Antigen

Antigen Class

Unclassified

Antigen

Unclassified

Cell type

Cell type Class

Embryonic fibroblast

Cell type

3T3-L1

Tissue

Embryo

Cell Type

Fibroblast

Sample

sample_name

DRS001284

sample comment

source:3T3-L1 cells, day 0 of differentiation growth_protocol:3T3-L1 cells were maintained in DMEM, supplemented with 10% FBS.

Sequenced DNA Library

library_name

HW_CTCF_3T3L1_day0_ChIP-seq

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

extraction_protocol:ChIP antibody:anti-CTCF from Upstate (#07-729) For ChIP using anti-CTCF antibodies, 3T3-L1 cells were cross-linked with 1% formaldehyde for ten minutes at room temperature and were prepared for ChIP as described previously.[Wakabayashi K et al. Mol Cell Biol 29:3544-3555, 2009.]. High-throughput sequencing was performed by using the Genome Analyzer System (GA II) (Illumina) as recommended by the manufacturer.

Sequencing Platform

instrument_model

Illumina Genome Analyzer IIx

mm10

Number of total reads

14343863

Reads aligned (%)

74.9

Duplicates removed (%)

13.1

Number of peaks

20731 (qval < 1E-05)

mm9

Number of total reads

14343863

Reads aligned (%)

74.7

Duplicates removed (%)

13.3

Number of peaks

20765 (qval < 1E-05)