Curated Sample Data


Genome
hg19
Antigen Class
Histone
Antigen
H3K4me2
Cell type Class
Blood
Cell type
SET-2

Cell type information


Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by Original Data Submitter


source_name
WT SET-2 cells, GSK-LSD1, 48 hours
cell line
SET-2
genotype/variation
wild type
treatment
GSK-LSD1
cell type
acute myeloid leukemia
chip antibody
AB_2614985 (H3K4me2-human antibody, Active Motif 39141, LOT# 01008001)

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% formaldehyde, washed, snap frozen, and stored at -80ÂșC. Sonication of crosslinked cells was calibrated such that DNA was sheared to between 300bp and 2000bp. ChIP DNA was used to generate sequencing libraries by end repair (End-It DNA repair kit, Epicentre), 3' A base overhang addition via Klenow fragment (NEB), and ligation of barcoded sequencing adapters.

Platform Information


instrument_model
NextSeq 500

External Database Query

Logs in read processing pipeline


Number of total reads
0
Reads aligned (%)
0.0
Duplicates removed (%)
3.3
Number of peaks
34126 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA