Estimating the purity of tumor cells in gene expression microarray data

Question

[Shamim Sarhadi]

Hi Is there any tool for defining the tumor cell purity in gene expression microarray data?

Thanks in advance

[Kevin Blighe]

Have you searched the World Wide Web? There appears to be solutions for methylation arrays.

[btsui]

You might need to clarify what kind of array that you are talking about. Like methylation, expression, or SNP chip.

Answer 1

[dariober]

Hi- If it's genotyping arrays you are referring to, then you could try ASCAT. ASCAT is designed to detect copy number variants and it gives, in addition, the purity estimate.