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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
450
ChIP-seq
188
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
450
DNA binding
192
Transcription
29
DNA accessibility
7
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
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
22
August, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
March, 2020
2
June, 2019
2
October, 2019
1
December, 2018
1
February, 2020
Available data
601
bam
539
bigWig
421
fastq
361
bed narrowPeak
323
bigBed narrowPeak
172
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
1
vcf
Organism
686
Homo sapiens
Biosample type
383
cell line
289
tissue
11
primary cell
3
in vitro differentiated cells
Organ
784
pancreas
686
liver
604
connective tissue
458
adipose tissue
426
epithelium
322
kidney
284
heart
161
vasculature
159
bone element
156
blood vessel
121
artery
97
brain
73
limb
68
blood
68
bodily fluid
58
eye
58
musculature of body
25
embryo
19
lung
19
nerve
18
spleen
18
ureter
16
skeleton
6
vein
2
pericardium
1
bone marrow
1
pituitary gland
1
skin of body
1
spinal cord
1
thymus
Project
686
AMP
Genome assembly (visualization)
541
hg19
461
GRCh38
Lab
618
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
histone
month_released!
March, 2020
BIOSAMPLE
ASSAY
686 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
360
14
1
1
2
2
2
1
tissue
liver
81
166
20
2
3
1
1
1
right lobe of liver
5
3
1
2
1
2
primary cell
hepatocyte
1
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
3
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