Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Suz12

Cell type

Cell type Class
Blood
Cell type
ILC87
NA
NA

Attributes by original data submitter

Sample

source_name
ILC87 cell line derived from a thymic T cell tumor
strain
C57BL/6
genotype
Ikf/f Lck-Cre+
age
NA
cell type
3d EtOH-treated ILC87 cells expressing Ikaros-ER fusion protein
chip antibody
anti-Suz12 (3737, Cell Signaling)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The ChIP protocol was adapted from the Millipore ChIP Assay Kit (17-295). Cells were cross-linked with 1% formaldehyde at 37°C for 10min in PBS/0.5% BSA and lysed in 1% Triton X-100, 50 mM MgCl2, 100 mM Tris-HCl ([pH 7.1), 11% sucrose, 1x PIC buffer. Pelleted nuclei were then lysed in 1% SDS lysis buffer and sonicated to 200-500 bp fragments using a Bioruptor 200 (Diagenode). Chromatin samples were incubated with the appropriate antibodies. DNA was purified using the iPure Kit (Diagenode). Libraries were prepared according to standard Illumina protocols, and were validated with the Agilent Bioanalyzer.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
54763571
Reads aligned (%)
98.7
Duplicates removed (%)
60.6
Number of peaks
510 (qval < 1E-05)

mm9

Number of total reads
54763571
Reads aligned (%)
98.5
Duplicates removed (%)
60.6
Number of peaks
549 (qval < 1E-05)

Base call quality data from DBCLS SRA