Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
KMT2A

Cell type

Cell type Class
Blood
Cell type
CD34+
NA
NA

Attributes by original data submitter

Sample

source_name
umbilical cord blood
cell type
CD34+ cells
transduction
HSPC-MA9
chip antibody
MLL N-terminus (Bethyl 086A)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. 9 ng of ChIP DNA as quantitated by fluorometry was used. Electrophoretic fraction of 150 bp was processed through subsequent enzymatic treatments of end-repair, dA-tailing, and ligation to adapters as in Illumina's "TruSeq DNA Sample Preparation Guide" (part # 15005180 Rev. C). Adapter-ligated library was completed by limited-cycle PCR with Illumina PE primers (12 cycles). The resulting purified DNA library was applied to an Illumina flow cell for cluster generation (TruSeq cluster generation kit v5) and sequenced on the Genome Analyzer IIx with SBS TruSeq v5 reagents by following manufacturer's protocols.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
27800933
Reads aligned (%)
33.6
Duplicates removed (%)
50.4
Number of peaks
784 (qval < 1E-05)

hg38

Number of total reads
27800933
Reads aligned (%)
35.2
Duplicates removed (%)
48.5
Number of peaks
553 (qval < 1E-05)

Base call quality data from DBCLS SRA