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 0
cell line
3T3-L1
differentiation stage
Day 0, undifferentiated
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 2 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
47079693
Reads aligned (%)
91.9
Duplicates removed (%)
9.0
Number of peaks
523 (qval < 1E-05)

mm9

Number of total reads
47079693
Reads aligned (%)
91.7
Duplicates removed (%)
9.0
Number of peaks
608 (qval < 1E-05)

Base call quality data from DBCLS SRA