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
cell line
3T3-L1 (ATTC)
passages
4-6
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP analyses in 3T3-L1 and C3H10T1/2 cells were performed as described previously (Schupp, M. et al. Retinol saturase promotes adipogenesis and is downregulated in obesity. Proc. Natl. Acad. Sci. U.S.A. 106, 1105–1110 (2009)). Approx. 100 µg of sonicated chromatin extracts were used for each IP and incubated with 10 µg of a GATA2 antibody (sc-9008x, Santa Cruz) overnight. For deep sequencing ChIP samples (100-150ng of pooled DNA derived from individual CHIP experiments) were first amplified using the ChIP-Seq Sample Prep Kit (Illumina) according to the manufacturers instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
73177635
Reads aligned (%)
97.5
Duplicates removed (%)
11.4
Number of peaks
652 (qval < 1E-05)

mm9

Number of total reads
73177635
Reads aligned (%)
97.3
Duplicates removed (%)
11.4
Number of peaks
750 (qval < 1E-05)

Base call quality data from DBCLS SRA