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Citing ENCODE
Experiment matrix
Enter search terms to filter the experiments included in the matrix.
Assay
ChIP-seq
50
Assay category
DNA binding
50
Target of assay
transcription factor
3135
control
2525
histone
2458
broad histone mark
1442
RNA binding protein
1271
recombinant protein
1140
narrow histone mark
945
chromatin remodeller
147
other post-translational modification
57
other context
50
nucleotide modification
4
tag
1
Date released
October, 2017
20
February, 2012
6
November, 2016
6
July, 2011
4
October, 2011
3
May, 2012
2
September, 2011
2
September, 2012
2
August, 2016
1
March, 2018
1
November, 2011
1
November, 2017
1
October, 2016
1
Available data
bam
50
bed narrowPeak
50
bigBed narrowPeak
50
bigWig
50
fastq
50
bed broadPeak
12
bigBed broadPeak
12
Experiment status
released
50
revoked
1
Organism
Homo sapiens
44
Mus musculus
6
Biosample type
tissue
28
cell line
19
in vitro differentiated cells
3
Organ
blood
8
bodily fluid
8
intestine
7
large intestine
7
musculature of body
5
spleen
5
skin of body
4
stomach
4
breast
3
epithelium
3
esophagus
3
lung
3
brain
2
liver
2
prostate gland
2
embryo
1
lymph node
1
uterus
1
vagina
1
Cell
cancer cell
9
stem cell
4
B cell
3
epithelial cell
2
neural cell
2
induced pluripotent stem cell
1
lymphoblast
1
neuroblastoma cell
1
Project
ENCODE
50
Genome assembly
hg19
44
GRCh38
42
mm10
6
mm9
3
Lab
Richard Myers, HAIB
39
Michael Snyder, Stanford
7
Ross Hardison, PennState
3
Barbara Wold, Caltech
1
Audit category:
insufficient read length
2
missing controlled_by
2
insufficient read depth
1
insufficient replicate concordance
1
Audit category:
antibody characterized with exemption
31
low read depth
23
low read length
22
mild to moderate bottlenecking
12
moderate library complexity
inconsistent target of control experiment
6
control low read depth
5
inconsistent control read length
5
inconsistent platforms
5
borderline replicate concordance
2
mixed read lengths
1
audit.WARNING.category!
moderate library complexity
BIOSAMPLE
ASSAY
50 results
Clear Filters
ChIP-seq
tissue
sigmoid colon
4
breast epithelium
3
esophagus muscularis mucosa
3
spleen
3
stomach
3
+ See 6 more…
cell line
HepG2
2
K562
2
MEL cell line
2
A549
1
CH12.LX
1
+ See 11 more…
in vitro differentiated cells
bipolar neuron
1
myocyte
1
neural cell
1
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