ライフサイエンスコーパス: server

1 inds variants in less than 2 h on a standard server.

2 uencing) data via a user-friendly public web server.

3 putation without uploading local data to the server.

4 dical Ontology (NCBO), a biomedical ontology server.

5 nd longer running times than the motif-x web server.

6 g about what key has been agreed upon to the server.

7 method (TIMING) running on a Dell PowerEdge server.

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

9 ailable to researchers through an imputation server.

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

11 CHOR, MoRFpred, DISOPRED3, and MoRFchibi_web server.

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

13 Each computation took 2 d on a single server.

14 spreadsheets and consolidated onto a central server.

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

16 is available as the automated ClusPro LigTBM server.

17 line package, and will be available as a web-server.

18 ndor software and connects to a light-weight server.

19 the user's own computer rather than a remote server.

20 ly stored and analysed in an encrypted cloud server.

21 rties and cannot be transferred to a central server.

22 hem cumbersome to store and analyze on local servers.

23 through modeller 9.15v and evaluated through servers.

24 previous server and other publicly available servers.

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

26 tegrity recommendations of academic preprint servers.

27 cal machines, as well as on high-performance servers.

28 We developed Epiviz File Server, a Python library that implements an in situ data

29 nted the new prediction algorithm into a web server, allowing custom target prediction with user-prov

30 GsmPlot web server allows convenient visualization and efficient exp

31 We have developed a web server, alona that incorporates several of the most popu

32 The server also allows users to upload homology models of mi

33 The AWSEM-Suite server also features a front end with a user-friendly in

34 The web server also offers novel comprehensive visualizations su

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

36 ry avoiding network data transfers to/from a server and (iii) providing a comprehensive graphical use

37 one existing as a module for the SASSIE web server and a developmental version that is a stand-alone

38 n is made freely available via an online web server and a stand-alone toolkit.

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

40 gn-ML is hosted in a publicly accessible web server and a standalone version is also available.

41 sets of PTMs that we make available as a web server and as downloadable source code.

42 th microRNAs were predicted using the V-fold server and Assemble2, and 3-dimensional models were crea

43 e family and was absent in the Exome Variant Server and Exome Aggregation Consortium databases.

44 pid Annotation through Subsystems Technology server and iMicrobe.

45 The application is deployed on a Node.js server and is supported by a MongoDB database which stor

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

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

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

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

50 A number of online web servers and stand-alone tools have been developed to add

51 mputational tools; i.e. ERRAT, verify 3D web server, and PROCHECK.

52 ublicly available through a web-based visual server, and this availability can help facilitate the id

53 ne landscape is growing by hundreds of novel servers annually.

54 HistomicsML2 runs as a containerized server application that provides web-based user interfac

55 code for the standalone program and the web server are made available with an open-source license.

56 Internet-accessible servers are being established to support bioinformatics

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

58 Inhibition of miR182 by RBP-J servers as a critical mechanism that limits TNF-induced

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

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

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

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 The server attempts to identify and to fix likely errors in

65 For timely response, the EpiAlignment web server automatically initiates up to 140 computing threa

66 In this study, a free and open access web server, AWSEM-Suite, whose goal is to predict monomeric

67 Here, we describe significant updates to the server back end, where we have focused on performance im

68 PESCADOR is an online web server based on LAITOR and NLProt text mining tools, whi

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

70 ne of the best performing publicly available servers, based on independent official evaluation metric

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

72 y analytical time and data load due to their server-based nature.

73 We developed a novel, server-based tool (ICBM-OCEAN, Institute for Chemistry a

74 er of citations and the probability of a web server being reachable.

75 An extension of the server built on cutting-edge methods, especially techniq

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

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 Besides, the server can construct degradome-based miRNA regulatory ne

80 PDBMD2CD is a new web server capable of predicting circular dichroism (CD) spe

81 U-Net on either a local computer or a remote server/cloud service.

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

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

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

85 The primary input for the server consists of a set of peptides or proteins, option

86 t NetMHCpan-4.1 and NetMHCIIpan-4.0, two web servers created to predict binding between peptides and

87 QuartataWeb is a user-friendly server developed for polypharmacological and chemogenomi

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

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

90 IRIS3 is an easy-to-use server empowered by over 20 functionalities to support c

91 DelPhiForce web server enables modeling of electrostatic forces on indiv

92 Here, we present the MTR-Viewer, a web-server enabling easy visualization at the gene or varian

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

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

95 r 2 membrane proteins while all of the other servers failed.

96 based high-accuracy predictor, the first web server for assessing the impact of mutations on m7G stat

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

98 e introduce IRIS3, the first-of-its-kind web server for CTSR inference from scRNA-Seq data for human

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

100 pliced linear and circRNAs (ASmiR) and a web server for deposition and identification of miRNA target

101 a tool called IRIS-EDA, which is a Shiny web server for expression data analysis.

