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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
121
Transcription
Date released
43
March, 2014
33
May, 2012
24
December, 2011
21
March, 2011
Available data
118
fastq
78
bam
78
bigWig
77
bed bedRnaElements
77
bigBed bedRnaElements
68
bed tss_peak
68
bigBed tss_peak
68
gff gff3
68
tsv
52
bed idr_peak
52
bigBed idr_peak
42
gtf
3
csfasta
3
csqual
Organism
78
Homo sapiens
39
Drosophila melanogaster
4
Drosophila pseudoobscura
Biosample type
44
immortalized cell line
32
primary cell
19
whole organisms
18
tissue
7
stem cell
1
in vitro differentiated cells
Organ
14
connective tissue
10
skin of body
8
blood vessel
6
vein
5
gonad
3
extraembryonic component
3
ovary
2
adipose tissue
2
placenta
2
testis
1
artery
1
bone element
1
lung
1
mammary gland
1
muscle organ
1
penis
1
prostate gland
Project
78
ENCODE
43
modENCODE
Genome assembly (visualization)
71
hg19
68
GRCh38
Audit category:
48
missing controlled_by
10
missing possible_controls
Audit category:
71
inconsistent control read length
28
inconsistent platforms
10
missing external identifiers
4
missing genotype
BIOSAMPLE
ASSAY
121 results
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CAGE
immortalized cell line
K562
9
GM12878
6
HeLa-S3
6
HepG2
6
ML-DmBG3-c2
4
+ See 5 more…
primary cell
endothelial cell of umbilical vein
5
keratinocyte
5
IMR-90
3
melanocyte of skin
2
B cell
1
+ See 16 more…
whole organisms
whole organism
15
carcass
4
tissue
head
4
digestive system
3
ovary
3
central nervous system
2
testis
2
+ See 4 more…
stem cell
H1-hESC
4
mesenchymal stem cell of Wharton's jelly
1
mesenchymal stem cell of adipose
1
mesenchymal stem cell of the bone marrow
1
in vitro differentiated cells
hematopoietic multipotent progenitor cell
1
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