[BioC] Finding genes with significant linear regression or trend

Daniel Brewer daniel.brewer at icr.ac.uk
Mon May 19 12:39:46 CEST 2008

What is the best way in bioconductor to find genes that have a
significant trend with a continuous variable e.g. concentration or time.
  This would be using microarray data and trying to find genes that show
a dose response or a time response.  In the simplest of cases this would
be a linear regression.  For example I have an experiment with time
points 24,48,72,96 and I would like to find genes who have expression
that increases with time i.e. expression is greater in each of the time

I have looked into trying to do this with limma but the user manual only
seems to deal with time courses with each time being a factor rather
than a continuous variable.

Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
Email: daniel.brewer at icr.ac.uk

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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