Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

Cell type Class
Blood
Cell type
CH12
Tissue
Blood
Lineage
cellLine
Description
B-cell lymphoma (GM12878 analog)

Attributes by original data submitter

Sample

source_name
CH12
biomaterial_provider
Weissman lab
lab
PSU-m
lab description
Hardison - Penn State University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
CH12
cell organism
mouse
cell description
B-cell lymphoma (GM12878 analog)
cell sex
F
antibody
H3K9me3
antibody antibodydescription
rabbit polyclonal, ChIP grade. Antibody Target: H3K9me3
antibody targetdescription
Histone H3 (tri methyl K9). Is associated with repressive heterochromatic state (silenced chromatin). NOTE CONTRAST to H3K9me1 which is associated with active and accessible regions.
antibody vendorname
Abcam
antibody vendorid
ab8898
age
immortalized
age description
Immortal cells
control
None
control description
No special treatment or protocol applies
controlid
wgEncodeEM001923
replicate
1
strain
B10.H-2aH-4bp/Wts
strain description
Derived by inbreeding from selected F2 progeny of B10.A X B10.129

Sequenced DNA Library

library_name
GSM946548: PSU_ChipSeq_CH12_H3K9me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
228882158
Reads aligned (%)
97.5
Duplicates removed (%)
19.8
Number of peaks
58407 (qval < 1E-05)

mm9

Number of total reads
228882158
Reads aligned (%)
97.2
Duplicates removed (%)
19.7
Number of peaks
60289 (qval < 1E-05)

Base call quality data from DBCLS SRA