SRX697785 GSM1500752 SRP046724 SRS700210 GSM1500752 ChIP-Seq GENOMIC ChIP The ChIP protocol has been adapted from previous studies (Lee et al., 2006; Boyer et al., 2006, Creyghton et al., 2008) with the following modification: Diagenode Bioruptor was used to sonicate with 30 cycles of 30 sec on (high), 30 sec off. The samples were sonicated in 15ml polystyrene tubes at 4°C while samples were immersed in ice cold water. Millipore 07-473 antibody was used in the ChIP. The ChIP DNA was then used to prepare sequencing libraries as described in Schmidt et al., 2009. For this study, a 1:40 dilution of Single End read adapters (Illumina) was used in the ligation reaction. Each sample was amplified for 18 cycles. The samples were then examined for proper size and structure by Bioanalyzer (Agilent) and qPCR. Illumina Genome Analyzer IIx GEO Sample GSM1500752 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1500752 gds 301500752 GEO Accession GSM1500752 SRX697786 GSM1500753 SRP046724 SRS700211 GSM1500753 ChIP-Seq GENOMIC ChIP The ChIP protocol has been adapted from previous studies (Lee et al., 2006; Boyer et al., 2006, Creyghton et al., 2008) with the following modification: Diagenode Bioruptor was used to sonicate with 30 cycles of 30 sec on (high), 30 sec off. The samples were sonicated in 15ml polystyrene tubes at 4°C while samples were immersed in ice cold water. Millipore 07-473 antibody was used in the ChIP. The ChIP DNA was then used to prepare sequencing libraries as described in Schmidt et al., 2009. For this study, a 1:40 dilution of Single End read adapters (Illumina) was used in the ligation reaction. Each sample was amplified for 18 cycles. The samples were then examined for proper size and structure by Bioanalyzer (Agilent) and qPCR. Illumina Genome Analyzer IIx GEO Sample GSM1500753 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1500753 gds 301500753 GEO Accession GSM1500753 SRX697787 GSM1500754 SRP046724 SRS700212 GSM1500754 ChIP-Seq GENOMIC ChIP The ChIP protocol has been adapted from previous studies (Lee et al., 2006; Boyer et al., 2006, Creyghton et al., 2008) with the following modification: Diagenode Bioruptor was used to sonicate with 30 cycles of 30 sec on (high), 30 sec off. The samples were sonicated in 15ml polystyrene tubes at 4°C while samples were immersed in ice cold water. Millipore 07-473 antibody was used in the ChIP. The ChIP DNA was then used to prepare sequencing libraries as described in Schmidt et al., 2009. For this study, a 1:40 dilution of Single End read adapters (Illumina) was used in the ligation reaction. Each sample was amplified for 18 cycles. The samples were then examined for proper size and structure by Bioanalyzer (Agilent) and qPCR. Illumina Genome Analyzer IIx GEO Sample GSM1500754 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1500754 gds 301500754 GEO Accession GSM1500754 SRX697788 GSM1500755 SRP046724 SRS700213 GSM1500755 ChIP-Seq GENOMIC ChIP The ChIP protocol has been adapted from previous studies (Lee et al., 2006; Boyer et al., 2006, Creyghton et al., 2008) with the following modification: Diagenode Bioruptor was used to sonicate with 30 cycles of 30 sec on (high), 30 sec off. The samples were sonicated in 15ml polystyrene tubes at 4°C while samples were immersed in ice cold water. Millipore 07-473 antibody was used in the ChIP. The ChIP DNA was then used to prepare sequencing libraries as described in Schmidt et al., 2009. For this study, a 1:40 dilution of Single End read adapters (Illumina) was used in the ligation reaction. Each sample was amplified for 18 cycles. The samples were then examined for proper size and structure by Bioanalyzer (Agilent) and qPCR. Illumina Genome Analyzer IIx GEO Sample GSM1500755 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1500755 gds 301500755 GEO Accession GSM1500755