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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)
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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)
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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: Input control
wikigenes
PDBj
CellType: MEF
ATCC
MeSH
RIKEN BRC
SRX3230691
GSM2797839: Female Firre transgene MEF input Rep2; Mus musculus; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Input control
Antigen
Input control
Cell type
Cell type Class
Embryonic fibroblast
Cell type
MEF
Tissue
Embryonic Fibroblast
Lineage
primaryCells
Description
Mouse Embryonic Fibroblast
Attributes by original data submitter
Sample
source_name
Mouse Embryonic Fibroblasts
genotype
Firre transgene
cell type
Mouse Embryonic Fibroblasts
Sex
female
chip antibody
none
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The ChIP assay was performed as previously described (Lee et al, Nature Protocols, 2006). . The chromatin was sheared by using a Covaris S220 instrument. The pull-down was performed using a CTCF antibody (Millipore Sigma #07-729).
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
1525746
Reads aligned (%)
94.0
Duplicates removed (%)
11.2
Number of peaks
25 (qval < 1E-05)
mm9
Number of total reads
1525746
Reads aligned (%)
93.7
Duplicates removed (%)
11.6
Number of peaks
30 (qval < 1E-05)
Base call quality data from
DBCLS SRA