SRX2370738
GSM2400433: DNase-seq from 3T3-L1 (ENCLB448GKB); Mus musculus; DNase-Hypersensitivity

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

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

Attributes by original data submitter

Sample

dev stage
unknown
cell line
3T3-L1
sex
not collected
sample type
immortalized cell line
donor ID
ENCDO072AAA
age
unknown
lab
John Stamatoyannopoulos, UW

Sequenced DNA Library

library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase
library_construction_protocol
other: https://www.encodeproject.org/documents/926174f5-d14c-4e77-bc52-5517b56daac0/@@download/attachment/Culturedcells_SOP_nuclei_DNase_crosslink_RNA_V1.pdf

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
16817962
Reads aligned (%)
71.5
Duplicates removed (%)
28.0
Number of peaks
20873 (qval < 1E-05)

mm9

Number of total reads
16817962
Reads aligned (%)
71.4
Duplicates removed (%)
28.1
Number of peaks
20882 (qval < 1E-05)

Base call quality data from DBCLS SRA