to facilitate the analysis and interpretation of

260 8% of the coding genome, and a companion web server to generate functional hypotheses using various n

261 We present SpotOn, a web server to identify and classify interfacial residues as

262 We present a web server to predict the functional effect of single or mul

263 We built both an R package and web server to provide ADAGE signature analysis to the commun

264 We developed the SFESA web server to refine pairwise protein sequence alignments.

265 nted both an R package (ADAGEpath) and a web server to run these analyses.

266 s needed in everything from high-performance servers to thin-film display backplanes, it is important

267 alignment algorithms in a "scaffolding meta-server" to search for diverse scaffolds that can structu

268 pper, a vector integration site analysis web server, to analyze next-generation sequencing data for r

269 Previously, web-server tRNA detection was isolated from knowledge of exi

270 The web server uses as input miRNA/RNA-Seq read count data sets

271 top ranked models obtained by the EVFold web server using identical contact predictions.

272 are provided by DIANA-mirExTra v2.0.The web server utilizes miRNA:mRNA, TF:mRNA and TF:miRNA interac

273 ent data obtained on-demand from third-party servers via RESTful web services.

274 The performance of the server was better than or comparable to that of other av

275 The server was built in the context of our SG-ADVISER framew

276 The server was built with simplicity in mind, and builds on

277 Easily accessible on a public web server, we anticipate wide use of ORIO in genome-wide in

278 Working with the MG-RAST annotation server, we constructed the Simple Annotation of Metatran

279 ess to metagenome analysis files hosted on a server, we provide a straightforward, yet powerful and c

280 The two servers were ranked among the best 10 server predictors.

281 relessly transmitted via cellular modem to a server, where automated quality checks take place before

282 l time to an integration engine and database server wherein the scores were calculated and stored wit

283 It is anticipated that the Pse-in-One web server will become a very useful tool in computational p

284 It is anticipated that the PseKRAAC web server will become a very useful tool in computational p

285 ORFanFinder and its web server will contribute to the comparative genomics field

286 When a user submits a molecule, the server will dock it across 611 human proteins, generatin

287 Taken together, we envisage that the server will facilitate and improve the study of protein-

288 ueries (which can be performed using our web server) will enable researchers to better characterize c

289 rthermore, we have developed a companion web server, wInterVar, to enable user-friendly variant inter

290 It took only around half an hour on a small server with 10 CPUs to access genotypes of approximately

291 human whole-genome data on a modern 16-core server with 85 GB RAM at the peak, and calls variants in

292 ReFOLD is a novel hybrid refinement server with integrated high performance global and local

293 al iECGs if symptomatic) onto a secure study server with overread by an automated AF detection algori

294 esource-intensive nature of the computation, servers with high capacity are a requirement.

295 he SwarmDock server, pyDock server and ZDOCK server, with code available on request.

296 sfer of patient information to a cloud-based server, with the capacity for instant alerts to be sent

297 The mtDNA-Server workflow includes parallel read alignment, hetero

298 We believe that the (PS)(2) server would be a useful tool for biologists who are int

299 The CryptoNet web server (www.inetbio.org/cryptonet) is a public resource

300 The web server XSuLT, an enhanced version of the protein alignme