Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Blood
Cell type
Toledo
Primary Tissue
Blood
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Lymphoma B-cell

Attributes by original data submitter

Sample

source_name
Toledo
experiment
Pfeiffer_Skm1_Toledo/Exp016-3
histone modification
H3K27ac
mnase units
30u
treatment
DMSO

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cell lysis immediately followed by MNase digestion of native chromatin, T7-adapter ligation, pool-and-split multiplexing, immunoprecipitation and magnetic bead isolation of immunoprecipitated DNA. Mint-ChIP: In vitro transcription, reverse transcription, PCR (see manuscript).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
552350
Reads aligned (%)
93.1
Duplicates removed (%)
4.0
Number of peaks
38 (qval < 1E-05)

hg19

Number of total reads
552350
Reads aligned (%)
92.8
Duplicates removed (%)
4.0
Number of peaks
38 (qval < 1E-05)

Base call quality data from DBCLS SRA