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OneStop:JWS Online's access point to SBML,SBGN and MIRIAM compliant annotation
2011
Nature Precedings
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JWS Online • Among the first online model repositories and simulators
Repository
2.) DataFuse Goal • Link models to -Construction data -Validation data
3.) ...
modeling workflows for users Generates data for model construction • SysMO is developing a software platform: -the SEEK • Uses JWS Online as model simulator • Review tool for some journals
• 112 curated ...
Acknowledgements • Funding: This work was funded by the BBSRC and the BMBF. SysMODB: Supporting Data Access and Integration (BBG0102181). ...
doi:10.1038/npre.2011.6349.1
fatcat:bzvqq67mdfbx5pmsmq2m37667e
OneStop:JWS Online's access point to SBML,SBGN and MIRIAM compliant annotation
2011
Nature Precedings
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Acknowledgements • SysMODB team • Funding: This work was funded by the BBSRC and the BMBF. SysMODB: Supporting Data Access and Integration (BBG0102181). ...
SEEK integrated tool to: • construct, modify, save models in SBML format • SBGN schema generation • annotate model (MIRIAM), using semanticSBML webservices. • Uses JWS Online as model simulator the SEEK ...
JWS Online • Among the first online model repositories and simulators
Repository • Review tool for some journals • 112 curated models • SysMO is developing a software platform: the SEEK
3.) ...
doi:10.1038/npre.2011.6349
fatcat:53hg4epj45akpdq2wj5wahzbe4
The JWS online simulation database
2017
Bioinformatics
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JWS Online is a web-based platform for construction, simulation and exchange of models in standard formats. ...
Availability and Implementation: The Simulation Database is available on line at https://jjj.bio.vu. nl/models/experiments/. Contact: jls@sun.ac.za. ...
This work was furthermore funded by the German Federal Ministry of Education and Research (BMBF) as part of the e:Bio SEMS project (FKZ 031 6194) and by the Biotechnology and Biological Sciences Research ...
doi:10.1093/bioinformatics/btw831
pmid:28130238
fatcat:hpv5cllhtbfrhcqxpkty3bpyc4
Toward Open and Reproducible Environmental Modeling by Integrating Online Data Repositories, Computational Environments, and Model Application Programming Interfaces
2020
Environmental Modelling & Software
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Recent efforts toward this goal have focused on advancing online repositories for data and model sharing, online computational environments along with containerization technology and notebooks for capturing ...
We then present one possible implementation that integrates HydroShare (an online repository), CUAHSI JupyterHub and CyberGIS-Jupyter for Water (computational environments), and pySUMMA (a model API) to ...
Acknowledgment This work was supported by the National Science Foundation under collaborative grants OAC-1664061, OAC-1664018, OAC-1664119, ICER-1928369, and ICER-1928315. ...
doi:10.1016/j.envsoft.2020.104888
fatcat:qkatdewc2zbftffckss6gsvp2e
Web-based applications for building, managing and analysing kinetic models of biological systems
2008
Briefings in Bioinformatics
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This motivates systems biologists/bioengineers/bioinformaticians to develop new tools and applications, allowing non-experts to easily conduct such modelling and analysis. ...
The modelling and concomitant simulation render it possible to predict the cellular behaviour of systems under various genetically and/or environmentally perturbed conditions. ...
However, models and data are represented in different formats, which need to be integrated under a common framework. ...
doi:10.1093/bib/bbn039
pmid:18805901
pmcid:PMC2638623
fatcat:hf6nu6opujdnjlt6ti3r7z3ny4
WebGimm: An integrated web-based platform for cluster analysis, functional analysis, and interactive visualization of results
2011
Source Code for Biology and Medicine
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The Java Web Start client-based interface is modeled after the familiar cluster/treeview packages making its use intuitive to a wide array of biomedical researchers. ...
Integrated functional analyses and interactive browsing of both, clustering structure and functional annotations provides a complete analytical environment for cluster analysis and interpretation of results ...
Acknowledgements This research was supported by grants from the National Human Genome Research Institute (R01 HG003749), National Library of Medicine (R21 LM009662) and NIEHS Center for Environmental Genetics ...
doi:10.1186/1751-0473-6-3
pmid:21241501
pmcid:PMC3033799
fatcat:agy4w46kwzgjjg3fomnvwqe5ya
What it takes to understand and cure a living system: computational systems biology and a systems biology-driven pharmacokinetics-pharmacodynamics platform
2010
Interface Focus
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In order to facilitate a fruitful synergy between SB and PK -PD, and between PK and PD, we present a new platform that combines standard phenomenological models used in the PK/PD field with mechanism-based ...
SB models and approaches. ...
The Biomodels and JWS online groups work closely together and actively exchange models. ...
doi:10.1098/rsfs.2010.0011
pmid:22419971
pmcid:PMC3262244
fatcat:kgecaimpsrb4lh6tkskhxkfrui
MAMMOTh: A new database for curated mathematical models of biomolecular systems
2018
Journal of Bioinformatics and Computational Biology
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Thus, to simulate the internal nature and dynamics of the whole biological system we should use the iterative way for a model reconstruction, which is a consistent composition and combination of its elementary ...
systems, which are fit to the experimental data. ...
