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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
466
ChIP-seq
189
total RNA-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
whole genome sequencing assay
Assay category
466
DNA binding
192
Transcription
28
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
82
recombinant protein
80
control
58
RNA binding protein
45
histone modification
44
histone
24
broad histone mark
23
chromatin remodeller
20
narrow histone mark
2
other context
2
other post-translational modification
Date released
303
November, 2017
144
May, 2020
63
December, 2017
53
November, 2018
40
May, 2022
34
August, 2017
31
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
680
bam
622
bigWig
465
fastq
440
bed narrowPeak
358
bigBed narrowPeak
174
tsv
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
hdf5
1
vcf
Organism
702
Homo sapiens
Biosample type
387
cell line
290
tissue
15
in vitro differentiated cells
10
primary cell
Organ
895
pancreas
702
liver
485
epithelium
346
kidney
327
heart
207
connective tissue
170
vasculature
168
brain
164
blood vessel
116
limb
97
adipose tissue
81
musculature of body
75
artery
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
9
bone element
8
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
702
AMP
Genome assembly (visualization)
581
hg19
499
GRCh38
Lab
631
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
Audit category:
13
missing controlled_by
Audit category:
16
inconsistent control read length
8
inconsistent control run_type
lab.title!
Anna Gloyn, Oxford
month_released!
February, 2021
files.file_type!
tagAlign
BIOSAMPLE
ASSAY
702 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
whole genome sequencing assay
cell line
HepG2
366
14
1
2
2
1
1
tissue
liver
75
167
20
2
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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