Question: qPCR results interpretation
0
gravatar for F
3.2 years ago by
F3.4k
Iran
F3.4k wrote:

Hi,

I received my qPCR results from lab.

for each gene i have a log2 fold change and a standard deviation

I have 4 treatment versus control 

for example for gene AT1G18970

     

            log2FC                     sd

4h         1.21810725             0.100993

8h          3.3357405             0.19981

24h       0.2808515               0.198745

48h      0.8401785                0.0983347

may someone tell me please for report in paper the expression of this gene is confirmed or not??? because I can't get how I detect based on sd and log2FC whether this genes deferentially expressed or not.

thank you

gene • 1.3k views
ADD COMMENTlink modified 3.2 years ago by Devon Ryan91k • written 3.2 years ago by F3.4k
2

@Angel what is this log2FC ? if you have 4 treatments and controls for it, you should also say how many replicate you have , and I assume then you can have 4 logFC and not only 1, But looking at your example, I found that it is a synthesis experiments, again if this is your data and not portion of it, would not be possible to tell only based on sd

ADD REPLYlink written 3.2 years ago by Mo890

Thank you I heated Arabidopsis seedlings for 4, 8, 24 and 48 hours and compared them with un-heated controls in this time points. I did not have replication in my experiment. I did not do qPCR myself. I only selected 10 genes randomly from heat responding genes and asked a lab to perform qPCR. they sent a file contains log2FC and standard deviation for each gene in compared to match control for example heated 4 hours-control 4 hours. now I don't know what to say, whether this genes were deferentially expressed or not.

ADD REPLYlink modified 3.2 years ago • written 3.2 years ago by F3.4k
1

If that's the case then you can't detect differential expression. You would need replicates for that, regardless of the experiment done.

ADD REPLYlink written 3.2 years ago by Devon Ryan91k
1
gravatar for Devon Ryan
3.2 years ago by
Devon Ryan91k
Freiburg, Germany
Devon Ryan91k wrote:

Ask the folks in the lab to send you the actual results, not their analysis of them. You can then use a T-test or Wilcoxon and get a p-value.

ADD COMMENTlink written 3.2 years ago by Devon Ryan91k
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