Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Mllt3

Cell type

Cell type Class
Blood
Cell type
RAW 264.7
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
RAW264.7
cell line
RAW264.7
antibody
AF9 (Sigma HPA001824)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cells were fixed on plate with 1% formaldehyde, nuclei were isolated and then sonicated by bath ultrasonicator (Covaris). Lysates were clarified and DNA-histone complexes were isolated by either anti-AF9 (Sigman HPA001824) or anti-FLAG (Sigma F1804) immobilized by protein G dynabeads (Life). For ChIP-seq, purified DNA was prepared for sequencing with the TruSeq ChIP sample Prep Kit (Illumina) as per manufacturer's instructions. Libraries were sequenced on either HiSeq2000 (Illumina) with 50bp single reads or NextSeq500 with 75bp single reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
34548690
Reads aligned (%)
90.7
Duplicates removed (%)
17.8
Number of peaks
494 (qval < 1E-05)

mm9

Number of total reads
34548690
Reads aligned (%)
90.3
Duplicates removed (%)
17.7
Number of peaks
556 (qval < 1E-05)

Base call quality data from DBCLS SRA