Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MITF

Cell type

Cell type Class
Epidermis
Cell type
Melanoma
MeSH Description
A malignant neoplasm derived from cells that are capable of forming melanin, which may occur in the skin of any part of the body, in the eye, or, rarely, in the mucous membranes of the genitalia, anus, oral cavity, or other sites. It occurs mostly in adults and may originate de novo or from a pigmented nevus or malignant lentigo. Melanomas frequently metastasize widely, and the regional lymph nodes, liver, lungs, and brain are likely to be involved. The incidence of malignant skin melanomas is rising rapidly in all parts of the world. (Stedman, 25th ed; from Rook et al., Textbook of Dermatology, 4th ed, p2445)

Attributes by original data submitter

Sample

source_name
low passage primary melanoma cultures
cell type
low passage primary melanoma cultures
antibody
anti-MITF (ab12039, abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was extracted using the MagnaChIP-seq kit (millipore). Sonication was performed for 12 cycles, 30 sec pulses using the biorupter Illumina Truseq

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
61308928
Reads aligned (%)
5.4
Duplicates removed (%)
94.6
Number of peaks
132 (qval < 1E-05)

hg38

Number of total reads
61894857
Reads aligned (%)
5.7
Duplicates removed (%)
94.3
Number of peaks
131 (qval < 1E-05)

Base call quality data from DBCLS SRA