Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MED1

Cell type

Cell type Class
Epidermis
Cell type
SK-MEL-147
NA
NA

Attributes by original data submitter

Sample

source_name
Cell culture
cell line
SKmel147
passage
N/A
antibodies
MED1 (Bethyl Laboratories, A300-793A)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For BRD2, BRD4 and MED1, 72x10^6 cells, were crosslinked with 1% PFA for 10 min at RT. ChIP was performed essentially as previously described (Roe, J.S., et al., BET Bromodomain Inhibition Suppresses the Function of Hematopoietic Transcription Factors in Acute Myeloid Leukemia. Mol Cell, 2015. 58(6): p. 1028-39). 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

hg19

Number of total reads
121552561
Reads aligned (%)
54.8
Duplicates removed (%)
33.0
Number of peaks
1521 (qval < 1E-05)

hg38

Number of total reads
121552561
Reads aligned (%)
56.4
Duplicates removed (%)
31.6
Number of peaks
2562 (qval < 1E-05)

Base call quality data from DBCLS SRA