ENAGenomicsNIH/NEI/NCCAMhttps://www.ebi.ac.uk/ena/browser/view/PRJNA172725Mus musculusT follicular helper (Tfh) cells play a pivotal role in germinal center reactions, which requires Bcl6 transcription factor. To analyze their relationships with other effector T cell lineages and their stability in vivo, we developed and analyzed a new Bcl6 reporter mouse alone or together with other lineage reporter systems. Assisted with genome-wide transcriptome analysis, we show substantial plasticity of T cell differentiation in the early phase of immune response. At this stage, CXCR5 appears to be expressed in a Bcl6-independent manner. Once Bcl6 is highly expressed, Tfh cells can persist in vivo and some of them develop into memory cells. Together, our results indicate Bcl6 as a bona fide marker for Tfh polarized program. Overall design: Three group of samples, with 2 biological replicates within each group and total of 6 samples were analyzed.xref:PubMed:22987803ENAfalseMus musculusBcl6 expression specifies the T follicular helper cell program in vivo2025-09-242014-02-11PRJNA172725GSE400681009022987803