Next generation sequencing compares CNS-infiltrating CD4 cells versus draining lymph node effector CD4 cells in experimental autoimmune encephalomyelitis

The immunology has been advanced mostly by studying peripheral blood in human and peripheral immune organ in mouse. However, a long standing problem in develop therapeutics treating autoimmune diseases is that we are short of knowledge about inflammatory-tissue infiltraing CD4 cells, which are terminally differentiated effector that exactly mediate the tissue damage. Thus, to address this issue, we induced experimental autoimmune encephalomyelitis (EAE) in mouse and sorted out both CNS infiltrating CD4 cells and draining lymph node effector CD4 cells at disease onset, and compared their transcriptome Cells were FACS-sort purified and subjected to RNA isolation, mRNA profiles were generated by deep sequencing, in duplicates