How Many Genes In Agilent 50M

Question

[Liyf]

Hi, I wonder how to search for how many genes are in Agilent 50M?

Answer 1

[Neilfws]

"Genes" does not mean very much in the context of platforms like the Agilent. You probably want to know how many transcripts.

According to the Agilent product page, the exons in the 50 Mb product are derived from the GENCODE project. So one source of data is that website.

GENCODE is also used by Ensembl, as described here. If you scroll down to the PDF link, that document contains annotation information with lots of numbers.

GENCODE is also used by the UCSC genome browser. You could access the data using MySQL as described here and search the appropriate tables, for example wgEncodeGencodeCompV7 (the comprehensive GENCODE v7 track).

[Liyf]

Thanks for your so detail answer. I benefit a lot.

Answer 2

[Bioinfo]

You can download a bed or gff file for hg18 or hg19 positions and annotations from their website. They are kind of tough to find as I remember, so if you need them, we can post them via our website.

[Liyf]

I need them. So I would you to help me.

[Liyf]

I need them. So I would like you to help me. What is your website?

[Sean Davis]

They are available from Agilent. Agilent has both email and phone contact information on their website: http://agilent.com/ .