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Heat 4053:Select genes with signal in at least one exp. for your ANOVA
Ellen Sterrenburg <E.sterrenburg@lumc.nl>
2003-04-30 07:47:48
Hi Wayne,

I did my data analysis on a time-course experiment.
I performed ANOVA with 5 groups and 2 hybs per group.
I got genes that were significant (p < 0.01).
When I was checking some of these genes it appeared that there was a gene
that was not (or hardly visible) expressed during the whole time-course. In
other words, the ratios don't say much in this case.
Is it possible to define somewhere that for your ANOVA you want only genes
that have a certain tresh-hold value for the intensity for at least one
timepoint? And that tresh-hold value should then be a value that is some
standard deviations above background.
Thanks in advance!

Best regards,

Ellen



Hi Ellen

There is no "one-button" method of doing this but you can certainly select
sequences from a table and then broadcast this selection to the ANOVA plot.

To do this, bring up a table of the sequences in one of the experiments of
your ANOVA. Click on the 'Intensity 1' column heading to sort by this
field. You can then 'click' and 'shift-click' to select everything in the
range of intensities that you are interested in. Once they are selected,
click 'Ctrl-B' to broadcast this to an open ANOVA window.

After this, you can choose 'Groups|Selection|Hide Others' in the ANOVA plot
to show only sequences that are above the threshold. This should allow you
to view only the signature sequences with intensities above a threshold.

Can I also ask a favor of you? I am starting to make some changes to the
way I do support for Resolver users in Europe with the eventual goal of
improving the level of support. One of the first steps of this is having
all support issues sent to support@rosettabio.com . This probably won't
have many immediately noticable effects but it will be the first step and
will allow others to see your inquiries if I am unavailable.

Thank you,
Wayne
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