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Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
15
ChIP-seq
10
DNase-seq
3
microRNA-seq
3
polyA mRNA RNA-seq
2
CAGE
2
WGBS
2
small RNA-seq
2
total RNA-seq
1
DNAme array
1
RNA microarray
1
RRBS
1
genotyping HTS
Assay category
15
DNA binding
13
Transcription
10
DNA accessibility
4
DNA methylation
3
DNA sequencing
1
Genotyping
Target of assay
10
histone
10
histone modification
5
broad histone mark
5
narrow histone mark
4
control
1
RNA binding protein
1
transcription factor
Date released
22
July, 2013
4
March, 2012
3
May, 2012
2
February, 2011
2
July, 2012
2
June, 2012
2
May, 2016
1
April, 2011
1
December, 2010
1
January, 2012
1
October, 2011
1
September, 2011
1
September, 2012
Available data
33
fastq
31
bam
25
bigWig
20
bed broadPeak
19
bed narrowPeak
19
bigBed narrowPeak
14
bigBed broadPeak
11
tagAlign
9
tsv
7
bed bedRnaElements
7
bigBed bedRnaElements
5
gtf
2
bed idr_peak
2
bed tss_peak
2
bigBed idr_peak
2
bigBed tss_peak
2
gff gff3
1
bed bedMethyl
1
bigBed bedMethyl
1
sra
Organism
37
Homo sapiens
6
Mus musculus
Biosample type
32
tissue
11
primary cell
Organ
661
brain
543
connective tissue
447
intestine
387
skin of body
376
muscle organ
298
heart
292
lung
289
embryonic structure
281
liver
255
kidney
253
large intestine
241
stomach
197
blood vessel
153
extraembryonic component
147
penis
135
adipose tissue
120
mammary gland
109
esophagus
107
small intestine
104
pancreas
101
adrenal gland
95
gonad
93
spleen
69
vein
54
thyroid gland
53
thymus
48
ovary
44
breast
44
testis
43
placenta
39
prostate gland
37
blood
36
artery
34
bone element
31
eye
31
ureter
30
uterus
26
spinal cord
25
vagina
24
mouth
21
urinary bladder
20
bronchus
6
lymphatic vessel
5
tongue
3
trachea
2
skeleton
1
nose
Project
22
Roadmap
21
ENCODE
Genome assembly (visualization)
24
hg19
22
GRCh38
5
mm10
4
mm9
Audit category:
3
control extremely low read depth
3
extremely low spot score
Audit category:
9
insufficient read depth
5
control insufficient read depth
3
missing RNA fragment size
2
insufficient spot score
1
insufficient read length
1
missing documents
1
poor library complexity
1
unreplicated experiment
Audit category:
14
low read length
6
low read depth
4
control low read depth
4
insufficient read depth
4
mild to moderate bottlenecking
2
inconsistent control read length
1
inconsistent platforms
1
low replicate concordance
1
low spot score
1
missing spikeins
1
moderate library complexity
BIOSAMPLE
ASSAY
43 results
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ChIP-seq
DNase-seq
microRNA-seq
polyA mRNA RNA-seq
CAGE
WGBS
small RNA-seq
total RNA-seq
DNAme array
RNA microarray
RRBS
genotyping HTS
tissue
placenta
12
9
3
3
2
1
1
1
primary cell
fibroblast of villous mesenchyme
3
1
1
1
1
1
placental epithelial cell
1
1
1
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