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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
484
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
pCHi-C
3
small RNA-seq
2
Hi-C
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
484
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
330
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
narrow histone mark
55
RNA binding protein
42
broad histone mark
15
chromatin remodeller
2
other context
2
other post-translational modification
Date released
304
November, 2017
167
May, 2020
56
December, 2017
49
November, 2018
41
August, 2017
40
May, 2022
30
August, 2021
10
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
1
February, 2020
Available data
623
bam
562
bigWig
438
fastq
382
bed narrowPeak
336
bigBed narrowPeak
174
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
11
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
721
Homo sapiens
Biosample type
383
cell line
316
tissue
12
primary cell
10
in vitro differentiated cells
Organ
866
pancreas
721
liver
650
connective tissue
478
adipose tissue
470
epithelium
350
heart
339
kidney
208
vasculature
203
blood vessel
169
brain
159
bone element
135
artery
107
limb
81
musculature of body
68
blood
68
bodily fluid
58
eye
35
nerve
29
embryo
23
spleen
20
lung
18
ureter
16
skeleton
15
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
721
AMP
Genome assembly (visualization)
563
hg19
484
GRCh38
Lab
653
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:
6
missing controlled_by
Audit category:
21
inconsistent control read length
inconsistent control run_type
assay_title!
CRISPRi RNA-seq
audit.WARNING.category!
inconsistent control run_type
files.file_type!
bedpe bed3+
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
721 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
361
14
1
1
2
1
2
1
tissue
liver
103
167
20
2
3
1
1
1
1
right lobe of liver
8
3
1
2
1
2
primary cell
hepatocyte
2
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
10
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