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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
466
ChIP-seq
169
total RNA-seq
6
DNase-seq
5
WGBS
3
ATAC-seq
3
pCHi-C
small RNA-seq
2
Hi-C
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
466
DNA binding
170
Transcription
9
DNA accessibility
7
DNA methylation
2
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
34
August, 2017
30
August, 2021
7
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
1
February, 2020
Available data
678
bam
599
bigWig
465
fastq
421
bed narrowPeak
358
bigBed narrowPeak
171
tsv
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
660
Homo sapiens
Biosample type
388
cell line
247
tissue
15
in vitro differentiated cells
10
primary cell
Organ
918
pancreas
660
liver
659
connective tissue
511
epithelium
480
adipose tissue
383
heart
352
kidney
227
vasculature
221
blood vessel
164
brain
159
bone element
135
artery
122
limb
77
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
20
lung
20
vein
18
ureter
16
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
660
AMP
Genome assembly (visualization)
558
hg19
497
GRCh38
Lab
630
AMP-T2D consortium
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
16
inconsistent control read length
8
inconsistent control run_type
assay_title!
small RNA-seq
files.file_type!
hic
tagAlign
lab.title!
Karen Mohlke, UNC
BIOSAMPLE
ASSAY
660 results
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ChIP-seq
total RNA-seq
DNase-seq
WGBS
ATAC-seq
pCHi-C
Hi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
366
14
1
1
2
1
2
1
tissue
liver
75
147
2
3
1
1
1
right lobe of liver
10
3
2
1
1
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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