Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Bone
Cell type
HT-1080
Primary Tissue
Bone
Tissue Diagnosis
Fibrosarcoma

Attributes by original data submitter

Sample

source_name
ChIP_library_Conrtol
cell line
HT1080
tissue source
connective tissue
disease
fibrosarcoma
oncogene
ras +
chip antibody
anti-CTCF pAb (ActiveMotif ; Cat. No. 61311, Lot 34614003)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed in two biological replicates according to Abcam X-ChIP protocol (https://www.abcam.com/protocols/cross-linking-chromatin-immunoprecipitation-x-chip-protocol) with minor changes (see Materials and Methods section). Each library was sequenced using paired end sequencing on an Illumina NextSeq 550;

Sequencing Platform

instrument_model
NextSeq 550

hg19

Number of total reads
59474535
Reads aligned (%)
96.9
Duplicates removed (%)
10.9
Number of peaks
63598 (qval < 1E-05)

hg38

Number of total reads
59474535
Reads aligned (%)
97.5
Duplicates removed (%)
9.7
Number of peaks
64359 (qval < 1E-05)

Base call quality data from DBCLS SRA