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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
502
ChIP-seq
42
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
WGBS
3
Hi-C
2
STARR-seq
2
pCHi-C
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
502
DNA binding
43
Transcription
29
DNA accessibility
5
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
85
control
82
recombinant protein
76
histone modification
75
histone
58
RNA binding protein
42
broad histone mark
33
narrow histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
May, 2020
63
December, 2017
54
August, 2017
53
November, 2018
40
May, 2022
35
August, 2021
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
481
bam
465
fastq
444
bigWig
414
bed narrowPeak
358
bigBed narrowPeak
63
bed broadPeak
63
bigBed broadPeak
36
tagAlign
23
tsv
12
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
vcf
Organism
587
Homo sapiens
Biosample type
400
cell line
160
tissue
15
in vitro differentiated cells
12
primary cell
Organ
940
pancreas
666
connective tissue
587
liver
511
epithelium
479
adipose tissue
343
kidney
328
heart
268
brain
224
vasculature
219
blood vessel
159
bone element
138
artery
117
limb
86
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
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
587
AMP
Genome assembly (visualization)
446
hg19
362
GRCh38
Lab
516
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
month_released!
July, 2019
May, 2020
BIOSAMPLE
ASSAY
587 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
STARR-seq
pCHi-C
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
1
1
tissue
liver
95
22
20
2
3
1
1
1
1
right lobe of liver
10
1
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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