[Biopython] Statistical similarity in microarray data

[Rayna]

Hey,

Date: Tue, 16 Feb 2010 13:37:57 +0000
> From: Peter Saffrey <pzs at dcs.gla.ac.uk>
> Subject: [Biopython] Statistical similarity in microarray data
> To: "biopython at lists.open-bio.org" <biopython at lists.open-bio.org>
> Message-ID: <4B7A9FB5.5090305 at dcs.gla.ac.uk>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>
> This isn't strictly a biopython question, but I hoped I might find some
> expertise here.
>
> I need to compare two microarrays for similarity. Each file is a set of
> spots and their corresponding values. By ordering the values by the spot
> id and discarding points that are missing from either set, I can compare
> the two experiments. We are trying to show that samples using a new
> method correlate with the old method.
>

I find this method quite "brute force" ;) I mean, how many replicates do you
have? Are the experimental conditions the same? The problem with microarrays
is that you always get different things, so you need a really strict
protocol for testing this. I'm currently experiencing similar problems...

If you give some more details, maybe we'll be able to find a satisfying
solution :)

Rayna
-- 
"Change l'ordre du monde plutôt que tes désirs."

Membre de l'April - Promouvoir et défendre les logiciels libres

PhD Student
"Molecular Evolution and Bioinformatics"
Ludwig-Maximilians University (LMU) of Munich



What happens when you've worked too long in the lab :
*You wonder what absolute alcohol tastes like with orange juice.
*Warning labels invoke curiosity rather than caution.
*The Christmas nightout reveals scientists can't dance, although a formula
for the movement of hands and feet combined with beats per min is found
scrawled on a napkin by a waiter the next day.
*When you have twins, you call one of them John and the other - Control.