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
Input_LSD1 3T3-L1 cells day 7
cell line
3T3-L1
differentiation stage
Day 7, 7 days after induction of differentiation
genotype
Control
passages
13-18
chip antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Libraries were prepared from immunoprecipitated DNA according to standard methods. ChIP-seq libraries were sequenced using a HiSeq 2000 (Illumina) and mapped to the mm10 reference genome using bowtie 4 Langmead, B., Trapnell, C., Pop, M. & Salzberg, S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10, R25 (2009).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
46232453
Reads aligned (%)
71.0
Duplicates removed (%)
8.7
Number of peaks
419 (qval < 1E-05)

mm9

Number of total reads
46232453
Reads aligned (%)
70.8
Duplicates removed (%)
8.7
Number of peaks
477 (qval < 1E-05)

Base call quality data from DBCLS SRA