For this purpose we have used either APIs of the corresponding services or the manual data extraction (JWS online). ...
doi:10.1142/s0219720017400108
pmid:29172865
fatcat:yt5zbiwkmferdb3ctxt3tmdtya
Smart Home Entertainment System with Personalized Recommendation and Speech Emotion Recognition Support
2016
International Journal of Smart Home
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In this paper a personalized recommendation and speech emotion recognition based smart home entertainment system, which integrates multiple entertainment resources including online movies/TV serial, TV ...
programs and online music, is proposed. ...
Only normal smart phone, PC and TV are needed. (2) Integrate multiple kinds of entertainment resources: online movies and TV serials, TV programs and online music. ...
doi:10.14257/ijsh.2016.10.8.14
fatcat:koigspknsjdlbhfsrbdvfdlrdq
Arabic web pages clustering and annotation using semantic class features
2014
Journal of King Saud University: Computer and Information Sciences
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The quality of the clustering result has evaluated the use of the purity and the mean intra-cluster distance (MICD) evaluation measures. ...
To reach semantic similarities, the approach extracts the semantic class features and integrates them into the similarity weighting schema. ...
Acknowledgments The authors would like to extend their thanks to the Ministry of Education, Malaysia, Universiti Teknologi Malaysia (UTM) under Vot 03H02, Umm Al-Qura University (UQU) and the Ministry ...
doi:10.1016/j.jksuci.2014.06.002
fatcat:os6ei63opfghzomx5clyytonry
MAMMOTh: a new database for curated MAthematical Models of bioMOlecular sysTems
[article]
2016
bioRxiv
pre-print
Preserved Fulltext
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Thus, to simulate the internal nature and dynamics of the whole biological system we should use the iterative way for a model reconstruction, which is a consistent composition and combination of its elementary ...
systems, which are fit to the experimental data. ...
For this purpose we have used either APIs of the corresponding services or the manual data extraction (JWS online). ...
doi:10.1101/053652
fatcat:33jw3gcyiff4dfuaoiolcru72u
FAIRDOMHub: a repository and collaboration environment for sharing systems biology research
2018
11-ая Международная конференция по биоинформатике регуляции и структуры геномов и системной биологии
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It enables researchers to organize, share and publish data, models and protocols, interlink them in the context of the systems biology investigations that produced them, and to interrogate them via API ...
The FAIRDOMHub is a repository for publishing FAIR (Findable, Accessible, Interoperable and Reusable) Data, Operating procedures and Models (https:// fairdomhub.org/) for the Systems Biology community. ...
ACKNOWLEDGEMENTS The authors would like to thank Martin Scharm, Dagmar Waltemath, Andrew Millar, project ambassador 'PALS' and all others who have supported them in their efforts to develop and deploy ...
doi:10.18699/bgrssb-2018-111
fatcat:ap5rnoslqbdi7ankay3yhcbqr4
FAIRDOMHub: a repository and collaboration environment for sharing systems biology research
2016
Nucleic Acids Research
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
The file type is application/pdf.
It enables researchers to organize, share and publish data, models and protocols, interlink them in the context of the systems biology investigations that produced them, and to interrogate them via API ...
The FAIRDOMHub is a repository for publishing FAIR (Findable, Accessible, Interoperable and Reusable) Data, Operating procedures and Models (https:// fairdomhub.org/) for the Systems Biology community. ...
ACKNOWLEDGEMENTS The authors would like to thank Martin Scharm, Dagmar Waltemath, Andrew Millar, project ambassador 'PALS' and all others who have supported them in their efforts to develop and deploy ...
doi:10.1093/nar/gkw1032
pmid:27899646
pmcid:PMC5210530
fatcat:tuhlhnr2zrazfaqbxmegmk4aii
Online Bearing Fault Diagnosis Based on Packet Loss Influence-Inspired Retransmission Mechanism
2022
Mathematics
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We evaluate the retransmission scheme using a fault diagnosis model based on K-nearest neighbor (KNN) for timely online bearing fault diagnosis. ...
discrepancies between a data stream and the historical datasets. ...
Let us denote the data sent as x ds (n), and data received as x dr (n), where n = 0, • • • , MN − 1. ...
doi:10.3390/math10091422
fatcat:mwoxcufskja27irj55wazoyvzu
The Use of Wireless Network Combined with Artificial Intelligence Technology in the Reform of Music Online Teaching System
2022
Wireless Communications and Mobile Computing
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These models include music online composition teaching model, music online teaching scoring model, and music online lyric writing teaching model. ...
combination model of AI technology and music online education system in 5th-generation (5G) wireless network environment is proposed. ...
The system designed mainly includes three parts: music online composition teaching model, music online teaching scoring model, and music online lyric writing teaching model. ...
doi:10.1155/2022/5957708
fatcat:yznklf5xjba23b4xiorpj742ee
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