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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
502
ChIP-seq
46
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
Hi-C
4
WGBS
3
small RNA-seq
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
502
DNA binding
50
Transcription
29
DNA accessibility
4
3D chromatin structure
4
DNA methylation
1
DNA sequencing
Target of assay
338
transcription factor
85
control
82
recombinant protein
76
histone modification
75
histone
58
RNA binding protein
42
broad histone mark
33
narrow histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
May, 2020
63
December, 2017
53
August, 2017
52
November, 2018
40
May, 2022
35
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
488
bam
465
fastq
452
bigWig
414
bed narrowPeak
358
bigBed narrowPeak
63
bed broadPeak
63
bigBed broadPeak
36
tagAlign
30
tsv
13
bed bed3+
3
bed bedMethyl
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
594
Homo sapiens
Biosample type
399
cell line
167
tissue
15
in vitro differentiated cells
13
primary cell
Organ
940
pancreas
681
connective tissue
594
liver
518
epithelium
489
adipose tissue
385
heart
350
kidney
284
brain
234
vasculature
229
blood vessel
159
bone element
141
artery
121
limb
92
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
37
embryo
23
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
594
AMP
Genome assembly (visualization)
453
hg19
368
GRCh38
Lab
523
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bigBed bedMethyl
month_released!
May, 2020
BIOSAMPLE
ASSAY
594 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
small RNA-seq
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
tissue
liver
95
24
20
2
1
3
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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