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BigWig
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For mm9
BigWig
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Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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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)
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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: ATAC-Seq
wikigenes
PDBj
CellType: Mammary epithelium organoid
ATCC
MeSH
RIKEN BRC
SRX4321985
GSM3231527: ATAC-seq Basal Suz12-deleted 2; Mus musculus; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Breast
Cell type
Mammary epithelium organoid
NA
NA
Attributes by original data submitter
Sample
source_name
Mammary epithelium
background strain
C57BL/6
tissue
Mammary epithelium organoid
cell type from which organoid was derived
Basal
genotype
Suz12-deleted
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Nuclei were isoluated from 50,000 cells using ATAC lysis buffer (10mM Tris-Cl, pH 7.4, 10mM NaCl, 3mM MgCl2, 0.1% IGEPAL) DNA was tagmented using Illumina Tn5, PCR-amplifed and equimolar amounts sequenced.
Sequencing Platform
instrument_model
NextSeq 500
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
66465262
Reads aligned (%)
48.0
Duplicates removed (%)
27.1
Number of peaks
11657 (qval < 1E-05)
mm9
Number of total reads
66465262
Reads aligned (%)
47.9
Duplicates removed (%)
27.2
Number of peaks
11634 (qval < 1E-05)
Base call quality data from
DBCLS SRA