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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)
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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: H3K9ac
wikigenes
PDBj
CellType: Embryonic brains
ATCC
MeSH
RIKEN BRC
SRX1833240
GSM2191465: ChIP-seq from midbrain (ENCLB228TND); Mus musculus; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K9ac
Cell type
Cell type Class
Embryo
Cell type
Embryonic brains
NA
NA
Attributes by original data submitter
Sample
tissue
midbrain
age
13.5 day
donor ID
ENCDO956IXV
dev stage
embryonic
sample type
tissue
sex
pooled male and female
health state
healthy
lab
Len Pennacchio, LBNL
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
document: https://www.encodeproject.org/documents/89795b31-e65a-42ca-9d7b-d75196f6f4b3/@@download/attachment/Ren_Chromatin_Immunoprecipitation.pdf document: https://www.encodeproject.org/documents/4f73fbc3-956e-47ae-aa2d-41a7df552c81/@@download/attachment/Ren_ChIP_Library_Preparation_v060614.pdf document: https://www.encodeproject.org/documents/3125496b-c833-4414-bf5f-84dd633eb30d/@@download/attachment/Ren_Tissue_Fixation_and_Sonication_v060614.pdf See ENCODE portal
Sequencing Platform
instrument_model
Illumina HiSeq 2000
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
40692494
Reads aligned (%)
95.7
Duplicates removed (%)
17.6
Number of peaks
15167 (qval < 1E-05)
mm9
Number of total reads
40692494
Reads aligned (%)
95.5
Duplicates removed (%)
17.6
Number of peaks
15214 (qval < 1E-05)
Base call quality data from
DBCLS SRA