Graphical Abstract.
<p>The first box shows how the COPD and the Differential partial correlation networks have been built. Given a source of biological information, such as a PPI network or set of functional annotations, for every gene i and j (g<sub>i</sub>,g<sub>j</sub>) we extract the g...
محفوظ في:
| المؤلف الرئيسي: | |
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| مؤلفون آخرون: | , , , , , , , , , , , |
| منشور في: |
2024
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| الموضوعات: | |
| الوسوم: |
إضافة وسم
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| الملخص: | <p>The first box shows how the COPD and the Differential partial correlation networks have been built. Given a source of biological information, such as a PPI network or set of functional annotations, for every gene i and j (g<sub>i</sub>,g<sub>j</sub>) we extract the gene specific regularization vector <i>λ</i><sub><i>i</i>,<i>j</i></sub>, that contains the distance between gene g<sub>i</sub> and g<sub>j</sub> to all of the other genes, in our case the inverse of the personalized PageRank algorithm (more details in <b><a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1011079#pcbi.1011079.s001" target="_blank">S1 Text</a></b>). For every pair of genes (g<sub>i</sub>,g<sub>j</sub>), we compute the Gene-Specific Ridge Partial Correlation. Finally, to build the partial correlation network we run a t-test, using permutation and bootstrap procedures, respectively. The second box contains the analysis done on the two networks from (1) the COPD subjects and (2) a differential network of COPD patients vs Healthy controls. Both analyses provide insights into the presence of a potential co-regulatory network in this genomic region.</p> |
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