Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SETDB1

Cell type

Cell type Class
Bone
Cell type
U2OS
Tissue
bone
Lineage
mesoderm
Description
osteosarcoma from the tibia of a 15 year old, J. Ponten and E. Saksela derived this line (originally 2T) in 1964 from a moderately differentiated sarcoma, viruses were not detected during co-cultivation with WI-38 cells or in CF tests against SV40, RSV or adenoviruses, mycoplasma contamination was detected and eliminated in 1972, (PMID: 6081590)

Attributes by original data submitter

Sample

source_name
U2OS
biomaterial_provider
ATCC
lab
USC
lab description
Farnham - University of Southern California
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
U2OS
cell organism
human
cell description
osteosarcoma from the tibia of a 15 year old, J. Ponten and E. Saksela derived this line (originally 2T) in 1964 from a moderately differentiated sarcoma, viruses were not detected during co-cultivation with WI-38 cells or in CF tests against SV40, RSV or adenoviruses, mycoplasma contamination was detected and eliminated in 1972, (PMID: 6081590)
cell karyotype
cancer
cell lineage
mesoderm
cell sex
F
treatment
None
treatment description
No special treatment or protocol applies
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
wgEncodeEH000916
replicate
1

Sequenced DNA Library

library_name
GSM935458: USC_ChipSeq_U2OS_SETDB1_UCDavis
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
66603163
Reads aligned (%)
66.1
Duplicates removed (%)
20.8
Number of peaks
36364 (qval < 1E-05)

hg38

Number of total reads
66603163
Reads aligned (%)
66.6
Duplicates removed (%)
19.5
Number of peaks
36340 (qval < 1E-05)

Base call quality data from DBCLS SRA