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Install and launch IGV before selecting data to visualize
For mm10
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For mm9
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Error connecting to IGV?
Analyze
For mm10
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For mm9
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
For mm10
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For mm9
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: H3K4me1
wikigenes
PDBj
CellType: ES cells
ATCC
MeSH
RIKEN BRC
SRX1452777
GSM1954945: H1 TKO ESC H3K4me1 IP R1; Mus musculus; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K4me1
Cell type
Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA
Attributes by original data submitter
Sample
source_name
H1 TKO embryonic stem cells, H3K4me1 ChIP
strain/background
C57BL/6
cell type
embryonic stem cell line
genotype/variation
H1c, H1d, H1e triple-null
chip antibody
H3K4me1 (Abcam ab8895, lot# GR61306-1)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
TruSeq DNA sample preparation kit (Illumina).
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
20055498
Reads aligned (%)
65.7
Duplicates removed (%)
3.6
Number of peaks
259 (qval < 1E-05)
mm9
Number of total reads
20055498
Reads aligned (%)
65.6
Duplicates removed (%)
3.7
Number of peaks
230 (qval < 1E-05)
Base call quality data from
DBCLS SRA