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Major/Minor Isoform And Tissue-Specific Expression

Hi,

I have a bunch of human genes id's from UCSC. I would like to do two things.

(1) I need to determine which transcripts of these genes are major / minor isoforms.

(2) I need to know where these transcripts are expressed - whether they are ubiquitously or tissue-specifically expressed.

Any pointer?

Thanks

edit: human genes

transcript expression isoform
• 5,797 views • link
written by Pierre Pierre

1 answer

I'll assume human genes although this was not specified. For question (2), try:

BioGPS (microarray based)

Gene Expression Atlas (microarray/RNA-seq)

Gene Expression Baseline Atlas (several organisms; for human, data from Illumina BodyMap, ENCODE cell lines etc.)

UniGene - an oldie but goodie EST database

TIGER - Tissue specific gene expression and regulation

Pattern Gene Database

• 117 views • link
written by Mikael Huss Mikael Huss

Yes, human genes - edited. Thanks for these links, I think I will stick ot GEA or TIGER for the tissue-specificity. Any idea for the abundance of expression?

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written by Pierre Pierre

There is abundance information in BioGPS (where you can also download a table with raw data) and the Gene Expression Baseline Atlas (if you drill down a little bit); also check out RNA-seq Atlas (http://medicalgenomics.org/rna_seq_atlas/search), which also has a table with raw data, or GTex which has abundance info from RNA-seq but you have to register.

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written by Mikael Huss Mikael Huss

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