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Question about pathway analysis #145

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kiwipeel opened this issue Nov 22, 2024 · 0 comments
Open

Question about pathway analysis #145

kiwipeel opened this issue Nov 22, 2024 · 0 comments

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@kiwipeel
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I copy pasted here the bulk data pathway activity tutorial plot. Here we see increase in MAPK pathway in condition 1 compared to condition 2 . Does it mean that this pathways really upregulated (activator genes high) in condition 1 or does it shows genes in this pathway(both supressor and activators) upregulated in condition 1 ?

Also should i use only significantly changed genes in DEGs , or can i use all of the DEGs ?

Thank you;

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