Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SUZ12

Cell type

Cell type Class
Neural
Cell type
ipNF05.5
NA
NA

Attributes by original data submitter

Sample

source_name
osteosarcoma-derived cell line
cell type
ipNF05.5
genotype
EED KO
chip antibody
Suz12

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Libraries were prepared according to Illumina's DNA Sample Kit (Part# 0801-0303). Briefly, DNA was end-repaired using a combination of T4 DNA polymerase, E. coli DNA Pol I large fragment (Klenow polymerase) and T4 polynucleotide kinase. The blunt, phosphorylated ends were treated with Klenow fragment (32 to 52 exo minus) and dATP to yield a protruding 3- 'A' base for ligation of Illumina's adapters which have a single 'T' base overhang at the 3' end. After adapter ligation DNA was PCR amplified with Illumina primers for 15 cycles and library fragments of ~250 bp (insert plus adaptor and PCR primer sequences) were band isolated from an agarose gel. The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Genome Analyzer following the manufacturer's protocols. ChIP-Seq/CUT&RUN

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg19

Number of total reads
14662352
Reads aligned (%)
170.5
Duplicates removed (%)
12.3
Number of peaks
268 (qval < 1E-05)

hg38

Number of total reads
14662352
Reads aligned (%)
173.0
Duplicates removed (%)
11.9
Number of peaks
310 (qval < 1E-05)

Base call quality data from DBCLS SRA