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Then, share your work and models using autogenerated reports and deployed applications.</p> </div></div> </div> <div id="productgroup"><h2>Products for Computational Biology</h2><div class="doc_panel_container"><div class="panel panel-default doc_panel doc_product_panel" id="bioinfo"><a href="../bioinfo/index.html?s_tid=hc_product_card"><div class="panel-body"><h3>Bioinformatics Toolbox</h3><p>Read, analyze, and visualize genomic and proteomic data</p></div></a></div><div class="panel panel-default doc_panel doc_product_panel" id="simbio"><a href="../simbio/index.html?s_tid=hc_product_card"><div class="panel-body"><h3>SimBiology</h3><p>Model, simulate, and analyze biological systems</p></div></a></div></div></div><div class="moreabout_container"><h2>Topics</h2> <div itemprop="content"> <div class="doc_subgroup_container" itemprop="content"> <h3>Next Generation Sequencing</h3> <ul class="list-unstyled"><li><strong><a href="../bioinfo/ug/count-rna-seq-reads-biopipeline-designer.html" class="a">Count RNA-Seq Reads Using Biopipeline Designer</a><span role="cross_prod"> (Bioinformatics Toolbox)</span></strong><br/> Create a bioinformatics pipeline to count RNA-Seq reads that are mapped to genomic features. </li><li><strong><a href="../bioinfo/ug/visualize-NGS-data-using-genomics-viewer.html" class="a">Visualize NGS Data Using Genomics Viewer App</a><span role="cross_prod"> (Bioinformatics Toolbox)</span></strong><br/> View NGS alignment data for single nucleotide variation in cytochrome p450 gene. </li><li><strong><a href="../bioinfo/ug/identifying-differentially-expressed-genes-from-rna-seq-data.html" class="a">Identifying Differentially Expressed Genes from RNA-Seq Data</a><span role="cross_prod"> (Bioinformatics Toolbox)</span></strong><br/> Use a negative binomial model to test RNA-Seq data for differentially expressed genes. </li></ul></div> <div class="doc_subgroup_container" itemprop="content"> <h3>Quantitative Systems Pharmacology</h3> <ul class="list-unstyled"><li><strong><a href="../simbio/ug/build-sglt2-glucose-insulin-model.html" class="a">Incorporate SGLT2 Inhibition into Physiologically Based Glucose-Insulin Model Using SimBiology Model Builder</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Update a glucose-insulin model to integrate sodium-glucose co-transporter 2 (SGLT2) receptor inhibition by a hypothetical compound. </li><li><strong><a href="../simbio/ug/perform-GSA-global-sensitivity-analysis-simbiology-model-analyzer.html" class="a">Find Important Parameters for Receptor Occupancy with Global Sensitivity Analysis Using SimBiology Model Analyzer</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Perform GSA analyses, such as Sobol indices, elementary effects, and multiparametric GSA, to find important model parameters in a target-mediated drug disposition model. </li><li><strong><a href="../simbio/ug/generate-virtual-population.html" class="a">Explore Biological Variability with Virtual Patients Using SimBiology Model Analyzer</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Generate sample values for model parameters to represent virtual patients, simulate to explore tumor growth variability, and investigate the effects of dosing regimens on tumor size. </li></ul></div> <div class="doc_subgroup_container" itemprop="content"> <h3>PBPK and PK/PD Modeling</h3> <ul class="list-unstyled"><li><strong><a href="../simbio/ug/create-and-simulate-a-simple-model.html" class="a">Create Model of Receptor-Ligand Kinetics</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Create and simulate a simple receptor-ligand kinetics model using SimBiology apps. </li><li><strong><a href="../simbio/ug/calculate-NCA-and-estimate-PKPD-parameters.html" class="a">Calculate NCA Parameters and Fit Model to PK/PD Data Using SimBiology Model Analyzer</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Calibrate model parameters by performing noncompartmental analysis and fitting to experimental PKPD data using nonlinear regression. </li><li><strong><a href="../simbio/ug/modeling-the-population-pharmacokinetics-of-phenobarbital-in-neonates.html" class="a">Model the Population Pharmacokinetics of Phenobarbital in Neonates</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Perform nonlinear mixed-effects modeling using clinical pharmacokinetic data. </li><li><strong><a href="../simbio/ug/estimating-the-bioavailability-of-a-drug.html" class="a">Estimate the Bioavailability of a Drug</a><span role="cross_prod"> (SimBiology)</span></strong><br/> Fit a model of absorption and excretion of the drug ondansetron to estimate its bioavailability. </li></ul></div> </div> </div> <div class="moreabout_container"><h2>Related Information</h2> <div itemprop="content"> <ul class="list-unstyled"><li><strong><a href="https://www.mathworks.com/support/search.html/videos/what-is-simbiology-1605793306685.html?fq[]=asset_type_name:video&amp;fq[]=category:simbio/index&amp;page=1" class="video">What Is SimBiology?