Antigen

Antigen Class

No description

Antigen

NA

Cell type

Cell type Class

Liver

Cell type

Liver

MeSH Description

A large lobed glandular organ in the abdomen of vertebrates that is responsible for detoxification, metabolism, synthesis and storage of various substances.

Sample

ENA first public

2017-09-01

ENA last update

2017-05-25

ENA-CHECKLIST

ERC000011

External Id

SAMEA104101379

INSDC center alias

Flicek group European Bioinformatics Institute (EMBL-EBI)

INSDC center name

Flicek group European Bioinformatics Institute (EMBL-EBI)

INSDC first public

2017-09-01T17:01:37Z

INSDC last update

2017-05-25T13:13:34Z

INSDC status

public

Submitter Id

E-MTAB-5769:do3066

age

10

broker name

ArrayExpress

common name

western European house mouse

developmental stage

adult

individual

85305

organism part

liver

sample name

E-MTAB-5769:do3066

sex

male

strain

C57BL/6

sub_species

domesticus

Sequenced DNA Library

library_name

do3066_p

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Liver tissue from three male individuals from the Mus species was crosslinked, dounced and lysed as described in Schmidt et al. 2009. (PMID: 19275939) The chromatin was sonicated using a Misonix sonicator 3000 homogenizer with 12 cycles of 30s ON and 60s OFF at a power-output 30 Watt. CTCF was immunoprecipitated using the Merck-Millipore antibody (cat# 07-729) and NGS libraries prepared according to Schmidt et al. 2009 (PMID: 19275939) ligating Illumina's low-plex TruSeq adapters.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

31394972

Reads aligned (%)

73.6

Duplicates removed (%)

35.3

Number of peaks

30789 (qval < 1E-05)

mm9

Number of total reads

31394972

Reads aligned (%)

73.5

Duplicates removed (%)

35.3

Number of peaks

30737 (qval < 1E-05)