Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Pluripotent stem cell
Cell type
NCCIT
Primary Tissue
Testis
Tissue Diagnosis
Teratoma

Attributes by original data submitter

Sample

source_name
NCCIT (ATCC® CRL-2073)
cell line
NCCIT (ATCC CRL-2073)
chip antibody
H3K4me3 (Merck Millipore, catalogue number 04-745)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was preapred from whole cell lysates of cross-linked cells. Lysates were sonicated and chromatin complexes were isolated with antibodies coupled to magnetic beads. Libraries were prepared according to Rubicon Genomics THRUPlex kit with minor modifications.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
25290588
Reads aligned (%)
68.5
Duplicates removed (%)
43.7
Number of peaks
22677 (qval < 1E-05)

hg19

Number of total reads
25290588
Reads aligned (%)
68.0
Duplicates removed (%)
44.9
Number of peaks
22539 (qval < 1E-05)

Base call quality data from DBCLS SRA