vitro derived germinal centre B cells were flow cytometry-purified
and then cross-linked with 1% formaldehyde for 10 min at room temperature, after
which glycine was added to stop the reaction. Cells were washed three times with
PBS 1x at 4°C, lysed with SDS-lysis buffer (1% SDS, 10mM EDTA, 50mM
Tris-HCl pH 8) on ice for 10 min. Chromatin was sonicated using a Bioruptor
instrument (Diagenode) to generate DNA fragments of 300–1000bp. Anti-Bcl6
(sc-858, Santa Cruz) antibody was used for ChIP. Amplification of ChIP DNA was
performed using Power SYBR Green PCR Master Mix (#204643, Thermo Fisher) in a
7900HT Fast Real-Time machine (Thermo Fisher). qPCR reactions were performed in
duplicate with the following thermocycler condition: 50°C for 2 min (1
cycle); 95°C for 10 min (1 cycle); 40 cycles of 95°C for 15 sec
and 60°C for 1 min. ChIP-qPCR data was normalized using the percent input
method 2^(average CT input – average CT IP sample)
(Thermo Fisher). Primer sets used for ChIP-qPCR experiments are listed in