Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TRIM28

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
KAP1
antibody antibodydescription
rabbit polyclonal. Antibody Target: KAP1
antibody targetdescription
KRAB Associated Protein 1, helps regulate transcriptional repression
antibody vendorname
Abcam
antibody vendorid
ab10483
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
GSM935587: USC_ChipSeq_U2OS_KAP1_UCDavis
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
91249234
Reads aligned (%)
72.2
Duplicates removed (%)
8.6
Number of peaks
27436 (qval < 1E-05)

hg38

Number of total reads
91249234
Reads aligned (%)
73.5
Duplicates removed (%)
7.5
Number of peaks
27817 (qval < 1E-05)

Base call quality data from DBCLS SRA