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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
449
ChIP-seq
189
total RNA-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
449
DNA binding
193
Transcription
28
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
167
May, 2020
53
November, 2018
46
December, 2017
40
May, 2022
29
August, 2021
21
August, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
1
October, 2019
Available data
600
bam
539
bigWig
420
fastq
359
bed narrowPeak
323
bigBed narrowPeak
174
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
687
Homo sapiens
Biosample type
383
cell line
291
tissue
10
primary cell
3
in vitro differentiated cells
Organ
726
pancreas
687
liver
595
connective tissue
458
adipose tissue
356
epithelium
303
kidney
292
heart
164
vasculature
160
blood vessel
121
artery
98
brain
75
bone element
72
limb
68
blood
68
bodily fluid
61
musculature of body
58
eye
21
embryo
19
nerve
19
spleen
18
ureter
16
skeleton
7
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
lung
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
Project
687
AMP
Genome assembly (visualization)
541
hg19
460
GRCh38
Lab
619
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
27
inconsistent control
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
month_released!
April, 2020
target.investigated_as!
histone modification
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
687 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
360
14
1
1
2
2
2
1
tissue
liver
80
167
20
2
3
1
1
1
1
1
right lobe of liver
5
3
1
2
1
2
primary cell
hepatocyte
1
5
1
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
3
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