Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MED12

Cell type

Cell type Class
Blood
Cell type
CD34 Hematopoietic stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
human CD34+
cell type
hematopoietis stem and progenitor cells
culture
6 days expanded
antibody
Med12 (A-300-774A)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Whole cell extracts were sonicated to solubilize the chromatin. The chromatin extracts containing DNA fragments with an average size of 1000 bp were immunoprecipitated using Med12 antibody (Bethyl A-300-774A, lot1). Purified immunoprecipitated DNA were prepared for sequencing according to a modified version of the Solexa Genomic DNA protocol. Fragmented DNA was end repaired and subjected to 18 cycles of LM-PCR using oligos provided by Illumina. Amplified fragments between 150 and 300bp (representing shear fragments between 50 and 200nt in length and ~100bp of primer sequence) were isolated by agarose gel electrophoresis and purified. All samples were prepared with the Illumina/Solexa Genomic DNA kit (Illumina- IP-102-1001) according to manufacture's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
33444651
Reads aligned (%)
65.3
Duplicates removed (%)
30.0
Number of peaks
9740 (qval < 1E-05)

hg38

Number of total reads
33444651
Reads aligned (%)
66.6
Duplicates removed (%)
29.0
Number of peaks
9624 (qval < 1E-05)

Base call quality data from DBCLS SRA