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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
188
total RNA-seq
23
ATAC-seq
6
DNase-seq
3
Hi-C
3
small RNA-seq
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
192
Transcription
29
DNA accessibility
DNA methylation
3
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
194
May, 2020
63
December, 2017
52
November, 2018
50
August, 2017
40
May, 2022
35
August, 2021
8
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
679
bam
620
bigWig
462
fastq
441
bed narrowPeak
358
bigBed narrowPeak
172
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
1
vcf
Organism
781
Homo sapiens
Biosample type
400
cell line
353
tissue
15
in vitro differentiated cells
13
primary cell
Organ
879
pancreas
781
liver
675
connective tissue
484
adipose tissue
465
epithelium
348
kidney
336
heart
282
brain
229
vasculature
224
blood vessel
159
bone element
141
artery
121
limb
85
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
37
embryo
22
spleen
21
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
spinal cord
1
thymus
Project
781
AMP
Genome assembly (visualization)
621
hg19
529
GRCh38
Lab
710
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
month_released!
March, 2020
BIOSAMPLE
ASSAY
781 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
small RNA-seq
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
tissue
liver
145
166
20
2
1
1
right lobe of liver
10
3
1
2
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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