Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CUL4A

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
Osteosarcoma
cell line
U2OS
cell type
Cultured cancer cell line
chip antibody
CUL4A antibody (ab92554, Abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DNA from asynchronous cell cultures was isolated, size fractionated and subject to exunuclease digestion as described in Aladjem et al., Science 281, 1005, 1998. and Wang et al., Molecular and Cellular Biology 24:3373-86, 2004. For ChipSeq, DNA molecules were enriched using each antibodies. Enriched DNA molecules were then amplified randam primer with klenow fragment and sequenced by Illumina Genome Analyzer IIx. Illumina Genomic DNA protocol (Illumina Paired-END DNA Sample Prep Kit). Illumina paired-end sequencing

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
44867290
Reads aligned (%)
47.5
Duplicates removed (%)
10.1
Number of peaks
65731 (qval < 1E-05)

hg38

Number of total reads
44867290
Reads aligned (%)
47.8
Duplicates removed (%)
9.8
Number of peaks
66014 (qval < 1E-05)

Base call quality data from DBCLS SRA