ESTIMATION OF LEVEL OF CYTOKINES FROM BULK RNAseq

Question

[leticia]

I am working on RNAseq analysis (TCGA ) , i use cibersorts to analyse immune cells fraction in two conditions. i was wondering if it is possible to estimate the level of cytokine from Bulk RNAseq especially after analyzing it on Cibersort ?

thank you in advance

Answer 1

[Rafael Soler]

Hello Leticia,

I don't know much about Cybersort analysis, but you can check genes related to cytokine activity GO Term http://www.informatics.jax.org/vocab/gene_ontology/GO:0005125 or cytokine production GO Term http://informatics.jax.org/vocab/gene_ontology/GO:0001816 to find how many cytokine-related genes are expressed under the two conditions.

Best,

Rafael