</a></strong><br/></li> <li><strong><a href="https://www.mathworks.com/support/search.html/videos/simulating-a-model-in-simbiology-117245.html?fq%5B%5D=asset_type_name:video&amp;fq%5B%5D=category:matlab/ordinary-differential-equations&amp;page=1" class="video">Simulating a Model in SimBiology</a></strong><br/></li> <li><strong><a href="https://www.mathworks.com/support/search.html/videos/simbiology-tutorials-for-qsp-pbpk-and-pk-pd-modeling-and-analysis-stratifying-data-for-visualization-in-simbiology-1576844776342.html?fq%5B%5D=asset_type_name:video&amp;fq%5B%5D=category:simbio/index&amp;page=1" class="video">Stratifying Data for Visualization in SimBiology</a></strong><br/></li> </ul></div> </div> <h2>Featured Examples</h2><section class="mw_cards_container" id="featured_examples_container"><div class="mw_card -has_metadata"><div class="mw_card_header"><div class="mw_card_image" style="background-image:url(../examples/simbio/win64/antibioticdemo_02.png);"><a tabindex="-1" href="../simbio/ug/pk-pd-modeling-and-simulation-to-guide-dosing-strategy-for-antibiotics.html"><img alt="Perform PK/PD Modeling and Simulation to Guide Dosing Strategy for Antibiotics" src="../examples/simbio/win64/antibioticdemo_02.png"/></a></div></div><div class="mw_card_body"><h3 class="mw_card_title"><a href="../simbio/ug/pk-pd-modeling-and-simulation-to-guide-dosing-strategy-for-antibiotics.html">Perform PK/PD Modeling and Simulation to Guide Dosing Strategy for Antibiotics</a></h3><p class="mw_card_description">Perform a Monte Carlo simulation of a pharmacokinetic/pharmacodynamic (PK/PD) model for an antibacterial agent. This example is adapted from Katsube et al. [1] This example also shows how to use the SimBiology® <code class="literal">SimFunction</code> object to perform parameter scans in parallel.</p><p class="mw_card_meta_product">(SimBiology)</p></div><div class="mw_card_footer"><ul class="list-unstyled"><li class="coming_from_product"></li></ul></div></div><div class="mw_card -has_metadata"><div class="mw_card_header"><div class="mw_card_image" style="background-image:url(../examples/simbio/win64/insulindemo_09.png);"><a tabindex="-1" href="../simbio/ug/simulating-the-glucose-insulin-response.html"><img alt="Simulate the Glucose-Insulin Response" src="../examples/simbio/win64/insulindemo_09.png"/></a></div></div><div class="mw_card_body"><h3 class="mw_card_title"><a href="../simbio/ug/simulating-the-glucose-insulin-response.html">Simulate the Glucose-Insulin Response</a></h3><p class="mw_card_description">Simulate and analyze a physiologically based glucose-insulin model for normal and diabetic patients.</p><p class="mw_card_meta_product">(SimBiology)</p></div><div class="mw_card_footer"><ul class="list-unstyled"><li class="coming_from_product"></li></ul></div></div><div class="mw_card -has_metadata"><div class="mw_card_header"><div class="mw_card_image" style="background-image:url(../examples/bioinfo/win64/chipseqpedemo_11.png);"><a tabindex="-1" href="../bioinfo/ug/exploring-protein-dna-binding-sites-from-paired-end-chip-seq-data.html"><img alt="Exploring Protein-DNA Binding Sites from Paired-End ChIP-Seq Data" src="../examples/bioinfo/win64/chipseqpedemo_11.png"/></a></div></div><div class="mw_card_body"><h3 class="mw_card_title"><a href="../bioinfo/ug/exploring-protein-dna-binding-sites-from-paired-end-chip-seq-data.html">Exploring Protein-DNA Binding Sites from Paired-End ChIP-Seq Data</a></h3><p class="mw_card_description">Perform a genome-wide analysis of a transcription factor in the <span class="emphasis"><em>Arabidopsis Thaliana</em></span> (Thale Cress) model organism.</p><p class="mw_card_meta_product">(Bioinformatics Toolbox)</p></div><div class="mw_card_footer"><ul class="list-unstyled"><li class="coming_from_product"></li></ul></div></div></section></div></section><div class="clearfix"></div> <div align="center" class="feedbackblock" id="mw_docsurvey"><script src="/help/includes/shared/docsurvey/docfeedback.js"></script> <script>loadSurveyHidden();</script> <link rel="stylesheet" href="/help/includes/shared/docsurvey/release/index-css.css" type="text/css"/> <script src="/help/includes/shared/docsurvey/release/bundle.index.js"></script> <script>initDocSurvey();</script></div> <div class="modal fade" id="matlab-command-dialog" tabindex="-1" role="dialog" aria-labelledby="matlabCommandDialogLabel" aria-hidden="true"> <div class="modal-dialog"> <div class="modal-content"> <div class="modal-header"> <button type="button" class="close" data-dismiss="modal" aria-label="Close"><span aria-hidden="true">×</span></button> <h2 class="modal-title">MATLAB Command</h2> </div> <div class="modal-body" id="dialog-body"> <p>You clicked a link that corresponds to this MATLAB command: </p> <pre id="dialog-matlab-command"></pre> <p>Run the command by entering it in the MATLAB Command Window. 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