[Biodevelopers] Regarding microarray database development

[kaustubh shinde]

Hi,
I am computer science masters graduate and new to the field of 
bioinformatics. My objective is to set up a system that will download 
microarray data from public databases like NCBI, EBI etc which in turn I 
want to use for data mining. I would like to develop a relational database 
in mysql on linux.

I have spent last 2-3 weeks reading about the NCBI toolkit, Arrayexpress, 
and Miamexpress tools and also about Biojava.
While NCBI toolkit is specific to the NCBI, Arrayexpress and Miamexpress are 
data submission tools and would not allow me to download data directly from 
the servers. Biojava seems pretty useful but I am not sure if and how I 
could save the data in MAGE-ML format.

Keeping the objective - to make a system to download and analyse microarray 
data from VARIOUS public databases - in mind, what steps should I take? I 
understand that this question might sound utterly stupid to you. But I hope 
you understand the difficulties of a computer guy having very little 
background in biology or bioinformatics. Having said that, I have done quite 
a lot of reading on biology, microarrays and DNA, chromosomes related 
matter.

If you could show me the right direction that will be a great help. Right 
now I am lost and don't know how exactly I should proceed.

Thanks for you time. I am hoping for a positive reply.
Thank you,
Kaustubh

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