Dear Jo and Jan We have carried out an experiment in which we want to look at the expression of 3 GOIs and 2 HKGs in 5 tissue samples from 49 patients ie 3...
Hail, We set up a small experiment to become familiar with expanding experiments in qBase. Our first experiment analyzed 5 GOIs and 3 REFs for 6 samples...
Dear Claus, In qBase, and actually for any analysis of qPCR data, it is required to use the same set of reference genes for all samples. Selecting only the 2...
Dear Jo, I was using qBase successfully when it started to give errors in the raw data analysis (run-time 1004) (initialisation ok) , only with some excel...
When looking at the standard curves for the different genes the scale of the x axis is only from 1 to 10 lately and with such a small scale the data is not...
Hi, I am having trouble importing the results of a 384 well plate run on an ABI7900. According to the manual, i have made an excel file with the column...
The amplification plot in qBase is not generated by the qBase code, but merely an object in the Excell sheet. Therefore it can be manually changed just like...
Hi I cannot do quality control for inter run calibration because I don't have the part relative to run calibration in the "options" interface screen. Could...
I tried to load my expriment files from the stratagene Mx3000P, which qBASE should support. The loading of the files work fine, but I get "Runtime error 9 -...
Hello, A quick one: what RQ calculation method should I use if I have a single reference gene? I see that if I use the qBase method I get normalization factor...
Hello, Is the per-sample normalization factor (NF) calculated and applied independently for each run? For example, in the qBase paper (Genome Biology 2007...
... When you have only 1 reference genes, the qBase quantification model is automatically simplified to the delta-delta-Ct model with efficiency correction...
... Yes. The normalization factor (NF) is sample dependent. ... qBase does not calculate one finale CNRQ value, but three (one for each plate). If wanted,...
... Thank you for the quick reply! Ok I just want to see if I understand clearly. In the paper example illustrated in figure 2 there are two different plate...
... on the ... Exactly. ... It cannot deal with this properly. I suggest you use reference data from only one plate. The alternative is to give the reference...
Sorry to bother again, could you explain to me what is like to cause the problem below. Thanks for any suggestion, Anna annafra07 <annafra07@...> ha...
... This kind of problem is sometimes caused by gene or sample names that are not recognized as text. This can occur with names that are interpreted as...
Hi When using the sample maximization method (all samples fit on one plate/run but have many genes so have a number of plates)if you have a repeat of the...
It's best to treat this as a new experiment. After qBase analysis, you can easily export processed data and do further analysis (averaging, correlation...
I am running into a problem with the run editor view where it is either empty (shows the grid, but no gene/sample names) or shows only the upper left quadrant...
I am using Cepheid and converting run files to qBase file format as described in manual. However, I have a housekeeping gene tested in each sample. Where...
Hi, In my study i have run 2 housekeeping genes and 2 genes of interest. Each gene was run on a 384 plate of cDNA samples. My problem is that several samples...
I have done a real-time-pcr experiment with 2 house keeping genes and two targetgenes of interest. I analysed the data with qBASE. The reference gene quality...
Dear Isabelle, The table form the paper was merely intended for guideline purposes, so I'm sure your reference genes are okay. Remember that the use of more ...
Hi all, what was the problem? I'm experiencing the same conflict of results... Does having excluded samples in qBase matter? Thanks Ferdinando ... dot be). ......
We are using samples from human blood which are stimulated with anti CD3CD28. When I tested several of these samples (using the similar startconcentrations), I...
Dear Tania Your genes look perfectly stable. The fact that the normalization factors are different between the 2 groups can be coincidental (not so many...
Hi there, I'm using LinReg for calculation of amplification efficiency by averaging across all samples for each gene. Is there a way to calculate the error...
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