Thalemine
What is thalemine ?
Perform the gene ontology analysis
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Go the thalemine website : https://bar.utoronto.ca/thalemine/begin.do
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Open the files exported from R that contain the lists of Differentially expressed genes you want to use. These file are in the “.csv” or “.txt” formats, but can be usually opened using Excel.
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Copy the column with the gene IDs.
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Add them to the “Analyse” box of the Thalemine website
- Click on “analyze” : you obtain a new page with a list of annotated genes.
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You now can save the list by clicking on the green button.
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You now can run the analysis.
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You can can create lists for up- and down-regulated genes, and can perform gene ontology analysis, which you will need to export :
- If the steps above worked, we will visiualize the data using REVIGO.
If Thalemine does not work
For unknown reasons, it frequently happens that thalemine does not work. In that case, you can perform the analysis on the gene ontology website https://geneontology.org :
Make sure to select the correct organism !