102 ioServer 2.0 is the advanced sequel of a web server for filtering, clustering and networking of chemi

103 with TM-scores >0.5 than the previous LOMETS server for Hard targets that lacked homologous templates

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

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

106 resent PRECOG (precog.russelllab.org): a web-server for predicting GPCR coupling, which allows users

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

108 Here, we present QBiC-Pred, a web server for predicting quantitative TF binding changes du

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

110 PREDictor (HMI-PRED) is a user-friendly web server for structural prediction of protein-protein inte

111 We present GWASpro, a high-performance web server for the analyses of large-scale genome-wide assoc

112 ly enhanced version of the widely used w3DNA server for the analysis, visualization, and modeling of

113 developed and implemented in the TMPfold web server for the calculation of the free energy of TM heli

114 The online server for the EncoMPASS database provides tools for com

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

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

117 Although many web-servers for predicting protein subcellular localization

118 nts, and withdrawals on the medRxiv preprint server from June 2019 to June 2020 and compares submissi

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

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

121 Although the server has been widely used by the community over the la

122 Since its initial release in 2009, the w3DNA server has continuously served the community by making c

123 The IntFOLD server has established its ranking as one of the best pe

124 This server has high value for researchers interested in stud

125 There are three modules in the PredMP server: (i) The DTL framework followed by the contact-as

126 The web server identifies Gene Ontology terms that are statistic

127 ith a graphical processing unit instead of a server; (ii) enabling image acquisition and analysis to

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

129 e, we report the development of NFPws, a web server implementation of the NFP algorithm.

130 We demonstrate four independent client and server implementations, and the results of a comprehensi

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

132 This server implements MUFold-SS, MUFold-Angle, MUFold-BetaTu

133 tive of what unitary [Formula: see text] the server implements or how the server specifically realize

134 outputted from Michigan or Sanger imputation servers), IMPUTE2 or PLINK files.

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

136 posted to bioRxiv.org, the largest preprint server in the life sciences, and allows users to filter

137 We demonstrate the File Server in two use cases: (i) integration with Galaxy wor

138 New community resources include large public servers in Europe and Australia, an increasing number of

139 iv.org, the largest biology-focused preprint server, in its first five years.

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

141 Moreover, our MMiRNA-Viewer(2) web server integrates and displays the mRNA and miRNA gene a

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

143 The major update for the server introduces a new graphical interface, much faster

144 The AWSEM-Suite server is a powerful tool for predicting monomeric prote

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

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

147 The ModFOLD6 server is also continuously automatically evaluated as p

148 The R-scape web server is at eddylab.org/R-scape, with a link to downloa

149 wever, no convenient and efficient web-based server is available for plant biologists to identify the

150 DRug REPOSitioning Exploration Resource) web server is designed to identify potential targets for dru

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

152 The PIZSA server is easy to use and could be used to score any inp

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

154 An online server is provided for users to conduct metalloenzyme pr

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

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

157 The purpose of the server is to redesign the specified complex chain to inc

158 The server is unique in providing output for multiple altern

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

160 The File Server library decouples data retrieval and transformati

161 An online web server m6Acomet was constructed to support direct query

162 In addition, the server maintains a local database providing pre-processe

163 shed studies using OVID Medline and preprint servers (medRxiv, LitCovid, and SSRN) up until April 5,

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

165 upgrades the mitochondrial genome annotation server MITOS to an even more sophisticated tool for full

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

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

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

169 ty over the last decade, the previous LOMETS server no longer represents the state-of-the-art due to

170 de polymorphisms (SNPs) in 5.6 h on a single server node (or in 11 min on 31 server nodes running in

171 on a single server node (or in 11 min on 31 server nodes running in parallel).

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

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

174 The standalone package and online server of ResPRE are made freely available, which should

175 The PSIPRED Workbench is a web server offering a range of predictive methods to the bio

176 Attractively, our server offers a platform for users to upload their own p

177 The MoMo web server offers more proteome databases, more input format

178 T-Gene is easy to use via its web server or as a command-line tool, and can also make accu

179 s is open source and can be run from our web server or installed locally.

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

181 et data programmatically from the WebGestalt server or pass data to WebGestalt for analysis.

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

183 tive review, and that can be deployed on GPU servers or cloud platforms.

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

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

186 erimental validation in CAMEO shows that our server predicted correct folds for 2 membrane proteins w

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

188 Tested on 510 non-redundant MPs, our server predicts correct folds for ~290 MPs, which signif

189 The server prepares quantum states for clients to encode mes

190 The w3DNA 2.0 server presented here overcomes all known shortcomings o

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

192 fic manuscripts posted on dedicated preprint servers prior to journal-managed peer review, can play a

193 stimate the absolute value of the trace of a server-provided unitary operation [Formula: see text].

