Entering edit mode
4.3 years ago
Chaimaa ▴ 260
Does anyone have an idea about how can we identify dysregulated pathways from a pathway network using SVM
What kind of inputs do we need for SVM in this case?
IF anyone can just suggest me?, appreciate that!
Did you already search for things to do in relation to this topic? What did you find?
Yes, Kevin, i did that
You are not helping too much by not providing information on the data that you currently have.
Ok, Kevin, The data i have is a file with 3 columns
path1 path2 scoreThe paper i read is this one: https://www.ias.ac.in/article/fulltext/jgen/097/01/0173-0178
Kevin, you can have a look at this paper, published in 2018
It is your job to read the manuscript, not mine.
I already read the manuscript , and I just want to show you from where i got the idea of dysregulated pathways Sorry!
I do not see
scoreanywhere in that manuscript; so, I have no idea what you are aiming to do. You should start at the Materials and methods and take it step by step. I am aware that differences in language make this more difficult for you.
@Kevin Blighe Ok, Kevin Thanks! No problem I will try my best to understand how they do that. many thanks for you again!
I guess that these 2 threads are also linked? - How to calculate the Pearson correlation coefficients between a list of genes? Let me know how it goes.
@Kevin Blighe Hi, Kevin No the 2 threads are not linked bcz, I built the PIN based on just the overlapped genes and not the coexpression. I tried to text you on GitHub and i can't!?