Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Blood
Cell type
Naive T cells
NA
NA

Attributes by original data submitter

Sample

source_name
Naive CD4 T cells
strain
B6CBAF1/J
tissue
lymph nodes + spleen
treatment
KO a MLL4 binding site
chip antibody
H3K4me1 (ab8895, Abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For RNA-Seq: the total RNAs were purified using Qiagen's miRNeasy micro kit (Qiagen cat# 217084) plus Qiagen's DNase set (Qiagen cat# 79254) for on-column DNase digestion option. PolyA-tailed RNAs were purified from pure total RNA using Dynabeads® mRNA DIRECT™ Kit (ambion life technologies cat# 61012). ChIP and Hi-C follow the protocols described previously in (PMID: 17512414) and (PMID: 25497547 ) with minor modifications. Library constructions for ChIP-Seq, RNA-Seq and Hi-C follow the protocols described previously in (PMID: 17512414), (PMID: 19528076) and (PMID: 25497547 ) with minor modifications.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
39392249
Reads aligned (%)
98.9
Duplicates removed (%)
18.9
Number of peaks
66235 (qval < 1E-05)

mm9

Number of total reads
39392249
Reads aligned (%)
98.8
Duplicates removed (%)
18.9
Number of peaks
66252 (qval < 1E-05)

Base call quality data from DBCLS SRA