Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Epidermis
Cell type
A-375
Primary Tissue
Skin
Tissue Diagnosis
Melanoma

Attributes by original data submitter

Sample

source_name
Human skin melanoma
cell type
A375 negative
passage
P8-P12
aggressiveness sorting
5 time

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
AMPure XP beads ChIP libraries were prepared according to illumina Genomic DNA protocol. Briefly, DNA fragments after ChIP were end repaired using two enzyme ( T4 DNA polymerase, T4 PNK), the blunted fragments were then A-tailed using Klenow fragment ( 3'-5- exo-) enzyme, Illumina adaptor ligation to the DNA fragments was carried on using T4 DNA Ligase from NEB (M0202), Libraries were then amplified for 8 cycles and size selected for an average of 350 bp, Libraries were then sequenced on NextSeq 500 following the manufacturer instruction.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
55020976
Reads aligned (%)
99.1
Duplicates removed (%)
5.0
Number of peaks
73877 (qval < 1E-05)

hg19

Number of total reads
55020976
Reads aligned (%)
98.8
Duplicates removed (%)
5.1
Number of peaks
73509 (qval < 1E-05)

Base call quality data from DBCLS SRA