Proteomic
I'm a Biostatistics fresher and don't really have an experience with proteomics etc. But I'm doing a project working on this path. So I'm trying to do a multiple test on two methods of editing DNA (CRISPR and transfection) with 16 samples and two replica each. Now I understand i need to build a limma model and do contrast testing for each combination and then use the BH method to control for FDR. But I'm just confused as to how to build this frame work statistically/theoretically More like i don't know how to start up with building my statistical methodology
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Hi, I understand that things can be hard in the beginning, but please try to ask a precise question. Currently, it reads like thinking aloud. Did you read the limma and more recent limpa package user guides? If so, what exactly is the issue?
Hello, Thank you for your reply. At first, I struggled to understand the statistical methodology and why we use limma, especially since I am new to proteomics data. But now, everything is clear to me, and I have drafted a workflow for how I plan to approach the analysis. One more thing I would like to understand is how to preprocess this kind of data. My background is mainly in clinical trials, so I am familiar with preprocessing for that type of data, but I am not sure what the key steps are for proteomics. Could you guide me on this or recommend some papers I could read?
If you have questions ask it here. I am surprises that you seem to take it for granted that you could just send me emails as if I way you private contractor. I am not.
Ask a precise question towards what you struggle with. "Preprocessing" can be many things. One would need to know what exactly the format is and what has been done with it so far.
I'm sorry. I don't mean it that way. But thanks.