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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
470
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
470
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
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
249
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
40
May, 2022
37
November, 2018
34
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
February, 2020
Available data
599
bam
540
bigWig
382
fastq
360
bed narrowPeak
277
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
csv
1
vcf
Organism
705
Homo sapiens
Biosample type
360
tissue
317
cell line
15
in vitro differentiated cells
13
primary cell
Organ
937
pancreas
705
liver
683
connective tissue
516
epithelium
491
adipose tissue
390
heart
346
kidney
283
brain
231
vasculature
225
blood vessel
159
bone element
141
artery
118
limb
90
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
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
705
AMP
Genome assembly (visualization)
544
hg19
450
GRCh38
Lab
635
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
recombinant protein
assay_slims!
3D chromatin structure
organ_slims!
intestine
BIOSAMPLE
ASSAY
705 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
145
167
20
2
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
cell line
HepG2
296
14
1
1
2
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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