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

195 The IntFOLD server provides a unified resource for the automated pre

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

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

198 Overall, the TIMER2.0 web server provides comprehensive analysis and visualization

199 The server provides facilities for users to interactively re

200 The DEPICTER (DisorderEd PredictIon CenTER) server provides first-of-its-kind centralized access to

201 The server provides genetic ancestry estimation for differen

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

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

204 MyDGR is a web server providing integrated prediction and visualization

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

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

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

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

209 er an MIT licence and can be deployed on any server running Linux or Mac OS.

210 The model underlying the server's predictions is a coarse-grained protein force f

211 More specifically, we show that in a client-server scenario, it is possible for the clients to share

212 ting hundreds of papers per week to preprint servers, sharing their findings with the community befor

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

214 n process, runs user-selected methods on the server side, visualizes the results, and outputs all pre

215 nces without manual set up on the deployment server side.

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

217 ng increase annotation accuracy, and the new server-side architecture is significantly faster.

218 terface, a command-line interface (CLI), and server-side components that provide an intuitive platfor

219 interest that are proactively identified by server-side computations are listed as notifications in

220 unique functions: (i) it is the first online server specifically mining genomes for Acr-Aca operons;

221 : see text] the server implements or how the server specifically realizes [Formula: see text].

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

223 CASP13 shows that our distance-based folding server successfully folded 17 of 32 hard targets (with a

224 Preprint servers such as arXiv and bioRxiv represent a highly suc

225 Although database servers such as PostgreSQL can store such information wi

226 The server summarizes several in silico prediction algorithm

227 The server takes as input serum neutralization data for a se

228 The server takes primary sequence and raw crystal diffractio

229 ed website with implementation of modern web server technologies.

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

231 In response, we introduce LINbase, a web server that allows users to genomically circumscribe any

232 e report, mCSM-membrane, a user-friendly web server that can be used to analyse the impacts of mutati

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

234 emented our new approach, mmCSM-AB, as a web-server that can help guide the process of affinity matur

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

236 This article presents visGReMLIN, a web server that couples a graph mining-based strategy to det

237 We developed a web server that efficiently constructs gene networks from ex

238 Here, we present the piNET server that facilitates integrated annotation, analysis

239 PLAtform of TOols for LOw COmplexity-a meta-server that integrates and collects the output of five d

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

241 AFA3), in this paper we propose NetGO, a web server that is able to further improve the performance o

242 In 2014, we introduced GUILDify, a web server that searches for genes associated to diseases, f

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

244 sualizations into the framework, runs public servers that make Galaxy available via a web browser, pe

245 We report an advanced web server, the plant-specific small noncoding RNA interfere

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

247 The server then searches for templates and uses them for doc

248 e the use of this network, we deployed a web server through which users can query their genes of inte

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

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

251 is by utilizing available CPU power from the server to automate the analysis process; (ii) summarizes

252 g published cryo-EM protein structures and a server to be able to compute this data for newly obtaine

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

254 med to build a visual analytics-oriented web server to detect and visualize common motifs at the prot

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

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

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

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

259 We present miRSwitch, a web server to facilitate the analysis and interpretation of

260 we make our results available through a web server to foster accessibility and downstream research.

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

262 ries, we have developed a neural network web server to identify LCRs and accurately predict whether t

263 A client can then call upon a remote server to implement parts of the computation independent

264 Here we present FunSet, a new web server to perform and visualize enrichment analysis.

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

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

267 on helps extend the usefulness of the online server to the broader biological community.

268 CAST is an interactive and user-friendly web server to visualize and analyze missense variants in pro

269 alled for either personal use or deployed on servers to provide online service.

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

271 We believe this online web server, together with our proposed methodology, will exp

272 be parallelized over cores and over cluster servers using OpenMP and message passing interface (MPI)

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

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

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

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

277 By developing the PlaToLoCo meta-server, we provide the community with a fast and easily

278 All servers were accessed over 133 days and 318 668 index fi

279 ot reveal to any eavesdropper, including the server, what key has been agreed upon, and the dishonest

280 We developed a web server where our data and several search and analysis to

281 ation can be directly retrieved from our web server, which can help users quickly identify significan

282 eport the recent advancements of the LOMETS2 server, which comprise a number of major new development

283 ials Database on the Bilbao Crystallographic Server, which contains more than 549 magnetic compounds

284 In this work, we propose a new EvoDesign server, which extends the principles of evolution-based

285 on and custom modules are built using LabKey server, which is an Open Source platform for scientific

286 describe development of the protein-sol web server, which was previously restricted to protein solub

287 With its accuracy and high speed, this server will be a useful tool for batch effects analysis.

288 Overall, the NFPws server will be an important tool for the identification

289 We believe that our model and web server will be useful for biomedical researchers who are

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

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

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

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

294 private breeding data within the secure GDR server with an option to release data publicly.

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

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

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

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

299 ased Plant MiRNA-target Interaction Analysis Server (WPMIAS), for validation of predicted interaction

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