168 reputation
5
bio website
location
age
visits member for 1 year, 6 months
seen Apr 20 '13 at 13:32

Jul
2
awarded  Curious
Apr
16
asked Confusion related to the use of PCA to determine the background network
Apr
9
comment Confusion related to a term probe-by-background interaction
I just found out that it is just the product of the probe values and the background values. However, they have mentioned probe-by-background term(paired t-test P-value=7,5*10^-5, paired Mann-Whitney test P-value=5.2*10^-5). What is meant by this?
Apr
9
comment Confusion related to a term probe-by-background interaction
I am wondering if they used the ttest values for the interaction term?
Apr
9
comment Confusion related to a term probe-by-background interaction
I didn't understand how it is calculated. I mean probes are the original probes. Background are formed by applying PCA and taking the best 6. I didn't understand how this interaction term is calculated. How do I know which background a probe is in. Also I didn't get why it is called background. I mean they have just applied PCA to capture the decorrelated basis which capture the most variance. Why is it called background?
Apr
9
comment Confusion related to a term probe-by-background interaction
I didn't understand how it is calculated. I mean probes are the original probes. Background are formed by applying PCA and taking the best 6. I didn't understand how this interaction term is calculated. How do I know which background a probe is in
Apr
9
revised Confusion related to a term probe-by-background interaction
added 962 characters in body
Apr
9
awarded  Editor
Apr
9
revised Confusion related to a term probe-by-background interaction
added 1689 characters in body
Apr
8
revised Confusion related to a term probe-by-background interaction
rolled back to a previous revision
Apr
8
awarded  Cleanup
Apr
8
revised Confusion related to a term probe-by-background interaction
rolled back to a previous revision
Apr
8
asked Confusion related to a term probe-by-background interaction
Feb
25
asked What is benjamini
Feb
22
awarded  Scholar
Feb
22
accepted Confusion related to the DAVID tool
Feb
21
asked Confusion related to the DAVID tool
Feb
12
comment Confusion related to gene expression
I need to get the gene id for the corresponding probe it. For that I need the CDF file. So I was actually wondering where I can get them?
Feb
11
comment Confusion related to gene expression
Thanks I will try that. However it looks like I will need some CDF files as well. Where can I get them? In particular I need the CDF files for chip type HG-U133_Plus_2 and HG-U133A. Any suggestions? I looked a couple of places but looks like I have to pay for it. It was supposed to be free I guess
Feb
11
comment Confusion related to gene expression
@rg255. Also I didn't get the link you said this website. I didn't find the link attached