Accession	GSE69877
Status	2017/9/28
Title	MCPyV ST, MAX and the TRRAP complex cooperate to bind to Transcription Start Sites
Organism	Homo sapiens
Experiment type	Genome binding/occupancy profiling by high throughput sequencing
Summary	To determine if MCPyV ST was recruited to chromatin together with MAX and the TRRAP complex, we performed chromatin immunoprecipitation (ChIP) using the validated antibodies to MCPyV ST produced in our lab, HA tagged ST, MAX and EP400 followed by next generation sequencing. De novo DNA motif analysis revealed that the canonical E-box MYC target sequence was the most frequently observed motif. Metagene analysis revealed that antibodies to MAX, EP400, ST (Ab5) and HA tagged ST showed strong enrichment in transcription start site (TSS). H3K4me3 ChIP-seq confirmed that the peaks enriched with antibodies to MAX, EP400 and ST all centered on the H3K4me3 peaks with a high degree of overlap.
Samples	GSM ID Sample info Characteristics Description GSM1711864 H3K4me3_ChIP-seq cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:H3k4me3 (Millipore, 07-473) - GSM1711855 Input DNA rep1 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:none - GSM1711856 ST-HA_ChIP-seq cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:HA (Abcam, ab9110) Peaks also called using both replicates = ST.peaks_bothreps.bed, ST.peaks_bothreps.txt. These files are available on the series record. GSM1711857 EP400_ChIP-seq rep1 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:EP400 (Bethyl, A300-541A) Peaks also called using both replicates = p400.peaks_bothreps.bed, p400.peaks_bothreps.txt. These files are available on the series record. GSM1711858 Max_ChIP-seq rep1 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:Max (Santa Cruz, SC-197) Peaks also called using both replicates = MAX.peaks_bothreps.bed, MAX.peaks_bothreps.txt. These files are available on the series record. GSM1711859 Input DNA rep2 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:none - GSM1711860 ST_ChIP-seq cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:Ab5 (James DeCaprio Lab) Peaks also called using both replicates = ST.peaks_bothreps.bed, ST.peaks_bothreps.txt. These files are available on the series record. GSM1711861 EP400_ChIP-seq rep2 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:EP400 (Bethyl, A300-541A) Peaks also called using both replicates = p400.peaks_bothreps.bed, p400.peaks_bothreps.txt. These files are available on the series record. GSM1711862 Max_ChIP-seq rep2 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:Max (Santa Cruz, SC-197) Peaks also called using both replicates = MAX.peaks_bothreps.bed, MAX.peaks_bothreps.txt. These files are available on the series record. GSM1711863 Input DNA rep3 cell line:MKL-1; cell type:Merkel cell carcinoma; merkel cell polyomavirus:positive; chip antibody:none -
Platform	GPL11154  GPL18573  : Illumina HiSeq 2000 (Homo sapiens);Illumina NextSeq 500 (Homo sapiens)
Literature	29028833
Download	Download Genome Binding/Occupancy Profiling Analysis Data