Immunoglobulins in RNA-seq results
I am working with some RNA-seq results from mice - specifically, a comparison of infected and naive mice. Among the differentially expressed genes are numerous immunoglobulin variable regions - Igkv8-27, Ighv13-2, Igkv10-94, and so forth. Do these identifiers give me any useful information about the antibodies being produced? More generally, using the RNA-seq data (possibly going back to the FASTQ files) is there any way to learn anything about the antibodies being produced, and perhaps even the corresponding epitopes?
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Did you further explore this issue? I too am analyzing an RNA-seq dataset where I have many immunoglobulins differentially expressed and would like a direction to better delineate their roles.
So far I have not found anything interesting that can be done with these genes, but I haven't kept looking.