How to model transcriptional networks from gene expression time-course data
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5.8 years ago
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I have a small dataset containing five genes and their expression at 20 different time points, I want to construct the transcriptional regulatory network based on the data. Are there any tools or tutorials available to do this? I would much prefer tutorials.

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5.5 years ago
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I was finally successful to do this using both of the following approaches, I found the first one to be easier to work with:

  1. Äijö T., Lähdesmäki H. (2009) Learning gene regulatory networks from gene expression measurements using non-parametric molecular kinetics. Bioinformatics, 25, 2937–2944. http://www.cs.tut.fi/~aijo2/gp/

  2. Bonneau R, Reiss DJ, Shannon P, et al. The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo. Genome Biology. 2006;7(5):R36. doi:10.1186/gb-2006-7-5-r36. http://baliga.systemsbiology.net/drupal/content/inferelator/

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