Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SETDB1

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

source_name
K562
biomaterial_provider
ATCC
lab
USC
lab description
Farnham - University of Southern California
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
K562
cell organism
human
cell description
leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC
cell karyotype
cancer
cell lineage
mesoderm
cell sex
F
treatment
MNaseD
treatment description
Fragmented using micrococcal nuclease digestion
antibody
SETDB1
antibody antibodydescription
Rabbit polyclonal. Antibody Target: SETDB1
antibody targetdescription
SET domain, bifurcated 1, the SET domain is a highly conserved, approximately 150-amino acid motif implicated in the modulation of chromatin structure
antibody vendorname
Proteintech Group
antibody vendorid
11231-1-AP
control
UCDavis
control description
Input library was prepared at UC Davis.
control
UCDavis
control description
Input library was prepared at UC Davis.
controlid
wgEncodeEH000672
labversion
remapped from hg18, Fragmented using MNase and used proteinA agarose beads for ChIPs, PeakSeq 1.0 (fdr 0.001)
replicate
1

Sequenced DNA Library

library_name
ERROR: cannot retrieve data from NCBI: too many requests
library_strategy
ERROR: cannot retrieve data from NCBI: too many requests
library_source
ERROR: cannot retrieve data from NCBI: too many requests
library_selection
ERROR: cannot retrieve data from NCBI: too many requests
library_construction_protocol
ERROR: cannot retrieve data from NCBI: too many requests

Sequencing Platform

instrument_model
ERROR: cannot retrieve data from NCBI: too many requests
cycle_sequence
ERROR: cannot retrieve data from NCBI: too many requests
cycle_count
ERROR: cannot retrieve data from NCBI: too many requests
flow_sequence
ERROR: cannot retrieve data from NCBI: too many requests
flow_count
ERROR: cannot retrieve data from NCBI: too many requests
key_sequence
ERROR: cannot retrieve data from NCBI: too many requests

hg19

Number of total reads
35993697
Reads aligned (%)
77.5
Duplicates removed (%)
10.3
Number of peaks
859 (qval < 1E-05)

hg38

Number of total reads
35993697
Reads aligned (%)
78.9
Duplicates removed (%)
9.3
Number of peaks
796 (qval < 1E-05)

Base call quality data from DBCLS SRA