Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryonic fibroblast
Cell type
3T3-L1
Tissue
Embryo
Cell Type
Fibroblast

Attributes by original data submitter

Sample

source_name
3T3-L1_Input
cell line
3T3-L1
cell type
Preadipocyte cell line

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP experiments were performed in 3T3-L1 cells essentially as previously described (Siersbæk et al. 2012, MCB, 32: 3452-3463). For cross-linking of chromatin, 0.2 mM disuccinimidyl glutarate (DSG) was applied (Proteochem, Denver, CO) for 45 min followed by cross-linking using 1% formaldehyde for 10 min. ChIP-seq libraries were constructed according to the manufacturer's instructions (Illumina) as described in (Nielsen R, Mandrup S, 2014 Genome-Wide Profiling of Transcription Factor Binding and Epigenetic Marks in Adipocytes by ChIP-seq. Methods in Enzymology 2014, Vol. 537, pp. 261-279).

Sequencing Platform

instrument_model
Illumina HiSeq 1500

mm10

Number of total reads
15590848
Reads aligned (%)
96.0
Duplicates removed (%)
22.7
Number of peaks
171 (qval < 1E-05)

mm9

Number of total reads
15590848
Reads aligned (%)
95.8
Duplicates removed (%)
22.8
Number of peaks
317 (qval < 1E-05)

Base call quality data from DBCLS SRA