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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
525
ChIP-seq
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
525
DNA binding
29
DNA accessibility
7
DNA methylation
3D chromatin structure
4
Transcription
1
DNA sequencing
Target of assay
311
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
21
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
54
August, 2017
53
November, 2018
51
May, 2020
36
December, 2017
25
August, 2021
20
May, 2022
6
October, 2019
5
July, 2019
3
February, 2021
2
June, 2019
1
March, 2020
Available data
495
bam
435
bigWig
432
fastq
414
bed narrowPeak
331
bigBed narrowPeak
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
5
tsv
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
csv
1
vcf
Organism
571
Homo sapiens
Biosample type
385
cell line
163
tissue
15
in vitro differentiated cells
8
primary cell
Organ
571
liver
532
pancreas
384
epithelium
318
heart
293
kidney
266
brain
208
connective tissue
170
vasculature
164
blood vessel
111
limb
97
bone element
92
adipose tissue
85
artery
84
musculature of body
68
blood
68
bodily fluid
42
eye
38
nerve
25
spleen
23
embryo
20
vein
19
lung
18
ureter
12
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
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
571
AMP
Genome assembly (visualization)
436
hg19
345
GRCh38
Lab
530
AMP-T2D consortium
21
Bing Ren, UCSD
20
Karen Mohlke, UNC
Audit category:
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!
3D chromatin structure
assay_title!
total RNA-seq
audit.ERROR.category!
inconsistent control
BIOSAMPLE
ASSAY
571 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
2
2
1
tissue
liver
118
20
2
3
1
1
1
1
right lobe of liver
10
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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