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<h4 class="anchored" data-anchor-id="reading-materials"><img border="0" src="https://www.svgrepo.com/show/26916/book.svg" width="25" height="25"> Reading materials</h4>
<p>This page contains recommended reading materials in addition to the <a href="precourse.md">pre-course content</a>.</p>
<p><strong>!</strong> - important</p>
<p><strong>Machine Learning approaches in Integration</strong><br>
Note: if you cannot see one of the pages because you’ve reached the free member preview, open the page in “Private Browsing” mode in your web browser. - <strong>!</strong> <a href="https://towardsdatascience.com/select-features-for-omics-integration-511390b7e7fd">Feature selection</a> - <strong>!</strong> <a href="https://towardsdatascience.com/reduce-dimensions-for-single-cell-4224778a2d67">Dimensionality reduction</a> - <strong>!</strong> <a href="https://towardsdatascience.com/supervised-omics-integration-2158e1a6d23f">Supervised Omics integration</a> - <strong>!</strong> <a href="https://medium.com/@nikolay.oskolkov/unsupervised-omics-integration-688bf8fa49bf">Unsupervised Omics integration</a> - <a href="https://link.springer.com/content/pdf/10.1186/s13059-017-1215-1.pdf">Multi-omics approaches to disease</a> <br><br></p>
<p><strong>Biological Network Analysis and Network Topology</strong> - <strong>!</strong> <a href="https://www.nature.com/articles/nrg1272">Network biology: understanding the cell’s functional organization</a> - <strong>!</strong> <a href="https://www.nature.com/articles/nrg2918">Network medicine: a network-based approach to human disease</a> - <a href="https://www.nature.com/articles/nrg.2016.87.pdf">Network biology concepts in complex disease comorbidities</a> - <a href="https://science.sciencemag.org/content/302/5643/249.full">Gene co-expression analysis and conserved modules</a> <br><br></p>
<p><strong>Genome-scale metabolic modeling</strong> - <strong>!</strong> <a href="https://www.frontiersin.org/articles/10.3389/fphys.2015.00413/full">Overview of genome-scale metabolic models</a> - <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3108565/">What is flux balance analysis?</a> - <a href="https://www.cell.com/fulltext/S2405-4712(17)30010-8">A Systematic Evaluation of Methods for Tailoring Genome-Scale Metabolic Models</a> - Human Metabolic Models: <a href="https://pubmed.ncbi.nlm.nih.gov/32209698/">Human1</a> and <a href="https://www.ncbi.nlm.nih.gov/pubmed/29457794">Recon3D</a> - <strong>!</strong> <a href="https://www.pnas.org/content/102/8/2685">Reporter metabolite analysis</a> - <a href="https://www.pnas.org/content/102/43/15545">Gene set enrichment analysis (GSEA)</a> and <a href="https://pubmed.ncbi.nlm.nih.gov/23444143/">Directional gene set analysis (GSA)</a> - Modeling software: Python: <a href="https://opencobra.github.io/cobrapy/">COBRApy</a>, MATLAB: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6207324/">RAVEN</a> and <a href="https://www.nature.com/articles/s41596-018-0098-2">COBRA</a> <br><br></p>
<p><a href="https://nbisweden.github.io/workshop_omics_integration/">Back to Homepage</a></p>
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