Sample information curated by ChIP-Atlas

Antigen

Antigen Class
RNA polymerase
Antigen
RNA polymerase II

Cell type

Cell type Class
Blood
Cell type
MV-4-11
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
MV4;11 cells
treatment
100nM THZ531
antibody
RNA polymerase II, clone CTD4H8, mouse monoclonal

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crossed-linked with formaldehylde solution. Then nuclear extracts were isolated, and sonicated. Chromatin bound to Pol II were isolated using RNA polymerase II, clone CTD4H8, mouse monoclonal antibody. ChIP-Seq libraries were prepared using the NEBNext Ultra II DNA Library Prep Kit for Illumina (New England Biolabs, E7645). Fragments between 200 and 500 base pairs were selected using a Pippin Prep 1.5% agarose cassette (Sage Science, Beverly MA US), pooled and 75 single-end base pair reads were sequenced using the Illumina NEXTseq 500. 
 NEBNext Ultra II DNA Library Prep Kit for Illumina (New England Biolabs, E7645)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
19589226
Reads aligned (%)
98.0
Duplicates removed (%)
7.6
Number of peaks
16932 (qval < 1E-05)

hg19

Number of total reads
19589226
Reads aligned (%)
97.4
Duplicates removed (%)
7.4
Number of peaks
16927 (qval < 1E-05)

Base call quality data from DBCLS SRA