Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MAX

Cell type

Cell type Class
Prostate
Cell type
22Rv1
Primary Tissue
Prostate
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
22Rv1
cell type
cancer cell line
antibody
MAX (Proteintech, Cat#: 10426-1-AP)
treatment
1hr MYCi - 10 µM

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, the cell nuclear fraction was clarified from sonicated and histone-DNA complexes were isolated with antibodies. For RNA-seq, total RNA extracts were isolated from MYCi and vehicle control treated cells. For ATAC-seq, nuclei were isolated and inspected before Tn5 tagmentation. As input for library preparation, < 1 ng – 5 ng of immunoprecipitated DNA was used. ChIPseq library preparation was carried out with KAPA Hyper Prep Kit (Cat#: KK8502). For RNAseq, 500 ng of RNA was used as input with a ribosome depletion library kit (KAPA Biosystems, Cat#: KK8560). multiplex

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
17238239
Reads aligned (%)
96.5
Duplicates removed (%)
6.4
Number of peaks
22717 (qval < 1E-05)

hg19

Number of total reads
17238239
Reads aligned (%)
95.9
Duplicates removed (%)
7.3
Number of peaks
22641 (qval < 1E-05)

Base call quality data from DBCLS SRA