Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RXRA

Cell type

Cell type Class
Blood
Cell type
MKPL-1
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
Human MKPL-1 cells
cell line
MKPL-1 cells
chip antibody
Santa Cruz, sc-515928, Lot # F2217

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq analysis using the Illumina NextSeq500, 10-20 ng of ChIP DNA was processed for library generation using the NEBNext ChIP-seq Library Prep Master Mix following the manufacturer's protocol (New England Biolabs). Raw reads that aligned to exactly one location in the reference human genome (hg19) were retained for downstream data analysis.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
44686994
Reads aligned (%)
71.3
Duplicates removed (%)
25.7
Number of peaks
1144 (qval < 1E-05)

hg38

Number of total reads
44686994
Reads aligned (%)
73.7
Duplicates removed (%)
24.0
Number of peaks
1232 (qval < 1E-05)

Base call quality data from DBCLS SRA