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Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
7758
ChIP-seq
811
DNase-seq
724
polyA mRNA RNA-seq
526
shRNA RNA-seq
498
total RNA-seq
321
eCLIP
292
RNA microarray
259
DNAme array
219
RRBS
217
WGBS
211
small RNA-seq
170
microRNA-seq
159
RNA Bind-n-Seq
155
RAMPAGE
142
genotyping array
121
CAGE
117
ATAC-seq
115
microRNA counts
112
single cell RNA-seq
109
siRNA RNA-seq
90
Repli-seq
73
RIP-seq
67
MRE-seq
63
Repli-chip
55
MeDIP-seq
40
genetic modification DNase-seq
39
ChIA-PET
37
FAIRE-seq
34
PAS-seq
32
RIP-chip
32
polyA depleted RNA-seq
31
RNA-PET
27
CRISPR RNA-seq
27
genotyping HTS
19
Hi-C
14
MS-MS
13
5C
8
TAB-seq
7
iCLIP
6
DNA-PET
2
5' RLM RACE
2
MNase-seq
2
Switchgear
Assay category
211
Transcription
Date released
58
July, 2012
38
March, 2014
33
May, 2016
23
February, 2012
17
June, 2014
10
December, 2014
9
June, 2016
8
August, 2016
6
November, 2010
6
November, 2014
2
July, 2014
1
January, 2015
Available data
209
fastq
171
bam
171
bigWig
171
tsv
85
bed bedRnaElements
85
bigBed bedRnaElements
85
gtf
Organism
173
Homo sapiens
38
Drosophila melanogaster
Biosample type
95
immortalized cell line
68
tissue
33
primary cell
8
in vitro differentiated cells
6
stem cell
1
induced pluripotent stem cell line
Organ
16
connective tissue
10
intestine
10
skin of body
9
muscle organ
8
large intestine
8
stomach
7
esophagus
6
lung
4
blood vessel
4
liver
4
spleen
3
adipose tissue
3
brain
3
extraembryonic component
3
gonad
3
prostate gland
2
adrenal gland
2
pancreas
2
placenta
2
testis
2
thyroid gland
2
uterus
2
vein
1
artery
1
bone element
1
heart
1
kidney
1
mammary gland
1
mouth
1
ovary
1
penis
1
spinal cord
1
tongue
1
urinary bladder
1
vagina
Project
173
ENCODE
38
modENCODE
Genome assembly (visualization)
171
GRCh38
171
hg19
Audit category:
27
insufficient read length
7
insufficient read depth
2
unreplicated experiment
Audit category:
38
low replicate concordance
27
low read depth
24
missing external identifiers
8
missing genotype
BIOSAMPLE
ASSAY
211 results
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small RNA-seq
immortalized cell line
SK-N-SH
10
A549
9
CME-W1-Cl.8+
8
K562
8
Kc167
8
+ See 15 more…
tissue
esophagus squamous epithelium
4
gastroesophageal sphincter
4
sigmoid colon
4
spleen
4
stomach
4
+ See 31 more…
primary cell
IMR-90
9
keratinocyte
3
melanocyte of skin
2
B cell
1
CD14-positive monocyte
1
+ See 17 more…
in vitro differentiated cells
neural cell
3
bipolar neuron
1
hematopoietic multipotent progenitor cell
1
hepatocyte
1
neural progenitor cell
1
+ See 1 more…
stem cell
H1-hESC
3
mesenchymal stem cell of Wharton's jelly
1
mesenchymal stem cell of adipose
1
mesenchymal stem cell of the bone marrow
1
induced pluripotent stem cell line
induced pluripotent stem cell
1
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