[Genome] cDNA Microarrays data

[Archana Thakkapallayil]

Hello Adrian,

The expression values for the Normal Human Tissue cDNA Microarray data 
are stored in the 'hgFixed' database in the tables humanNormal, 
humanNormalMedian, humanNormalRatio, and humanNormalMedianRatio. You can 
access them via the Table Browser by setting your group to "All Tables" 
and database to "hgFixed", and then looking in the table list.

Here is a summary of the contents of each table and you could choose the 
table you want:
humanNormal - aboslute expression values for all experiments.
humanNormalMedian - median values for replicate experiments
humanNormalRatio - log2 ratio of the expression value for a probeset 
divided by the median expression value for all experiments for that 
probeset.
humanNormalMedianRatio - median values for replicate experiments for the 
data in humanNormalRatio

humanNormal is the original expression data. The field expScores is the 
comma separated list of expression values. You might also want to look 
at the Exps tables to find out the tissues that corresponds to each 
expression value. The tables are humanNormalExps and humanNormalMedianExps.

humanNormalExps is for the humanNormal and humanNormalRatio tables.
humanNormalMedianExps is for the humanNormalMedian and 
humanNormalMedianRatio tables.

The Exps table list tissues with ID starting from 0 - n-1 where n is the 
number of experiments. The ID is an index into the list of expScores 
that gives the position of the data value for that tissue.

I hope this helps to answer your question.  If you require more 
assistance, please don't hesitate to contact us again.

Regards,

Archana
UCSC Genome Bioinformatics Group


Adi Gherman wrote:
> Hi!
> I was wondering if it's possible to get actual values for the Normal Human Tissue cDNA Microarrays data, instead of the ratio colors (in the gene description and page index). I have tried finding that myself, but it's easy to get lost among so many tables:(
>
> Thank you!
>
> Sincerely,
> Adrian Gherman
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