Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

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 melanoma cell lines
cell line
A375
cell type
melanoma
passages
long term culture
chip antibody
H3K4Me1 (ab8895) (Abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed using the methods of T. I. Lee, S. E. Johnstone, R. A. Young, Chromatin immunoprecipitation and microarray-based analysis of protein location. Nat Protoc. 1, 729–748 (2006). Libraries were prepared using the NEBNext Multiplex Oligos for Illumina kit (NEB) and run on an Illumina Hi-Seq2000.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
24796916
Reads aligned (%)
99.2
Duplicates removed (%)
3.3
Number of peaks
10562 (qval < 1E-05)

hg19

Number of total reads
24796916
Reads aligned (%)
98.9
Duplicates removed (%)
3.7
Number of peaks
10664 (qval < 1E-05)

Base call quality data from DBCLS SRA