Illumina HiSeq 4000 sequencing; Identification of genome wide Hoxa9 binding sites in primary murine and human AML cells
Identification of genome wide Hoxa9 binding sites in primary murine and human AML cells
ChIP precipitates were collected either from murine primary bone marrow cells transformed by Hoxa9 and derivatives thereof or from human AML cell line MV4;11 by standard ChIP techniques. Modifications are described in the accompanying publication. In short all samples were crosslinked with formaldehyde or formaldehyde + EGS (sample 3). Antibodies used for ChIP: anti-H3K27-Ac, anti-H3K4-1Me, anti-HOXA9, anti-HA, anti-FLAG, anti-IgG (control) Cells were lysed in standard SDS ChIP lysis buffer, except for sample 1 where SDS replaced by deoxy-cholate + N-lauroylsarcosine. Standard precipitation/wash procedures were used.  Library construction was done with NEB Next Ultra II DNA library prep kit including size selection as recommended by the manufacturer.
Experimental Factor: immunoprecipitate
anti-H3K27-Ac
Experimental Factor: sampling time point
72
Experimental Factor: stimulus
tamoxifen withdrawal