2 (anti-IFN-γ) antibody were added to the same culture setting. After 4 days the cells were washed and re-stimulated with 0·5 ng/ml phorbol 12-myristate 13-acetate (PMA) and 1 μm ionomycin for 4 hr. Naive CD4 T cells were

stimulated under Th1 or Th2 polarizing conditions as described above. The Th1 or Th2 cells (1 × 106 to 2 × 106) were cross-linked with 1% formaldehyde and quenched with 0·125 m glycine. Cells were lysed with lysis buffer [50 mm Tris–HCl, pH 8·1, 1% sodium dodecyl sulphate (SDS), 10 mm ethylenediamine tetraacetic acid (EDTA)], and sonicated at the high power NVP-BEZ235 cost setting for 15 min using a Bioruptor sonicator (Diagenode, Liege, Belgium). Using these conditions, the average DNA fragment size was approximately 500 base pairs. Cell extracts were pre-cleared with protein A–agarose/salmon sperm DNA (Millipore, Billerica, MA), and incubated with either anti-GATA-3 (Santa Cruz Biotechnology, Santa Cruz, CA; sc-268), anti-MTA-2 (Santa Cruz, 28731), or rabbit immunoglobulin G (IgG; Santa Cruz, sc-2027) click here as a negative control. Antibody-bound chromatin was precipitated by protein A–agarose, washed and eluted with elution buffer (0·1 m sodium bicarbonate, 1% SDS). The chromatin was reverse cross-linked by incubating at 65° for 4 hr,

followed by protease K treatment (100 ng/ml). The amount of precipitated DNA was quantified by real-time polymerase chain reaction (PCR) using the primers listed in Table 1. The Prostatic acid phosphatase first-round ChIP was carried out as described above using the anti-GATA-3 antibody. The cross-linked DNA–protein complex was briefly washed, and eluted with 10 mm dithiothreitol (DTT) at 37° for 1 hr. The elute was then diluted 50-fold in a ChIP buffer (0·01% SDS, 1·1% TX-100, 1·2 mm EDTA, 16·7 mm Tris–HCl pH 8·1, 167 mm NaCl), and then a second-round ChIP was performed with anti-MTA-2 or the control IgG antibody. Chromatin was collected with protein A/G–agarose, washed, and eluted with sodium bicarbonate–SDS, and the cross-linked DNA

was reversed, which was followed by protease K treatment. Precipitated DNA was quantified by real-time PCR as described above. The Th2 cells were stimulated for 4 days as described above. The Th2 cell lysates were made in a lysis buffer, and then pre-cleared with control IgG followed by protein G treatment. Pre-cleared lysates were incubated overnight at 4° with monoclonal anti-GATA-3, polyclonal anti-MTA-2, anti-acetylated lysine (Santa Cruz, sc-32268) or normal IgG, and then protein G beads were added, followed by incubation for an additional 2 hr. Immunocomplexes were extensively washed and then were resuspended in an SDS loading buffer. Immunoblot analysis was performed as described below. Proteins were resolved by 10% SDS–PAGE and electrotransferred to a polyvinylidene difluoride membrane (Bio-Rad, Hercules, CA). The membrane was blocked with 5% skim milk Tris-buffered saline with Tween (TBST), and incubated 1 hr at room temperature.