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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: Input control
wikigenes
PDBj
CellType: NIH/3T3
ATCC
MeSH
RIKEN BRC
SRX1241427
GSM1875442: Input chromatin control; 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
NIH/3T3
Primary Tissue
Embryo
Tissue Diagnosis
Normal
Attributes by original data submitter
Sample
source_name
embryonic fibroblasts, input
cell line
NIH 3T3
cell type
embryonic fibroblast
treatment
none
chip antibody
none
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was prepared from sonicated nuclei and specific protein-DNA complexes were isolated by immunoprecipitation. Libraries for Illumina sequencing were prepared using the TruSeq ChIP Sample Prep kit (Illumina) for the input chromatin samples.
Sequencing Platform
instrument_model
Illumina HiSeq 2000
Where can I get the processing logs?
Read processing pipeline
log
mm10
Number of total reads
50341566
Reads aligned (%)
97.6
Duplicates removed (%)
16.6
Number of peaks
571 (qval < 1E-05)
mm9
Number of total reads
50341566
Reads aligned (%)
97.2
Duplicates removed (%)
16.5
Number of peaks
649 (qval < 1E-05)
Base call quality data from
DBCLS SRA