PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS
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Case Western Reserve University School of Graduate Studies / OhioLINK
2012
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| Online Access: | http://rave.ohiolink.edu/etdc/view?acc_num=case1328556115 |
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ndltd-OhioLink-oai-etd.ohiolink.edu-case13285561152021-08-03T05:34:26Z PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS Coskun, Sarp Arda Computer Science Systems Biology Simulation Composition Pathway <p>Systems Biology is a field of study which focuses on the interactions in biological systems. There are multiple representation formats for these computational models and Systems Biology Markup Language (SBML) is one of the most widely used. SBML is used not only to store but also to distribute computational models between Systems Biology data sources (e.g. BioModels) and researchers. Therefore, there is a need for all-in-one solutions which support advance SBML functionalities such as uploading, editing, composing, visualizing, simulating, querying and browsing computational models.</p><p>In this thesis, we describe four web based tools to simulate, compose, edit and compare computational models on top of PathCase-SB (PathCase Systems Biology) web portal. These tools are:</p><p>1. Model Simulation Interface, which generates a visual plot according to the user input,2. iModel Tool, that creates a platform for users to upload their own models,3. SimCom Tool, that provides a side by side comparison of models in the same pathway,4. Model Composition Interface, which supports multiple components to facilitate the complex process of merging computational models.</p> 2012-05-22 English text Case Western Reserve University School of Graduate Studies / OhioLINK http://rave.ohiolink.edu/etdc/view?acc_num=case1328556115 http://rave.ohiolink.edu/etdc/view?acc_num=case1328556115 unrestricted This thesis or dissertation is protected by copyright: all rights reserved. It may not be copied or redistributed beyond the terms of applicable copyright laws. |
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NDLTD |
| language |
English |
| sources |
NDLTD |
| topic |
Computer Science Systems Biology Simulation Composition Pathway |
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Computer Science Systems Biology Simulation Composition Pathway Coskun, Sarp Arda PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS |
| author |
Coskun, Sarp Arda |
| author_facet |
Coskun, Sarp Arda |
| author_sort |
Coskun, Sarp Arda |
| title |
PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS |
| title_short |
PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS |
| title_full |
PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS |
| title_fullStr |
PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS |
| title_full_unstemmed |
PATHCASE-SB MODEL SIMULATION AND MODEL COMPOSITION TOOLS FOR SYSTEMS BIOLOGY MODELS |
| title_sort |
pathcase-sb model simulation and model composition tools for systems biology models |
| publisher |
Case Western Reserve University School of Graduate Studies / OhioLINK |
| publishDate |
2012 |
| url |
http://rave.ohiolink.edu/etdc/view?acc_num=case1328556115 |
| work_keys_str_mv |
AT coskunsarparda pathcasesbmodelsimulationandmodelcompositiontoolsforsystemsbiologymodels |
| _version_ |
1719421919151783936 |