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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
23
ATAC-seq
20
total RNA-seq
6
DNase-seq
5
WGBS
4
Hi-C
2
RRBS
2
STARR-seq
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
29
DNA accessibility
21
Transcription
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
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
315
November, 2017
63
December, 2017
54
August, 2017
53
November, 2018
50
May, 2020
40
May, 2022
26
August, 2021
6
October, 2019
3
July, 2019
2
February, 2021
2
June, 2019
1
December, 2018
1
March, 2020
Available data
681
bam
622
bigWig
465
fastq
441
bed narrowPeak
358
bigBed narrowPeak
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
616
Homo sapiens
Biosample type
385
cell line
207
tissue
15
in vitro differentiated cells
9
primary cell
Organ
616
liver
529
pancreas
368
epithelium
330
kidney
260
brain
225
heart
203
connective tissue
168
vasculature
162
blood vessel
115
limb
100
bone element
89
adipose tissue
87
musculature of body
83
artery
blood
69
bodily fluid
52
eye
38
nerve
24
spleen
23
embryo
22
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
Project
616
AMP
Genome assembly (visualization)
462
hg19
369
GRCh38
Lab
554
AMP-T2D consortium
40
Karen Mohlke, UNC
22
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_title!
pCHi-C
files.file_type!
tsv
files.file_type!!
tsv
organ_slims!
blood
BIOSAMPLE
ASSAY
616 results
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ChIP-seq
ATAC-seq
total RNA-seq
DNase-seq
WGBS
Hi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
2
2
1
tissue
liver
145
20
20
2
3
1
1
1
right lobe of liver
10
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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