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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
544
ChIP-seq
23
ATAC-seq
20
total RNA-seq
6
DNase-seq
5
WGBS
3
Hi-C
2
RRBS
2
STARR-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
544
DNA binding
29
DNA accessibility
21
Transcription
7
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
330
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
55
RNA binding protein
42
broad histone mark
15
chromatin remodeller
2
other context
2
other post-translational modification
Date released
311
November, 2017
63
December, 2017
54
August, 2017
50
May, 2020
49
November, 2018
40
May, 2022
26
August, 2021
6
October, 2019
3
February, 2021
3
July, 2019
2
June, 2019
December, 2018
1
March, 2020
Available data
673
bam
614
bigWig
456
fastq
433
bed narrowPeak
350
bigBed narrowPeak
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
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
608
Homo sapiens
Biosample type
377
cell line
207
tissue
15
in vitro differentiated cells
9
primary cell
Organ
608
liver
529
pancreas
368
epithelium
330
kidney
260
brain
225
heart
206
connective tissue
168
vasculature
162
blood vessel
115
limb
101
bone element
90
adipose tissue
87
musculature of body
83
artery
56
eye
42
blood
42
bodily fluid
38
nerve
23
embryo
22
vein
19
lung
18
ureter
17
spleen
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
608
AMP
Genome assembly (visualization)
455
hg19
363
GRCh38
Lab
546
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:
7
missing controlled_by
Audit category:
27
inconsistent control read length
inconsistent control run_type
month_released!
December, 2018
audit.WARNING.category!
inconsistent control run_type
files.file_type!
tsv
BIOSAMPLE
ASSAY
608 results
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ChIP-seq
ATAC-seq
total RNA-seq
DNase-seq
WGBS
Hi-C
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
370
1
1
1
2
1
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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