[BioC] Time-point analysis

[Gordon Smyth]

In addition to the packages specifically designed for time course 
experiments, the linear modelling approach of the limma package 
applies nicely to the time course problem. See the section of time 
course experiments in the limma User's Guide.

Gordon

>Message: 12
>Date: Mon, 22 Oct 2007 18:52:26 +0200
>From: M? Jos? Nueda <mj.nueda at ua.es>
>Subject: Re: [BioC] Time-point analysis
>To: "Narendra Kaushik" <kaushiknk at Cardiff.ac.uk>
>Cc: bioconductor at stat.math.ethz.ch
>Message-ID: <016e01c814cb$ed22da20$456e10ac at MJN>
>Content-Type: text/plain;       charset="iso-8859-1"
>
>Hello,
>
>You can find in the Bioconductor the maSigPro package which is specially
>designed for this purpose.
>After fitting a model for each gene, you can make the queries you look for.
>Take a look at the maSigPro documentation for details on the use of the
>package.
>
>MAR?A
>
>--- Original Message -----
>From: "Narendra Kaushik" <kaushiknk at Cardiff.ac.uk>
>To: <bioconductor at stat.math.ethz.ch>
>Sent: Monday, October 22, 2007 5:36 PM
>Subject: [BioC] Time-point analysis
>
>
> > I am comparing gene expression profile in animal model at different time
>point:
> >
> > Animals                                       Age
> > WT                                             400
> > Trans                                         400
> > WT                                            700
> > Trans                                         700
> > WT                                            800
> > Trans                                         800
> >
> > All experiments are perfomed with 3 biological replicates in each group
>with Affy chips. I am
> > looking for differentially expressed genes in each groups as well as
>dynamics of gene profiles in
> > all groups, e.g how genes A......Z  are expressed in all groups.
> > What is the best way to analyse this type of experiments and which package
>is suitable.
> >
> > Thanks in advance
> >
> > Narendra