Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

Cell type

Cell type Class
Blood
Cell type
GM12878
Tissue
blood
Lineage
mesoderm
Description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

Attributes by original data submitter

Sample

ENA first public
2018-09-06
ENA last update
2018-08-09
ENA-CHECKLIST
ERC000011
External Id
SAMEA4823996
INSDC center alias
EPFL
INSDC center name
EPFL
INSDC first public
2018-09-06T17:02:07Z
INSDC last update
2018-08-09T13:46:36Z
INSDC status
public
Submitter Id
E-MTAB-7122:Sample 1
broker name
ArrayExpress
cell line
GM12878
common name
human
developmental stage
adult
sample name
E-MTAB-7122:Sample 1
sex
female

Sequenced DNA Library

library_name
Sample 1_p
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin from human GM12878 cells was immunoprecipitated by FloChIP technique - a novel microfluidic immunoprecipitation system, the details of which will be published in due course - using the following Abcam antibodies: H3k27ac (ab47290; H3k4me3 (ab8580), H3k4me1 (ab8895), H3k9me3 (ab8898), H3k27me3 (ab6147) FloChIP technique - a novel microfluidic immunoprecipitation system, the details of which will be published in due course Tagmentation: Tn5 Produced-In-House, Amplification: NebNext NEB; Amplification: Primers IDT; Purification: AmpureBeads (BeckmanCoulter)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
25185949
Reads aligned (%)
96.7
Duplicates removed (%)
22.4
Number of peaks
22823 (qval < 1E-05)

hg19

Number of total reads
25185949
Reads aligned (%)
96.5
Duplicates removed (%)
22.4
Number of peaks
23411 (qval < 1E-05)

Base call quality data from DBCLS SRA