SRX4906177
GSM3438405: ChIPseq-Th2-Setdb1-KO-H3K4me1-experiment2; Mus musculus; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Blood
Cell type
CD4+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
Spleen CD4+ T cells
cell type
Th2 T lymphocytes
number of culture days
6
strain
C57BL/6 Setdb1-/-
antibody
H3K4me1 (ab8895 from Abcam; lot GR324268-2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DNA purification was performed by column (MinElute PCR purification kit, Qiagen). Libraries were prepared for sequencing using standard TruSeq Illumina protocols (ChIP-seq) and Nextera DNA Library Prep Kit Illumina (ATAC-seq).

Sequencing Platform

instrument_model
Illumina HiSeq 3000

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
37371275
Reads aligned (%)
86.0
Duplicates removed (%)
21.2
Number of peaks
213 (qval < 1E-05)

mm9

Number of total reads
37371275
Reads aligned (%)
85.9
Duplicates removed (%)
21.1
Number of peaks
178 (qval < 1E-05)

Base call quality data from DBCLS SRA