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giannimonaco / ABIS

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ABIS for tissue RNA-seq data? #13

Open ghost opened 3 years ago

ghost commented 3 years ago

Hi Gianni,

I was wondering whether one can use the ABIS tool for deconvolution of tissue RNA-seq data to estimate the abundance of individual immune cells?

Thank you for your feedback. Best, AnneCa

giannimonaco commented 3 years ago

Hello! In principle it should be able to work also on tissue RNA-Seq. Because it does an absolute method and it does not scale the scores, the values you get should roughly represent the real proportions within the sample. However, as ABIS was not validated on tissues, just be aware that there can be interference depending on the tissue type or condition. Best wishes, Gianni

On Dec 2, 2020, at 11:20 AM, AnneCa82 notifications@github.com wrote:

Hi Gianni,

I was wondering whether one can use the ABIS tool for deconvolution of tissue RNA-seq data to estimate the abundance of individual immune cells?

Thank you for your feedback. Best, AnneCa

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