Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Epidermis
Cell type
L-C-B
NA
NA

Attributes by original data submitter

Sample

source_name
SKMel-239 L-C-B
disease state
BRAF metastatic melanoma
cell line
L-C-B
treatment
untreated
chip antibody
H3K4me3 (Abcam, ab1012)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Native ChIP was done as previously described (Hasson D., et al., The octamer is the major form of CENP-A nucleosomes at human centromeres. Nat Struct Mol Biol. 2013 Jun;20(6):687-95). Libraries for ChIP-seq were done as previously described (Hasson D., et al., The octamer is the major form of CENP-A nucleosomes at human centromeres. Nat Struct Mol Biol. 2013 Jun;20(6):687-95).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
68807581
Reads aligned (%)
76.8
Duplicates removed (%)
24.4
Number of peaks
16212 (qval < 1E-05)

hg19

Number of total reads
68807581
Reads aligned (%)
76.3
Duplicates removed (%)
25.9
Number of peaks
15807 (qval < 1E-05)

Base call quality data from DBCLS SRA