Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
STAT1

Cell type

Cell type Class
Blood
Cell type
SET-2
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
SET2
cell type
essential thrombocythemia
treatment protocol
untreated
chip epitope
STAT1 pS727
growth protocol
SET2 cells were grown in RPMI-1640 supplemented with 20% FBS, 100 U/mL penicillin and 100 μg/mL streptomycin.

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. Libraries for Illumina sequencing were prepared using the KAPA Hyper Prep Kit for Illumina and ligated to unique Bioo Scientific NEXTflex barcode adaptors. Following ligation, libraries were amplified with 8-12 cycles of PCR and were then size-selected using a 2% gel cassette in the Pippin Prep System from Sage Science. DNA fragments of size 200-500bp were captured. Libraries were quantified by qPCR utilizing the KAPA Biosystems Illumina Library Quantification kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
37670845
Reads aligned (%)
83.4
Duplicates removed (%)
15.0
Number of peaks
34372 (qval < 1E-05)

hg38

Number of total reads
37670845
Reads aligned (%)
85.3
Duplicates removed (%)
13.8
Number of peaks
34521 (qval < 1E-05)

Base call quality data from DBCLS SRA