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Citing ENCODE
Experiment matrix
Enter search terms to filter the experiments included in the matrix.
Assay
ChIP-seq
112
Assay category
DNA binding
112
Target of assay
transcription factor
153
histone
112
broad histone mark
60
control
55
narrow histone mark
49
chromatin remodeller
23
other context
3
other post-translational modification
3
nucleotide modification
2
RNA binding protein
1
Date released
March, 2012
45
June, 2011
20
September, 2012
20
November, 2011
12
August, 2012
8
February, 2014
5
December, 2014
1
July, 2011
1
Available data
bam
112
bed narrowPeak
112
bigBed narrowPeak
112
bigWig
112
fastq
112
bed broadPeak
89
bigBed broadPeak
89
fasta
1
Experiment status
released
112
Organism
Mus musculus
112
Biosample type
tissue
64
cell line
39
in vitro differentiated cells
6
primary cell
3
Organ
embryo
18
spleen
18
musculature of body
12
brain
10
heart
10
liver
8
connective tissue
6
gonad
5
intestine
5
kidney
5
lymph node
5
small intestine
5
testis
5
thymus
5
adipose tissue
3
bone element
3
bone marrow
3
extraembryonic component
3
placenta
3
lung
2
Cell
stem cell
15
B cell
5
cancer cell
5
fibroblast
3
Project
ENCODE
112
Genome assembly
GRCh38
2277
hg19
2211
mm10
729
mm9
112
Lab
Bing Ren, UCSD
85
Barbara Wold, Caltech
12
Michael Snyder, Stanford
9
Ross Hardison, PennState
5
Sherman Weissman, Yale
1
Audit category:
extremely low read depth
3
Audit category:
insufficient read depth
89
control insufficient read depth
68
missing controlled_by
11
poor library complexity
11
insufficient read length
8
severe bottlenecking
7
Audit category:
low read length
93
mild to moderate bottlenecking
59
control low read depth
40
low read depth
36
inconsistent platforms
35
moderate library complexity
30
inconsistent control read length
15
mixed read lengths
7
inconsistent target of control experiment
2
BIOSAMPLE
ASSAY
112 results
Clear Filters
ChIP-seq
tissue
heart
10
liver
8
kidney
5
small intestine
5
spleen
5
+ See 9 more…
cell line
MEL cell line
13
ES-Bruce4
7
C2C12
6
CH12.LX
5
E14TG2a.4
5
+ See 1 more…
in vitro differentiated cells
myocyte
6
primary cell
embryonic fibroblast
3
See all biosamples
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