Thank you a lot for your opinions Steve. I added them to my to-do list. Also
6 months is only for beginning ( until I became a master student ) And then
I will have more years ;)

Cihan

2010/1/7 Steve Lianoglou <mailinglist.honeypot@gmail.com>

> Hi,
>
> On Wed, Jan 6, 2010 at 4:35 PM, cihan inan <cihan253@gmail.com> wrote:
> > Well I am a biology student at university. and next year I will be a
> master
> > student. I am planning to be in bioinformatics department. that's why I
> need
> > to learn as much as I can. But at first I want to learn analysis about
> > microarrays. from beginning to the end.  normalisation etc... I have 6
> > months and I think it is enough to learn a lot of think about
> microarrays.
>
> No simple answer, but try this after installing Bioconductor.
>
> R> library(affy)
> R> openVignette()
>
> Select the 1st one (eg. the primer).
>
> It deals with getting your feet wet w/ affy arrays (some
> normalization/quality control stuff, too). Check out the papers in the
> References section too for more info.
>
> As you get going, you'll quickly find the need to use limma as well: a
> package to call differentially expressed genes between samples. It's a
> very flexible, which is great, but also a bit complex since it's so
> flexible.
>
> Load the library and fire up its user's guide
>
> R> library(limma)
> R> limmaUsersGuide()
>
> Lots of good references in its Bibliography.
>
> 6 months is *just about* enough time to get through that user guide
> plus refs (and their refs) + getting comfortable w/ R and Bioconductor
> ... you might find you'd like even more time, though ... let us now
> :-)
>
> Good luck,
>
> -steve
>
> --
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
>  | Memorial Sloan-Kettering Cancer Center
>  | Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact<http://cbio.mskcc.org/%7Elianos/contact>
>



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