Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NOTCH1

Cell type

Cell type Class
Blood
Cell type
MO1043
NA
NA

Attributes by original data submitter

Sample

source_name
CLL cell line MO1043
antibody
NOTCH1 antisera from Wang et al.,PNAS 108(36):14908-13
tissue
Chronic Lymphocytic Leukemia (CLL) cell line
cell line
MO1043
conditions
MO1043 CLL cells induced to express ICN1-HA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked chromatin was fragmented by sonication with the Bioruptor sonicator (Diagenode) to achieve fragment sizes of ~200–500 base pairs using the following sonication buffer: 10mM Tris-HCl pH 8.0, 100mM NaCl, 1mM EDTA pH 8.0, 0.5mM EGTA pH 8.0, 0.1% Na-Deoxycholate, 0.5% N-lauroylsarcosine. ChIP-seq libraries were constructed starting from 4ng of ChIP or Input DNA as reported in Blecher-Gonen et al., 2013, Nature protocol. Libraries were quantified using the KAPA SYBR FAST Universal qPCR Kit (KAPA Biosystems), normalized to 10nM, pooled and sequenced in an Illumina HiSeq 2500 instrument as single-end 101 bp reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
47792541
Reads aligned (%)
84.9
Duplicates removed (%)
12.6
Number of peaks
1569 (qval < 1E-05)

hg38

Number of total reads
47792541
Reads aligned (%)
87.0
Duplicates removed (%)
11.3
Number of peaks
1862 (qval < 1E-05)

Base call quality data from DBCLS SRA