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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
551
ChIP-seq
208
total RNA-seq
51
ATAC-seq
6
pCHi-C
3
Hi-C
3
small RNA-seq
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
551
DNA binding
212
Transcription
52
DNA accessibility
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
337
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
61
narrow histone mark
59
RNA binding protein
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
49
November, 2018
47
August, 2017
40
May, 2022
32
August, 2021
31
February, 2023
28
October, 2019
7
July, 2019
5
December, 2019
5
January, 2019
3
June, 2019
3
March, 2020
2
February, 2020
2
February, 2021
1
December, 2018
Available data
687
bam
627
bigWig
474
bed narrowPeak
462
fastq
364
bigBed narrowPeak
179
tsv
86
tagAlign
67
bed broadPeak
67
bigBed broadPeak
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
827
Homo sapiens
Biosample type
403
tissue
399
cell line
15
in vitro differentiated cells
10
primary cell
Organ
864
pancreas
771
liver
650
connective tissue
479
adipose tissue
450
epithelium
353
heart
272
kidney
249
brain
220
vasculature
217
blood vessel
159
bone element
137
artery
85
limb
69
blood
69
bodily fluid
56
eye
56
musculature of body
41
nerve
34
embryo
22
spleen
20
lung
20
vein
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
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
827
AMP
Genome assembly (visualization)
639
hg19
521
GRCh38
Lab
756
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
assay_slims!
DNA methylation
files.file_type!
bed bed3+
organ_slims!
large intestine
BIOSAMPLE
ASSAY
827 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
small RNA-seq
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
142
167
20
1
1
1
1
islet of Langerhans
2
14
1
4
retina
3
15
right lobe of liver
10
3
1
2
1
pigmented layer of retina
2
12
cell line
HepG2
378
14
1
1
2
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
1
5
retinal pigment epithelial cell
3
Liver fetal (hepatocyte)
1
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