[Gmod-help] massively parallel sequencing question

[Jennifer Beane]

Hi,

I'm a post-doctoral fellow in bioinformatics and my lab is about to receive
data generated from a massively parallel sequencing platform --  Illumina's
genome analyzer.  The data will contain several million short sequence reads
from mRNA and microRNA.  There are several software packages to align the
reads to the human genome, but I will need to create a way to store, filter,
and efficiently annotate these reads.  I'm thinking of loading the data into
a chado database, and using applications such as GBrowse to view the data.
I'm wondering if you have any experience with using GMOD
software/applications for this type of data?  I'm wondering if the data will
be too extensive to be queried in a database?  If you have any
advice/suggestions I would really appreciate it.

Thank you very much,
Jennifer Beane, Ph.D
Post-doctoral Fellow
Boston University School of Medicine
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